Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 6 of 106
Found at i:836170 original size:15 final size:14
Alignment explanation
Indices: 836146--836201 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
836136 AAAATTTTGG
*
836146 TGTTTGGTTTTTGTT
1 TGTTTTGTTTTT-TT
836161 TGTTTTG-TTTTTT
1 TGTTTTGTTTTTTT
836174 T-TTTT-TTTTTTT
1 TGTTTTGTTTTTTT
* *
836186 TATTTTATTTTTTT
1 TGTTTTGTTTTTTT
836200 TG
1 TG
836202 AGAGGTTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
12 11 0.31
13 7 0.19
14 12 0.33
15 6 0.17
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.84
Consensus pattern (14 bp):
TGTTTTGTTTTTTT
Found at i:836181 original size:25 final size:25
Alignment explanation
Indices: 836153--836200 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
836143 TGGTGTTTGG
* *
836153 TTTTTGTTTGTTTTGTTTTTTTTTT
1 TTTTTGTTTATTTTATTTTTTTTTT
*
836178 TTTTTTTTTATTTTATTTTTTTT
1 TTTTTGTTTATTTTATTTTTTTT
836201 GAGAGGTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.04, C:0.00, G:0.06, T:0.90
Consensus pattern (25 bp):
TTTTTGTTTATTTTATTTTTTTTTT
Found at i:836419 original size:35 final size:35
Alignment explanation
Indices: 836350--836444 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
836340 ATCACAAATC
* * *
836350 GAGAGATAAGAATGATCGAGACT-AAGCCGTAAGTT
1 GAGAGATAAGAATAATTGAGACTGAAG-CGCAAGTT
836385 GAGAGATAAGAATAATTGAGACTGAATG-GCAAGTT
1 GAGAGATAAGAATAATTGAGACTGAA-GCGCAAGTT
* * * *
836420 AAGAAATAAAAATAATTGGGACTGA
1 GAGAGATAAGAATAATTGAGACTGA
836445 GCTACAAGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
35 48 0.94
36 2 0.04
37 1 0.02
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.21
Consensus pattern (35 bp):
GAGAGATAAGAATAATTGAGACTGAAGCGCAAGTT
Found at i:836698 original size:35 final size:35
Alignment explanation
Indices: 836655--836767 Score: 120
Period size: 35 Copynumber: 3.2 Consensus size: 35
836645 GACTAAGCTA
* * *
836655 CAAGTTAAGAGATAAGAATGACCAAGATTAGGTTG
1 CAAGTTAAGAAATAAGAATGACCAAGATTAAGTCG
* * *
836690 TAAGTTAAGAAATAA-AGATGATCAAGACTAAGTCG
1 CAAGTTAAGAAATAAGA-ATGACCAAGATTAAGTCG
* * * *
836725 CAAGTTAAAAAATAAGAATTACCGAGATTGAGTCG
1 CAAGTTAAGAAATAAGAATGACCAAGATTAAGTCG
836760 CAAGTTAA
1 CAAGTTAA
836768 AAAAATAAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
34 1 0.02
35 61 0.97
36 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (35 bp):
CAAGTTAAGAAATAAGAATGACCAAGATTAAGTCG
Found at i:836765 original size:70 final size:70
Alignment explanation
Indices: 836620--836798 Score: 170
Period size: 70 Copynumber: 2.6 Consensus size: 70
836610 TGACTGAATT
* * * *
836620 GCAAGTTAAGAAAT-AAGATAATTAGGACTAAGCTACAAGTTAAGAGATAAGAATGACCAAGATT
1 GCAAGTTAAGAAATAAAGATAATCAAGACTAAGCTACAAGTTAAAAAATAAGAATGACCAAGATT
*
836684 AGGTT
66 AGGTC
* * * * *
836689 GTAAGTTAAGAAATAAAGATGATCAAGACTAAG-TCGCAAGTTAAAAAATAAGAATTACCGAGAT
1 GCAAGTTAAGAAATAAAGATAATCAAGACTAAGCT-ACAAGTTAAAAAATAAGAATGACCAAGAT
836753 T-GAGTC
65 TAG-GTC
* * *
836759 GCAAGTTAAAAAAATAAA-ATAA-CTAAAACTAAGCCACAAG
1 GCAAGTT-AAGAAATAAAGATAATC-AAGACTAAGCTACAAG
836799 CCAAAGAACA
Statistics
Matches: 88, Mismatches: 16, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
69 16 0.18
70 63 0.72
71 9 0.10
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.21
Consensus pattern (70 bp):
GCAAGTTAAGAAATAAAGATAATCAAGACTAAGCTACAAGTTAAAAAATAAGAATGACCAAGATT
AGGTC
Found at i:837134 original size:35 final size:35
Alignment explanation
Indices: 837088--837180 Score: 105
Period size: 35 Copynumber: 2.7 Consensus size: 35
837078 AGAGATAATA
*
837088 ATGATTAAGACTGAGCCGCAAGTTAAAGAATAAAG
1 ATGATTGAGACTGAGCCGCAAGTTAAAGAATAAAG
*** *
837123 ATGATTGAGACTGAGCTATAAATTAAAGAATAAAG
1 ATGATTGAGACTGAGCCGCAAGTTAAAGAATAAAG
* * * *
837158 ATGACTGGGACTAAGTCGCAAGT
1 ATGATTGAGACTGAGCCGCAAGT
837181 CAAAAAAGAA
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.23
Consensus pattern (35 bp):
ATGATTGAGACTGAGCCGCAAGTTAAAGAATAAAG
Found at i:838305 original size:23 final size:23
Alignment explanation
Indices: 838279--838358 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
838269 TTGGGCTTGG
*
838279 GTGCCAGCTAATATGAGCTTAAA
1 GTGCCAGCTAATCTGAGCTTAAA
*
838302 GTGCCAGCTAATCT-AGGCTTAAG
1 GTGCCAGCTAATCTGA-GCTTAAA
* *
838325 GTGTCAGTTAATCTGAGCTTAAA
1 GTGCCAGCTAATCTGAGCTTAAA
*
838348 GTGTCAGCTAA
1 GTGCCAGCTAA
838359 ACTAGGTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.02
23 47 0.96
24 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (23 bp):
GTGCCAGCTAATCTGAGCTTAAA
Found at i:838345 original size:46 final size:46
Alignment explanation
Indices: 838278--838369 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
838268 TTTGGGCTTG
*
838278 GGTGCCAGCTAATATGAGCTTAAAGTGCCAGCTAATCTAGGCTTAA
1 GGTGCCAGCTAATATGAGCTTAAAGTGCCAGCTAAACTAGGCTTAA
* * * * *
838324 GGTGTCAGTTAATCTGAGCTTAAAGTGTCAGCTAAACTAGGTTTAA
1 GGTGCCAGCTAATATGAGCTTAAAGTGCCAGCTAAACTAGGCTTAA
838370 AATTTGGATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (46 bp):
GGTGCCAGCTAATATGAGCTTAAAGTGCCAGCTAAACTAGGCTTAA
Found at i:838369 original size:23 final size:23
Alignment explanation
Indices: 838295--838370 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
838285 GCTAATATGA
*
838295 GCTTAAAGTGCCAGCTAATCTAG
1 GCTTAAAGTGTCAGCTAATCTAG
* *
838318 GCTTAAGGTGTCAGTTAATCT-G
1 GCTTAAAGTGTCAGCTAATCTAG
*
838340 AGCTTAAAGTGTCAGCTAAACTAG
1 -GCTTAAAGTGTCAGCTAATCTAG
*
838364 GTTTAAA
1 GCTTAAA
838371 ATTTGGATGC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 1 0.02
23 42 0.95
24 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (23 bp):
GCTTAAAGTGTCAGCTAATCTAG
Found at i:838430 original size:120 final size:119
Alignment explanation
Indices: 838204--838545 Score: 323
Period size: 120 Copynumber: 2.8 Consensus size: 119
838194 AAATATTTTT
* * * * * * *
838204 GGTGCCAGCTAATCTAAGTTTAAAGTGCCAACTAAATTGGGCTTAAAATTTGGATGCTAGCCAAT
1 GGTGCCAGCTAATCTGAGCTTAAAGTG-CAGCTAAATTAGGTTTAAAATTTGGATGCCAGCTAAT
** * *
838269 TTGGGCTTGGGTGCCAGCTAATATGAGCTTAAAGTGCCAGCTAATCTAGGCTTAA
65 TTGAACGTGGGTGCCAACTAATATGAGCTTAAAGTGCCAGCTAATCTAGGCTTAA
* * * *
838324 GGTGTCAGTTAATCTGAGCTTAAAGTGTCAGCTAAACTAGGTTTAAAATTTGGATGCCAACTAAT
1 GGTGCCAGCTAATCTGAGCTTAAAGTG-CAGCTAAATTAGGTTTAAAATTTGGATGCCAGCTAAT
* * * *
838389 TTGAACGTGGGTGCCAACTAATTTG-GACTT-AAGATGTCAGCTAATTTGGGCTTAA
65 TTGAACGTGGGTGCCAACTAATATGAG-CTTAAAG-TGCCAGCTAATCTAGGCTTAA
* * * * *
838444 GGTGCCAACTAATTTTG-GCATAAAATGCTAGCTAAATTAGGTTTAAAATTTAGATGCCAGCTAA
1 GGTGCCAGCTAA-TCTGAGCTTAAAGTGC-AGCTAAATTAGGTTTAAAATTTGGATGCCAGCTAA
* * * * * *
838508 TCT-AGGCTTGGGTACCAGCTAATATGGGCTTAAAGTGC
64 TTTGA-ACGTGGGTGCCAACTAATATGAGCTTAAAGTGC
838546 TGCTAAATTA
Statistics
Matches: 179, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
119 6 0.03
120 166 0.93
121 7 0.04
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (119 bp):
GGTGCCAGCTAATCTGAGCTTAAAGTGCAGCTAAATTAGGTTTAAAATTTGGATGCCAGCTAATT
TGAACGTGGGTGCCAACTAATATGAGCTTAAAGTGCCAGCTAATCTAGGCTTAA
Found at i:838436 original size:23 final size:23
Alignment explanation
Indices: 838376--838458 Score: 87
Period size: 23 Copynumber: 3.7 Consensus size: 23
838366 TTAAAATTTG
* * *
838376 GATGCCAACTAATTTGAACGT-G
1 GATGCCAACTAATTTGGACTTAA
*
838398 GGTGCCAACTAATTTGGACTTAA
1 GATGCCAACTAATTTGGACTTAA
* * *
838421 GATGTCAGCTAATTTGGGCTTAA
1 GATGCCAACTAATTTGGACTTAA
*
838444 GGTGCCAACTAATTT
1 GATGCCAACTAATTT
838459 TGGCATAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
22 18 0.37
23 31 0.63
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (23 bp):
GATGCCAACTAATTTGGACTTAA
Found at i:838772 original size:17 final size:15
Alignment explanation
Indices: 838748--838783 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
838738 CATGATAAAC
838748 TTTTTTTCTTTTTCAT
1 TTTTTTTCTTTTTC-T
838764 TTTTCTTTCTTTTTCT
1 TTTT-TTTCTTTTTCT
838780 TTTT
1 TTTT
838784 GTAGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTCTTTTTCT
Found at i:843691 original size:15 final size:16
Alignment explanation
Indices: 843671--843706 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
843661 TGGGTAAAAT
843671 CTTTTT-TTTTTCATA
1 CTTTTTCTTTTTCATA
*
843686 CTTTTTCTTTTTCATG
1 CTTTTTCTTTTTCATA
843702 CTTTT
1 CTTTT
843707 ACTTCTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.08, C:0.17, G:0.03, T:0.72
Consensus pattern (16 bp):
CTTTTTCTTTTTCATA
Found at i:845669 original size:16 final size:15
Alignment explanation
Indices: 845632--845718 Score: 75
Period size: 16 Copynumber: 5.4 Consensus size: 15
845622 TTAAAGTTTT
845632 GTTTTAGGGTTTAGAG
1 GTTTTAGGGTTTAG-G
*
845648 CTTTTTAGAGGTTTAGG
1 -GTTTTAG-GGTTTAGG
*
845665 ATTTTAGGGTTTTAGG
1 GTTTTAGGG-TTTAGG
*
845681 GTTTTAGGATTTTAGG
1 GTTTTAGG-GTTTAGG
* *
845697 GTTTTAGAGTTTCGAG
1 GTTTTAGGGTTTAG-G
845713 GTTTTA
1 GTTTTA
845719 AGGTCTTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
15 6 0.10
16 39 0.66
17 7 0.12
18 7 0.12
ACGTcount: A:0.18, C:0.02, G:0.31, T:0.48
Consensus pattern (15 bp):
GTTTTAGGGTTTAGG
Found at i:845670 original size:8 final size:8
