Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008122.1 Hibiscus syriacus cultivar Beakdansim tig00110676_pilon, 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: 2511854
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:724387 original size:5 final size:5
Alignment explanation
Indices: 724373--724466 Score: 152
Period size: 5 Copynumber: 18.8 Consensus size: 5
724363 GTCCGTCCGT
* * * *
724373 CTCGT CTCGG CTCGG CACGG CACGG CACGG CTCGG CTCGG CTCGG CTCGG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG
724423 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
724467 TGGTCGTGGT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 86 1.00
ACGTcount: A:0.03, C:0.40, G:0.38, T:0.18
Consensus pattern (5 bp):
CTCGG
Found at i:724475 original size:6 final size:6
Alignment explanation
Indices: 724464--724572 Score: 200
Period size: 6 Copynumber: 18.2 Consensus size: 6
724454 TCGGCTCGGC
* *
724464 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
724512 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
724560 TCGTGG TCGTGG T
1 TCGTGG TCGTGG T
724573 AATACGTGTC
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 101 1.00
ACGTcount: A:0.02, C:0.17, G:0.50, T:0.32
Consensus pattern (6 bp):
TCGTGG
Found at i:730431 original size:5 final size:5
Alignment explanation
Indices: 730417--730465 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
730407 GTCCGTCCGT
* * *
730417 CTCGT CTCGG CTCGG CACGG CACGG CTCGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
730466 TGGTCGTGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.04, C:0.41, G:0.37, T:0.18
Consensus pattern (5 bp):
CTCGG
Found at i:730474 original size:6 final size:6
Alignment explanation
Indices: 730463--730523 Score: 86
Period size: 6 Copynumber: 10.2 Consensus size: 6
730453 TCGGCTCGGC
* * * *
730463 TCGTGG TCGTGG TCGAGG TCGAGG TCGAGG TCGAGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
730511 TCGTGG TCGTGG T
1 TCGTGG TCGTGG T
730524 AATACGTGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.07, C:0.16, G:0.49, T:0.28
Consensus pattern (6 bp):
TCGTGG
Found at i:730823 original size:22 final size:22
Alignment explanation
Indices: 730798--730852 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
730788 TCAGGAGTTA
* *
730798 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
730820 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
730842 CGGGAGTTATA
1 CAGGAGTTATA
730853 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:731504 original size:130 final size:130
Alignment explanation
Indices: 731357--731604 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
731347 TATTTATATA
* * **
731357 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
731422 TTAGCACATGATCATGACACGTGTCATTGGTAACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTAACACATGTCACCACCTAATTATTTATATATGCT
731487 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * * *
731552 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTAACACATGTCACCACCTAATTA
731605 GAAGAAAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTAACACATGTCACCACCTAATTATTTATATATGCT
Found at i:732093 original size:16 final size:18
Alignment explanation
Indices: 732072--732105 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
732062 ATTTCTTATT
732072 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
732088 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
732106 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:735390 original size:45 final size:45
Alignment explanation
Indices: 735341--735429 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
735331 AACCCCTCCA
* *
735341 CAAGTGTCACTTCTAATACAAGTGTCATCCCTCAAAAGTGCCACT
1 CAAGTGTCACTCCTAATACAAGTGTCACCCCTCAAAAGTGCCACT
735386 CAAGTGTCACTCCTAATACAAGTGTCACCCCTCAAAAGTGCCAC
1 CAAGTGTCACTCCTAATACAAGTGTCACCCCTCAAAAGTGCCAC
735430 CCCTAAGACT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.24
Consensus pattern (45 bp):
CAAGTGTCACTCCTAATACAAGTGTCACCCCTCAAAAGTGCCACT
Found at i:736829 original size:15 final size:15
Alignment explanation
Indices: 736809--736855 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
736799 CGATTATCGA
736809 TATTTATTATTATTT
1 TATTTATTATTATTT
* *
736824 TATTTATTA-TAATA
1 TATTTATTATTATTT
*
736838 TATTTTATTATTTTTT
1 TA-TTTATTATTATTT
736854 TA
1 TA
736856 ATAATTTTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 5 0.20
15 16 0.64
16 4 0.16
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTATTATTATTT
Found at i:737651 original size:16 final size:16
Alignment explanation
Indices: 737632--737665 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
737622 CAATATACGA
737632 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
737648 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
737664 AT
1 AT
737666 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:737739 original size:17 final size:18
Alignment explanation
Indices: 737704--737739 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
737694 TATATTAATG
737704 TTTGAATCATTTATATTT
1 TTTGAATCATTTATATTT
737722 TTTGAAT-ATTT-TATTT
1 TTTGAATCATTTATATTT
737738 TT
1 TT
737740 AATAAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 4 0.22
18 7 0.39
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTGAATCATTTATATTT
Found at i:738136 original size:20 final size:20
Alignment explanation
Indices: 738111--738162 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
738101 GATTTTCAAG
* *
738111 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
*
738131 AATCGCAACCCGAACACATA
1 AATCGCAACGCGAACACATA
738151 AATCGCAACGCG
1 AATCGCAACGCG
738163 TATCCGTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.42, C:0.29, G:0.17, T:0.12
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:738172 original size:20 final size:20
Alignment explanation
Indices: 738149--738339 Score: 206
Period size: 20 Copynumber: 9.6 Consensus size: 20
738139 CCCGAACACA
738149 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
738169 TAAACCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
*
738189 TAAATAGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* * *
738209 TAAATCGCAATGTGTATCTG
1 TAAATCGCAACGCGTATCCG
*
738229 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
738249 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
738269 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
738289 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
738309 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
738329 TAAATCACAAC
1 TAAATCGCAAC
738340 ACTGAAATTT
Statistics
Matches: 142, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.01
20 141 0.99
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.22
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:738178 original size:40 final size:40
Alignment explanation
Indices: 738111--738339 Score: 144
Period size: 40 Copynumber: 5.7 Consensus size: 40
738101 GATTTTCAAG
* ** *
738111 AATCGCAACGCGAATATGAAAATCGCAACCCG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACCCGTAAC-CATA
* ** * *
738151 AATCGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACCCGTAACCATA
* *** * **
738191 AATAGCAACGCGTATCCGTAAATCGCAATGTGTATCTGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACCCGTAACCATA
* *
738231 TATCGCAACGCGTATCCGTAAATCGCAA--CGATAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACCCG-TAA-CCATA
* * * *
738271 AATCGCAACGAGAATCTGTAAATCGCAA--CGATAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACCCG-TAA-CCATA
* * * *
738311 AATCGCAACGAGAATCTGTAAATCACAAC
1 AATCGCAACGCGTATCCGTAAATCGCAAC
738340 ACTGAAATTT
Statistics
Matches: 162, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 2 0.01
40 157 0.97
41 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACCCGTAACCATA
Found at i:739076 original size:24 final size:24
Alignment explanation
Indices: 739032--739078 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
739022 AAATTTGGTC
*
739032 TTGGTCAATATCTGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
739056 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
739079 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:739270 original size:12 final size:12
Alignment explanation
Indices: 739253--739277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
739243 ATATAATCCT
739253 GAAGAAGAAAAA
1 GAAGAAGAAAAA
739265 GAAGAAGAAAAA
1 GAAGAAGAAAAA
739277 G
1 G
739278 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:741609 original size:33 final size:33
Alignment explanation
Indices: 741572--741838 Score: 177
Period size: 33 Copynumber: 7.7 Consensus size: 33
741562 GCAACGAGAG
741572 AATCGCAATGCGAAATGAAAATCCCAACATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACATGAA
