Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 51 of 129
Found at i:10098698 original size:75 final size:74
Alignment explanation
Indices: 10098531--10098892 Score: 335
Period size: 75 Copynumber: 4.8 Consensus size: 74
10098521 TGGATATAAT
* * **
10098531 TTTATTTTTTCAAAGTTGAAGCCTCAATGGATAAA-TT-TGTTATTTTTCAAAAGTTGAAGTATC
1 TTTA-TTTTTCAAAGTTGAAGCCTCGATGGA-AAAGTTCT-TTATTTTTC-CAAGTTGAAGCCTC
* * * *
10098594 AATGGAGAAGTTT
62 AGTAGAGGAGTTC
10098607 TTTATTTTTCCAAAGTTGAAGCCTC-AGTGGAAAAGTTCTTTATTTTTCCAAGTTGAAGCCTCAG
1 TTTATTTTT-CAAAGTTGAAGCCTCGA-TGGAAAAGTTCTTTATTTTTCCAAGTTGAAGCCTCAG
*
10098671 TAAAGGAGTTC
64 TAGAGGAGTTC
* ** *
10098682 TTTATTTTTCAAAAGTTGAAGCCTTGATGGAGGAGTTCTTTATTTTT-CACAGTTGAAGCCTTAG
1 TTTATTTTTC-AAAGTTGAAGCCTCGATGGAAAAGTTCTTTATTTTTCCA-AGTTGAAGCCTCAG
*
10098746 TAGAGGAGTTT
64 TAGAGGAGTTC
* * *
10098757 TTTATTTTTCAAAGTTGAAGTCTCGAT-GAAAGAGTACTTTATTTTCTCAAAGTT-AAGGCCTCA
1 TTTATTTTTCAAAGTTGAAGCCTCGATGGAAA-AGTTCTTTATTTT-TCCAAGTTGAA-GCCTCA
* * *
10098820 GTGGAGGAATAC
63 GTAGAGGAGTTC
* * *
10098832 TTTATTTTTCAAAGTT-ACAACCTCGATGGAAGAGTAT-TTTATTTTTTCAGAGTTGAAGCCT
1 TTTATTTTTCAAAGTTGA-AGCCTCGATGGAAAAGT-TCTTTATTTTTCCA-AGTTGAAGCCT
10098893 TCGGTGGATA
Statistics
Matches: 239, Mismatches: 31, Indels: 33
0.79 0.10 0.11
Matches are distributed among these distances:
73 2 0.01
74 35 0.15
75 160 0.67
76 41 0.17
77 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (74 bp):
TTTATTTTTCAAAGTTGAAGCCTCGATGGAAAAGTTCTTTATTTTTCCAAGTTGAAGCCTCAGTA
GAGGAGTTC
Found at i:10098872 original size:112 final size:111
Alignment explanation
Indices: 10098570--10098892 Score: 304
Period size: 112 Copynumber: 2.9 Consensus size: 111
10098560 GATAAATTTG
** **
10098570 TTATTTTTCAAAAGTTGAAGTATCA-ATGGA-GAAGTTTTTTATTTTTCCAAAGTTGAAGCCTCA
1 TTATTTTTCAAAAGTTGAAGCCT-AGATGGAGGAA-TACTTTATTTTT-CAAAGTTGAAGCCTCA
* * *
10098633 GTGGAAAAGTTCTTTATTTTTCCAAGTTGAAGCCTCAGTAAAGGAGTTCT
63 GTGGAAGAGTT-TTTATTTTTCAAAGTTGAAGCCTCAGTAAAGGAGTACT
* * * * * *
10098683 TTATTTTTCAAAAGTTGAAGCCTTGATGGAGGAGTTCTTTATTTTTCACAGTTGAAGCCTTAGTA
1 TTATTTTTCAAAAGTTGAAGCCTAGATGGAGGAATACTTTATTTTTCAAAGTTGAAGCCTCAGTG
* *
10098748 GAGGAGTTTTTTATTTTTCAAAGTTGAAGTCTC-GATGAAA-GAGTACT
66 GAAGAG-TTTTTATTTTTCAAAGTTGAAGCCTCAG-T-AAAGGAGTACT
*
10098795 TTATTTTCTC-AAAGTT-AAGGCCTCAG-TGGAGGAATACTTTATTTTTCAAAGTT-ACAACCTC
1 TTATTTT-TCAAAAGTTGAA-GCCT-AGATGGAGGAATACTTTATTTTTCAAAGTTGA-AGCCTC
*
10098856 -GATGGAAGAGTATTTTATTTTTTCAGAGTTGAAGCCT
62 AG-TGGAAGAGT-TTTTA-TTTTTCAAAGTTGAAGCCT
10098893 TCGGTGGATA
Statistics
Matches: 175, Mismatches: 23, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
111 6 0.03
112 105 0.60
113 62 0.35
114 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (111 bp):
TTATTTTTCAAAAGTTGAAGCCTAGATGGAGGAATACTTTATTTTTCAAAGTTGAAGCCTCAGTG
GAAGAGTTTTTATTTTTCAAAGTTGAAGCCTCAGTAAAGGAGTACT
Found at i:10099066 original size:43 final size:43
Alignment explanation
Indices: 10098985--10099066 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
10098975 GTTGTGGTAT
* *
10098985 AGCATTTTATTTTCCAAAAGGTTTGAAGCTTCAGTTGTGAAAG
1 AGCATTTTATTTTCCAAAAGGTTTCAAGCCTCAGTTGTGAAAG
*
10099028 AGCATTTTATTTTCCAAAA-GTTTCAATGCCTCATTTGTG
1 AGCATTTTATTTTCCAAAAGGTTTCAA-GCCTCAGTTGTG
10099067 GGGAAGCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 6 0.17
43 29 0.83
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (43 bp):
AGCATTTTATTTTCCAAAAGGTTTCAAGCCTCAGTTGTGAAAG
Found at i:10099842 original size:20 final size:19
Alignment explanation
Indices: 10099817--10099870 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
10099807 GCATGAATTG
*
10099817 GCATGACTAATATTGTATTT
1 GCATGA-TAATATTATATTT
10099837 GCATGATTAATATTATATTT
1 GCATGA-TAATATTATATTT
*
10099857 GAATGATAAT-TTAT
1 GCATGATAATATTAT
10099871 TTGCCAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 4 0.13
19 4 0.13
20 23 0.74
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (19 bp):
GCATGATAATATTATATTT
Found at i:10099987 original size:24 final size:24
Alignment explanation
Indices: 10099896--10100072 Score: 157
Period size: 21 Copynumber: 7.8 Consensus size: 24
10099886 ATGTGTGTGA
10099896 TTGCATG-TTATTAATATATTTAT
1 TTGCATGATTATTAATATATTTAT
10099919 TTGCATG---ATTAATATATTTAT
1 TTGCATGATTATTAATATATTTAT
**
10099940 TTGTGTGATTTATT-A-ATA--TAT
1 TTGCATGA-TTATTAATATATTTAT
*
10099961 TTGCATGATTATTAATATGTTTAT
1 TTGCATGATTATTAATATATTTAT
*
10099985 TTG--T-ATGATT-ATAT-TTTA-
1 TTGCATGATTATTAATATATTTAT
* *
10100003 TTACATGATTATTAATATATTTAA
1 TTGCATGATTATTAATATATTTAT
10100027 TTGCATGATTATTAATATATTTAT
1 TTGCATGATTATTAATATATTTAT