Alignment explanation
Indices: 845650--845708 Score: 75
Period size: 8 Copynumber: 7.4 Consensus size: 8
845640 GTTTAGAGCT
845650 TTTTAGAGG
1 TTTTAG-GG
*
845659 -TTTAGGA
1 TTTTAGGG
845666 TTTTAGGG
1 TTTTAGGG
845674 TTTTAGGG
1 TTTTAGGG
*
845682 TTTTAGGA
1 TTTTAGGG
845690 TTTTAGGG
1 TTTTAGGG
*
845698 TTTTAGAG
1 TTTTAGGG
845706 TTT
1 TTT
845709 CGAGGTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
7 1 0.02
8 43 0.98
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.51
Consensus pattern (8 bp):
TTTTAGGG
Found at i:845686 original size:24 final size:24
Alignment explanation
Indices: 845650--845708 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
845640 GTTTAGAGCT
845650 TTTTAGAGG-TTTAGGATTTTAGGG
1 TTTTAG-GGTTTTAGGATTTTAGGG
845674 TTTTAGGGTTTTAGGATTTTAGGG
1 TTTTAGGGTTTTAGGATTTTAGGG
*
845698 TTTTAGAGTTT
1 TTTTAGGGTTT
845709 CGAGGTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 2 0.06
24 31 0.94
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.51
Consensus pattern (24 bp):
TTTTAGGGTTTTAGGATTTTAGGG
Found at i:850178 original size:9 final size:9
Alignment explanation
Indices: 850164--850196 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
850154 GTAATTTAAT
850164 AAAAAAATA
1 AAAAAAATA
850173 AAAAAAA-A
1 AAAAAAATA
850181 AAAAAAATA
1 AAAAAAATA
*
850190 GAAAAAA
1 AAAAAAA
850197 GTTTTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.91, C:0.00, G:0.03, T:0.06
Consensus pattern (9 bp):
AAAAAAATA
Found at i:852796 original size:84 final size:84
Alignment explanation
Indices: 852669--852830 Score: 261
Period size: 84 Copynumber: 1.9 Consensus size: 84
852659 ACCTTTGAAC
*
852669 AAAATATTTTAAATTTTCAAAGTTTCAATGCCTCTAATATATGAGGAGCATTCAAAGATTTTAAA
1 AAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAATATATGAGGAGCATTCAAAGATTTTAAA
*
852734 ATCTTTAAGACCTTCAGAT
66 ATCCTTAAGACCTTCAGAT
* * * * *
852753 AAAACATTTTAAATTTTTAATGTTTCAATGCCTCTAATGTATGAGGAGGATTCAAAGATTTTGAA
1 AAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAATATATGAGGAGCATTCAAAGATTTTAAA
852818 ATCCTTAAGACCT
66 ATCCTTAAGACCT
852831 CTGGGCACAA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 71 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (84 bp):
AAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAATATATGAGGAGCATTCAAAGATTTTAAA
ATCCTTAAGACCTTCAGAT
Found at i:853012 original size:22 final size:22
Alignment explanation
Indices: 852964--853018 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
852954 AAAGATGTTG
*
852964 AGATTTGTAAGACCTCTGAGCA
1 AGATTTGTAAGACCTCTGAACA
*
852986 TGATTTGTAAGACCT-TCGAACA
1 AGATTTGTAAGACCTCT-GAACA
*
853008 AGATTCGTAAG
1 AGATTTGTAAG
853019 TCTTTCAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (22 bp):
AGATTTGTAAGACCTCTGAACA
Found at i:853244 original size:9 final size:9
Alignment explanation
Indices: 853232--853263 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
853222 AATTCTAAAA
853232 AAAAAATCC
1 AAAAAATCC
853241 AAAAAATCC
1 AAAAAATCC
853250 -AAAAATCC
1 AAAAAATCC
853258 AAAAAA
1 AAAAAA
853264 AATATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.72, C:0.19, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAATCC
Found at i:853253 original size:7 final size:8
Alignment explanation
Indices: 853233--853262 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
853223 ATTCTAAAAA
853233 AAAAATCC
1 AAAAATCC
853241 AAAAAATCC
1 -AAAAATCC
853250 AAAAATCC
1 AAAAATCC
853258 AAAAA
1 AAAAA
853263 AAATATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.70, C:0.20, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAATCC
Found at i:853263 original size:28 final size:29
Alignment explanation
Indices: 853230--853293 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
853220 AAAATTCTAA
* *
853230 AAAAAAAATCCAAAAAATC-C-AAAAATCC
1 AAAAAAAATACAAAAAA-CACAAAAAATAC
*
853258 AAAAAAAATATAAAAAACACAAAAAATAC
1 AAAAAAAATACAAAAAACACAAAAAATAC
853287 AAAAAAA
1 AAAAAAA
853294 TTTTGAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 16 0.52
29 14 0.45
ACGTcount: A:0.77, C:0.14, G:0.00, T:0.09
Consensus pattern (29 bp):
AAAAAAAATACAAAAAACACAAAAAATAC
Found at i:853272 original size:9 final size:9
Alignment explanation
Indices: 853232--853292 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
853222 AATTCTAAAA
*
853232 AAAAAATCC
1 AAAAAATAC
853241 AAAAAAT-C
1 AAAAAATAC
* *
853249 CAAAAATCCAA
1 AAAAAAT--AC
*
853260 AAAAAATAT
1 AAAAAATAC
*
853269 AAAAAACAC
1 AAAAAATAC
853278 AAAAAATAC
1 AAAAAATAC
853287 AAAAAA
1 AAAAAA
853293 ATTTTGAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 7 0.17
9 29 0.69
11 6 0.14
ACGTcount: A:0.75, C:0.15, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATAC
Found at i:855430 original size:7 final size:7
Alignment explanation
Indices: 855420--855581 Score: 83
Period size: 7 Copynumber: 22.6 Consensus size: 7
855410 CATAAAATCA
855420 AAACCCT
1 AAACCCT
*
855427 AAACCCC
1 AAACCCT
855434 AAACCCT
1 AAACCCT
** *
855441 AAAATCA
1 AAACCCT
855448 AAACCCT
1 AAACCCT
*
855455 AAACCTT
1 AAACCCT
* *
855462 AAATCCA
1 AAACCCT
** *
855469 AAAATCA
1 AAACCCT
*
855476 AAATCCT
1 AAACCCT
855483 AAACCCT
1 AAACCCT
*
855490 CCAAACCTT
1 --AAACCCT
*
855499 AAA-ACT
1 AAACCCT
*
855505 AAAACCTT
1 -AAACCCT
855513 AAACCCTTT
1 AAACCC--T
855522 AAACCCT
1 AAACCCT
** *
855529 AAAATCA
1 AAACCCT
855536 AAACCCT
1 AAACCCT
855543 AAACCCT
1 AAACCCT
*
855550 AAACCTT
1 AAACCCT
855557 AAACCCT
1 AAACCCT
** *
855564 AAAATCA
1 AAACCCT
855571 AAACCCT
1 AAACCCT
855578 AAAC
1 AAAC
855582 TCTCCAAACC
Statistics
Matches: 111, Mismatches: 38, Indels: 12
0.69 0.24 0.07
Matches are distributed among these distances:
6 1 0.01
7 96 0.86
8 1 0.01
9 13 0.12
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:855502 original size:58 final size:57
Alignment explanation
Indices: 855404--855668 Score: 218
Period size: 58 Copynumber: 4.4 Consensus size: 57
855394 TTAAAACCTT
*
855404 TTAAAACATAAAATCAAAACCCTAAA-CC-CCAAACCCTAAAATCAAAACCCTAAACC
1 TTAAACCA-AAAATCAAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAACC
* * *
855460 TTAAATCCAAAAATCAAAATCCTAAACCCTCCAAACCTTAAAA-CTAAAACCTTAAACCC
1 TTAAA-CCAAAAATCAAAACCCTAAACCCTCCAAACCCTAAAATC-AAAACCCTAAA-CC
*
855519 TTTAAACCCTAAAATCAAAACCCTAAACCCTAAACCTTAAACCCTAAAATCAAAACCCTAAACTC
1 -TTAAA-CCAAAAATCAAAACCCTAAACCCT---CC--AAACCCTAAAATCAAAACCCTAAAC-C
* * * * * *
855584 TCCAAACCATAAAATTAAAATCGT-AAGCCT-CAAACCCTAAAATCGAAACCCTAAACCC
1 T-TAAACCA-AAAATCAAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAA-CC
*
855642 TCTAAACCCTAAAA-CTAAAACCCTAAA
1 T-TAAA-CCAAAAATC-AAAACCCTAAA
855669 TCCTTTGAAC
Statistics
Matches: 169, Mismatches: 21, Indels: 35
0.75 0.09 0.16
Matches are distributed among these distances:
56 21 0.12
57 5 0.03
58 61 0.36
59 7 0.04
60 28 0.17
63 2 0.01
64 9 0.05
65 35 0.21
66 1 0.01
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.18
Consensus pattern (57 bp):
TTAAACCAAAAATCAAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAACC
Found at i:855565 original size:35 final size:37
Alignment explanation
Indices: 855506--855581 Score: 129
Period size: 35 Copynumber: 2.1 Consensus size: 37
855496 CTTAAAACTA
*
855506 AAACCTTAAACCCTTTAAACCCTAAAATCAAAACCCT
1 AAACCCTAAACCCTTTAAACCCTAAAATCAAAACCCT
855543 AAACCCTAAA-CC-TTAAACCCTAAAATCAAAACCCT
1 AAACCCTAAACCCTTTAAACCCTAAAATCAAAACCCT
855578 AAAC
1 AAAC
855582 TCTCCAAACC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 27 0.71
36 2 0.05
37 9 0.24
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (37 bp):
AAACCCTAAACCCTTTAAACCCTAAAATCAAAACCCT
Found at i:855574 original size:14 final size:14
Alignment explanation
Indices: 855557--855668 Score: 57
Period size: 14 Copynumber: 7.7 Consensus size: 14
855547 CCTAAACCTT
855557 AAACCCTAAAATCA
1 AAACCCTAAAATCA
* *
855571 AAACCCTAAACTCTCC
1 AAACCCTAAA--ATCA
* *
855587 AAACCATAAAATTA
1 AAACCCTAAAATCA
* * **
855601 AAATCGTAAGCCTC-
1 AAACCCTAA-AATCA
*
855615 AAACCCTAAAATCG
1 AAACCCTAAAATCA
* *
855629 AAACCCTAAACCCTCT
1 AAACCCTAAA--ATCA
855645 AAACCCTAAAA-CTA
1 AAACCCTAAAATC-A
855659 AAACCCTAAA
1 AAACCCTAAA
855669 TCCTTTGAAC
Statistics
Matches: 72, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
13 3 0.04
14 45 0.62
15 1 0.01
16 23 0.32
ACGTcount: A:0.49, C:0.31, G:0.03, T:0.17
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:855618 original size:123 final size:123
Alignment explanation
Indices: 855420--855668 Score: 328
Period size: 123 Copynumber: 2.0 Consensus size: 123
855410 CATAAAATCA
*
855420 AAACCCTAAACCCCAAACCCTAAAATCAAAACCCTAAACCTTAAATCCAAAAATCAAAATCCTAA
1 AAACCCTAAACCCCAAACCCTAAAATCAAAACCCTAAACCTCAAATCCAAAAATCAAAATCCTAA
* * *
855485 ACCCTCCAAACCTTAAAA-CTAAAACCTTAAACCCTTTAAACCCTAAAA-TCAAAACCCT
66 ACCCTCCAAACCCTAAAATC-AAAACCCTAAACCCTCTAAACCCTAAAACT-AAAACCCT
** * *
855543 AAACCCTAAACCTTAAACCCTAAAATCAAAACCCTAAACTCTCCAAA-CCATAAAATTAAAATCG
1 AAACCCTAAACCCCAAACCCTAAAATCAAAACCCTAAAC-CT-CAAATCCA-AAAATCAAAATCC
* *