*
741605 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGC-GAAATGAAAATCCCAA--C---ATGAA
* *
741644 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAA
*
741677 AATCGCAATGCGGAAATGAAAATCGCAATGCAAAATGAA
1 AATCGCAATGC-GAAATGAAAATC-C----CAACATGAA
* * * * *
741716 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAACATGAA
* * * * *
741749 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAACATGAA
* *
741782 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAA
741815 AATCGCAATGCGGAAATGAAAATC
1 AATCGCAATGC-GAAATGAAAATC
741839 GCAATGCGAA
Statistics
Matches: 197, Mismatches: 18, Indels: 37
0.78 0.07 0.15
Matches are distributed among these distances:
31 1 0.01
32 8 0.04
33 86 0.44
34 43 0.22
36 2 0.01
38 20 0.10
39 36 0.18
40 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACATGAA
Found at i:741635 original size:53 final size:53
Alignment explanation
Indices: 741572--741860 Score: 334
Period size: 53 Copynumber: 5.5 Consensus size: 53
741562 GCAACGAGAG
*
741572 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
741625 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
* *
741677 AATCGCAATGCGGAAATGAAAATCGCAATGCAAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAA--C--GATGAAAATCGCAATGCGAAATGAA
*
741730 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
741782 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGC-GAAATGAA
741835 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
741861 TTGCGATTCT
Statistics
Matches: 216, Mismatches: 6, Indels: 28
0.86 0.02 0.11
Matches are distributed among these distances:
47 10 0.05
48 1 0.00
49 2 0.01
50 1 0.00
51 1 0.00
52 75 0.35
53 110 0.51
55 2 0.01
56 1 0.00
58 13 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:741665 original size:72 final size:72
Alignment explanation
Indices: 741572--741866 Score: 376
Period size: 72 Copynumber: 4.2 Consensus size: 72
741562 GCAACGAGAG
741572 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAAAATCGCAATGCGGAAATGAAAATCGCAATGC
741636 GAAATGAA
65 GAAATGAA
* * *
741644 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCA
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
741709 AAATGAA
66 AAATGAA
* * * * * *
741716 AATCGCAACGAGAGAATCG-CAATGCGAA--ATGAAAATCGCAA--C-G--A-GAGAATCGCAAT
1 AATCGCAATGCGA-AAT-GAAAATCCCAACGA-GAAAATCGCAATGCGGAAATGAAAATCGCAAT
741772 GCGAAATGAA
63 GCGAAATGAA
* *
741782 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
741847 AAATGAA
66 AAATGAA
*
741854 AATCGCATTGCGA
1 AATCGCAATGCGA
741867 TTCTCTCGTT
Statistics
Matches: 189, Mismatches: 21, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
64 1 0.01
65 8 0.04
66 41 0.22
67 2 0.01
68 1 0.01
69 2 0.01
70 1 0.01
71 2 0.01
72 121 0.64
73 9 0.05
74 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:741733 original size:14 final size:14
Alignment explanation
Indices: 741716--741770 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
741706 GCAAAATGAA
741716 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
741730 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
741749 AATCGCAACGAGAG
1 AATCGCAACGAGAG
741763 AATCGCAA
1 AATCGCAA
741771 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:741900 original size:53 final size:52
Alignment explanation
Indices: 741837--741952 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
741827 GAAATGAAAA
*
741837 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
741889 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
741942 TCGCATTGCGA
1 TCGCATTGCGA
741953 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:741969 original size:52 final size:53
Alignment explanation
Indices: 741856--741972 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
741846 GAAATGAAAA
741856 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
741909 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
741961 TCGCATTGCGAT
1 TCGCATTGCGAT
741973 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:741980 original size:19 final size:19
Alignment explanation
Indices: 741875--741972 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
741865 GATTCTCTCG
741875 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
741895 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
741914 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
741928 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
741947 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
741966 TTGCGAT
1 TTGCGAT
741973 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:742098 original size:14 final size:14
Alignment explanation
Indices: 742079--742115 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
742069 CATCAATTAC
742079 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
742093 ACAAATCATCTTTT
1 ACAAATCAACTTTT
742107 ACAAATCAA
1 ACAAATCAA
742116 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:744079 original size:19 final size:19
Alignment explanation
Indices: 744037--744176 Score: 146
Period size: 19 Copynumber: 7.6 Consensus size: 19
744027 TAGTTTACTT
* *
744037 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
744057 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
**
744076 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
* **
744095 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
744114 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
744133 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
744147 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
744166 TCGCAATGCGA
1 TCGCAACGCGA
744177 TTTTGGTTTC
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
14 10 0.10
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 74 0.73
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:744207 original size:14 final size:14
Alignment explanation
Indices: 744188--744246 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
744178 TTTGGTTTCG
744188 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
744202 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
744219 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
744235 CGTTGCGATTTT
1 CGTTGCGATTTT
744247 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:744214 original size:33 final size:33
Alignment explanation
Indices: 744172--744295 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
744162 AAAATCGCAA
*
744172 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
744205 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
744238 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
744271 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
744296 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:744226 original size:19 final size:18
Alignment explanation
Indices: 744172--744263 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
744162 AAAATCGCAA
744172 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
744191 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
744205 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
744224 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
744238 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
744257 TGCGATT
1 TGCGATT
744264 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:744273 original size:14 final size:14
Alignment explanation
Indices: 744221--744277 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
744211 TTTGGTTTCG
*
744221 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
744235 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
744254 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
744268 CGTTGCGATT
1 CGTTGCGATT
744278 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:744488 original size:17 final size:17
Alignment explanation
Indices: 744466--744498 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
744456 AATACTATTT
744466 CACAGTGTTAA-AGAATA
1 CACAGT-TTAACAGAATA
744483 CACAGTTTAACAGAAT
1 CACAGTTTAACAGAAT
744499 TGGTAGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.24
Consensus pattern (17 bp):
CACAGTTTAACAGAATA
Found at i:744552 original size:93 final size:93
Alignment explanation
Indices: 744393--744708 Score: 587
Period size: 93 Copynumber: 3.4 Consensus size: 93
744383 TCAGGGTATT
*
744393 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGATAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
744458 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
* *
744486 AGTTTAACAGAATTGGTAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
744551 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
744579 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACATTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
744644 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