**
10100051 TTGTGTGATTATATATATATAT
1 TTGCATGATTAT-TA-ATATAT
10100073 ATATATATAT
Statistics
Matches: 126, Mismatches: 12, Indels: 29
0.75 0.07 0.17
Matches are distributed among these distances:
18 2 0.02
19 4 0.03
20 10 0.08
21 39 0.31
22 7 0.06
23 14 0.11
24 39 0.31
25 5 0.04
26 6 0.05
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (24 bp):
TTGCATGATTATTAATATATTTAT
Found at i:10099987 original size:66 final size:66
Alignment explanation
Indices: 10099895--10100068 Score: 214
Period size: 66 Copynumber: 2.6 Consensus size: 66
10099885 TATGTGTGTG
* ***
10099895 ATTGCATG-TTATTAATATATTTATTTGCATGATTAATATATTTATTTGTGTGATTTATTAATAT
1 ATTGCATGATTATTAATATATTTATTTGTATGATTAATATATTTA-TTACATGA-TTATTAATAT
10099959 A-T
64 ATT
*
10099961 -TTGCATGATTATTAATATGTTTATTTGTATGATT-ATAT-TTTATTACATGATTATTAATATAT
1 ATTGCATGATTATTAATATATTTATTTGTATGATTAATATATTTATTACATGATTATTAATATA-
10100023 TT
65 TT
*
10100025 AATTGCATGATTATTAATATATTTATTTGTGTGATTATATATAT
1 -ATTGCATGATTATTAATATATTTATTTGTATGATTA-ATATAT
10100069 ATATATATAT
Statistics
Matches: 93, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
62 11 0.12
63 5 0.05
64 5 0.05
65 11 0.12
66 56 0.60
68 4 0.04
69 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (66 bp):
ATTGCATGATTATTAATATATTTATTTGTATGATTAATATATTTATTACATGATTATTAATATAT
T
Found at i:10100065 original size:2 final size:2
Alignment explanation
Indices: 10100060--10100084 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10100050 TTTGTGTGAT
10100060 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10100085 TGGGTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10100303 original size:18 final size:18
Alignment explanation
Indices: 10100280--10100339 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
10100270 TTTGCATGAT
10100280 ATGATTTTATATTATTGC
1 ATGATTTTATATTATTGC
* * *
10100298 ATGA-TTTAT-TGCATGGT
1 ATGATTTTATAT-TATTGC
10100315 ATGATTTTATATTATTGC
1 ATGATTTTATATTATTGC
10100333 ATGATTT
1 ATGATTT
10100340 ATTGCATGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 1 0.03
17 12 0.36
18 19 0.58
19 1 0.03
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.53
Consensus pattern (18 bp):
ATGATTTTATATTATTGC
Found at i:10100318 original size:35 final size:35
Alignment explanation
Indices: 10100249--10100512 Score: 363
Period size: 35 Copynumber: 7.5 Consensus size: 35
10100239 TTTTATGGTA
*
10100249 TTATATTTTTGCATGATAACTT-TTGCATGATATGATT
1 TTATATTATTGCATGAT---TTATTGCATGATATGATT
*
10100286 TTATATTATTGCATGATTTATTGCATGGTATGATT
1 TTATATTATTGCATGATTTATTGCATGATATGATT
*
10100321 TTATATTATTGCATGATTTATTGCATGATATAATT
1 TTATATTATTGCATGATTTATTGCATGATATGATT
* *
10100356 TTAT-TTATTACATGATTTATTGCATGGTATGATT
1 TTATATTATTGCATGATTTATTGCATGATATGATT
* *
10100390 TTATATTATTGCACGATTTATTGTATGATATGATT
1 TTATATTATTGCATGATTTATTGCATGATATGATT
** *
10100425 TTAT-TTATTATATGATTTATTGCATGATATAATT
1 TTATATTATTGCATGATTTATTGCATGATATGATT
*
10100459 TTATATTATTGCATGATTTATTGCATGGTATGATT
1 TTATATTATTGCATGATTTATTGCATGATATGATT
*
10100494 TAATATTTATTGCATGATT
1 TTATA-TTATTGCATGATT
10100513 GTTTGATATT
Statistics
Matches: 202, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
34 62 0.31
35 111 0.55
36 13 0.06
37 16 0.08
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (35 bp):
TTATATTATTGCATGATTTATTGCATGATATGATT
Found at i:10100381 original size:69 final size:69
Alignment explanation
Indices: 10100249--10100512 Score: 377
Period size: 69 Copynumber: 3.8 Consensus size: 69
10100239 TTTTATGGTA
* *
10100249 TTATATTTTTGCATGATAACTT-TTGCATGATATGATTTTATATTATTGCATGATTTATTGCATG
1 TTATATTATTGCATGAT---TTATTGCATGATATGATTTTAT-TTATTACATGATTTATTGCATG
10100313 GTATGATT
62 GTATGATT
*
10100321 TTATATTATTGCATGATTTATTGCATGATATAATTTTATTTATTACATGATTTATTGCATGGTAT
1 TTATATTATTGCATGATTTATTGCATGATATGATTTTATTTATTACATGATTTATTGCATGGTAT
10100386 GATT
66 GATT
* * * *
10100390 TTATATTATTGCACGATTTATTGTATGATATGATTTTATTTATTATATGATTTATTGCATGATAT
1 TTATATTATTGCATGATTTATTGCATGATATGATTTTATTTATTACATGATTTATTGCATGGTAT
*
10100455 AATT
66 GATT
* *
10100459 TTATATTATTGCATGATTTATTGCATGGTATGATTTAATATTTATTGCATGATT
1 TTATATTATTGCATGATTTATTGCATGATATGATTT--TATTTATTACATGATT
10100513 GTTTGATATT
Statistics
Matches: 175, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
69 127 0.73
70 18 0.10
71 14 0.08
72 16 0.09
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (69 bp):
TTATATTATTGCATGATTTATTGCATGATATGATTTTATTTATTACATGATTTATTGCATGGTAT
GATT
Found at i:10100387 original size:104 final size:104
Alignment explanation
Indices: 10100271--10100512 Score: 387