855607 T-AAGCCT-CAAACCCTAAAATCGAAACCCTAAACCCTCTAAACCCTAAAACTAAAACCCT
63 TAAACCCTCCAAACCCTAAAATCAAAACCCTAAACCCTCTAAACCCTAAAACTAAAACCCT
855666 AAA
1 AAA
855669 TCCTTTGAAC
Statistics
Matches: 111, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
123 84 0.76
124 12 0.11
125 15 0.14
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.18
Consensus pattern (123 bp):
AAACCCTAAACCCCAAACCCTAAAATCAAAACCCTAAACCTCAAATCCAAAAATCAAAATCCTAA
ACCCTCCAAACCCTAAAATCAAAACCCTAAACCCTCTAAACCCTAAAACTAAAACCCT
Found at i:855627 original size:22 final size:21
Alignment explanation
Indices: 855599--855642 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
855589 ACCATAAAAT
* *
855599 TAAAATCGTAAGCCTCAAACCC
1 TAAAATCGAAACCCT-AAACCC
855621 TAAAATCGAAACCCTAAACCC
1 TAAAATCGAAACCCTAAACCC
855642 T
1 T
855643 CTAAACCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.43, C:0.32, G:0.07, T:0.18
Consensus pattern (21 bp):
TAAAATCGAAACCCTAAACCC
Found at i:855649 original size:95 final size:95
Alignment explanation
Indices: 855448--855642 Score: 277
Period size: 95 Copynumber: 2.1 Consensus size: 95
855438 CCTAAAATCA
* * * *
855448 AAACCCTAAACCTTAAATCCAAAAATCAAAATCCTAAACCCTCCAAACCTTAAAACTAAAACCTT
1 AAACCCTAAACCTTAAACCCAAAAATCAAAACCCTAAACCCTCCAAACCATAAAACTAAAACCGT
*
855513 AAACCCTTTAAACCCTAAAATCAAAACCCT
66 AAACCCTTCAAACCCTAAAATCAAAACCCT
* * * *
855543 AAACCCTAAACCTTAAACCCTAAAATCAAAACCCTAAACTCTCCAAACCATAAAATTAAAATCGT
1 AAACCCTAAACCTTAAACCCAAAAATCAAAACCCTAAACCCTCCAAACCATAAAACTAAAACCGT
* *
855608 -AAGCC-TCAAACCCTAAAATCGAAACCCT
66 AAACCCTTCAAACCCTAAAATCAAAACCCT
855636 AAACCCT
1 AAACCCT
855643 CTAAACCCTA
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 28 0.31
94 4 0.04
95 57 0.64
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.19
Consensus pattern (95 bp):
AAACCCTAAACCTTAAACCCAAAAATCAAAACCCTAAACCCTCCAAACCATAAAACTAAAACCGT
AAACCCTTCAAACCCTAAAATCAAAACCCT
Found at i:855767 original size:21 final size:21
Alignment explanation
Indices: 855727--855765 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
855717 TCTAAACCTT
855727 AAAACCCTTAAAACTCAAACC
1 AAAACCCTTAAAACTCAAACC
*
855748 AAAACCC-TAAAATTCAAA
1 AAAACCCTTAAAACTCAAA
855766 ACTCCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.15
Consensus pattern (21 bp):
AAAACCCTTAAAACTCAAACC
Found at i:860473 original size:18 final size:17
Alignment explanation
Indices: 860445--860478 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
860435 AATATTTTTC
860445 TATTAATATTTTAATAT
1 TATTAATATTTTAATAT
860462 TATTATATATTTTAATA
1 TATTA-ATATTTTAATA
860479 AAATTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTAATATTTTAATAT
Found at i:860484 original size:18 final size:17
Alignment explanation
Indices: 860446--860486 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
860436 ATATTTTTCT
**
860446 ATTAATATTTTAATATT
1 ATTAATATTTTAATAAA
860463 ATTATATATTTTAATAAA
1 ATTA-ATATTTTAATAAA
860481 ATTAAT
1 ATTAAT
860487 TAAGAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTAATATTTTAATAAA
Found at i:865068 original size:64 final size:64
Alignment explanation
Indices: 864962--865097 Score: 218
Period size: 64 Copynumber: 2.1 Consensus size: 64
864952 CATTCTGATC
* * *
864962 ATTCCTCACCTGCTCGCAAATCTCTTTTTTAAGTTCAGATTTAGTTGTATAAGGTTTGTTGCTA
1 ATTCCTTACCTGCTCGCAAATCTCCTTTTTAAGTTCAGATTTAGTTGTATAAGGTTTGTAGCTA
* *
865026 ATTCCTTACCTGCTTGCAAATCTCCTTTTTAAGTTCATATTTAGTTGTATAAGGTTTGTAGCTA
1 ATTCCTTACCTGCTCGCAAATCTCCTTTTTAAGTTCAGATTTAGTTGTATAAGGTTTGTAGCTA
865090 AGTTCCTT
1 A-TTCCTT
865098 CTTACCAGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
64 60 0.91
65 6 0.09
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (64 bp):
ATTCCTTACCTGCTCGCAAATCTCCTTTTTAAGTTCAGATTTAGTTGTATAAGGTTTGTAGCTA
Found at i:867947 original size:30 final size:30
Alignment explanation
Indices: 867903--868005 Score: 125
Period size: 37 Copynumber: 3.2 Consensus size: 30
867893 CATAATAAGA
867903 TTTATATAATTGTTTAGATTATATATAATTG
1 TTTATAT-ATTGTTTAGATTATATATAATTG
*
867934 TTTATATATTGTTTACATTATATATAATTGTTTATTG
1 TTTATATATTGTTTAGATTATATAT-A------ATTG
867971 TTTATATATTGTTTAGATTATATATAATTG
1 TTTATATATTGTTTAGATTATATATAATTG
868001 TTTAT
1 TTTAT
868006 TGTTTGGCTT
Statistics
Matches: 63, Mismatches: 2, Indels: 15
0.79 0.03 0.19
Matches are distributed among these distances:
30 26 0.41
31 8 0.13
36 1 0.02
37 28 0.44
ACGTcount: A:0.32, C:0.01, G:0.09, T:0.58
Consensus pattern (30 bp):
TTTATATATTGTTTAGATTATATATAATTG
Found at i:867954 original size:16 final size:16
Alignment explanation
Indices: 867904--867995 Score: 71
Period size: 18 Copynumber: 5.5 Consensus size: 16
867894 ATAATAAGAT
867904 TTATATAATTGTTTAGA
1 TTATAT-ATTGTTTAGA
** *
867921 TTATATA-TAATT-GT
1 TTATATATTGTTTAGA
*
867935 TTATATATTGTTTACA
1 TTATATATTGTTTAGA
*
867951 TTATATATAATTGTTTATTGT
1 -T-TATAT-ATTGTTTA--GA
867972 TTATATATTGTTTAGA
1 TTATATATTGTTTAGA
867988 TTATATAT
1 TTATATAT
867996 AATTGTTTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
14 8 0.14
15 6 0.10
16 10 0.17
17 7 0.12
18 13 0.22
19 13 0.22
20 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.58
Consensus pattern (16 bp):
TTATATATTGTTTAGA
Found at i:867971 original size:37 final size:37
Alignment explanation
Indices: 867930--868010 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
867920 ATTATATATA
867930 ATTGTTTATATATTGTTTACATTATATATAATTGTTT
1 ATTGTTTATATATTGTTTACATTATATATAATTGTTT
*
867967 ATTGTTTATATATTGTTTAGATTATATATAATTGTTT
1 ATTGTTTATATATTGTTTACATTATATATAATTGTTT
868004 ATTGTTT
1 ATTGTTT
868011 GGCTTTTTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.28, C:0.01, G:0.10, T:0.60
Consensus pattern (37 bp):
ATTGTTTATATATTGTTTACATTATATATAATTGTTT
Found at i:867974 original size:26 final size:29
Alignment explanation
Indices: 867904--867965 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
867894 ATAATAAGAT
*
867904 TTATATAATTGTTTAGATTATATATAATTG
1 TTATAT-ATTGTTTACATTATATATAATTG
867934 TTTATATATTGTTTACATTATATATAATTG
1 -TTATATATTGTTTACATTATATATAATTG
867964 TT
1 TT
867966 TATTGTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 22 0.73
31 6 0.20
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (29 bp):
TTATATATTGTTTACATTATATATAATTG
Found at i:869067 original size:3 final size:3
Alignment explanation
Indices: 869061--869113 Score: 90
Period size: 3 Copynumber: 17.7 Consensus size: 3
869051 TTTACTTCTT
869061 TTA TTA TTA TTA TT- TTA TTA TTA TTA TTAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
869106 TTA TTA TT
1 TTA TTA TT
869114 GCTTTTTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.90
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:876556 original size:56 final size:56
Alignment explanation
Indices: 876395--876624 Score: 234
Period size: 55 Copynumber: 4.1 Consensus size: 56
876385 AAATATAATA
** * ** * *
876395 AAAAATTAAATTATATAAGTCTATACTGACAATCTCTAATTGTCAGTATAGGTAAG
1 AAAAATTAAAACATATAAATCTATACTGACAGGCTCTAACTATCAGTATAGGTAAG
* * * *
876451 -AAAATTAAAACTTATAAATCTATACTGATAGTCTCTAACCATC-GATATAGGTAAG
1 AAAAATTAAAACATATAAATCTATACTGACAGGCTCTAACTATCAG-TATAGGTAAG
* * * * * *
876506 AAAAATTAAAACATATAAGTCTATACTAACAGGCGCTAGCTATCGGTATAGATAAG
1 AAAAATTAAAACATATAAATCTATACTGACAGGCTCTAACTATCAGTATAGGTAAG
* * *
876562 -AAAATTAAAACATACAAATCTATACTGACAGGTTTTAAGC-ATCAGTATAGGTAAG
1 AAAAATTAAAACATATAAATCTATACTGACAGGCTCTAA-CTATCAGTATAGGTAAG
876617 AAAAATTA
1 AAAAATTA
876625 TAAGTCTATA
Statistics
Matches: 142, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
54 1 0.01
55 88 0.62
56 52 0.37
57 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (56 bp):
AAAAATTAAAACATATAAATCTATACTGACAGGCTCTAACTATCAGTATAGGTAAG
Found at i:876589 original size:111 final size:111
Alignment explanation
Indices: 876395--876624 Score: 284
Period size: 111 Copynumber: 2.1 Consensus size: 111
876385 AAATATAATA
** * * * * * *
876395 AAAAATTAAATTATATAAGTCTATACTGACAATCTCTAATTGTCAGTATAGGTAAGAAAATTAAA
1 AAAAATTAAAACATATAAGTCTATACTAACAAGCGCTAACTATCAGTATAGATAAGAAAATTAAA
* * *
876460 ACTTATAAATCTATACTGATA-GTCTCTAACCATC-GATATAGGTAAG
66 ACATACAAATCTATACTGACAGGT-TCTAACCATCAG-TATAGGTAAG
* * *
876506 AAAAATTAAAACATATAAGTCTATACTAACAGGCGCTAGCTATCGGTATAGATAAGAAAATTAAA
1 AAAAATTAAAACATATAAGTCTATACTAACAAGCGCTAACTATCAGTATAGATAAGAAAATTAAA
* *
876571 ACATACAAATCTATACTGACAGGTTTTAAGCATCAGTATAGGTAAG
66 ACATACAAATCTATACTGACAGGTTCTAACCATCAGTATAGGTAAG
876617 AAAAATTA
1 AAAAATTA
876625 TAAGTCTATA
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
111 98 0.97
112 3 0.03
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (111 bp):
AAAAATTAAAACATATAAGTCTATACTAACAAGCGCTAACTATCAGTATAGATAAGAAAATTAAA
ACATACAAATCTATACTGACAGGTTCTAACCATCAGTATAGGTAAG
Found at i:878428 original size:33 final size:34
Alignment explanation
Indices: 878257--878425 Score: 110
Period size: 35 Copynumber: 4.9 Consensus size: 34
878247 AAGTTGAGAG
** * *
878257 ATAAAAATGATCGAGACTGAA-TGGCAAGTGAAGAA
1 ATAAAAATGATTAAGACTGAACT-ACAAGT-CAGAA
* * * * * *
878292 ATAAAAATAACTGAGACTGAGCTGCAAGTAAAGAA