744672 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
744709 AAGCAATCTA
Statistics
Matches: 215, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 215 1.00
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:746426 original size:20 final size:20
Alignment explanation
Indices: 746395--746458 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
746385 TTTTGGTTGA
746395 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
746415 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
746435 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
746456 AAT
1 AAT
746459 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:746447 original size:21 final size:21
Alignment explanation
Indices: 746393--746457 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
746383 TCTTTTGGTT
746393 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
746414 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
746434 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
746455 GAA
1 GAA
746458 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:746461 original size:14 final size:14
Alignment explanation
Indices: 746442--746498 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
746432 GAGAAATGAA
746442 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
746456 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
746475 AATCGCAATGAGAG
1 AATCGCAACGAGAG
746489 AATCGCAACG
1 AATCGCAACG
746499 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 1 0.03
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:746474 original size:33 final size:33
Alignment explanation
Indices: 746393--746515 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
746383 TCTTTTGGTT
*
746393 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
746434 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
746467 GAAATGAAAATCGCAATGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
746500 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
746516 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
33 49 0.61
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.28
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:746516 original size:33 final size:33
Alignment explanation
Indices: 746434--746517 Score: 159
Period size: 33 Copynumber: 2.5 Consensus size: 33
746424 CGCAACGAGA
*
746434 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAATGAGAGAATCGCAACGC
746467 GAAATGAAAATCGCAATGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAATGAGAGAATCGCAACGC
746500 GAAATGAAAATCGCAATG
1 GAAATGAAAATCGCAATG
746518 CGATTTTGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAATGAGAGAATCGCAACGC
Found at i:746551 original size:14 final size:14
Alignment explanation
Indices: 746532--746588 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
746522 TTTGGTTTCG
746532 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
746546 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
746565 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
746579 CGTTGCGATT
1 CGTTGCGATT
746589 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:746564 original size:33 final size:33
Alignment explanation
Indices: 746516--746595 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
746506 AAAATCGCAA
**
746516 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
746549 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
746582 TGCGATTTTCATTT
1 TGCGATTTTCATTT
746596 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:746601 original size:21 final size:21
Alignment explanation
Indices: 746576--746649 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
746566 GTTGCGATTC
746576 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
746597 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
746618 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
746639 TCTCGTTGCGA
1 TCTCGTTGCGA
746650 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:746771 original size:33 final size:33
Alignment explanation
Indices: 746729--746799 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
746719 AATACTAACT
746729 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
746762 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
746795 TGAAA
1 TGAAA
746800 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:747204 original size:20 final size:20
Alignment explanation
Indices: 747179--747371 Score: 228
Period size: 20 Copynumber: 9.6 Consensus size: 20
747169 CTTTAAAAAT
747179 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
747199 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
747219 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* *
747240 CGCGTTACGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* *
747260 CGCATTGTGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
747280 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
747300 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
747320 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
747340 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
747360 CGCGTTGCGATT
1 CGCGTTGCGATT
747372 CTGGAAAATC
Statistics
Matches: 148, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
20 130 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:748093 original size:130 final size:130
Alignment explanation
Indices: 747889--748136 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
747879 AATTTTCTTC
* * *
747889 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACAGGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
747954 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
748019 TAATTAGGTGGTGACAGGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACAGGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
748084 CCTAATTAAATTATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
748137 TATATAAATA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACAGGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:748596 original size:35 final size:35
Alignment explanation
Indices: 748534--748609 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
748524 AATTGAATTT
* *
748534 AATTGAATTATTTTGAAATTTAGGGTTTAGAATGA
1 AATTGAATTATTTGGAAATTGAGGGTTTAGAATGA
748569 AATTGAATTACTTTGGAAATTGA-GGTTTAGAATGA
1 AATTGAATTA-TTTGGAAATTGAGGGTTTAGAATGA
748604 AATTGA
1 AATTGA
748610 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 28 0.74
36 10 0.26
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.39
Consensus pattern (35 bp):
AATTGAATTATTTGGAAATTGAGGGTTTAGAATGA
Found at i:749070 original size:35 final size:35
Alignment explanation
Indices: 749024--749099 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
749014 AAAACAATCC
*
749024 TCAATTTCATTCTAAACCC-AAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCTAAA-TTCCAAAATAAT
*
749059 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
749094 TCAATT
1 TCAATT
749100 AAATTCAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 35 0.92
36 3 0.08
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
Found at i:749637 original size:130 final size:130
Alignment explanation
Indices: 749496--749743 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
749486 TTTTTATATA
* **
749496 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
749561 TTAGCACATGATCATGACACGTGCCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGCCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
749626 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * **
749691 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGCCATTGGTGACACATGTCACCACCTAATTA
749744 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGCCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:749774 original size:130 final size:129
Alignment explanation
Indices: 749510--749774 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
749500 ATTTGGTCCT
* ** *
749510 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
749575 TGACACGTGCCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGCCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
749640 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * ** *
749705 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGCCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
749769 -A
128 CA
749770 AAATT
1 AAATT
749775 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGCCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:750233 original size:16 final size:18
Alignment explanation
Indices: 750212--750245 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
750202 ATTTCTTATT
750212 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
750228 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
750246 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:751798 original size:157 final size:156