Period size: 104 Copynumber: 2.3 Consensus size: 104
10100261 ATGATAACTT
* * *
10100271 TTGCATGATATGATTTTATATTATTGCATGATTTATTGCATGGTATGATTTTATATTATTGCATG
1 TTGCATGGTATGATTTTATATTATTGCATGATTTATTGCATGATATGATTTTAT-TTATTACATG
10100336 ATTTATTGCATGATATAATTTTAT-TTATTACATGATTTA
65 ATTTATTGCATGATATAATTTTATATTATTACATGATTTA
* * *
10100375 TTGCATGGTATGATTTTATATTATTGCACGATTTATTGTATGATATGATTTTATTTATTATATGA
1 TTGCATGGTATGATTTTATATTATTGCATGATTTATTGCATGATATGATTTTATTTATTACATGA
*
10100440 TTTATTGCATGATATAATTTTATATTATTGCATGATTTA
66 TTTATTGCATGATATAATTTTATATTATTACATGATTTA
*
10100479 TTGCATGGTATGATTTAATATTTATTGCATGATT
1 TTGCATGGTATGATTTTATA-TTATTGCATGATT
10100513 GTTTGATATT
Statistics
Matches: 127, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
103 32 0.25
104 83 0.65
105 12 0.09
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (104 bp):
TTGCATGGTATGATTTTATATTATTGCATGATTTATTGCATGATATGATTTTATTTATTACATGA
TTTATTGCATGATATAATTTTATATTATTACATGATTTA
Found at i:10101001 original size:53 final size:54
Alignment explanation
Indices: 10100913--10101017 Score: 158
Period size: 53 Copynumber: 1.9 Consensus size: 54
10100903 ATAACATTTA
* *
10100913 TCTTGTTATATATTAAAAAAAAGGAAAATTAAAAGCTACTTTTAACAATTTTAAT
1 TCTTGTTATATATCAAAAAAAA-GAAAATTAAAAGCAACTTTTAACAATTTTAAT
* *
10100968 TCTTGTTATATATCAAAAAATA-AAATTTAAAAGCAACTTTTAACAATTTT
1 TCTTGTTATATATCAAAAAAAAGAAAATTAAAAGCAACTTTTAACAATTTT
10101018 CATTAATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 26 0.57
55 20 0.43
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.39
Consensus pattern (54 bp):
TCTTGTTATATATCAAAAAAAAGAAAATTAAAAGCAACTTTTAACAATTTTAAT
Found at i:10102105 original size:2 final size:2
Alignment explanation
Indices: 10102100--10102135 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10102090 TGTGTGTGTG
10102100 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10102136 ACATAACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10103849 original size:12 final size:12
Alignment explanation
Indices: 10103832--10103868 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
10103822 CTCATTCTTT
10103832 CATTGACTTTGA
1 CATTGACTTTGA
10103844 CATTGACTTTGA
1 CATTGACTTTGA
*
10103856 CATTGACTATGA
1 CATTGACTTTGA
10103868 C
1 C
10103869 TTTTGAGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (12 bp):
CATTGACTTTGA
Found at i:10103861 original size:18 final size:18
Alignment explanation
Indices: 10103834--10103871 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10103824 CATTCTTTCA
*
10103834 TTGACTTTGAC-ATTGACT
1 TTGACATTGACTA-TGACT
10103852 TTGACATTGACTATGACT
1 TTGACATTGACTATGACT
10103870 TT
1 TT
10103872 TGAGGGTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (18 bp):
TTGACATTGACTATGACT
Found at i:10113829 original size:16 final size:18
Alignment explanation
Indices: 10113795--10113829 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10113785 ATTTATCTAT
*
10113795 TATTTTTTAAAGAATATA
1 TATTTTATAAAGAATATA
*
10113813 TATTTTATAAAAAATAT
1 TATTTTATAAAGAATAT
10113830 TTAAATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TATTTTATAAAGAATATA
Found at i:10124521 original size:43 final size:43
Alignment explanation
Indices: 10124457--10124733 Score: 239
Period size: 43 Copynumber: 6.5 Consensus size: 43
10124447 AGTTAAAGAA
*
10124457 TTCTTATTTTAAAATTGTTTAGCCTCTATATAGAAGAGCTCATT
1 TTCTT-TTTTAAAGTTGTTTAGCCTCTATATAGAAGAGCTCATT
* * *
10124501 TTCTTTTTTAAAGTTTTTTAGCCTCTATATAGAATAGCACA--
1 TTCTTTTTTAAAGTTGTTTAGCCTCTATATAGAAGAGCTCATT
* * *
10124542 TT-TTTTTT-AAGTTGTTTTGCCTCTATATAGAGGGGCTCATT
1 TTCTTTTTTAAAGTTGTTTAGCCTCTATATAGAAGAGCTCATT
* * *
10124583 TCCTATTTTAAAGTTGTTTAGCTTCTATATAG-AGAAG-TC-TAT
1 TTCTTTTTTAAAGTTGTTTAGCCTCTATATAGAAG-AGCTCAT-T
* * * * *
10124625 TTCTTATTTTAAAGTTATTTATCCCCTGTATA-AATGAGCTTATT
1 TTCTT-TTTTAAAGTTGTTTAGCCTCTATATAGAA-GAGCTCATT
* * * * * *
10124669 TTCTATTTTAAAGTTGTTTAACCTTTGTATAGAGGAGCCCA-T
1 TTCTTTTTTAAAGTTGTTTAGCCTCTATATAGAAGAGCTCATT
*
10124711 TTCTTATTTTAAAATTGTTTAGC
1 TTCTT-TTTTAAAGTTGTTTAGC
10124734 TTTTGAATAA
Statistics
Matches: 185, Mismatches: 35, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
39 25 0.14
40 6 0.03
41 4 0.02
42 17 0.09
43 119 0.64
44 13 0.07
45 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (43 bp):
TTCTTTTTTAAAGTTGTTTAGCCTCTATATAGAAGAGCTCATT
Found at i:10124744 original size:86 final size:86
Alignment explanation
Indices: 10124457--10124773 Score: 213
Period size: 86 Copynumber: 3.7 Consensus size: 86
10124447 AGTTAAAGAA
* * * * * *
10124457 TTCTTATTTTAAAATTGTTTAGCCTCT-ATATAGAA-GAGCTCATTTTCTTTTTTAAAGTTTTTT