1 ATAAAAATGATTAAGACTGAACTACAAGT-CAGAA
*
878327 ATAAAAATGATTAAGATTGAACTACAAGTCAGGAA
1 ATAAAAATGATTAAGACTGAACTACAAGTCA-GAA
* * * * *
878362 ATAAAAATGA-TAGAAATTGAGCCATAAGTCA-AA
1 ATAAAAATGATTA-AGACTGAACTACAAGTCAGAA
* *
878395 ATAAATATGATTAAGACTGAACTGCAAGTCA
1 ATAAAAATGATTAAGACTGAACTACAAGTCA
878426 AAAAATTAAA
Statistics
Matches: 107, Mismatches: 23, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
33 23 0.21
34 5 0.05
35 78 0.73
36 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.19, T:0.21
Consensus pattern (34 bp):
ATAAAAATGATTAAGACTGAACTACAAGTCAGAA
Found at i:878460 original size:68 final size:67
Alignment explanation
Indices: 878325--878502 Score: 153
Period size: 68 Copynumber: 2.6 Consensus size: 67
878315 GCAAGTAAAG
* ** * * * *
878325 AAATAAAAATGATTAAGATTGAACTACAAGTCAGGAAATAAAAATGATAGAAATTGAGCCATAAG
1 AAATAAAAATGATTAAGACTGAACTACAAGTCAAAAAATAAAAA-GAAAAAAATTAAACCATAAG
878390 TCA
65 TCA
* * *
878393 AAATAAATATGATTAAGACTGAACTGCAAGTCAAAAAATTAAAAA-AAAAAAGATTAAACCATGA
1 AAATAAAAATGATTAAGACTGAACTACAAGTCAAAAAA-TAAAAAGAAAAAA-ATTAAACCATAA
878457 GTCA
64 GTCA
* * ** * * *
878461 GGAA-AAAAATGACTGGGACTGAATTACAAGTTAAGAAATAAA
1 -AAATAAAAATGATTAAGACTGAACTACAAGTCAAAAAATAAA
878503 GATAATTAGG
Statistics
Matches: 88, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
67 8 0.09
68 72 0.82
69 8 0.09
ACGTcount: A:0.54, C:0.09, G:0.16, T:0.21
Consensus pattern (67 bp):
AAATAAAAATGATTAAGACTGAACTACAAGTCAAAAAATAAAAAGAAAAAAATTAAACCATAAGT
CA
Found at i:878586 original size:70 final size:70
Alignment explanation
Indices: 878487--878692 Score: 204
Period size: 70 Copynumber: 2.9 Consensus size: 70
878477 GACTGAATTA
* * * * *
878487 CAAGTTAAGAAATAAAGATAATTAGGACTAAGCTATAAGTCAAGAGATAAGAATGACCAAGACTG
1 CAAGTTAAGAAATAAAGATAATCAAGACTAAGCTACAAGTCAAAAAATAAGAATGACCAAGACTG
878552 AGTCG
66 AGTCG
* * * * * *
878557 CAAGTTAAGAAATAAAGATGATCAAGACTAAGTTGCAAGTTAAAAAATAAGAATTACCAAGATTG
1 CAAGTTAAGAAATAAAGATAATCAAGACTAAGCTACAAGTCAAAAAATAAGAATGACCAAGACTG
878622 AGTCG
66 AGTCG
* * * * *
878627 CAAGTTAAAAAAATAAA-ATAA-CTAAAACTAAGCCACAAGCCAAAGAACA-AAG-ATGACCATG
1 CAAGTT-AAGAAATAAAGATAATC-AAGACTAAGCTACAAGTCAAA-AA-ATAAGAATGACCAAG
878688 ACTGA
62 ACTGA
878693 ACTACAAGTT
Statistics
Matches: 110, Mismatches: 22, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
69 1 0.01
70 94 0.85
71 14 0.13
72 1 0.01
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (70 bp):
CAAGTTAAGAAATAAAGATAATCAAGACTAAGCTACAAGTCAAAAAATAAGAATGACCAAGACTG
AGTCG
Found at i:878595 original size:35 final size:35
Alignment explanation
Indices: 878487--878606 Score: 116
Period size: 35 Copynumber: 3.4 Consensus size: 35
878477 GACTGAATTA
* * * * *
878487 CAAGTTAAGAAATAAAGATAATTAGGACTAAGCTA
1 CAAGTTAAGAAATAAAGATGATCAAGACTAAGTTG
* * * * * *
878522 TAAGTCAAGAGAT-AAGAATGACCAAGACTGAGTCG
1 CAAGTTAAGAAATAAAG-ATGATCAAGACTAAGTTG
878557 CAAGTTAAGAAATAAAGATGATCAAGACTAAGTTG
1 CAAGTTAAGAAATAAAGATGATCAAGACTAAGTTG
*
878592 CAAGTTAAAAAATAA
1 CAAGTTAAGAAATAA
878607 GAATTACCAA
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
34 3 0.05
35 59 0.91
36 3 0.05
ACGTcount: A:0.50, C:0.10, G:0.19, T:0.21
Consensus pattern (35 bp):
CAAGTTAAGAAATAAAGATGATCAAGACTAAGTTG
Found at i:878618 original size:35 final size:35
Alignment explanation
Indices: 878533--878638 Score: 142
Period size: 35 Copynumber: 3.0 Consensus size: 35
878523 AAGTCAAGAG
*
878533 ATAAGAATGACCAAGACTGAGTCGCAAGTTAAGAA
1 ATAAGAATGACCAAGACTGAGTCGCAAGTTAAAAA
* * *
878568 ATAA-AGATGATCAAGACTAAGTTGCAAGTTAAAAA
1 ATAAGA-ATGACCAAGACTGAGTCGCAAGTTAAAAA
* *
878603 ATAAGAATTACCAAGATTGAGTCGCAAGTTAAAAA
1 ATAAGAATGACCAAGACTGAGTCGCAAGTTAAAAA
878638 A
1 A
878639 ATAAAATAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
34 1 0.02
35 58 0.97
36 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (35 bp):
ATAAGAATGACCAAGACTGAGTCGCAAGTTAAAAA
Found at i:878997 original size:35 final size:35
Alignment explanation
Indices: 878954--879046 Score: 134
Period size: 35 Copynumber: 2.7 Consensus size: 35
878944 AGAGGTAATA
878954 ATGATTGAGACTGAGTCGCAAGTTAAAGAATAAAG
1 ATGATTGAGACTGAGTCGCAAGTTAAAGAATAAAG
* * *
878989 ATGATTGAGACTG-GGCTACAAGTTGAAGAATAAAG
1 ATGATTGAGACTGAGTC-GCAAGTTAAAGAATAAAG
*
879024 ATGATTGAGACTAAGTCGCAAGT
1 ATGATTGAGACTGAGTCGCAAGT
879047 CAAAAAACAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
34 2 0.04
35 46 0.92
36 2 0.04
ACGTcount: A:0.40, C:0.10, G:0.27, T:0.24
Consensus pattern (35 bp):
ATGATTGAGACTGAGTCGCAAGTTAAAGAATAAAG
Found at i:880121 original size:23 final size:23
Alignment explanation
Indices: 880095--880174 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
880085 TTGGGCTTGG
880095 GTGCCAGCTAATCTGAGCTTAAA
1 GTGCCAGCTAATCTGAGCTTAAA
*
880118 GTGCCAGCTAATCT-AGGCTTAAG
1 GTGCCAGCTAATCTGA-GCTTAAA
* * *
880141 GTGTCAGTTAATCTGAACTTAAA
1 GTGCCAGCTAATCTGAGCTTAAA
*
880164 GTGTCAGCTAA
1 GTGCCAGCTAA
880175 ACTAGGTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.02
23 47 0.96
24 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (23 bp):
GTGCCAGCTAATCTGAGCTTAAA
Found at i:880156 original size:46 final size:46
Alignment explanation
Indices: 880094--880185 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
880084 TTTGGGCTTG
* *
880094 GGTGCCAGCTAATCTGAGCTTAAAGTGCCAGCTAATCTAGGCTTAA
1 GGTGCCAGCTAATCTGAACTTAAAGTGCCAGCTAAACTAGGCTTAA
* * * *
880140 GGTGTCAGTTAATCTGAACTTAAAGTGTCAGCTAAACTAGGTTTAA
1 GGTGCCAGCTAATCTGAACTTAAAGTGCCAGCTAAACTAGGCTTAA
880186 AATTTGGATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (46 bp):
GGTGCCAGCTAATCTGAACTTAAAGTGCCAGCTAAACTAGGCTTAA
Found at i:880185 original size:23 final size:23
Alignment explanation
Indices: 880099--880186 Score: 90
Period size: 23 Copynumber: 3.8 Consensus size: 23
880089 GCTTGGGTGC
*
880099 CAGCTAATCT-GAGCTTAAAGTGC
1 CAGCTAATCTAG-GCTTAAAGTGT
*
880122 CAGCTAATCTAGGCTTAAGGTGT
1 CAGCTAATCTAGGCTTAAAGTGT
* *
880145 CAGTTAATCT-GAACTTAAAGTGT
1 CAGCTAATCTAG-GCTTAAAGTGT
* *
880168 CAGCTAAACTAGGTTTAAA
1 CAGCTAATCTAGGCTTAAA
880187 ATTTGGATGC
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
22 1 0.02
23 50 0.94
24 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (23 bp):
CAGCTAATCTAGGCTTAAAGTGT
Found at i:880258 original size:23 final size:23
Alignment explanation
Indices: 880232--880294 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
880222 CTAATTTAGA
880232 CTTAAGATGCCAGCTAATCTGGG
1 CTTAAGATGCCAGCTAATCTGGG
* * * *
880255 CTTAAGGTGCGAACTAATCTTGG
1 CTTAAGATGCCAGCTAATCTGGG
* * *
880278 CATAAAATGCTAGCTAA
1 CTTAAGATGCCAGCTAA
880295 ATTAGGTTTA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (23 bp):
CTTAAGATGCCAGCTAATCTGGG
Found at i:880336 original size:120 final size:119
Alignment explanation
Indices: 880051--880361 Score: 301
Period size: 120 Copynumber: 2.6 Consensus size: 119
880041 AAAGTACCAA
* * * *
880051 CTAAATTGGGCTTAAAATTTGGATGCTAGAC-AATTTGGGCTTGGGTGCCAGCTAATCTGAGCTT
1 CTAAATTAGGTTTAAAATTTGGATGCTAG-CTAA-TTAGGCTTGGGTGCCAACTAATCTGAGCTT
** * *
880115 AAAGTGCCAGCTAATCTAGGCTTAAGGTGTCAGTTAATCTGAACTTAAAGTGTCAG
64 AAAGTGCCAGCTAATCTAGGCTTAAGGTGTCAACTAATCTGAACATAAAATGTCAG
* * * * * *
880171 CTAAACTAGGTTTAAAATTTGGATGCTAACTAATTTGAACGTGGGTGCCAACTAAT-TTAGACTT
1 CTAAATTAGGTTTAAAATTTGGATGCTAGCTAATTAG-GCTTGGGTGCCAACTAATCTGAG-CTT
* *
880235 -AAGATGCCAGCTAATCTGGGCTTAAGGTG-CGAACTAATCTTG-GCATAAAATG-CTAG
64 AAAG-TGCCAGCTAATCTAGGCTTAAGGTGTC-AACTAATC-TGAACATAAAATGTC-AG
* * * ** *
880291 CTAAATTAGGTTTAAAATTTAGATGCCAGCTAATCTAGGCTTGGGTACCAGTTAATCTGGGCTTA
1 CTAAATTAGGTTTAAAATTTGGATGCTAGCTAAT-TAGGCTTGGGTGCCAACTAATCTGAGCTTA
880356 AAGTGC
65 AAGTGC
880362 TGCTAAATTA
Statistics
Matches: 154, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
119 12 0.08
120 133 0.86
121 9 0.06
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (119 bp):
CTAAATTAGGTTTAAAATTTGGATGCTAGCTAATTAGGCTTGGGTGCCAACTAATCTGAGCTTAA
AGTGCCAGCTAATCTAGGCTTAAGGTGTCAACTAATCTGAACATAAAATGTCAG
Found at i:880619 original size:27 final size:27
Alignment explanation
Indices: 880566--880634 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
880556 GATAGACTTC
* *
880566 TTTTTCATTTTT-TTTTTACTTTTTTT
1 TTTTTCATTTTTCTTTTTACTATATTT
*
880592 TCTTTTCATTTTTCTTTTT-GTATATTT
1 T-TTTTCATTTTTCTTTTTACTATATTT
*
880619 TTTTCTCTTTTTTCTT
1 TTTT-TCATTTTTCTT
880635 GGTTGACTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.11
27 27 0.75
28 5 0.14
ACGTcount: A:0.07, C:0.12, G:0.01, T:0.80
Consensus pattern (27 bp):
TTTTTCATTTTTCTTTTTACTATATTT
Found at i:882621 original size:21 final size:19
Alignment explanation
Indices: 882590--882645 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 19
882580 TGCCAATCAA
882590 TTTTTTTTTTTTACTTTTC
1 TTTTTTTTTTTTACTTTTC
882609 TTTTGTTTATTTTTAC-TTT-
1 TTTT-TTT-TTTTTACTTTTC
*
882628 ATTTTTTTTTTTACTTTT
1 TTTTTTTTTTTTACTTTT
882646 TTTCTTTACT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 7 0.21
18 6 0.18
19 7 0.21
20 6 0.18
21 7 0.21