Alignment explanation
Indices: 751529--751903 Score: 536
Period size: 157 Copynumber: 2.4 Consensus size: 156
751519 TTCCTCCTTC
** * *
751529 ATTTTAAGTTTATTTTTACTATATTTGAACCACATGCTCCTAAACCATAATAGAATACATGTGTA
1 ATTTTAAGTCCATTTTTACCAAATTTGAACCACATGCTCCTAAACCATAATAGAATACATGTGTA
* * *
751594 CTTTTAATTCCTCTTTTTGATAACAAATTTTTTATTTTTCAAATTAGTCTTTCAATTTTTCATAA
66 CTTTTAATTCCTCTTTTTGATAACAAATTGTTTATTTTTCAAATTAGTCATTCAAATTTTCATAA
*
751659 TCTCTTTATTCCTTCAAT-TTGTCATTT
131 TCTCCTTATTCCTTCAATCTT-T-ATTT
* **
751686 ATTTTAAGTCCATTTTTACCAAATTTGAGCCACATGCTCCTAAACCATGTTAGAATACATGTGTA
1 ATTTTAAGTCCATTTTTACCAAATTTGAACCACATGCTCCTAAACCATAATAGAATACATGTGTA
*
751751 CTTTTAATTCCTCTTTTTGATAACAAATTGTTTATTTTTCAATTTAGTCATTCAAATTTTCATAA
66 CTTTTAATTCCTCTTTTTGATAACAAATTGTTTATTTTTCAAATTAGTCATTCAAATTTTCATAA
751816 TCTCCTTATTCCTTCAATCTTTATTT
131 TCTCCTTATTCCTTCAATCTTTATTT
* * * * *
751842 ATTTTAAGTCACTTTTTTTTTATCAAATTTGAACCACATGCTCATATACCACAATAGAATAC
1 ATTTTAAGTC-C---ATTTTTACCAAATTTGAACCACATGCTCCTAAACCATAATAGAATAC
751904 CTATGTAACT
Statistics
Matches: 193, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
156 14 0.07
157 138 0.72
158 2 0.01
160 39 0.20
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.46
Consensus pattern (156 bp):
ATTTTAAGTCCATTTTTACCAAATTTGAACCACATGCTCCTAAACCATAATAGAATACATGTGTA
CTTTTAATTCCTCTTTTTGATAACAAATTGTTTATTTTTCAAATTAGTCATTCAAATTTTCATAA
TCTCCTTATTCCTTCAATCTTTATTT
Found at i:754799 original size:7 final size:7
Alignment explanation
Indices: 754779--754874 Score: 56
Period size: 7 Copynumber: 13.6 Consensus size: 7
754769 CTGAAATGGT
*
754779 TAAAAAA
1 TAAATAA
*
754786 TATATAA
1 TAAATAA
754793 TAAATAA
1 TAAATAA
754800 T-AATAA
1 TAAATAA
754806 -AATATAAA
1 TAA-AT-AA
*
754814 TATATAA
1 TAAATAA
*
754821 TATATAA
1 TAAATAA
*
754828 TATATAA
1 TAAATAA
*
754835 TATATAA
1 TAAATAA
754842 -AAATAA
1 TAAATAA
754848 T-AATAAA
1 TAAAT-AA
*
754855 TAATATGA
1 TAA-ATAA
754863 TATAATAA
1 TA-AATAA
754871 TAAA
1 TAAA
754875 AATTATATAA
Statistics
Matches: 73, Mismatches: 7, Indels: 18
0.74 0.07 0.18
Matches are distributed among these distances:
6 14 0.19
7 42 0.58
8 13 0.18
9 4 0.05
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (7 bp):
TAAATAA
Found at i:754835 original size:35 final size:32
Alignment explanation
Indices: 754784--754892 Score: 114
Period size: 35 Copynumber: 3.2 Consensus size: 32
754774 ATGGTTAAAA
*
754784 AATATATAATAAATAATAATAAAATATAAATATAT
1 AATATATAATATATAATAATAAAA-AT-AATA-AT
754819 AATATATAATATATAATATATAAAAATAATAAT
1 AATATATAATATATAATA-ATAAAAATAATAAT
754852 AA-ATA-ATATGATATAATAATAAAAATTATATAAT
1 AATATATA-AT-ATATAATAATAAAAA-TA-ATAAT
*
754886 ACTATAT
1 AATATAT
754893 TTTCAAAAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 13
0.81 0.03 0.16
Matches are distributed among these distances:
31 1 0.02
32 12 0.18
33 14 0.22
34 10 0.15
35 22 0.34
36 6 0.09
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (32 bp):
AATATATAATATATAATAATAAAAATAATAAT
Found at i:754847 original size:42 final size:43
Alignment explanation
Indices: 754784--754872 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 43
754774 ATGGTTAAAA
*
754784 AATATATAATAAATAATAATAAAATATAAAT-ATATAATAT-AT
1 AATATATAATAAATAAAAATAAAA-ATAAATAATATAATATAAT
* * *
754826 AATATATAATATATAAAAATAATAATAAATAATATGATATAAT
1 AATATATAATAAATAAAAATAAAAATAAATAATATAATATAAT
754869 AATA
1 AATA
754873 AAAATTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
41 6 0.15
42 29 0.71
43 6 0.15
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (43 bp):
AATATATAATAAATAAAAATAAAAATAAATAATATAATATAAT
Found at i:754884 original size:14 final size:14
Alignment explanation
Indices: 754779--754886 Score: 51
Period size: 14 Copynumber: 7.1 Consensus size: 14
754769 CTGAAATGGT
*
754779 TAAAAAATATATAA
1 TAAAAATTATATAA
* *
754793 TAAATAATAATAAAA
1 TAAA-AATTATATAA
*
754808 TATAAA-TATATAA
1 TAAAAATTATATAA
*
754821 TATATAATATATAATATA
1 TA-AAAAT-TAT-ATA-A
754839 TAAAAA-TA-ATAA
1 TAAAAATTATATAA
754851 TAAATAATATGATATAATAA
1 T-AA-AA-AT--TAT-ATAA
754871 TAAAAATTATATAA
1 TAAAAATTATATAA
754885 TA
1 TA
754887 CTATATTTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 28
0.66 0.08 0.26
Matches are distributed among these distances:
12 2 0.03
13 12 0.17
14 16 0.23
15 16 0.23
16 3 0.04
17 8 0.11
18 7 0.10
19 2 0.03
20 5 0.07
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (14 bp):
TAAAAATTATATAA
Found at i:755098 original size:72 final size:73
Alignment explanation
Indices: 754932--755208 Score: 266
Period size: 72 Copynumber: 3.8 Consensus size: 73
754922 TTAAAAAATA
* * * * * *
754932 TATATATTATACGTTTTCAAAACCGTTTTTAAAAAAAC-ATATAATATATGTTTTCAAAATCATT
1 TATATATTATACGTTTTCAAAATCGATTTTCAAAAAACTATATTATACATGTTTTCAAAA-C-TA
* *
754996 TTTTTAAAAT
64 TTTTAAAAAC
**
755006 TATATATTATACGTTTTCAAAATC-ATTTTCAAAAAACTATATTATACATGTTTTCAAAACCGTT
1 TATATATTATACGTTTTCAAAATCGATTTTCAAAAAACTATATTATACATGTTTTCAAAACTATT
755070 TTAAAAAC
66 TTAAAAAC
* * * *
755078 GATATATTATACGTTTTCAAAA-CTATTTT-AAAATATA-TATATTATAC--GTTTTTAAAATTA
1 TATATATTATACGTTTTCAAAATCGATTTTCAAAA-A-ACTATATTATACATGTTTTCAAAACTA
755138 TTTTAAAAAAAC
64 TTTT--AAAAAC
* * * *
755150 TAAATATTATACGCTTTCAAAATC-A-TTTCAAAAAACTATATTATATATGATTTTTAAAA
1 TATATATTATACGTTTTCAAAATCGATTTTCAAAAAACTATATTATACATG-TTTTCAAAA
755209 AAATACGTTT
Statistics
Matches: 173, Mismatches: 18, Indels: 24
0.80 0.08 0.11
Matches are distributed among these distances:
70 14 0.08
71 18 0.10
72 75 0.43
73 15 0.09
74 51 0.29
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (73 bp):
TATATATTATACGTTTTCAAAATCGATTTTCAAAAAACTATATTATACATGTTTTCAAAACTATT
TTAAAAAC
Found at i:755172 original size:37 final size:37
Alignment explanation
Indices: 754905--755190 Score: 268
Period size: 37 Copynumber: 7.8 Consensus size: 37
754895 TCAAAAATAT
*
754905 GTTTTCAAAAATCGTTTTTAAAAAATA-TATATATTATAC
1 GTTTTC-AAAATC-ATTTTAAAAAA-ACTATATATTATAC
* * * *
754944 GTTTTCAAAACCGTTTTTAAAAAAAC-ATATAATATAT
1 GTTTTCAAAATC-ATTTTAAAAAAACTATATATTATAC
*** *
754981 GTTTTCAAAATCATTTTTTTAAAATTATATATTATAC
1 GTTTTCAAAATCATTTTAAAAAAACTATATATTATAC
*
755018 GTTTTCAAAATCATTTTCAAAAAAC--TATATTATAC
1 GTTTTCAAAATCATTTTAAAAAAACTATATATTATAC
* * *
755053 ATGTTTTCAAAACCGTTTT--AAAAACGATATATTATAC
1 --GTTTTCAAAATCATTTTAAAAAAACTATATATTATAC
*
755090 GTTTTCAAAA-CTATTTT-AAAATA-TATATATTATAC
1 GTTTTCAAAATC-ATTTTAAAAAAACTATATATTATAC
* * *
755125 GTTTTTAAAATTATTTTAAAAAAACTAAATATTATAC
1 GTTTTCAAAATCATTTTAAAAAAACTATATATTATAC
* *
755162 GCTTTCAAAATCA-TTTCAAAAAACTATAT
1 GTTTTCAAAATCATTTTAAAAAAACTATAT
755191 TATATATGAT
Statistics
Matches: 207, Mismatches: 29, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
34 1 0.00
35 55 0.27
36 31 0.15
37 97 0.47
38 17 0.08
39 6 0.03
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.42
Consensus pattern (37 bp):
GTTTTCAAAATCATTTTAAAAAAACTATATATTATAC
Found at i:755263 original size:23 final size:24
Alignment explanation
Indices: 755220--755264 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
755210 AATACGTTTT
*
755220 CAAAAAATATATATTATATATTCA
1 CAAAAAATATATATTACATATTCA
*
755244 CAAAAACTATAT-TTACATATT
1 CAAAAAATATATATTACATATT
755265 ATGCTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (24 bp):
CAAAAAATATATATTACATATTCA
Found at i:755451 original size:21 final size:21
Alignment explanation
Indices: 755425--755464 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
755415 AAATGTTTTC
755425 TTAAATAAAATATTCAAAAAA
1 TTAAATAAAATATTCAAAAAA
*
755446 TTAAATAAAATATTTAAAA
1 TTAAATAAAATATTCAAAA
755465 TTATAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAAATAAAATATTCAAAAAA
Found at i:756183 original size:33 final size:35
Alignment explanation
Indices: 756146--756210 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
756136 CTCGAAAATA
756146 TAATATATAAG-ATT-ATATTTTTAAAAAAATTAT
1 TAATATATAAGTATTGATATTTTTAAAAAAATTAT
* * *
756179 TAATATTTATGTATTGATTTTTTTAAAAAAAT
1 TAATATATAAGTATTGATATTTTTAAAAAAAT
756211 ACATTAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 9 0.33
34 3 0.11
35 15 0.56
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (35 bp):
TAATATATAAGTATTGATATTTTTAAAAAAATTAT
Found at i:762987 original size:2 final size:2
Alignment explanation
Indices: 762976--763035 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
762966 GAAATTATTA
762976 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
763017 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
763036 AGAAATGAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:763808 original size:2 final size:2
Alignment explanation
Indices: 763801--763833 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
763791 AAAATCATAC
763801 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