1 TTCTTATTTTAAAATTATTTAGCCCCTGA-ATA-AAGGAGCTTATTTCCTATTTTAAAGTTGTTT
*
10124520 AGCC-TCTATATAGA-ATAGCACA-
64 A-CCTTCTATATAGAGA-AGCCCAT
* * * * * * *
10124542 TT-TT-TTTT-AAGTTGTTTTGCCTCT-ATATAGAGGGGCTCATTTCCTATTTTAAAGTTGTTTA
1 TTCTTATTTTAAAATTATTTAGCCCCTGA-ATAAAGGAGCTTATTTCCTATTTTAAAGTTGTTTA
* * *
10124603 GCTTCTATATAGAGAAGTCTAT
65 CCTTCTATATAGAGAAGCCCAT
* * * * *
10124625 TTCTTATTTTAAAGTTATTTATCCCCTGTATAAATGAGCTTATTTTCTATTTTAAAGTTGTTTAA
1 TTCTTATTTTAAAATTATTTAGCCCCTGAATAAAGGAGCTTATTTCCTATTTTAAAGTTGTTT-A
* *
10124690 CCTT-TGTATAGAGGAGCCCAT
65 CCTTCTATATAGAGAAGCCCAT
* *** * * * * *
10124711 TTCTTATTTTAAAATTGTTTAGCTTTTGAATAAAGGAGCCTATCTCTTAATTTAAATTTGTTT
1 TTCTTATTTTAAAATTATTTAGCCCCTGAATAAAGGAGCTTATTTCCTATTTTAAAGTTGTTT
10124774 GCCTCTGTTT
Statistics
Matches: 183, Mismatches: 40, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
81 2 0.01
82 57 0.31
83 7 0.04
84 4 0.02
85 6 0.03
86 103 0.56
87 4 0.02
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (86 bp):
TTCTTATTTTAAAATTATTTAGCCCCTGAATAAAGGAGCTTATTTCCTATTTTAAAGTTGTTTAC
CTTCTATATAGAGAAGCCCAT
Found at i:10124748 original size:43 final size:43
Alignment explanation
Indices: 10124457--10124780 Score: 185
Period size: 43 Copynumber: 7.7 Consensus size: 43
10124447 AGTTAAAGAA
*
10124457 TTCTTATTTTAAAATTGTTTAGCCTCT-ATATAGAA-GAG-CTCATT
1 TTCTTATTTTAAAGTTGTTTAGCCTCTGA-ATA-AAGGAGCCT-A-T
* *
10124501 TTCTT-TTTTAAAGTTTTTTAGCCTCT-ATATAGAA-TAGCAC-A-
1 TTCTTATTTTAAAGTTGTTTAGCCTCTGA-ATA-AAGGAGC-CTAT
* * *
10124542 TT-TT-TTTT-AAGTTGTTTTGCCTCT-ATATAGAGG-GGCTCAT
1 TTCTTATTTTAAAGTTGTTTAGCCTCTGA-ATAAAGGAGCCT-AT
* * * * *
10124582 TTCCTATTTTAAAGTTGTTTAGCTTCT-ATATAGAGAAGTCTAT
1 TTCTTATTTTAAAGTTGTTTAGCCTCTGA-ATAAAGGAGCCTAT
* * * * * *
10124625 TTCTTATTTTAAAGTTATTTATCCCCTGTATAAATGAGCTTAT
1 TTCTTATTTTAAAGTTGTTTAGCCTCTGAATAAAGGAGCCTAT
* * * * *
10124668 TT-TCTATTTTAAAGTTGTTTAACCTTTGTATAGAGGAGCCCAT
1 TTCT-TATTTTAAAGTTGTTTAGCCTCTGAATAAAGGAGCCTAT
* * *
10124711 TTCTTATTTTAAAATTGTTTAGCTTTTGAATAAAGGAGCCTAT
1 TTCTTATTTTAAAGTTGTTTAGCCTCTGAATAAAGGAGCCTAT
* * *
10124754 CTCTTAATTTAAATTTGTTT-GCCTCTG
1 TTCTTATTTTAAAGTTGTTTAGCCTCTG
10124781 TTTAGAAAAG
Statistics
Matches: 224, Mismatches: 43, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
37 1 0.00
38 2 0.01
39 20 0.09
40 8 0.04
41 3 0.01
42 10 0.04
43 170 0.76
44 9 0.04
45 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (43 bp):
TTCTTATTTTAAAGTTGTTTAGCCTCTGAATAAAGGAGCCTAT
Found at i:10125773 original size:4 final size:4
Alignment explanation
Indices: 10125741--10125795 Score: 62
Period size: 4 Copynumber: 14.2 Consensus size: 4
10125731 TGACTTTAGG
* *
10125741 TATT TTTT TA-T T-TT TATT TAAT TATTT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TA-TT TATT TATT TATT TATT TATT
10125788 TA-T TATT T
1 TATT TATT T
10125796 TTAAATATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
3 7 0.16
4 33 0.77
5 3 0.07
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:10126053 original size:21 final size:21
Alignment explanation
Indices: 10126012--10126053 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10126002 AGCTTTATAA
*
10126012 TTTAAAAAAAAATCAACTTTT
1 TTTAAAAAAAAATCAAATTTT
*
10126033 TTTAAAATAAAAT-AATATTTT
1 TTTAAAAAAAAATCAA-ATTTT
10126054 CTTTTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTAAAAAAAAATCAAATTTT
Found at i:10126799 original size:21 final size:21
Alignment explanation
Indices: 10126775--10126815 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10126765 ATATTCCTAG
*
10126775 CCAATAGATTAATAACTGACC
1 CCAATAGATTAATAAATGACC
10126796 CCAATAGATTAATAAATGAC
1 CCAATAGATTAATAAATGAC
10126816 ATCACCATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (21 bp):
CCAATAGATTAATAAATGACC
Found at i:10131152 original size:15 final size:15
Alignment explanation
Indices: 10131132--10131160 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10131122 AATTTTTTAT
10131132 CAATAATAATAATAA
1 CAATAATAATAATAA
10131147 CAATAATAATAATA
1 CAATAATAATAATA
10131161 TTAAACACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
CAATAATAATAATAA
Found at i:10131194 original size:3 final size:3
Alignment explanation
Indices: 10131188--10131214 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10131178 CAATAACAAC
10131188 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
10131215 TGTTTCTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:10132692 original size:8 final size:8
Alignment explanation
Indices: 10132679--10132711 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
10132669 TTAAGCAAAA
10132679 TTCTTGTT