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTTTTTTTTACTTTTC
Found at i:883066 original size:27 final size:26
Alignment explanation
Indices: 883034--883092 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
883024 AATTTTTATA
*
883034 GTTTTTTTTTA-CTTT-CTTTT-TTG
1 GTTTTTTTTTATTTTTGCTTTTCTTG
883057 GTTTTGTTTTTATTTTTGCTTTTCTTG
1 GTTTT-TTTTTATTTTTGCTTTTCTTG
883084 GTTTTTTTT
1 GTTTTTTTT
883093 ACAAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 5 0.16
24 6 0.19
25 3 0.10
26 9 0.29
27 8 0.26
ACGTcount: A:0.03, C:0.07, G:0.12, T:0.78
Consensus pattern (26 bp):
GTTTTTTTTTATTTTTGCTTTTCTTG
Found at i:887545 original size:8 final size:8
Alignment explanation
Indices: 887532--887574 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
887522 AGTTTCAAGA
887532 TTTTAGGG
1 TTTTAGGG
887540 TTTTAGGG
1 TTTTAGGG
887548 TTTT-GGG
1 TTTTAGGG
*
887555 ATTTTAAGG
1 -TTTTAGGG
887564 TTTTAGGG
1 TTTTAGGG
887572 TTT
1 TTT
887575 CGAGGTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 3 0.10
8 26 0.84
9 2 0.06
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.53
Consensus pattern (8 bp):
TTTTAGGG
Found at i:887550 original size:24 final size:24
Alignment explanation
Indices: 887516--887575 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
887506 GTTTAGAGCT
* *
887516 TTTTAGAGTTTCAAGATTTTAGGG
1 TTTTAGGGTTTCAAGATTTTAAGG
***
887540 TTTTAGGGTTTTGGGATTTTAAGG
1 TTTTAGGGTTTCAAGATTTTAAGG
887564 TTTTAGGGTTTC
1 TTTTAGGGTTTC
887576 GAGGTTCTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.18, C:0.03, G:0.28, T:0.50
Consensus pattern (24 bp):
TTTTAGGGTTTCAAGATTTTAAGG
Found at i:887551 original size:16 final size:16
Alignment explanation
Indices: 887498--887620 Score: 70
Period size: 16 Copynumber: 7.5 Consensus size: 16
887488 TTAAAGTTTT
887498 GTTTTAGGG-TTTAGAG
1 GTTTTAGGGTTTTA-AG
* * *
887514 CTTTTTAGAGTTTCAAG
1 -GTTTTAGGGTTTTAAG
* *
887531 ATTTTAGGGTTTTAGG
1 GTTTTAGGGTTTTAAG
887547 GTTTT-GGGATTTTAAG
1 GTTTTAGGG-TTTTAAG
**
887563 GTTTTAGGGTTTCGAG
1 GTTTTAGGGTTTTAAG
* * *
887579 GTTCTAAGGTCTTTTAG
1 GTTTTAGGGT-TTTAAG
* *
887596 GATCTAGGGGTTTTAAG
1 GTTTTA-GGGTTTTAAG
*
887613 CTTTTAGG
1 GTTTTAGG
887621 AATCTTTTCA
Statistics
Matches: 80, Mismatches: 21, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
15 3 0.04
16 42 0.52
17 29 0.36
18 6 0.08
ACGTcount: A:0.19, C:0.06, G:0.30, T:0.46
Consensus pattern (16 bp):
GTTTTAGGGTTTTAAG
Found at i:887586 original size:24 final size:24
Alignment explanation
Indices: 887538--887588 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
887528 AAGATTTTAG
* *
887538 GGTTTTAGGGTTTTGGGATTTTAA
1 GGTTTTAGGGTTTCGGGATTCTAA
887562 GGTTTTAGGGTTTCGAGG-TTCTAA
1 GGTTTTAGGGTTTCG-GGATTCTAA
887586 GGT
1 GGT
887589 CTTTTAGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.16, C:0.04, G:0.35, T:0.45
Consensus pattern (24 bp):
GGTTTTAGGGTTTCGGGATTCTAA
Found at i:888099 original size:3 final size:3
Alignment explanation
Indices: 888091--888118 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
888081 TCCCTTTTAA
888091 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
888119 TCGTAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:894218 original size:26 final size:26
Alignment explanation
Indices: 894150--894218 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 26
894140 TTGCATCTAT
*
894150 ATCAT-AGAAAAGATATTCACATTTAC
1 ATCATAAG-AAAGACATTCACATTTAC
** * *
894176 ATCATAATCAAGGCATTCACATTTGC
1 ATCATAAGAAAGACATTCACATTTAC
*
894202 ATTATAAGAAAGACATT
1 ATCATAAGAAAGACATT
894219 TGCATTCGCA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 32 0.97
27 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.30
Consensus pattern (26 bp):
ATCATAAGAAAGACATTCACATTTAC
Found at i:894224 original size:26 final size:26
Alignment explanation
Indices: 894105--894229 Score: 61
Period size: 26 Copynumber: 4.6 Consensus size: 26
894095 TTGCATATAC
* * *
894105 CATTTGCATGTACATAATAAGAAAGA
1 CATTTGCATTTGCATTATAAGAAAGA
*
894131 CATTTGTATTTGCATCTATATCATAGAAAAGA
1 CATTTGCATTTGCA--T-TAT-A-AG-AAAGA
* ** * * ** *
894163 TATTCACATTTACATCATAATCAAGG
1 CATTTGCATTTGCATTATAAGAAAGA
**
894189 CATTCACATTTGCATTATAAGAAAGA
1 CATTTGCATTTGCATTATAAGAAAGA
*
894215 CATTTGCATTCGCAT
1 CATTTGCATTTGCAT
894230 CATGATAATT
Statistics
Matches: 71, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
26 46 0.65
27 1 0.01
28 2 0.03
29 4 0.06
30 2 0.03
31 2 0.03
32 14 0.20
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (26 bp):
CATTTGCATTTGCATTATAAGAAAGA
Found at i:894657 original size:84 final size:84
Alignment explanation
Indices: 894536--894697 Score: 279
Period size: 84 Copynumber: 1.9 Consensus size: 84
894526 ACCTTTGAAC
*
894536 AAAATATTTTAAATTTTTAAAATTTCAATGCCTCTAATGTATGAGGAGGATTCAAAGATTTTGAA
1 AAAACATTTTAAATTTTTAAAATTTCAATGCCTCTAATGTATGAGGAGGATTCAAAGATTTTGAA
*
894601 ATCTTTAAAACCTTCAGAT
66 ATCCTTAAAACCTTCAGAT
**
894620 AAAACATTTTAAATTTTTAATGTTTCAATGCCTCTAATGTATGAGGAGGATTCAAAGATTTTGAA
1 AAAACATTTTAAATTTTTAAAATTTCAATGCCTCTAATGTATGAGGAGGATTCAAAGATTTTGAA
*
894685 ATCCTTAAGACCT
66 ATCCTTAAAACCT
894698 CTGGGCACAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (84 bp):
AAAACATTTTAAATTTTTAAAATTTCAATGCCTCTAATGTATGAGGAGGATTCAAAGATTTTGAA
ATCCTTAAAACCTTCAGAT
Found at i:894879 original size:22 final size:22
Alignment explanation
Indices: 894831--894885 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
894821 AAAGATGTTG
*
894831 AGATTTGTAAGACCTCTGAGCA
1 AGATTTGTAAGACCTCTGAACA
*
894853 TGATTTGTAAGACCT-TCGAACA
1 AGATTTGTAAGACCTCT-GAACA
*
894875 AGATTCGTAAG
1 AGATTTGTAAG
894886 TCTTTCAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (22 bp):
AGATTTGTAAGACCTCTGAACA
Found at i:897337 original size:28 final size:28
Alignment explanation
Indices: 897306--897540 Score: 111
Period size: 28 Copynumber: 8.5 Consensus size: 28
897296 TTTCAAAACA
897306 TAAAATCAAAACCTCAAACCCCAAACCC
1 TAAAATCAAAACCTCAAACCCCAAACCC
* ** **
897334 TAAAATCGAAACC-CTAAACCTTAAATTC
1 TAAAATCAAAACCTC-AAACCCCAAACCC
*
897362 AAAAATCAAAATCCT-AAATCCTCCAAA-CC
1 TAAAATCAAAA-CCTCAAA-CC-CCAAACCC
* **
897391 T----T-AAAA-CTAAAACCTTAAACCC
1 TAAAATCAAAACCTCAAACCCCAAACCC
*
897413 TAAAATCAAAACC-CTAAACCCTAAACCC
1 TAAAATCAAAACCTC-AAACCCCAAACCC
*
897441 TAAAATCAAACCCT-AAACTCTCCAAACCC
1 TAAAATCAAAACCTCAAAC-C-CCAAACCC
* * ** *
897470 TAAAATTAAAATCGT-AGGCCTCAAACCC
1 TAAAATCAAAA-CCTCAAACCCCAAACCC
*
897498 TAAAATCGAAACC-CTAAACCCTCTAAACCC
1 TAAAATCAAAACCTC-AAACCC-C-AAACCC
897528 TAAAA-CTAAAACC
1 TAAAATC-AAAACC
897541 CTAAATCCTT
Statistics
Matches: 154, Mismatches: 30, Indels: 44
0.68 0.13 0.19
Matches are distributed among these distances:
21 3 0.02
22 7 0.05
23 3 0.02
24 4 0.03
25 1 0.01
26 1 0.01
27 10 0.06
28 78 0.51
29 24 0.16
30 23 0.15
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (28 bp):
TAAAATCAAAACCTCAAACCCCAAACCC
Found at i:897416 original size:7 final size:7
Alignment explanation
Indices: 897400--897473 Score: 60
Period size: 7 Copynumber: 10.4 Consensus size: 7
897390 CTTAAAACTA
*
897400 AAACCTT
1 AAACCCT
897407 AAACCCT
1 AAACCCT
** *
897414 AAAATCA
1 AAACCCT
897421 AAACCCT
1 AAACCCT
897428 AAACCCT
1 AAACCCT
897435 AAACCCT
1 AAACCCT
**
897442 AAAATC-
1 AAACCCT
897448 AAACCCT
1 AAACCCT
*
897455 AAACTCTCC
1 AAAC-C-CT
897464 AAACCCT
1 AAACCCT
897471 AAA
1 AAA
897474 ATTAAAATCG
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
6 4 0.08
7 40 0.78
8 2 0.04
9 5 0.10
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:897416 original size:21 final size:21
Alignment explanation
Indices: 897386--897437 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
897376 TAAATCCTCC
* *
897386 AAACCTTAAAA-CTAAAACCTT
1 AAACCCTAAAATC-AAAACCCT
897407 AAACCCTAAAATCAAAACCCT
1 AAACCCTAAAATCAAAACCCT
897428 AAACCCTAAA
1 AAACCCTAAA
897438 CCCTAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACCCTAAAATCAAAACCCT
Found at i:897424 original size:14 final size:14
Alignment explanation
Indices: 897407--897545 Score: 77
Period size: 14 Copynumber: 9.7 Consensus size: 14
897397 CTAAAACCTT
897407 AAACCCTAAAATCA
1 AAACCCTAAAATCA
** *
897421 AAACCCTAAACCCT
1 AAACCCTAAAATCA
897435 AAACCCTAAAATC-
1 AAACCCTAAAATCA
* *
897448 AAACCCTAAACTCTCC
1 AAACCCTAAA--ATCA
*
897464 AAACCCTAAAATTA
1 AAACCCTAAAATCA
* * ***
897478 AAATCGTAGGCCTC-
1 AAACCCTA-AAATCA
*
897492 AAACCCTAAAATCG
1 AAACCCTAAAATCA
* *
897506 AAACCCTAAACCCTCT
1 AAACCCTAAA--ATCA
897522 AAACCCTAAAA-CTA
1 AAACCCTAAAATC-A
897536 AAACCCTAAA
1 AAACCCTAAA
897546 TCCTTTGAAC
Statistics
Matches: 93, Mismatches: 24, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
13 13 0.14
14 55 0.59
15 3 0.03
16 22 0.24
ACGTcount: A:0.47, C:0.33, G:0.03, T:0.17
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:897638 original size:14 final size:15
Alignment explanation
Indices: 897619--897674 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 15
897609 AAAACTCAAG
897619 CAAAACCCTAAAT-T
1 CAAAACCCTAAATCT
*
897633 CAAAACTCCAAAATCT
1 CAAAAC-CCTAAATCT
* *
897649 CGAAACGCT-AATCT