763834 AAGAAAACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:764341 original size:2 final size:2
Alignment explanation
Indices: 764334--764401 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
764324 AAATAAACCA
764334 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
764376 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
764402 GATTTTTTTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:771977 original size:21 final size:20
Alignment explanation
Indices: 771902--771997 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 20
771892 AAAAAACCAA
*
771902 CAAATTCGCAACGCGA-ACTC
1 CAAATTCGCAACGC-ATTCTC
* *
771922 CAATTTCGCAACACATATCTC
1 CAAATTCGCAACGCAT-TCTC
** *
771943 CAAATTCGTGACGCGGTTCTC
1 CAAATTCGCAACGC-ATTCTC
*
771964 CAAATTCGCAACGCGATT-TT
1 CAAATTCGCAACGC-ATTCTC
771984 CAAATTCGCAACGC
1 CAAATTCGCAACGC
771998 TAATTACCGA
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
19 1 0.02
20 27 0.44
21 32 0.52
22 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (20 bp):
CAAATTCGCAACGCATTCTC
Found at i:772150 original size:27 final size:27
Alignment explanation
Indices: 772112--772177 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
772102 TGTGACCACT
772112 ATATTGAACTAAAAAAATCTTCTAATC
1 ATATTGAACTAAAAAAATCTTCTAATC
772139 ATATTGAACTAAAAAAATCTTCTAATC
1 ATATTGAACTAAAAAAATCTTCTAATC
772166 ATATTGAACTAA
1 ATATTGAACTAA
772178 TTGTGATTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (27 bp):
ATATTGAACTAAAAAAATCTTCTAATC
Found at i:772516 original size:79 final size:78
Alignment explanation
Indices: 772408--772592 Score: 273
Period size: 79 Copynumber: 2.4 Consensus size: 78
772398 AATTCACGTA
* * *
772408 GCGAAAA-CAAAAGTCGAGTTGCGAATTTGAAAACTGAGTTGGGAATAGTTATGTTTACCTATAT
1 GCGAAAATGAAAA-TCGCGTTGCGAATTTGAAAACTGAGTTGCGAATAGTTATGTTTACCTATAT
*
772472 CGGTAATTAGCGTT
65 AGGTAATTAGCGTT
** * *
772486 GCGAATTTGGAGAATCGCGTTGCGAATTTGAAAACTGAGTTGCGAATAGTTGTGTTTACCTATAT
1 GCGAAAAT-GAAAATCGCGTTGCGAATTTGAAAACTGAGTTGCGAATAGTTATGTTTACCTATAT
772551 AGGTAATTAGCGTT
65 AGGTAATTAGCGTT
772565 GCGAAAATGAAAATCGCGTTGCGAATTT
1 GCGAAAATGAAAATCGCGTTGCGAATTT
772593 ATTGGTTATT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 24 0.26
79 67 0.71
80 3 0.03
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (78 bp):
GCGAAAATGAAAATCGCGTTGCGAATTTGAAAACTGAGTTGCGAATAGTTATGTTTACCTATATA
GGTAATTAGCGTT
Found at i:783746 original size:21 final size:21
Alignment explanation
Indices: 783704--783746 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
783694 TTTCTGGGCT
* * *
783704 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
783725 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
783746 A
1 A
783747 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:784567 original size:150 final size:150
Alignment explanation
Indices: 784296--784604 Score: 591
Period size: 150 Copynumber: 2.1 Consensus size: 150
784286 GGGTAGAGGG
784296 TCTACGCGGTCCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
*
784361 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTTTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
784426 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
* *
784446 TCTACGTGGTCCTTTGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
784511 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
784576 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
784596 TCTACGCGG
1 TCTACGCGG
784605 CACTTCAGTG
Statistics
Matches: 155, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 155 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:784624 original size:23 final size:23
Alignment explanation
Indices: 784580--784624 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
784570 ATCATTATAT
* *
784580 GGCACTACGGTGCAATTCTACGC
1 GGCACTACAGTGCAATTATACGC
* *
784603 GGCACTTCAGTGCATTTATACG
1 GGCACTACAGTGCAATTATACG
784625 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
GGCACTACAGTGCAATTATACGC
Found at i:790571 original size:21 final size:21
Alignment explanation
Indices: 790529--790571 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
790519 TTTCTGGGCT
* * *
790529 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
790550 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
790571 A
1 A
790572 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:791392 original size:150 final size:150
Alignment explanation
Indices: 791121--791437 Score: 618
Period size: 150 Copynumber: 2.1 Consensus size: 150
791111 GGGTAGAGGG
791121 TCTACGCGGTCCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
791186 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
791251 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
791271 TCTACGCGGTCCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
791336 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
791401 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
791421 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
791438 TGCATTTATA
Statistics
Matches: 166, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
149 1 0.01
150 165 0.99
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:791449 original size:23 final size:23
Alignment explanation
Indices: 791405--791449 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
791395 ATCATTATAT
*
791405 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
791428 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
791450 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:797787 original size:22 final size:22
Alignment explanation
Indices: 797759--797803 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
797749 AATCCGTTCC
797759 CATACGTACAAGATTACTGTTA
1 CATACGTACAAGATTACTGTTA
797781 CATACGTACAAGATTACTGTTA
1 CATACGTACAAGATTACTGTTA
797803 C
1 C
797804 GACAAACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (22 bp):
CATACGTACAAGATTACTGTTA
Found at i:806456 original size:20 final size:21
Alignment explanation
Indices: 806425--806465 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
806415 GATGAGAAAT
*
806425 TAATATTTTTTATAAATATAA
1 TAATATTTTTTATAAAAATAA
806446 TAATA-TTTTTATAAAAATAA
1 TAATATTTTTTATAAAAATAA
806466 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATATTTTTTATAAAAATAA
Found at i:806929 original size:18 final size:18
Alignment explanation
Indices: 806906--806953 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
806896 TTAATTACAC
806906 ATTTTTTATATTTAGAAT
1 ATTTTTTATATTTAGAAT
806924 ATTTTTTATATTTAGAAT
1 ATTTTTTATATTTAGAAT
* *
806942 ATATTTCATATT
1 ATTTTTTATATT
806954 AAATGGGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (18 bp):
ATTTTTTATATTTAGAAT
Found at i:808030 original size:27 final size:27
Alignment explanation
Indices: 808000--808063 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
807990 CATAAAATAT
808000 ATATTTTTAAATGAAAGTAAAAATAAA
1 ATATTTTTAAATGAAAGTAAAAATAAA
* ** * *
808027 ATATTTTTAATTTTAATTAATAATAAA
1 ATATTTTTAAATGAAAGTAAAAATAAA
*
808054 ATATATTTAA
1 ATATTTTTAA
808064 TAAGTTAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
ATATTTTTAAATGAAAGTAAAAATAAA
Found at i:808076 original size:27 final size:26
Alignment explanation
Indices: 808021--808108 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 26
808011 TGAAAGTAAA
*
808021 AATAAAATATTTT--TAATTTTAATTAAT
1 AATAAAATATTTTAATAA-GTTAA-T-AT
808048 AATAAAATATATTTAATAAGTTAATAT
1 AATAAAATAT-TTTAATAAGTTAATAT
*
808075 AA-AAAGTATTGTT--TAAGTTAATAT
1 AATAAAATATT-TTAATAAGTTAATAT
*
808099 -ATATAATATT
1 AATAAAATATT
808109 ATGAATTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
23 1 0.02
24 17 0.33
25 1 0.02
26 8 0.15
27 14 0.27
28 4 0.08
29 4 0.08
30 3 0.06
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (26 bp):
AATAAAATATTTTAATAAGTTAATAT
Found at i:808084 original size:24 final size:24
Alignment explanation
Indices: 808043--808099 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
808033 TTAATTTTAA
808043 TTAATAATAAAATATATT-TAATAAG
1 TTAAT-ATAAAATATATTGT-ATAAG
*
808068 TTAATATAAAA-AGTATTGTTTAAG
1 TTAATATAAAATA-TATTGTATAAG
808092 TTAATATA
1 TTAATATA
808100 TATAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 1 0.03
24 22 0.76
25 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (24 bp):
TTAATATAAAATATATTGTATAAG
Found at i:810003 original size:7 final size:7
Alignment explanation
Indices: 809993--810026 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
809983 CAATGAAAAT
809993 TGAATTA
1 TGAATTA
810000 TGAATTA
1 TGAATTA
810007 TGAATTA
1 TGAATTA
810014 TGAATTA
1 TGAATTA
810021 TGAATT
1 TGAATT
810027 TGGAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (7 bp):
TGAATTA
Found at i:810154 original size:56 final size:57
Alignment explanation
Indices: 810093--810202 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 57