1 TTCTTGTT
10132687 TTCTTGTTT
1 TTCTTG-TT
10132696 TTCTTGTT
1 TTCTTGTT
10132704 TTC-TGTT
1 TTCTTGTT
10132711 T
1 T
10132712 AACCAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 5 0.21
8 11 0.46
9 8 0.33
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (8 bp):
TTCTTGTT
Found at i:10132701 original size:17 final size:16
Alignment explanation
Indices: 10132679--10132711 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
10132669 TTAAGCAAAA
10132679 TTCTTGTTTTCTTGTTT
1 TTCTTGTTTTC-TGTTT
10132696 TTCTTGTTTTCTGTTT
1 TTCTTGTTTTCTGTTT
10132712 AACCAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (16 bp):
TTCTTGTTTTCTGTTT
Found at i:10137439 original size:30 final size:30
Alignment explanation
Indices: 10137405--10137476 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 30
10137395 TGTGTTACAC
* *
10137405 TTAAATAAATCTTTAACTTTTAATTTGTAT
1 TTAAATAAATCTTAAAATTTTAATTTGTAT
10137435 TTAAATAAGCAT-TTAAAATTTTAATTTGTAT
1 TTAAATAA--ATCTTAAAATTTTAATTTGTAT
10137466 TTAAATAAATC
1 TTAAATAAATC
10137477 CATATCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 2 0.05
30 8 0.22
31 25 0.68
32 2 0.05
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.49
Consensus pattern (30 bp):
TTAAATAAATCTTAAAATTTTAATTTGTAT
Found at i:10137573 original size:29 final size:30
Alignment explanation
Indices: 10137503--10137575 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 30
10137493 TTTATTTAAA
* *
10137503 ATAAAAATTTATTTGGATACAAATCAAAAT
1 ATAAAAATTTATTTGAATACAAATAAAAAT
* * *
10137533 AGAAGAGTTTATTTGAATA-AAATAAAAAT
1 ATAAAAATTTATTTGAATACAAATAAAAAT
*
10137562 ATAAAAACTTATTT
1 ATAAAAATTTATTT
10137576 AAGAAAAGTG
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.34
Consensus pattern (30 bp):
ATAAAAATTTATTTGAATACAAATAAAAAT
Found at i:10146240 original size:42 final size:42
Alignment explanation
Indices: 10146185--10146281 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
10146175 TTGATTTATG
* * * * *
10146185 GTTTTTTGTTATTGTTCTTAATTGCTTAAATTTATATTTAAC
1 GTTTTATGCTATTGTTCTTAATTACTCAAATTTATAGTTAAC
* * **
10146227 GTTTTCTGCTATTGTTCTTAATTACTCGAATTTATAGTTAGG
1 GTTTTATGCTATTGTTCTTAATTACTCAAATTTATAGTTAAC
10146269 GTTTTATGCTATT
1 GTTTTATGCTATT
10146282 TAGGCATATT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.56
Consensus pattern (42 bp):
GTTTTATGCTATTGTTCTTAATTACTCAAATTTATAGTTAAC
Found at i:10151412 original size:225 final size:225
Alignment explanation
Indices: 10151021--10151473 Score: 757
Period size: 225 Copynumber: 2.0 Consensus size: 225
10151011 GGTTTGGATT
*
10151021 TTTTAGAGTTTTTGGATTGACATAAACTCAAAATGTTGGTCATCATCATTCGAATAGTCATCCAC
1 TTTTAGAGTTCTTGGATTGACATAAACTCAAAATGTTGGTCATCATCATTCGAATAGTCATCCAC
* * *
10151086 AGACTAGAAACTATCATCAACATATTGCTTGATCATAAGCAGAGATTAAAAAGTCTGTTTATCAT
66 AGACTAGAAACTATCATCAACATATTGCTTAATCATAAACAGAGATTAAAAAGTATGTTTATCAT
** * * *
10151151 TAAGCAAGAATAGTGATTCGAGATCATCATCTGAGAGATTAATACTTGAGATATTTGTAATATCT
131 TAAAAAAGAATAGTGATTCGAGATCATCATCTGAGAGATTAATACTTAAGATAGTTGTAATATCC
*
10151216 TGTATCATTTTTATAA-ACTTTTTGTTAGAC
196 TGTATCATTTTCA-AAGACTTTTTGTTAGAC
* *
10151246 TTTTAGAGTTCTTGGATTGACATAAACTCAAAATGTTGGTCATCATCATTCGAATGGTCATCCAT
1 TTTTAGAGTTCTTGGATTGACATAAACTCAAAATGTTGGTCATCATCATTCGAATAGTCATCCAC
*
10151311 AGACTAGAAACTATCATCAACATATTGGTTAATCATAAACAGCA-ATTAAAAAGTATGTTTATCA
66 AGACTAGAAACTATCATCAACATATTGCTTAATCATAAACAG-AGATTAAAAAGTATGTTTATCA
10151375 TTAAAAAAGAATAGTGATTCGAGATCATCATCTGAGAGATTAATACTTAAGATAGTTGTAATATC
130 TTAAAAAAGAATAGTGATTCGAGATCATCATCTGAGAGATTAATACTTAAGATAGTTGTAATATC
10151440 CTGTATCATTTTCAAAGACTTTTTGTTAGAC
195 CTGTATCATTTTCAAAGACTTTTTGTTAGAC
10151471 TTT
1 TTT
10151474 GGGTAGTTCT
Statistics
Matches: 213, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
224 2 0.01
225 210 0.99
226 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (225 bp):
TTTTAGAGTTCTTGGATTGACATAAACTCAAAATGTTGGTCATCATCATTCGAATAGTCATCCAC
AGACTAGAAACTATCATCAACATATTGCTTAATCATAAACAGAGATTAAAAAGTATGTTTATCAT
TAAAAAAGAATAGTGATTCGAGATCATCATCTGAGAGATTAATACTTAAGATAGTTGTAATATCC
TGTATCATTTTCAAAGACTTTTTGTTAGAC
Found at i:10153132 original size:14 final size:14
Alignment explanation
Indices: 10153115--10153171 Score: 59
Period size: 13 Copynumber: 4.4 Consensus size: 14
10153105 TCAACCCTAA
*
10153115 GGTTTTAATATAAG
1 GGTTTTGATATAAG
10153129 GG-TTTGATATAA-
1 GGTTTTGATATAAG
*
10153141 GGTTTTGATTTAAG
1 GGTTTTGATATAAG
*
10153155 GGTTTGGAT-T-AG
1 GGTTTTGATATAAG
10153167 GGTTT
1 GGTTT
10153172 CATTCTAGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
12 9 0.24
13 19 0.50
14 10 0.26