1 CAAAACCCTAAATCT
*
897663 TAAAACCCTAAA
1 CAAAACCCTAAA
897675 ATGAGATCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
14 17 0.53
15 9 0.28
16 6 0.19
ACGTcount: A:0.48, C:0.29, G:0.04, T:0.20
Consensus pattern (15 bp):
CAAAACCCTAAATCT
Found at i:903417 original size:15 final size:16
Alignment explanation
Indices: 903377--903422 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
903367 ATAGGATAAT
*
903377 ATAATATAATATTATGA
1 ATAATATTATATTA-GA
903394 ATAGA-ATTATATTA-A
1 ATA-ATATTATATTAGA
903409 ATAATATTATATTA
1 ATAATATTATATTA
903423 TTTTATGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.04
15 13 0.50
17 11 0.42
18 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
ATAATATTATATTAGA
Found at i:903797 original size:27 final size:27
Alignment explanation
Indices: 903759--903815 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
903749 TATGTTACTT
903759 TTTTTTTATTTATTGTGTATTTGACTA
1 TTTTTTTATTTATTGTGTATTTGACTA
903786 TTTTTTTATTTATTGTGTATTTGACTA
1 TTTTTTTATTTATTGTGTATTTGACTA
903813 TTT
1 TTT
903816 GTTGTCTCTT
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:0.18, C:0.04, G:0.11, T:0.68
Consensus pattern (27 bp):
TTTTTTTATTTATTGTGTATTTGACTA
Found at i:905256 original size:30 final size:30
Alignment explanation
Indices: 905222--905289 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
905212 ATATTGATTT
*
905222 ATGTTAAGAGGTTA-TTTATATATAAATTAA
1 ATGTTAAAAGGTTATTTTA-ATATAAATTAA
*
905252 ATGTTAAAAGTTTATTTTAATATAAATTAA
1 ATGTTAAAAGGTTATTTTAATATAAATTAA
*
905282 AAGTTAAA
1 ATGTTAAA
905290 TATTTATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (30 bp):
ATGTTAAAAGGTTATTTTAATATAAATTAA
Found at i:905296 original size:30 final size:31
Alignment explanation
Indices: 905236--905298 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
905226 TAAGAGGTTA
*
905236 TTTATATATAAATTAAATGTTAAAAGTTTAT
1 TTTATATATAAATTAAAAGTTAAAAGTTTAT
905267 TTTA-ATATAAATTAAAAGTTAAATA-TTTAT
1 TTTATATATAAATTAAAAGTTAAA-AGTTTAT
905297 TT
1 TT
905299 GGGTACCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (31 bp):
TTTATATATAAATTAAAAGTTAAAAGTTTAT
Found at i:906922 original size:3 final size:3
Alignment explanation
Indices: 906914--906948 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
906904 TACTTAATTG
*
906914 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
906949 GTTATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:907694 original size:23 final size:24
Alignment explanation
Indices: 907667--907714 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
907657 CATGGATATC
* *
907667 AATGAATATATTTATCAAT-ATAA
1 AATGAAAATATTTATAAATAATAA
*
907690 AATGAAAATGTTTATAAATAATAA
1 AATGAAAATATTTATAAATAATAA
907714 A
1 A
907715 TAAATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (24 bp):
AATGAAAATATTTATAAATAATAA
Found at i:907878 original size:21 final size:21
Alignment explanation
Indices: 907836--907884 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
907826 TTGAACAATG
* *
907836 AATGAATATAAATAAACCTTA
1 AATGAATACAAATAAACATTA
* *
907857 AATGAATACAAATGAATATTA
1 AATGAATACAAATAAACATTA
*
907878 AACGAAT
1 AATGAAT
907885 GAATTTTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (21 bp):
AATGAATACAAATAAACATTA
Found at i:909704 original size:14 final size:14
Alignment explanation
Indices: 909685--909712 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
909675 ACTCGTGTCC
909685 CTTAATATATATTA
1 CTTAATATATATTA
909699 CTTAATATATATTA
1 CTTAATATATATTA
909713 TTCAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
CTTAATATATATTA
Found at i:910071 original size:3 final size:3
Alignment explanation
Indices: 910063--910088 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
910053 TAATACTACC
910063 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
910089 TTTGGTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:915153 original size:21 final size:20
Alignment explanation
Indices: 915129--915168 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
915119 GAATTTGAAA
*
915129 ATTACAAAAATGGATTGATCT
1 ATTA-AAAAATGGATAGATCT
*
915150 ATTATAAAATGGATAGATC
1 ATTAAAAAATGGATAGATC
915169 GAGTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (20 bp):
ATTAAAAAATGGATAGATCT
Found at i:915214 original size:75 final size:75
Alignment explanation
Indices: 915070--915218 Score: 176
Period size: 76 Copynumber: 2.0 Consensus size: 75
915060 AGAAGCAATC
* * * * *
915070 GATCTATTAAAAAAATGGATTGATTGATTTTCTTATACAGAGATGTCTTGAATTTGAAAATTACA
1 GATCTATTAAAAAAATGGATAGATCGATTTTCTTATACAGAGAAGTCTCGAATTTGAAAATGACA
915135 AAAATGGATT
66 AAAATGGATT
* * * * *
915145 GATCTATT-ATAAAATGGATAGATCGAGTTTTTTTTATATAGATAAGTCTCGAATTTGAAACTGA
1 GATCTATTAAAAAAATGGATAGATCGA--TTTTCTTATACAGAGAAGTCTCGAATTTGAAAATGA
915209 -AAAAATGGAT
64 CAAAAATGGAT
915219 CAATTGATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
74 15 0.24
75 18 0.29
76 29 0.47
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (75 bp):
GATCTATTAAAAAAATGGATAGATCGATTTTCTTATACAGAGAAGTCTCGAATTTGAAAATGACA
AAAATGGATT
Found at i:919779 original size:18 final size:17
Alignment explanation
Indices: 919748--919782 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
919738 CATATAATTT
919748 TTTTTTAATGTTTATTA
1 TTTTTTAATGTTTATTA
*
919765 TTTTTTATATTTTTATTA
1 TTTTTTA-ATGTTTATTA
919783 CATATTAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTAATGTTTATTA
Found at i:919917 original size:14 final size:14
Alignment explanation
Indices: 919886--919930 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
919876 TTCACTATCA
919886 TTATTGAAAATCTTT
1 TTATTGAAAAT-TTT
*
919901 TTATTGAGAATTTT
1 TTATTGAAAATTTT
919915 TTATTGAAAATTTT
1 TTATTGAAAATTTT
919929 TT
1 TT
919931 TAATTACCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (14 bp):
TTATTGAAAATTTT
Found at i:919931 original size:15 final size:15
Alignment explanation
Indices: 919886--919932 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
919876 TTCACTATCA
*
919886 TTATTGAAAATCTTT
1 TTATTGAAAATTTTT
*
919901 TTATTGAGAA-TTTT
1 TTATTGAAAATTTTT
919915 TTATTGAAAATTTTT
1 TTATTGAAAATTTTT
919930 TTA
1 TTA
919933 ATTACCTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (15 bp):
TTATTGAAAATTTTT
Found at i:929454 original size:15 final size:15
Alignment explanation
Indices: 929423--929460 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
929413 CTCAATTCTT
929423 TTTTTCCTTCTTTAGC
1 TTTTT-CTTCTTTAGC
929439 TTTTTCTT-TTTGAGC
1 TTTTTCTTCTTT-AGC
929454 TTTTTCT
1 TTTTTCT
929461 AACAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 13 0.62
16 5 0.24
ACGTcount: A:0.05, C:0.18, G:0.08, T:0.68
Consensus pattern (15 bp):
TTTTTCTTCTTTAGC
Found at i:930506 original size:59 final size:62
Alignment explanation
Indices: 930349--930506 Score: 146
Period size: 59 Copynumber: 2.5 Consensus size: 62
930339 TTAATGCCTG
930349 TATTTAAGAAAAAATTGATACTTCCAACTTTTTTCCTAAATACATTTTTTGAAATTGGAAAGATT
1 TATTTAAG-AAAAATTGATACTT-CAAC-TTTTTCCTAAATACATTTTTTGAAATT-G-AAGATT
930414 TT
61 TT
* * * * ** **
930416 TATGTAGGAAAAATTAATACTTTCAA-ATTTTCCTTAAAT-C-TTTTTT-TTATT-ATTATTTT
1 TATTTAAGAAAAATTGATAC-TTCAACTTTTTCC-TAAATACATTTTTTGAAATTGAAGATTTT
930475 TATTTAAGAAAAATTGATACTTCAACTTTTTC
1 TATTTAAGAAAAATTGATACTTCAACTTTTTC
930507 TCAAAAAATT
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
58 5 0.07
59 28 0.37
62 3 0.04
63 6 0.08
64 7 0.09
65 5 0.07
66 14 0.18
67 8 0.11
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (62 bp):
TATTTAAGAAAAATTGATACTTCAACTTTTTCCTAAATACATTTTTTGAAATTGAAGATTTT
Found at i:932148 original size:17 final size:16
Alignment explanation
Indices: 932128--932170 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
932118 ATTTTTAACC
932128 TTTTAGATTCGTAAGAA
1 TTTTAGATTCGTAAG-A
*
932145 TTTTAGGTTCGTAAGA
1 TTTTAGATTCGTAAGA
*
932161 CTTTAGATTC
1 TTTTAGATTC
932171 TCAAGACTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (16 bp):
TTTTAGATTCGTAAGA
Found at i:932904 original size:8 final size:8
Alignment explanation
Indices: 932891--932964 Score: 66
Period size: 8 Copynumber: 9.5 Consensus size: 8
932881 ATCTTCTTTT
932891 TTTTTTCA
1 TTTTTTCA
932899 TTTTTTCA
1 TTTTTTCA
* *
932907 CATTTCTCA
1 -TTTTTTCA
932916 TTTTTTCA
1 TTTTTTCA
*
932924 TTCTTTCA
1 TTTTTTCA
*
932932 TTCTTTCA
1 TTTTTTCA
932940 --TTTT--
1 TTTTTTCA
932944 TTTTTTCA
1 TTTTTTCA
932952 TTTTTTTCA
1 -TTTTTTCA
932961 TTTT
1 TTTT
932965 ATTCTTTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
6 7 0.13
8 33 0.61
9 14 0.26
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTTTTCA
Found at i:932932 original size:16 final size:16
Alignment explanation
Indices: 932891--932964 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 16
932881 ATCTTCTTTT
932891 TTTTTTCATTTTTTCA
1 TTTTTTCATTTTTTCA
* *
932907 CATTTCTCATTTTTTCA
1 -TTTTTTCATTTTTTCA
* *
932924 TTCTTTCATTCTTTCA
1 TTTTTTCATTTTTTCA
932940 --TTTT--TTTTTTCA
1 TTTTTTCATTTTTTCA
932952 TTTTTTTCATTTT
1 -TTTTTTCATTTT