810083 ATATTTATAT
* * * *
810093 TTAAATTTTAATTTTAATAT-CTTTCTCTTGTTCTTATAGCATGCTATTCTTTGATA
1 TTAAATTTTAATATTAATATCCTTTCTATTATTCTTATAGCATGCAATTCTTTGATA
*
810149 TTAAATTTTAATATTAATATCCTTTCTATTATTCTTGTAGCATGCAATTCTTTG
1 TTAAATTTTAATATTAATATCCTTTCTATTATTCTTATAGCATGCAATTCTTTG
810203 TTATCAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 19 0.40
57 29 0.60
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (57 bp):
TTAAATTTTAATATTAATATCCTTTCTATTATTCTTATAGCATGCAATTCTTTGATA
Found at i:810706 original size:31 final size:33
Alignment explanation
Indices: 810643--810706 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 33
810633 TTTGTTCATC
* *
810643 TCATTTTATATGGTTAATTATACTGTGTCCCCT
1 TCATTTTATATGATTAATTATACTGTGCCCCCT
*
810676 TCATTTT-TATGATTAA-TATACTTTGCCCCCT
1 TCATTTTATATGATTAATTATACTGTGCCCCCT
810707 CGAGTTGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.46
32 8 0.29
33 7 0.25
ACGTcount: A:0.22, C:0.20, G:0.09, T:0.48
Consensus pattern (33 bp):
TCATTTTATATGATTAATTATACTGTGCCCCCT
Found at i:812982 original size:13 final size:13
Alignment explanation
Indices: 812959--813008 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
812949 TATATAAGAA
812959 ATAATTATTTTTTC
1 ATAA-TATTTTTTC
812973 ATAATA-TTTTT-
1 ATAATATTTTTTC
812984 ATATATATTTTTTC
1 ATA-ATATTTTTTC
812998 -TCAATATTTTT
1 AT-AATATTTTT
813009 GTGTTGACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
11 3 0.09
12 8 0.25
13 16 0.50
14 5 0.16
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (13 bp):
ATAATATTTTTTC
Found at i:813127 original size:21 final size:22
Alignment explanation
Indices: 813086--813127 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
813076 ATTAGTTATT
*
813086 TTTTATTATGTTTTTTTATTTA
1 TTTTATTATGTTTTTTGATTTA
813108 TTTT-TTAT-TTTTTTCGATTT
1 TTTTATTATGTTTTTT-GATTT
813128 TAAATAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTTATTATGTTTTTTGATTTA
Found at i:825644 original size:2 final size:2
Alignment explanation
Indices: 825637--825662 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
825627 GATGATCAGC
825637 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
825663 CTCCGCTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:826263 original size:23 final size:23
Alignment explanation
Indices: 826237--826290 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
826227 ATTGTAATAT
826237 GTTTATCTCTG-TTTTCATGACAC
1 GTTTATCTCTGCTTTT-ATGACAC
826260 GTTTATCTCTGCTTTTATGACAC
1 GTTTATCTCTGCTTTTATGACAC
*
826283 GTTCATCT
1 GTTTATCT
826291 ATTTGTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (23 bp):
GTTTATCTCTGCTTTTATGACAC
Found at i:828946 original size:14 final size:14
Alignment explanation
Indices: 828923--828953 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
828913 ATTATTTAAA
828923 TTATTAGAATTTAT
1 TTATTAGAATTTAT
*
828937 TTATTTGAATTTAT
1 TTATTAGAATTTAT
828951 TTA
1 TTA
828954 AATAATTTTG
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:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TTATTAGAATTTAT
Found at i:834168 original size:14 final size:14
Alignment explanation
Indices: 834149--834181 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
834139 ATTGTGGTTG
834149 TAAAATAAAA-ATAA
1 TAAAATAAAATA-AA
834163 TAAAATAAAATAAA
1 TAAAATAAAATAAA
834177 TAAAA
1 TAAAA
834182 AAATTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAATAAAATAAA
Found at i:834307 original size:25 final size:25
Alignment explanation
Indices: 834253--834322 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
834243 ATATTTAAAA
* *
834253 AAAAATTATATATA-ATATATTTTC
1 AAAAACTATATATATATATATATTC
** *
834277 TTAAACTGTATATATATATATATTC
1 AAAAACTATATATATATATATATTC
834302 AAAAACTATATATATATATAT
1 AAAAACTATATATATATATAT
834323 TATATTTTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
24 10 0.27
25 27 0.73
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (25 bp):
AAAAACTATATATATATATATATTC
Found at i:834311 original size:23 final size:23
Alignment explanation
Indices: 834253--834323 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
834243 ATATTTAAAA
* *
834253 AAAAATTATATATAATATATTTTC
1 AAAAACTATATAT-ATATATATTC
**
834277 TTAAACTGTATATATATATATATTC
1 AAAAAC--TATATATATATATATTC
834302 AAAAACTATATATATATATATT
1 AAAAACTATATATATATATATT
834324 ATATTTTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 16 0.41
24 3 0.08
25 13 0.33
26 7 0.18
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (23 bp):
AAAAACTATATATATATATATTC
Found at i:834327 original size:32 final size:32
Alignment explanation
Indices: 834285--834362 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
834275 TCTTAAACTG
834285 TATATATA-TATA-TATTCAAAAACTAT-ATA
1 TATATATATTATATTATTCAAAAACTATAATA
*
834314 TATATATATTATATTTTTCAAAAACTATAATA
1 TATATATATTATATTATTCAAAAACTATAATA
* *
834346 TATACACATTATATTAT
1 TATATATATTATATTAT
834363 AGATATCGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 8 0.19
30 4 0.10
31 13 0.31
32 17 0.40
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TATATATATTATATTATTCAAAAACTATAATA
Found at i:834347 original size:53 final size:52
Alignment explanation
Indices: 834238--834349 Score: 120
Period size: 53 Copynumber: 2.1 Consensus size: 52
834228 TTTCAAAGAT
* **
834238 TATATATATTTAAAAAAAAATTATATATAATATATTTTCTTAAACTGTATATA
1 TATATATATTCAAAAAAAAATTATATATAATATATTTTCAAAAAC-GTATATA
* * *
834291 TATATATATTCAAAAACTATATATATATATATTATATTTTTCAAAAAC-TATA-A
1 TATATATATTCAAAAA-AAAAT-TATATATAATATA-TTTTCAAAAACGTATATA
834344 TATATA
1 TATATA
834350 CACATTATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
53 22 0.44
54 7 0.14
55 12 0.24
56 9 0.18
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (52 bp):
TATATATATTCAAAAAAAAATTATATATAATATATTTTCAAAAACGTATATA
Found at i:834347 original size:55 final size:53
Alignment explanation
Indices: 834238--834349 Score: 127
Period size: 55 Copynumber: 2.1 Consensus size: 53
834228 TTTCAAAGAT
* ** *
834238 TATATATATTTAAAAAAAAATTATATATAATATATTTTCTTAAACTGTATATA
1 TATATATATTCAAAAAAAAATTATATATAATATATTTTCAAAAACTATATATA
* * *
834291 TATATATATTCAAAAACTATATATATATATATTATATTTTTCAAAAACTATA-ATA
1 TATATATATTCAAAAA-AAAAT-TATATATAATATA-TTTTCAAAAACTATATATA
834346 TATA
1 TATA
834350 CACATTATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
53 15 0.31
54 3 0.06
55 19 0.39
56 12 0.24
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (53 bp):
TATATATATTCAAAAAAAAATTATATATAATATATTTTCAAAAACTATATATA
Found at i:836905 original size:32 final size:32
Alignment explanation
Indices: 836869--836932 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
836859 GAGTAAACTA
836869 GATCTTAGACATATGATTGTTAGAAACAGTTC
1 GATCTTAGACATATGATTGTTAGAAACAGTTC
836901 GATCTTAGACATATGATTGTTAGAAACAGTTC
1 GATCTTAGACATATGATTGTTAGAAACAGTTC
836933 AGTCTTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (32 bp):
GATCTTAGACATATGATTGTTAGAAACAGTTC
Found at i:840340 original size:19 final size:19
Alignment explanation
Indices: 840297--840347 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
840287 AAATGACCAA
*
840297 CAAATTCGCAACGCGATCT
1 CAAATTCGCAACGCGAACT
* *
840316 CAAATTCGCAATGTGAACT
1 CAAATTCGCAACGCGAACT
*
840335 CCAATTTCGCAAC
1 -CAAATTCGCAAC
840348 ACAGGTTCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (19 bp):
CAAATTCGCAACGCGAACT
Found at i:840404 original size:20 final size:20
Alignment explanation
Indices: 840297--840414 Score: 71
Period size: 20 Copynumber: 6.0 Consensus size: 20
840287 AAATGACCAA
840297 CAAATTCGCAACGCG-A-TC
1 CAAATTCGCAACGCGAATTC
* * *
840315 TCAAATTCGCAATGTGAACTC
1 -CAAATTCGCAACGCGAATTC
* * *
840336 CAATTTCGCAACAC-AGGTTC
1 CAAATTCGCAACGCGA-ATTC
* **
840356 CAAAATCGCAACGCGAATAG
1 CAAATTCGCAACGCGAATTC
* * * *
840376 TAAAATCGCAATGCGATTTC
1 CAAATTCGCAACGCGAATTC
*
840396 CAAATTCGCAACGCTAATT
1 CAAATTCGCAACGCGAATT
840415 ACCGATATAA
Statistics
Matches: 71, Mismatches: 24, Indels: 7
0.70 0.24 0.07
Matches are distributed among these distances:
19 14 0.20
20 54 0.76
21 3 0.04
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTC
Found at i:840447 original size:77 final size:77
Alignment explanation
Indices: 840360--840541 Score: 215
Period size: 77 Copynumber: 2.4 Consensus size: 77
840350 AGGTTCCAAA
* ** * * * *
840360 ATCGCAACGCGAATAGTAAAATCGCAATGC-GATTTCCAAATTCGCAACGCTAATTACCGATATA
1 ATCGCAACGCGAATAGCAAAATCGCAACACAG-GTTCCAAAATCGCAACACGAATTACCGATATA
840424 AGTAAACAATACT
65 AGTAAACAATACT
* **
840437 ATCGCAACGCGAACT-CCAATTTCGCAACACAGGTTCCAAAATCGCAACACGAATTACCGATATA
1 ATCGCAACGCGAA-TAGCAAAATCGCAACACAGGTTCCAAAATCGCAACACGAATTACCGATATA
* *
840501 GGTAAACAGTACT
65 AGTAAACAATACT
*
840514 ATCGCAACGCGAATAGGAAAATCGCAAC
1 ATCGCAACGCGAATAGCAAAATCGCAAC
840542 GCTAATTACC