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
GGTTTTGATATAAG
Found at i:10153138 original size:13 final size:13
Alignment explanation
Indices: 10153112--10153160 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
10153102 GTTTCAACCC
* *
10153112 TAAGGTTTTAATA
1 TAAGGGTTTGATA
10153125 TAAGGGTTTGATA
1 TAAGGGTTTGATA
* *
10153138 TAAGGTTTTGATT
1 TAAGGGTTTGATA
10153151 TAAGGGTTTG
1 TAAGGGTTTG
10153161 GATTAGGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.45
Consensus pattern (13 bp):
TAAGGGTTTGATA
Found at i:10154429 original size:35 final size:35
Alignment explanation
Indices: 10154379--10154455 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
10154369 CTTTTCCTAA
* *
10154379 TTTCTGTTGCTGTATATTTTCTAGTTTTCATTTTG
1 TTTCTGTGGCAGTATATTTTCTAGTTTTCATTTTG
* * **
10154414 TTTCTGTGGCAGTATATTTTTTGGTTTTTGTTTTG
1 TTTCTGTGGCAGTATATTTTCTAGTTTTCATTTTG
10154449 TTTCTGT
1 TTTCTGT
10154456 TTTGTTTCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.09, C:0.09, G:0.18, T:0.64
Consensus pattern (35 bp):
TTTCTGTGGCAGTATATTTTCTAGTTTTCATTTTG
Found at i:10155043 original size:7 final size:7
Alignment explanation
Indices: 10155033--10155065 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
10155023 CTCTAATCTC
10155033 TAATTTG
1 TAATTTG
10155040 TAATTTG
1 TAATTTG
10155047 TAATTTG
1 TAATTTG
10155054 TAATTTG
1 TAATTTG
10155061 TAATT
1 TAATT
10155066 ATTATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
TAATTTG
Found at i:10155043 original size:21 final size:21
Alignment explanation
Indices: 10155014--10155064 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
10155004 TTAGTTTTAT
*
10155014 ATTTTTAATCTCTAATCTCTA
1 ATTTGTAATCTCTAATCTCTA
* * * *
10155035 ATTTGTAATTTGTAATTTGTA
1 ATTTGTAATCTCTAATCTCTA
10155056 ATTTGTAAT
1 ATTTGTAAT
10155065 TATTATTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (21 bp):
ATTTGTAATCTCTAATCTCTA
Found at i:10155071 original size:3 final size:3
Alignment explanation
Indices: 10155063--10155099 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10155053 GTAATTTGTA
10155063 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10155100 AGGTCATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10155724 original size:36 final size:36
Alignment explanation
Indices: 10155479--10155734 Score: 118
Period size: 36 Copynumber: 7.1 Consensus size: 36
10155469 GTTTTTTTTG
* **
10155479 GTCA-AAAATAAAAAATGA-TCGAGACAACACCTGTAA
1 GTCAGAAAATAAAGAATGACT-GAGACAACACC-ACAA
* * * *
10155515 GTTCAAAAAATAAGGAACGA-TCGGGACAACACCACAA
1 G-TCAGAAAATAAAGAATGACT-GAGACAACACCACAA
* * *
10155552 GTCA-AAAATAAAGAATGACCTG-GACACCACTATAA
1 GTCAGAAAATAAAGAATGA-CTGAGACAACACCACAA
* * * * * * *
10155587 ATGAAAAAATAAAGGATGAC-CAGGACAATATCACATA
1 GTCAGAAAATAAAGAATGACTGA-GACAACACCACA-A
* * *
10155624 -TCAGAAAATAAAGAATGAC-CAGGATAGCACCACAA
1 GTCAGAAAATAAAGAATGACTGA-GACAACACCACAA
* ** **
10155659 GT-TGAAAATATGGGAATGACCAATG-CAACACCACAA
1 GTCAGAAAATA-AAGAATGACTGA-GACAACACCACAA
*
10155695 GTCAGAAAATAAAGAATGACTGAGACAACACCATAA
1 GTCAGAAAATAAAGAATGACTGAGACAACACCACAA
10155731 GTCA
1 GTCA
10155735 AGTAATTAAG
Statistics
Matches: 167, Mismatches: 40, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
35 34 0.20
36 93 0.56
37 17 0.10
38 23 0.14
ACGTcount: A:0.50, C:0.18, G:0.17, T:0.15
Consensus pattern (36 bp):
GTCAGAAAATAAAGAATGACTGAGACAACACCACAA
Found at i:10155801 original size:33 final size:32
Alignment explanation
Indices: 10155762--10155857 Score: 102
Period size: 33 Copynumber: 2.9 Consensus size: 32
10155752 GTTTCTTTTC
* *
10155762 GATGCCAGCTAAATAGGGCTTAAATTTTCACTA
1 GATGCCAGTTAAAT-GGGCTTAAATTTCCACTA
* * *
10155795 GGTGCCAGTTAATTTGGGCTTAAATTTCCATTA
1 GATGCCAGTTAA-ATGGGCTTAAATTTCCACTA
* *
10155828 GATGCTAGTTAAACTGGGCTTAAATCTCCA
1 GATGCCAGTTAAA-TGGGCTTAAATTTCCA
10155858 TTAATGCTAG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
33 51 0.98
34 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (32 bp):
GATGCCAGTTAAATGGGCTTAAATTTCCACTA
Found at i:10155858 original size:33 final size:32
Alignment explanation
Indices: 10155777--10155982 Score: 135
Period size: 33 Copynumber: 6.3 Consensus size: 32
10155767 CAGCTAAATA
* * * * **
10155777 GGGCTTAAATTTTCACTAGGTGCCAGTTAATTT
1 GGGCTTAAATTTCCATTA-ATGCTAGTTAAACT
10155810 GGGCTTAAATTTCCATTAGATGCTAGTTAAACT
1 GGGCTTAAATTTCCATTA-ATGCTAGTTAAACT
* * **
10155843 GGGCTTAAATCTCCATTAATGCTAGATAATTT
1 GGGCTTAAATTTCCATTAATGCTAGTTAAACT
* * **
10155875 AGGCTTAAATTTTCATTAAGTGCTAACTAAACT
1 GGGCTTAAATTTCCATTAA-TGCTAGTTAAACT
* * * * *
10155908 GGGTTTAAATTTTTCA-TAAGGGTTAGGTAAACT