932965 ATTCTTTATT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
12 7 0.16
14 3 0.07
15 4 0.09
16 12 0.27
17 18 0.41
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTCATTTTTTCA
Found at i:932944 original size:25 final size:25
Alignment explanation
Indices: 932890--932946 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
932880 TATCTTCTTT
*
932890 TTTTTTTCATTTTTTCACATTTCTCA
1 TTTTTTTCATTCTTT-ACATTTCTCA
*
932916 -TTTTTTCATTCTTT-CATTCTTTCA
1 TTTTTTTCATTCTTTACATT-TCTCA
932940 TTTTTTT
1 TTTTTTT
932947 TTTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.15
24 4 0.15
25 19 0.70
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTTTTCATTCTTTACATTTCTCA
Found at i:932952 original size:12 final size:12
Alignment explanation
Indices: 932916--932958 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 12
932906 ACATTTCTCA
932916 TTTTTTCATTCTT
1 TTTTTTCATT-TT
932929 TCATTCTTTCATTTT
1 T--TT-TTTCATTTT
932944 TTTTTTCATTTT
1 TTTTTTCATTTT
932956 TTT
1 TTT
932959 CATTTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 12 0.44
13 3 0.11
15 5 0.19
16 7 0.26
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTCATTTT
Found at i:933907 original size:21 final size:23
Alignment explanation
Indices: 933883--933925 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
933873 AAAAAATCTT
933883 ATTAC-ATAAAA-AAATCCTAAC
1 ATTACTATAAAAGAAATCCTAAC
*
933904 ATTACTTTAAAAGAAATCCTAA
1 ATTACTATAAAAGAAATCCTAA
933926 AATGACAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 5 0.26
23 9 0.47
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.28
Consensus pattern (23 bp):
ATTACTATAAAAGAAATCCTAAC
Found at i:936913 original size:22 final size:23
Alignment explanation
Indices: 936884--936932 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
936874 TCTTATTTTA
936884 TTTT-TTT-AGAAAAATTAATAC
1 TTTTATTTAAGAAAAATTAATAC
* *
936905 TTTTATTTAAGGAAAATTGATAC
1 TTTTATTTAAGAAAAATTAATAC
936928 TTTTA
1 TTTTA
936933 ACTTTTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 3 0.12
23 17 0.71
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (23 bp):
TTTTATTTAAGAAAAATTAATAC
Found at i:944064 original size:86 final size:85
Alignment explanation
Indices: 943906--944140 Score: 249
Period size: 86 Copynumber: 2.7 Consensus size: 85
943896 AAAGGTTTTT
* * * * * *
943906 AGATTCACAAGAATGGAAGATTCACAATATTTCAAGTTTTACAGAGGTTCTAGATT-AGCAAAAA
1 AGATTCACAAGAATGAAAGATTCACAAGATTCCAAGTTTCACAAAGGTTCTAGATTCA-C-AAAG
* *
943970 TTTTAGGTTCGCAAGGACTTTC
64 TTTTAGGTTCACAAGAACTTTC
*
943992 AGATTCACAAGAATGAAAGATTCACAAGATTCCAAGTTTCACAAAGGTT-TCAAATTCACAAAGT
1 AGATTCACAAGAATGAAAGATTCACAAGATTCCAAGTTTCACAAAGGTTCT-AGATTCACAAAGT
*
944056 TTTCAGGTTCACAAGAACTTTT
65 TTT-AGGTTCACAAGAACTTTC
* *** * * * * *
944078 AAATTTGTAAGAATGAGAGATGCATAAGATTCCAAGTTTCGCATAGGTTCTAGATTCACAAAG
1 AGATTCACAAGAATGAAAGATTCACAAGATTCCAAGTTTCACAAAGGTTCTAGATTCACAAAG
944141 ACTTTCAGAT
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
85 8 0.06
86 115 0.92
87 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (85 bp):
AGATTCACAAGAATGAAAGATTCACAAGATTCCAAGTTTCACAAAGGTTCTAGATTCACAAAGTT
TTAGGTTCACAAGAACTTTC
Found at i:944168 original size:86 final size:86
Alignment explanation
Indices: 944000--944175 Score: 194
Period size: 86 Copynumber: 2.0 Consensus size: 86
943990 TCAGATTCAC
* * *
944000 AAGAATGAAAGATTCACAAGATTCCAAGTTTCACAAAGGTTTCAAATTCACAAAGTTTTCAGGTT
1 AAGAATGAAAGATGCACAAGATTCCAAGTTTCACAAAGGTTTCAAATTCACAAAGCTTTCAGATT
*** *
944065 CACAAGAACTTTTAAATTTGT
66 CACAAGAACTGAAAAATTCGT
* * * * *
944086 AAGAATGAGAGATGCATAAGATTCCAAGTTTCGCATAGG-TTCTAGATTCACAAAGACTTTCAGA
1 AAGAATGAAAGATGCACAAGATTCCAAGTTTCACAAAGGTTTC-AAATTCACAAAG-CTTTCAGA
**
944150 TTTGCAAGAA-TGAAAAATTCGT
64 TTCACAAGAACTGAAAAATTCGT
944172 AAGA
1 AAGA
944176 TTTCAAGTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
85 3 0.04
86 57 0.77
87 14 0.19
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (86 bp):
AAGAATGAAAGATGCACAAGATTCCAAGTTTCACAAAGGTTTCAAATTCACAAAGCTTTCAGATT
CACAAGAACTGAAAAATTCGT
Found at i:944418 original size:55 final size:54
Alignment explanation
Indices: 944300--944429 Score: 145
Period size: 55 Copynumber: 2.4 Consensus size: 54
944290 TGAACGATCG
* * * * * * **
944300 ATCAGGGTTGAACCACTAGTCAAAAAATTATCTAGATTGAGCCAAGATCGAATG
1 ATCAGGATTGAACCACAAGTCAAAAAATGATATAGACTAAGCCAAGATCGAACA
* *
944354 ATC-GAGATTGAACCACAAGTCAAAAAAATGATATGGACTAAGCCAAGATTGAACA
1 ATCAG-GATTGAACCACAAGTC-AAAAAATGATATAGACTAAGCCAAGATCGAACA
944409 ATCAGGATTGAACCACAAGTC
1 ATCAGGATTGAACCACAAGTC
944430 TAGAAAGTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
53 1 0.02
54 17 0.27
55 44 0.70
56 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (54 bp):
ATCAGGATTGAACCACAAGTCAAAAAATGATATAGACTAAGCCAAGATCGAACA
Found at i:945272 original size:10 final size:10
Alignment explanation
Indices: 945253--945316 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
945243 TCAGTTTAAG
945253 TTTT-CTTTT
1 TTTTGCTTTT
*
945262 TTTTCCTTTT
1 TTTTGCTTTT
*
945272 TTTTGGTTTT
1 TTTTGCTTTT
*
945282 TTTTGCTGTT
1 TTTTGCTTTT
*
945292 TTTT-ATTTT
1 TTTTGCTTTT
*
945301 TGTTT-TTTTT
1 T-TTTGCTTTT
945311 TTTTGC
1 TTTTGC
945317 GCATCTTTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
9 11 0.25
10 33 0.75
ACGTcount: A:0.02, C:0.08, G:0.09, T:0.81
Consensus pattern (10 bp):
TTTTGCTTTT
Found at i:945284 original size:13 final size:13
Alignment explanation
Indices: 945268--945315 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
945258 TTTTTTTTCC
945268 TTTTTTTTGGTTT
1 TTTTTTTTGGTTT
**
945281 TTTTTGCT-GTTT
1 TTTTTTTTGGTTT
*
945293 TTTATTTTTGTTTT
1 TTT-TTTTTGGTTT
945307 TTTTTTTTG
1 TTTTTTTTG
945316 CGCATCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 7 0.25
13 15 0.54
14 6 0.21
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.83
Consensus pattern (13 bp):
TTTTTTTTGGTTT
Found at i:945603 original size:11 final size:10
Alignment explanation
Indices: 945587--945638 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
945577 TGCCTCATCA
945587 ATTTTTTCTT
1 ATTTTTTCTT
945597 CATTTTTTCTT
1 -ATTTTTTCTT
* *
945608 TTTTTTTATT
1 ATTTTTTCTT
*
945618 ATTTTTTTTCT
1 ATTTTTTCT-T
*
945629 CTTTTTTCTT
1 ATTTTTTCTT
945639 TATATCATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 16 0.47
11 18 0.53
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.81
Consensus pattern (10 bp):
ATTTTTTCTT
Found at i:945631 original size:24 final size:26
Alignment explanation
Indices: 945599--945650 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
945589 TTTTTCTTCA
945599 TTTTTTCTTTTTT-TTTAT-T-ATTT
1 TTTTTTCTTTTTTCTTTATATCATTT
945622 TTTTTCTCTTTTTTCTTTATATCATTT
1 TTTTT-TCTTTTTTCTTTATATCATTT
945649 TT
1 TT
945651 CAAGAAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 5 0.20
26 1 0.04
27 6 0.24
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTTTCTTTTTTCTTTATATCATTT
Found at i:945641 original size:22 final size:22
Alignment explanation
Indices: 945599--945641 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
945589 TTTTTCTTCA
*
945599 TTTTTTCTTTTTTTTTATTATT
1 TTTTTTCTTTTTTTCTATTATT
945621 TTTTTTCTCTTTTTTCT-TTAT
1 TTTTTTCT-TTTTTTCTATTAT
945642 ATCATTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTTCTTTTTTTCTATTATT
Found at i:949294 original size:20 final size:21
Alignment explanation
Indices: 949271--949309 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
949261 TTAAAACTTA
949271 TTTA-TAGAATTTC-TAAAAAG
1 TTTAGTAG-ATTTCATAAAAAG
949291 TTTAGTAGATTTCATAAAA
1 TTTAGTAGATTTCATAAAA
949310 TTTAAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (21 bp):
TTTAGTAGATTTCATAAAAAG
Found at i:954187 original size:19 final size:19
Alignment explanation
Indices: 954163--954228 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 19
954153 TGAAAAATCT
*
954163 TTTTTTTTTATGTTTATTA
1 TTTTTTTATATGTTTATTA
954182 TTTTTTTATA--TTT-TTA
1 TTTTTTTATATGTTTATTA
* * *
954198 TTCTATTATATATTTATTACA
1 TTTTTTTATATGTTTATT--A
954219 TTTTTTTATA
1 TTTTTTTATA
954229 CATTTAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
16 11 0.30
17 3 0.08
18 3 0.08
19 11 0.30
21 9 0.24
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTTTATATGTTTATTA
Found at i:954213 original size:24 final size:25
Alignment explanation
Indices: 954167--954214 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
954157 AAATCTTTTT
* * *
954167 TTTTTATGTTTATTATTTTTTTATA
1 TTTTTATGTCTATTATATATTTATA
954192 TTTTTAT-TCTATTATATATTTAT
1 TTTTTATGTCTATTATATATTTAT
954215 TACATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTTATGTCTATTATATATTTATA
Found at i:961793 original size:12 final size:12
Alignment explanation
Indices: 961772--961804 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
961762 TGGTTACTTT
961772 TTCATCATTTGA
1 TTCATCATTTGA
*
961784 TTCATTATTTGA
1 TTCATCATTTGA
961796 TTCATCATT
1 TTCATCATT
961805 AGAGAAGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (12 bp):
TTCATCATTTGA
Found at i:968858 original size:48 final size:50