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
76 1 0.01
77 83 0.97
78 2 0.02
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.20
Consensus pattern (77 bp):
ATCGCAACGCGAATAGCAAAATCGCAACACAGGTTCCAAAATCGCAACACGAATTACCGATATAA
GTAAACAATACT
Found at i:840549 original size:57 final size:57
Alignment explanation
Indices: 840474--840582 Score: 191
Period size: 57 Copynumber: 1.9 Consensus size: 57
840464 CACAGGTTCC
*
840474 AAAATCGCAACACGAATTACCGATATAGGTAAACAGTACTATCGCAACGCGAATAGG
1 AAAATCGCAACACGAATTACCGATATAGGTAAACACTACTATCGCAACGCGAATAGG
* *
840531 AAAATCGCAACGCTAATTACCGATATAGGTAAACACTACTATCGCAACGCGA
1 AAAATCGCAACACGAATTACCGATATAGGTAAACACTACTATCGCAACGCGA
840583 TTTTTAAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.18
Consensus pattern (57 bp):
AAAATCGCAACACGAATTACCGATATAGGTAAACACTACTATCGCAACGCGAATAGG
Found at i:840583 original size:29 final size:29
Alignment explanation
Indices: 840494--840583 Score: 67
Period size: 29 Copynumber: 3.1 Consensus size: 29
840484 CACGAATTAC
*
840494 CGATATAGGTAAACAGTACTATCGCAACG
1 CGATATAGGTAAACACTACTATCGCAACG
* * * ** ****
840523 CGA-ATAGGAAAATCGCAACGCTAATTAC-
1 CGATATAGGTAAA-CACTACTATCGCAACG
840551 CGATATAGGTAAACACTACTATCGCAACG
1 CGATATAGGTAAACACTACTATCGCAACG
840580 CGAT
1 CGAT
840584 TTTTAAATTC
Statistics
Matches: 39, Mismatches: 19, Indels: 6
0.61 0.30 0.09
Matches are distributed among these distances:
28 18 0.46
29 21 0.54
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (29 bp):
CGATATAGGTAAACACTACTATCGCAACG
Found at i:840681 original size:13 final size:14
Alignment explanation
Indices: 840657--840685 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
840647 ATAGATAAAA
840657 CGGTAGAAAAAATC
1 CGGTAGAAAAAATC
840671 CGGTA-AAAAAATC
1 CGGTAGAAAAAATC
840684 CG
1 CG
840686 AATTCGACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.14
Consensus pattern (14 bp):
CGGTAGAAAAAATC
Found at i:842188 original size:22 final size:22
Alignment explanation
Indices: 842160--842202 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
842150 CAAACGTAAA
* *
842160 CGAACATAAATGTATGGATTAC
1 CGAACATAAATGAATGAATTAC
842182 CGAACATAAATGAATGAATTA
1 CGAACATAAATGAATGAATTA
842203 TCAAACGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (22 bp):
CGAACATAAATGAATGAATTAC
Found at i:842219 original size:54 final size:54
Alignment explanation
Indices: 842141--842258 Score: 173
Period size: 54 Copynumber: 2.2 Consensus size: 54
842131 ATGAACGAAC
* * * *
842141 ATGAATTATCAAACGTAAACGAACATAAATGTATGGATTACCGAACATAAATGA
1 ATGAATTATCAAACGTAAACGAACATAAACGAATGGAATAACGAACATAAATGA
*
842195 ATGAATTATCAAACGTAAACGAACATAAACGAATGGAATAACGAATATAAATGA
1 ATGAATTATCAAACGTAAACGAACATAAACGAATGGAATAACGAACATAAATGA
**
842249 ACAAATTATC
1 ATGAATTATC
842259 GAACATTCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.51, C:0.13, G:0.14, T:0.23
Consensus pattern (54 bp):
ATGAATTATCAAACGTAAACGAACATAAACGAATGGAATAACGAACATAAATGA
Found at i:842271 original size:32 final size:32
Alignment explanation
Indices: 842235--842314 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
842225 GAATGGAATA
*
842235 ACGAATATAAATGAACAAATTATCGAACATTC
1 ACGAACATAAATGAACAAATTATCGAACATTC
* *
842267 ACGAACGTAAATGAACAAATTATCGAACGTTC
1 ACGAACATAAATGAACAAATTATCGAACATTC
* *
842299 ACGGACGTAAATGAAC
1 ACGAACATAAATGAAC
842315 GAACGAGTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.21
Consensus pattern (32 bp):
ACGAACATAAATGAACAAATTATCGAACATTC
Found at i:847809 original size:112 final size:112
Alignment explanation
Indices: 847489--848089 Score: 864
Period size: 112 Copynumber: 5.3 Consensus size: 112
847479 TAATTTTCAA
* ** * * *
847489 TAAAGTATCGATACATGTACA-AAAAGTATCTATACTTTCAACATATCAGGTAGTTCTTTACCGG
1 TAAAGTATCGATACATTTTTATAAAA-TATCGATACTTTCAACATATCATGTAGCTCTTTACCGG
847553 TTTTGTCATAATGAAAA-TGGTTTTGTCATATTTTTACATGTTATATTG
65 TTTTGTCATAAT-AAAACTGGTTTTGTCATATTTTTACATGTTATATTG
*
847601 TAAAGTATCGATACATTTTTATAAAAAAATATCGATACTTTCAACATATCAGGTAGCTCTTTACC
1 TAAAGTATCGATACATTTTTAT---AAAATATCGATACTTTCAACATATCATGTAGCTCTTTACC
* * * * * *
847666 GGTTTTGTCATAATGAAACTGATTTTTTCATACTTTTACCTATTATATTG
63 GGTTTTGTCATAATAAAACTGGTTTTGTCATATTTTTACATGTTATATTG
*
847716 TAAAGTATAGATACATTTTTATAAAATATCGATACTTTCAACATATCATGTAGCTCTTTACCGGT
1 TAAAGTATCGATACATTTTTATAAAATATCGATACTTTCAACATATCATGTAGCTCTTTACCGGT
* *
847781 TTTGTCATAATAAAACAGGTTTTGTCATATTTTTACCTGTTATATTG
66 TTTGTCATAATAAAACTGGTTTTGTCATATTTTTACATGTTATATTG
*
847828 TAAAGTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCATGTAGCTCTTTACCGGT
1 TAAAGTATCGATACATTTTTATAAAATATCGATACTTTCAACATATCATGTAGCTCTTTACCGGT
* * * *
847893 TTTGTCATAATGAAATTGGTTTTATAATATTTTTACATGTTATATTG
66 TTTGTCATAATAAAACTGGTTTTGTCATATTTTTACATGTTATATTG
* * * * *
847940 TAAAGTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATTATGTAACTATTTACCAGT
1 TAAAGTATCGATACATTTTTATAAAATATCGATACTTTCAACATATCATGTAGCTCTTTACCGGT
* * * *
848005 TTTGTCATAATGAAATTAGTTTTGTCATATTTTTACATATTATATTG
66 TTTGTCATAATAAAACTGGTTTTGTCATATTTTTACATGTTATATTG
*
848052 TAAAGTATCGATACATTTTTATAAAGTATCGATACTTT
1 TAAAGTATCGATACATTTTTATAAAATATCGATACTTT
848090 ATAGGCGCTA
Statistics
Matches: 449, Mismatches: 35, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
112 347 0.77
114 3 0.01
115 95 0.21
116 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (112 bp):
TAAAGTATCGATACATTTTTATAAAATATCGATACTTTCAACATATCATGTAGCTCTTTACCGGT
TTTGTCATAATAAAACTGGTTTTGTCATATTTTTACATGTTATATTG
Found at i:848311 original size:72 final size:72
Alignment explanation
Indices: 848170--848414 Score: 359
Period size: 72 Copynumber: 3.4 Consensus size: 72
848160 TCAACATATT
* * * *
848170 CGGTAGGTAGTTTAATGTAATATGTAGCGCGTATTTTTTTTACCGTTTACATTATTAGCAACCTT
1 CGGTAGGTATTTTAATGTAATAGGTAGCAC-TATTTTTTTTACCGTTTACATTATTAACAACCTT
848235 -AAAAAAA
65 AAAAAAAA
848242 CGGTAGGTATTTTAATGTAATAGGTAGCACTA-TTTTTTTACCGTTTACATTATTAACAACCTTC
1 CGGTAGGTATTTTAATGTAATAGGTAGCACTATTTTTTTTACCGTTTACATTATTAACAACCTT-
*
848306 AAAAAAAT
65 AAAAAAAA
* * *
848314 CGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTATATTATTAATAACCTT
1 CGGTAGGTATTTTAATGTAATAGGTAGC-ACTATTTTTTTTACCGTTTACATTATTAACAACCTT
848379 AAAAAAAA
65 AAAAAAAA
*
848387 CCGGTAGGTATTTTAATGTAATTGGTAG
1 -CGGTAGGTATTTTAATGTAATAGGTAG
848415 TTTAAATTTT
Statistics
Matches: 158, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
70 30 0.19
71 2 0.01
72 61 0.39
73 10 0.06
74 55 0.35
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (72 bp):
CGGTAGGTATTTTAATGTAATAGGTAGCACTATTTTTTTTACCGTTTACATTATTAACAACCTTA
AAAAAAA
Found at i:848392 original size:74 final size:72
Alignment explanation
Indices: 848170--848414 Score: 368
Period size: 74 Copynumber: 3.4 Consensus size: 72
848160 TCAACATATT
* * * *
848170 CGGTAGGTAGTTTAATGTAATATGTAGCGCGTATTTTTTTTACCGTTTACATTATTAGCAACCTT
1 CGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAACAACCTT
848235 AAAAAAA
66 AAAAAAA
*
848242 CGGTAGGTATTTTAATGTAATAGGTAGC-ACTA-TTTTTTTACCGTTTACATTATTAACAACCTT
1 CGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAACAACCTT
848305 CAAAAAAA
66 -AAAAAAA
* *
848313 TCGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTATATTATTAATAACCT
1 -CGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAACAACCT
848378 TAAAAAAAA
65 T-AAAAAAA
*
848387 CCGGTAGGTATTTTAATGTAATTGGTAG
1 -CGGTAGGTATTTTAATGTAATAGGTAG
848415 TTTAAATTTT
Statistics
Matches: 158, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
70 30 0.19
71 9 0.06
72 54 0.34
73 3 0.02
74 62 0.39
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (72 bp):
CGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAACAACCTT
AAAAAAA
Found at i:848639 original size:134 final size:134
Alignment explanation
Indices: 848475--848789 Score: 454
Period size: 134 Copynumber: 2.4 Consensus size: 134
848465 ACAAATTAAG
* * * * *
848475 TAAGTAATT-ACCTATTTTGTTACATAAGCGCTATCTAATATGTTATTATGCTTAATAATGTTTC
1 TAAGTAATTAACCTATTTTATTATATAAGCGCTACCTAATATGTTATCATGCTTAATAATATTTC
* * * *
848539 TTGTTATTAACCGCTTATATTATCATTGGTAACATTTTATG-TGTTACCTAATATGTTGTAATAA
66 TAGTAATTAACCGATTATATTATCATTGGTAACATTTTAGGAT-TTACCTAATATGTTGTAATAA
848603 CAAAT
130 CAAAT
* * *
848608 TAAGTAATTAACCTATTTTATTATATAAGCGCTACCTAATATGTTATCGTGTTTGATAATATTTC
1 TAAGTAATTAACCTATTTTATTATATAAGCGCTACCTAATATGTTATCATGCTTAATAATATTTC
*
848673 TAGTAATTAACCGATTATGTTATCATTGGTAACATTTTAGGCATTTACCTAATATGTTGTAATAA
66 TAGTAATTAACCGATTATATTATCATTGGTAACATTTTAGG-ATTTACCTAATATGTTGTAATAA
848738 CAAAT
130 CAAAT
* * *
848743 TAAATAATTAACCTATTTTATTATATAAGCGCTACCTATTACGTTAT
1 TAAGTAATTAACCTATTTTATTATATAAGCGCTACCTAATATGTTAT
848790 ATAAGCGCTA
Statistics
Matches: 163, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
133 9 0.06
134 83 0.51
135 70 0.43
136 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (134 bp):