1 GGGCTTAAA-TTTCCATTAA-TGCTAGTTAAACT
* * **
10155941 GAGCTTAAATTTTCATCGATGCTAGTTAATACT
1 GGGCTTAAATTTCCATTAATGCTAGTTAA-ACT
*
10155974 GGGTTTAAA
1 GGGCTTAAA
10155983 ACCTAGATAC
Statistics
Matches: 137, Mismatches: 32, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
32 40 0.29
33 91 0.66
34 6 0.04
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (32 bp):
GGGCTTAAATTTCCATTAATGCTAGTTAAACT
Found at i:10156299 original size:33 final size:34
Alignment explanation
Indices: 10156262--10156346 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
10156252 AAGAAAGCTA
10156262 GGCTTAAATTTTTTTATAGTGT-C-AGATAAACTG
1 GGCTTAAATTTTTTTATAG-GTACTAGATAAACTG
* * * *
10156295 GGCTTTAATTTTCATCA-AGGTACTAGATAATCTG
1 GGCTTAAATTTT-TTTATAGGTACTAGATAAACTG
10156329 GGCTTAAATTTTTTTATA
1 GGCTTAAATTTTTTTATA
10156347 AGATGTTAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
32 2 0.05
33 16 0.39
34 23 0.56
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (34 bp):
GGCTTAAATTTTTTTATAGGTACTAGATAAACTG
Found at i:10156404 original size:69 final size:66
Alignment explanation
Indices: 10156238--10156539 Score: 224
Period size: 65 Copynumber: 4.5 Consensus size: 66
10156228 CTTAAAAATT
* *
10156238 TTTTCATAAGGGCTAAGAAAGCTAGGCTTAAATTTTTTTAT-AGTGTCAGATAAACTGGGCTTT-
1 TTTTCATAAGGGCT-AGTAATCTAGGCTTAAATTTTTTTATAAGTGTCAGATAAACTGGGCTTTA
10156301 AA
65 AA
* * * * *
10156303 TTTTCATCAAGGTACTAGATAATCTGGGCTTAAATTTTTTTATAAGATGTTAGCTAAATTGGG-T
1 TTTTCAT-AAGG-GCTAG-TAATCTAGGCTTAAATTTTTTTATAAG-TGTCAGATAAACTGGGCT
10156367 TTAAA
62 TTAAA
* * * * * *
10156372 TCTTTCCATAAGGGCTAGCTAATCTAGGCTTAAATCTTTCTATAA-TGGCCAGCTAATCTAGGC-
1 T-TTT-CATAAGGGCTAG-TAATCTAGGCTTAAATTTTTTTATAAGT-GTCAGATAAACTGGGCT
10156435 TT-AA
62 TTAAA
* * * * * **
10156439 CTTTCAT-TGAGGCCAGATAATCTAAGCTTAAATTTTTTTATAAGTGCCA-ACTAAACTAAGCTT
1 TTTTCATAAG-GGCTAG-TAATCTAGGCTTAAATTTTTTTATAAGTGTCAGA-TAAACTGGGCTT
*
10156502 AAATA
63 TAA-A
*
10156507 TTTTCATAAGGGCTAAGTAATCTGGGCTTAAAT
1 TTTTCATAAGGGCT-AGTAATCTAGGCTTAAAT
10156540 ATTTCCATAA
Statistics
Matches: 186, Mismatches: 33, Indels: 33
0.74 0.13 0.13
Matches are distributed among these distances:
64 1 0.01
65 50 0.27
66 11 0.06
67 27 0.15
68 41 0.22
69 46 0.25
70 7 0.04
71 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (66 bp):
TTTTCATAAGGGCTAGTAATCTAGGCTTAAATTTTTTTATAAGTGTCAGATAAACTGGGCTTTAA
A
Found at i:10156405 original size:34 final size:34
Alignment explanation
Indices: 10156367--10156676 Score: 199
Period size: 34 Copynumber: 9.3 Consensus size: 34
10156357 TAAATTGGGT
*
10156367 TTAAATCTTTCCATAAGGGCTAGCTAATCTAGGC
1 TTAAATCTTTCCATAAGGGCCAGCTAATCTAGGC
* *
10156401 TTAAATCTTTCTATAATGGCCAGCTAATCTAGGC
1 TTAAATCTTTCCATAAGGGCCAGCTAATCTAGGC
* * *
10156435 TT-AA-CTTT-CAT-TGAGGCCAGATAATCTAAGC
1 TTAAATCTTTCCATAAG-GGCCAGCTAATCTAGGC
* ** * * * *
10156466 TTAAATTTTTTTATAAGTGCCAACTAAACTAAGC
1 TTAAATCTTTCCATAAGGGCCAGCTAATCTAGGC
* * * *
10156500 TTAAATATTTTCATAAGGGCTAAG-TAATCTGGGC
1 TTAAATCTTTCCATAAGGGC-CAGCTAATCTAGGC
* * *
10156534 TTAAATATTTCCATAAAGGCCAGCTAATTTAGGC
1 TTAAATCTTTCCATAAGGGCCAGCTAATCTAGGC
* * * * * *
10156568 TTAAATCTTTCTATGAGGGCTAGGTAATTTGGGC
1 TTAAATCTTTCCATAAGGGCCAGCTAATCTAGGC
* * * *
10156602 TT-AA-CTTT-CATTAGTGCCAACTAAAT-TGGGC
1 TTAAATCTTTCCATAAGGGCCAGCT-AATCTAGGC
* * * * *
10156633 TTAAATATTT-CATTAGAGCCAGATAATCTAAGC
1 TTAAATCTTTCCATAAGGGCCAGCTAATCTAGGC
*
10156666 TTAAATTTTTC
1 TTAAATCTTTC
10156677 AATGAATGCC
Statistics
Matches: 216, Mismatches: 48, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
31 34 0.16
32 18 0.08
33 35 0.16
34 127 0.59
35 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (34 bp):
TTAAATCTTTCCATAAGGGCCAGCTAATCTAGGC
Found at i:10156528 original size:133 final size:135
Alignment explanation
Indices: 10156233--10156771 Score: 445
Period size: 133 Copynumber: 4.0 Consensus size: 135
10156223 TTGGGCTTAA
* * * * * * *
10156233 AAATTTTTTCATAAGGGCTAAGA-AAGCTAGGCTTAAATTTTTTTATAGTGTCAGATAAACTGGG
1 AAATATTTTCATAAGGGCTAAGATAATCTAGGCTTAAATTTTTCTATAATGCCAGCTAAACTAGG
* * * ** *
10156297 CTTTAAT-TTTCATCAAGGTACTAGATAATCTGGGCTTAAATTTTTTTATAAGATGTTAGCTAAA
66 CTTAAATCTTTCATTAAGG--CTAGATAATCTGGGCTTAAATTTTTTCATAAG-TGCCAACTAAA
* ** *
10156361 TTGGGTTT
128 CTAAGCTT
* * * * *
10156369 AAATCTTTCCATAAGGGCT-AGCTAATCTAGGCTTAAATCTTTCTATAATGGCCAGCTAATCTAG
1 AAATATTTTCATAAGGGCTAAGATAATCTAGGCTTAAATTTTTCTATAAT-GCCAGCTAAACTAG
* * ** *
10156433 GCTT-AA-CTTTCATTGAGGCCAGATAATCTAAGCTTAAATTTTTTTATAAGTGCCAACTAAACT
65 GCTTAAATCTTTCATTAAGGCTAGATAATCTGGGCTTAAATTTTTTCATAAGTGCCAACTAAACT
10156496 AAGCTT
130 AAGCTT
* * * * **