Alignment explanation
Indices: 968774--968882 Score: 125
Period size: 48 Copynumber: 2.2 Consensus size: 50
968764 TTTATTTTTA
* *
968774 TTTTTATTTTCTTTTAAATTTCAAAACCTTCAAATATATTAGTAAGA-TC
1 TTTTTATTTTCTTTAAAATTGCAAAACCTTCAAATATATTAGTAAGATTC
* * * * *
968823 TTTTTATTTT-TTTAAAATTAGC-AAACTTTCTAATATGTTGGTAAGATTT
1 TTTTTATTTTCTTTAAAATT-GCAAAACCTTCAAATATATTAGTAAGATTC
968872 TTTTTATTTTC
1 TTTTTATTTTC
968883 AAAAATTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
48 28 0.56
49 22 0.44
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.54
Consensus pattern (50 bp):
TTTTTATTTTCTTTAAAATTGCAAAACCTTCAAATATATTAGTAAGATTC
Found at i:969608 original size:14 final size:14
Alignment explanation
Indices: 969591--969742 Score: 55
Period size: 14 Copynumber: 10.4 Consensus size: 14
969581 AAATTAAATC
*
969591 AATAACTAAAGATA
1 AATAAATAAAGATA
*
969605 AAT-AGTAAAGATA
1 AATAAATAAAGATA
* *
969618 AACAAATAAAAATA
1 AATAAATAAAGATA
*
969632 AATTAAATAAAAGTAAAA
1 AA-TAAAT-AAAG--ATA
*
969650 AGATAAATACATG-TAA
1 A-ATAAATA-AAGAT-A
*
969666 AAGAAAATAAAGATA
1 AA-TAAATAAAGATA
969681 AAGTAAATAAA-AT-
1 AA-TAAATAAAGATA
* *
969694 AGTAAACAAAGATA
1 AATAAATAAAGATA
969708 AATACAACTATAA-ATTA
1 AATA-AA-TA-AAGA-TA
*
969725 AA-GAATAAAGATA
1 AATAAATAAAGATA
969738 AATAA
1 AATAA
969743 GTGGAATAAA
Statistics
Matches: 102, Mismatches: 18, Indels: 36
0.65 0.12 0.23
Matches are distributed among these distances:
12 7 0.07
13 20 0.20
14 22 0.22
15 22 0.22
16 13 0.13
17 7 0.07
18 10 0.10
19 1 0.01
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (14 bp):
AATAAATAAAGATA
Found at i:969657 original size:27 final size:27
Alignment explanation
Indices: 969618--969742 Score: 62
Period size: 27 Copynumber: 4.6 Consensus size: 27
969608 AGTAAAGATA
* *
969618 AACAAATAAAAATAAAT-TAAATAAAAG
1 AACAAAGATAAATAAATATAAA-AAAAG
* * *
969645 TAA-AAAGATAAATACATGTAAAAGAA-
1 -AACAAAGATAAATAAATATAAAAAAAG
* **
969671 AATAAAGATAAAGTAAATA-AAATAGTA-
1 AACAAAGATAAA-TAAATATAAA-AAAAG
*
969698 AACAAAGATAAATACAACTATAAATTAAAG
1 AACAAAGATAAATA-AA-TATAAA-AAAAG
*
969728 AATAAAGATAAATAA
1 AACAAAGATAAATAA
969743 GTGGAATAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
25 2 0.03
26 14 0.18
27 34 0.44
28 8 0.10
29 6 0.08
30 13 0.17
ACGTcount: A:0.68, C:0.04, G:0.08, T:0.20
Consensus pattern (27 bp):
AACAAAGATAAATAAATATAAAAAAAG
Found at i:974421 original size:10 final size:10
Alignment explanation
Indices: 974408--974432 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
974398 TCTTTAGGTG
974408 AAATATTTCT
1 AAATATTTCT
974418 AAATATTTCT
1 AAATATTTCT
974428 AAATA
1 AAATA
974433 GTAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
AAATATTTCT
Found at i:975766 original size:43 final size:44
Alignment explanation
Indices: 975652--975807 Score: 156
Period size: 44 Copynumber: 3.6 Consensus size: 44
975642 GACTCTATGC
* * * * *
975652 ATTTGTATAATTTTAGTTGTCATATTGTTTGTTTAACTTTACAT
1 ATTTGCATCATTTTAATTGTCATATTGTTTATTTAACTTTGCAT
* ** * * *
975696 GTTTATATCATTTTAGTTGTCCTATTGTTTTTTTAACTTTGCAT
1 ATTTGCATCATTTTAATTGTCATATTGTTTATTTAACTTTGCAT
975740 ATTTGCAT-ATTTTAATTGTCATATTGTTTATTTAACCTTGTGC--
1 ATTTGCATCATTTTAATTGTCATATTGTTTATTTAA-CTT-TGCAT
* *
975783 ATTTGCATCATTCTAATTATCATAT
1 ATTTGCATCATTTTAATTGTCATAT
975808 AGGGAATATC
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
43 32 0.34
44 60 0.63
45 3 0.03
ACGTcount: A:0.24, C:0.11, G:0.10, T:0.55
Consensus pattern (44 bp):
ATTTGCATCATTTTAATTGTCATATTGTTTATTTAACTTTGCAT
Found at i:975780 original size:22 final size:21
Alignment explanation
Indices: 975668--975780 Score: 54
Period size: 21 Copynumber: 5.2 Consensus size: 21
975658 ATAATTTTAG
*
975668 TTGTCATATTGTTTGTTTAAC
1 TTGTCATATTGTTTATTTAAC
* * *
975689 TT-TACATGTT-TATATCATTTTAG
1 TTGT-CATATTGT-T-T-ATTTAAC
* *
975712 TTGTCCTATTGTTTTTTTAAC
1 TTGTCATATTGTTTATTTAAC
**
975733 TT-TGCATATTTGCATATTTTAA-
1 TTGT-CATA-TTGTTTA-TTTAAC
975755 TTGTCATATTGTTTATTTAACC
1 TTGTCATATTGTTTATTTAA-C
975777 TTGT
1 TTGT
975781 GCATTTGCAT
Statistics
Matches: 65, Mismatches: 15, Indels: 23
0.63 0.15 0.22
Matches are distributed among these distances:
20 8 0.12
21 22 0.34
22 16 0.25
23 17 0.26
24 2 0.03
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (21 bp):
TTGTCATATTGTTTATTTAAC
Found at i:984032 original size:14 final size:14
Alignment explanation
Indices: 984013--984052 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
984003 GAGAGAAGAG
984013 GAAGAAGAAAAAAA
1 GAAGAAGAAAAAAA
984027 GAAGAAGAAAAGAAA
1 GAAGAAGAAAA-AAA
984042 G-AGAA-AAAAAA
1 GAAGAAGAAAAAA
984053 TGGAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.08
13 4 0.16
14 15 0.60
15 4 0.16
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
GAAGAAGAAAAAAA
Found at i:984209 original size:21 final size:21
Alignment explanation
Indices: 984159--984270 Score: 104
Period size: 21 Copynumber: 5.4 Consensus size: 21
984149 ATGTTAAAAC
*
984159 AAAAAAAGTTTTGAAAAGTAA
1 AAAAAAAATTTTGAAAAGTAA
* *
984180 AAGAAAAAACTTTGAATAGTAA
1 AA-AAAAAATTTTGAAAAGTAA
* **
984202 AAAAAAAATTTTGAAAAATTT
1 AAAAAAAATTTTGAAAAGTAA
* *
984223 AAAATAATTTTTGAAACA-T--
1 AAAAAAAATTTTGAAA-AGTAA
*
984242 AAAAAAAATTTTGAAATGTAA
1 AAAAAAAATTTTGAAAAGTAA
984263 AAAAAAAA
1 AAAAAAAA
984271 AAGTTAGCTT
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
19 15 0.21
21 39 0.53
22 19 0.26
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAAAAAATTTTGAAAAGTAA
Found at i:984226 original size:20 final size:19
Alignment explanation
Indices: 984202--984268 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
984192 TGAATAGTAA
984202 AAAAAAAATTTTGAAAAATTT
1 AAAAAAAATTTTGAAAAA--T
* * *
984223 AAAATAATTTTTGAAACAT
1 AAAAAAAATTTTGAAAAAT
**
984242 AAAAAAAATTTTGAAATGT
1 AAAAAAAATTTTGAAAAAT
984261 AAAAAAAA
1 AAAAAAAA
984269 AAAAGTTAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 24 0.62
21 15 0.38
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (19 bp):
AAAAAAAATTTTGAAAAAT
Found at i:984307 original size:41 final size:37
Alignment explanation
Indices: 984262--984337 Score: 91
Period size: 41 Copynumber: 1.9 Consensus size: 37
984252 TTGAAATGTA
984262 AAAAAAAAAAAGT-TAGCTTTTGAAAAGTAAAAAAAAAAAAG
1 AAAAAAAAAAAGTGT-GC-TTTG--AA-TAAAAAAAAAAAAG
*
984303 AAAAAGAAAAAGTGTGCTTTGAATAAAAAAAAAAA
1 AAAAAAAAAAAGTGTGCTTTGAATAAAAAAAAAAA
984338 GGGGCAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
37 12 0.36
38 2 0.06
40 4 0.12
41 14 0.42
42 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.13, T:0.17
Consensus pattern (37 bp):
AAAAAAAAAAAGTGTGCTTTGAATAAAAAAAAAAAAG
Found at i:985198 original size:18 final size:19
Alignment explanation
Indices: 985175--985216 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
985165 ACCAATACCT
985175 TAAATTTAACTCA-AACCC
1 TAAATTTAACTCACAACCC
*
985193 TAAATTTGACTCACAACCC
1 TAAATTTAACTCACAACCC
985212 TAAAT
1 TAAAT
985217 CATCACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAATTTAACTCACAACCC
Found at i:989182 original size:2 final size:2
Alignment explanation
Indices: 989175--989207 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
989165 TAATTATAGA
*
989175 AT AT AT AT AT AT AT GT 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
989208 AACTAAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:990171 original size:2 final size:2
Alignment explanation
Indices: 990164--990192 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
990154 TGAAATAACT
990164 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
990193 TTTCTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:992099 original size:26 final size:27
Alignment explanation
Indices: 992056--992107 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
992046 TAACTATTAA
*
992056 AATATTAGAATTTATTTATTATTAAAG
1 AATATTAGAAGTTATTTATTATTAAAG
992083 AATATT-GAAGTTATTTATTATTAAA
1 AATATTAGAAGTTATTTATTATTAAA
992108 ATTATTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (27 bp):
AATATTAGAAGTTATTTATTATTAAAG
Found at i:992171 original size:19 final size:18
Alignment explanation
Indices: 992094--992179 Score: 58
Period size: 18 Copynumber: 4.9 Consensus size: 18
992084 ATATTGAAGT
*
992094 TATTTATTATTAAAAT--
1 TATTTAATATTAAAATAA
992110 TA-TTAATATTCAAGAATAA
1 TATTTAATATT-AA-AATAA
* *
992129 T-TAT-ATTTTAATAATAA
1 TATTTAATATTAA-AATAA
*
992146 TATTTAATATTAAAATAT
1 TATTTAATATTAAAATAA
992164 TATATTAATA-TAAAAT
1 TAT-TTAATATTAAAAT
992180 TACTTAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
15 7 0.13
16 4 0.07
17 11 0.20
18 19 0.35
19 14 0.25
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
TATTTAATATTAAAATAA
Found at i:992297 original size:21 final size:21
Alignment explanation
Indices: 992271--992310 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
992261 TTTTTATTAA
992271 TATTAAAATAGTAATATTTAT
1 TATTAAAATAGTAATATTTAT
* *
992292 TATTAAAATATTTATATTT
1 TATTAAAATAGTAATATTT
992311 TATATTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TATTAAAATAGTAATATTTAT
Done.