TAAGTAATTAACCTATTTTATTATATAAGCGCTACCTAATATGTTATCATGCTTAATAATATTTC
TAGTAATTAACCGATTATATTATCATTGGTAACATTTTAGGATTTACCTAATATGTTGTAATAAC
AAAT
Found at i:848811 original size:23 final size:23
Alignment explanation
Indices: 848763--848812 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
848753 ACCTATTTTA
*
848763 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
* *
848786 TTATATAAGCGCTACGTAATATG
1 TTATATAAGCGCTACCTAATACG
848809 TTAT
1 TTAT
848813 TGTGTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:848906 original size:158 final size:158
Alignment explanation
Indices: 848628--848947 Score: 550
Period size: 158 Copynumber: 2.0 Consensus size: 158
848618 ACCTATTTTA
848628 TTATATAAGCGCTACCTAATATGTTATCGTGTTTGATAATATTTCTAGTAATTAACCGATTATGT
1 TTATATAAGCGCTACCTAATATGTTATCGTGTTTGATAATATTTCTAGTAATTAACCGATTATGT
* *
848693 TATCATTGGTAACATTTTAGGCATTTACCTAATATGTTGTAATAACAAATTAAATAATTAACCTA
66 TATCATTGGTAACATTTTAGACATTTACCTAATATGTTGTAATAACAAATTAAATAATTAACATA
* *
848758 TTTTATTATATAAGCGCTACCTATTACG
131 TTTTATTATATAAGCACTACCTAATACG
* * *
848786 TTATATAAGCGCTACGTAATATGTTATTGTGTTTGATAATGTTTCTAGTAATTAACCGATTATGT
1 TTATATAAGCGCTACCTAATATGTTATCGTGTTTGATAATATTTCTAGTAATTAACCGATTATGT
*
848851 TATCATTGGTAACATTTTAGACGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACATA
66 TATCATTGGTAACATTTTAGACATTTACCTAATATGTTGTAATAACAAATTAAATAATTAACATA
* *
848916 TTTTATTATATAATCACTACCTAATATG
131 TTTTATTATATAAGCACTACCTAATACG
848944 TTAT
1 TTAT
848948 TACATTTGAT
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
158 152 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (158 bp):
TTATATAAGCGCTACCTAATATGTTATCGTGTTTGATAATATTTCTAGTAATTAACCGATTATGT
TATCATTGGTAACATTTTAGACATTTACCTAATATGTTGTAATAACAAATTAAATAATTAACATA
TTTTATTATATAAGCACTACCTAATACG
Found at i:850123 original size:23 final size:23
Alignment explanation
Indices: 850071--850126 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
850061 CAGTCAACAT
*
850071 CTTCTAAAAGGCTCAATCAGTAG
1 CTTCTAGAAGGCTCAATCAGTAG
*
850094 CTTCTAGAAGGCTCAGTCAGTAG
1 CTTCTAGAAGGCTCAATCAGTAG
850117 CTTCTAGAAG
1 CTTCTAGAAG
850127 ATACAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (23 bp):
CTTCTAGAAGGCTCAATCAGTAG
Found at i:850793 original size:82 final size:82
Alignment explanation
Indices: 850656--850821 Score: 289
Period size: 82 Copynumber: 2.0 Consensus size: 82
850646 TGACGCATTC
* *
850656 GACTTCCTGTGAACACACTTAGTGGTGGTCCGCTAAGGGAAACTGAAATCGGGTTAGATTCTCAA
1 GACTTCCTGTGAACACACTTAGCGGCGGTCCGCTAAGGGAAACTGAAATCGGGTTAGATTCTCAA
850721 TTGAGAC-AGTAGAATCT
66 TTGAGACGA-TAGAATCT
*
850738 GACTTCCTGTGAACACACTTAGCGGCGGTCCGTTAAGGGAAACTGAAATCGGGTTAGATTCTCAA
1 GACTTCCTGTGAACACACTTAGCGGCGGTCCGCTAAGGGAAACTGAAATCGGGTTAGATTCTCAA
850803 TTGAGACGATAGAATCT
66 TTGAGACGATAGAATCT
850820 GA
1 GA
850822 GTTGAGTTTT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
82 79 0.99
83 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (82 bp):
GACTTCCTGTGAACACACTTAGCGGCGGTCCGCTAAGGGAAACTGAAATCGGGTTAGATTCTCAA
TTGAGACGATAGAATCT
Found at i:854361 original size:16 final size:16
Alignment explanation
Indices: 854340--854373 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
854330 TTACTATTCA
*
854340 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
854356 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
854372 CG
1 CG
854374 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:855144 original size:15 final size:16
Alignment explanation
Indices: 855124--855155 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
855114 TGGCAGATCC
855124 AAATCCAG-ACGGGAA
1 AAATCCAGAACGGGAA
855139 AAATCCAGAACGGGAA
1 AAATCCAGAACGGGAA
855155 A
1 A
855156 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAATCCAGAACGGGAA
Found at i:862737 original size:25 final size:25
Alignment explanation
Indices: 862707--862759 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
862697 AACATCTGCA
862707 TATTCTTCTGGTTTCTGGTATGGTT
1 TATTCTTCTGGTTTCTGGTATGGTT
862732 TATTCTTCTGGTTTCTGGTATGGTT
1 TATTCTTCTGGTTTCTGGTATGGTT
862757 TAT
1 TAT
862760 CATGGGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.09, C:0.11, G:0.23, T:0.57
Consensus pattern (25 bp):
TATTCTTCTGGTTTCTGGTATGGTT
Found at i:863138 original size:17 final size:17
Alignment explanation
Indices: 863116--863149 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
863106 ACCATAAGAC
863116 GGTTCCAATTTGCTCAG
1 GGTTCCAATTTGCTCAG
863133 GGTTCCAATTTGCTCAG
1 GGTTCCAATTTGCTCAG
863150 ATGGTGAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (17 bp):
GGTTCCAATTTGCTCAG
Found at i:864349 original size:12 final size:12
Alignment explanation
Indices: 864332--864358 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
864322 GATAGCTGAG
864332 TTTGTCATTTAC
1 TTTGTCATTTAC
864344 TTTGTCATTTAC
1 TTTGTCATTTAC
864356 TTT
1 TTT
864359 CATGGTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (12 bp):
TTTGTCATTTAC
Found at i:865917 original size:39 final size:39
Alignment explanation
Indices: 865863--865952 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
865853 ATTATACACG
* * * *
865863 TTCTGCACCTCAAATTCCCCAATTTTTTGCACCTCCATT
1 TTCTGCACCTCAAATTCACCAATTTTCTACACCTCAATT
*
865902 TTCTGCACCTCAAATTCATCAATTTTCTACACCTCAATT
1 TTCTGCACCTCAAATTCACCAATTTTCTACACCTCAATT
865941 TTCTGCAGCCTC
1 TTCTGCA-CCTC
865953 TCAAGCTCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 41 0.91
40 4 0.09
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (39 bp):
TTCTGCACCTCAAATTCACCAATTTTCTACACCTCAATT
Found at i:867733 original size:78 final size:78
Alignment explanation
Indices: 867649--867814 Score: 332
Period size: 78 Copynumber: 2.1 Consensus size: 78
867639 ATTCAAATTT
867649 ACCATCAACATCATCACCTTCACCACATGTATCATCTCCATCACAAAATTCATCTCATTCAAATT
1 ACCATCAACATCATCACCTTCACCACATGTATCATCTCCATCACAAAATTCATCTCATTCAAATT
867714 TACCATCCACTAC
66 TACCATCCACTAC
867727 ACCATCAACATCATCACCTTCACCACATGTATCATCTCCATCACAAAATTCATCTCATTCAAATT
1 ACCATCAACATCATCACCTTCACCACATGTATCATCTCCATCACAAAATTCATCTCATTCAAATT
867792 TACCATCCACTAC
66 TACCATCCACTAC
867805 ACCATCAACA
1 ACCATCAACA
867815 CCACTACTAT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 88 1.00
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.27
Consensus pattern (78 bp):
ACCATCAACATCATCACCTTCACCACATGTATCATCTCCATCACAAAATTCATCTCATTCAAATT
TACCATCCACTAC
Found at i:869889 original size:12 final size:12
Alignment explanation
Indices: 869872--869898 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
869862 GATAGCTGAG
869872 TTTGTCATTTAC
1 TTTGTCATTTAC
869884 TTTGTCATTTAC
1 TTTGTCATTTAC
869896 TTT
1 TTT
869899 CAGTAAGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (12 bp):
TTTGTCATTTAC
Found at i:872734 original size:6 final size:6
Alignment explanation
Indices: 872723--872749 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
872713 TGCAACGGCT
872723 GTTCGA GTTCGA GTTCGA GTTCGA GTT
1 GTTCGA GTTCGA GTTCGA GTTCGA GTT
872750 GAACAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (6 bp):
GTTCGA
Found at i:874865 original size:16 final size:14
Alignment explanation
Indices: 874832--874877 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
874822 TGATTAGAGG
*
874832 ATTAAATTTATGGA
1 ATTAAATTTATAGA
874846 ATTAAATTTAATTAGA
1 ATTAAATTT-A-TAGA
*
874862 ATTAAATTGATAGA
1 ATTAAATTTATAGA
874876 AT
1 AT
874878 GTATAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 15 0.54
15 2 0.07
16 11 0.39
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (14 bp):
ATTAAATTTATAGA
Found at i:875766 original size:16 final size:17
Alignment explanation
Indices: 875747--875779 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
875737 TTAAATGACT
875747 TAAAATT-ATATTTAAA
1 TAAAATTAATATTTAAA
875763 TAAAATTGAATATTTAA
1 TAAAATT-AATATTTAA
875780 CAAACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TAAAATTAATATTTAAA
Found at i:876722 original size:29 final size:29
Alignment explanation
Indices: 876687--876768 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
876677 AAACTAAATT
*
876687 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
* *
876716 GATGTCATTGTTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
876745 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
876769 GTTAGGTGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 43 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:881423 original size:29 final size:29
Alignment explanation
Indices: 881388--881469 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
881378 AAACTAAATT
*
881388 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
881417 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
881446 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
881470 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Done.