10156502 AAATATTTTCATAAGGGCTAAG-TAATCTGGGCTTAAATATTTCCATAAAGGCCAGCTAATTTAG
1 AAATATTTTCATAAGGGCTAAGATAATCTAGGCTTAAATTTTTCTAT-AATGCCAGCTAAACTAG
* * * * * * *
10156566 GCTTAAATCTTTCTATGAGGGCTAGGTAATTTGGGCTT-AA--CTTTCATTAGTGCCAACTAAAT
65 GCTTAAATCTTTC-ATTAAGGCTAGATAATCTGGGCTTAAATTTTTTCATAAGTGCCAACTAAAC
**
10156628 TGGGCTT
129 TAAGCTT
* * * * * * *
10156635 AAATA-TTTCATTAGAGC-CAGATAATCTAAGCTTAAATTTTTCAATGAATGCCAACTAAACTGG
1 AAATATTTTCATAAGGGCTAAGATAATCTAGGCTTAAATTTTTCTAT-AATGCCAGCTAAACTAG
* * * * *
10156698 GCTTAAATTTTTCATTAAGGCTAGATAATTTTGGCTTAAATTTTTTCATGAGTGCTAACTAAAC-
65 GCTTAAATCTTTCATTAAGGCTAGATAATCTGGGCTTAAATTTTTTCATAAGTGCCAACTAAACT
10156762 AAGCTT
130 AAGCTT
10156768 AAAT
1 AAAT
10156772 CTTTCTATGA
Statistics
Matches: 323, Mismatches: 68, Indels: 27
0.77 0.16 0.06
Matches are distributed among these distances:
131 22 0.07
132 56 0.17
133 103 0.32
134 53 0.16
135 9 0.03
136 66 0.20
137 14 0.04
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (135 bp):
AAATATTTTCATAAGGGCTAAGATAATCTAGGCTTAAATTTTTCTATAATGCCAGCTAAACTAGG
CTTAAATCTTTCATTAAGGCTAGATAATCTGGGCTTAAATTTTTTCATAAGTGCCAACTAAACTA
AGCTT
Found at i:10156704 original size:34 final size:33
Alignment explanation
Indices: 10156607--10156809 Score: 128
Period size: 33 Copynumber: 6.1 Consensus size: 33
10156597 TGGGCTTAAC
* * * * *
10156607 TTTCATTAGTGCCAACTAAATTGGGCTTAAATA
1 TTTCATGAATGCCAACTAAACTGAGCTTAAATT
* * *
10156640 TTTCATTAGA-GCCAGA-TAATCTAAGCTTAAATT
1 TTTCATGA-ATGCCA-ACTAAACTGAGCTTAAATT
*
10156673 TTTCAATGAATGCCAACTAAACTGGGCTTAAATT
1 TTTC-ATGAATGCCAACTAAACTGAGCTTAAATT
* * * **
10156707 TTTCATTAAGGCTAGA-TAATTTTG-GCTTAAATTT
1 TTTCATGAATGCCA-ACTAA-ACTGAGCTTAAA-TT
* * * *
10156741 TTTCATGAGTGCTAACTAAAC-AAGCTTAAATC
1 TTTCATGAATGCCAACTAAACTGAGCTTAAATT
*
10156773 TTTCTATGATATGCCAAATAAACTGAGCTTAAATT
1 TTTC-ATGA-ATGCCAACTAAACTGAGCTTAAATT
10156808 TT
1 TT
10156810 CACTAAGTGC
Statistics
Matches: 130, Mismatches: 27, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
32 5 0.04
33 59 0.45
34 55 0.42
35 11 0.08
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (33 bp):
TTTCATGAATGCCAACTAAACTGAGCTTAAATT
Found at i:10157870 original size:19 final size:18
Alignment explanation
Indices: 10157830--10157872 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
10157820 CTTACCTTCC
*
10157830 TTCTTTTTTTCTTTTCTC
1 TTCTTTTTTTCTTTTCTA
* *
10157848 TTCTTTTTTATTTTTTGTA
1 TTCTTTTTT-TCTTTTCTA
10157867 TTCTTT
1 TTCTTT
10157873 CATTGAGTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (18 bp):
TTCTTTTTTTCTTTTCTA
Found at i:10159236 original size:12 final size:12
Alignment explanation
Indices: 10159219--10159260 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
10159209 TGACTCAAAA
10159219 TTTTCTCTTTTT
1 TTTTCTCTTTTT
*
10159231 TTTTCTCTATTT
1 TTTTCTCTTTTT
*
10159243 TTTTCTCACTTTT
1 TTTTCTC-TTTTT
10159256 TTTTC
1 TTTTC
10159261 AGGGTATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 18 0.69
13 8 0.31
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTCTTTTT
Found at i:10163322 original size:12 final size:12
Alignment explanation
Indices: 10163305--10163329 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10163295 ATAGTTCATA
10163305 ATTAAAATTTTT
1 ATTAAAATTTTT
10163317 ATTAAAATTTTT
1 ATTAAAATTTTT
10163329 A
1 A
10163330 GCCTGACTCT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTAAAATTTTT
Found at i:10165977 original size:3 final size:3
Alignment explanation
Indices: 10165971--10166003 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10165961 AGTAATAATA
*
10165971 ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
10166004 TAAAAAAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:10166795 original size:32 final size:34
Alignment explanation
Indices: 10166759--10166832 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
10166749 TGTTGTAGTA
*
10166759 TCTGCTTGCTGC-A-GTATTTTTTTGGTTTCTGT
1 TCTGCTTGCTGCAATATATTTTTTTGGTTTCTGT
10166791 TCTGCTTGCTGCAATATATTTTTTTGGTTTCTGT
1 TCTGCTTGCTGCAATATATTTTTTTGGTTTCTGT
*
10166825 TCTTCTTG
1 TCTGCTTG
10166833 TTCTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 12 0.32
33 1 0.03
34 25 0.66
ACGTcount: A:0.08, C:0.16, G:0.19, T:0.57
Consensus pattern (34 bp):
TCTGCTTGCTGCAATATATTTTTTTGGTTTCTGT
Found at i:10166834 original size:82 final size:80
Alignment explanation
Indices: 10166679--10166827 Score: 185
Period size: 82 Copynumber: 1.8 Consensus size: 80
10166669 CTGTTTTGTT
** **
10166679 TCTGCTGTGCAGTATAATTTCTGGTTTCTGTTCTGTTTTTGCTTTATTTTTTTCTAGTTTCTGTT
1 TCTGCTGTGCAGTATAATTTCTGGTTTCTGTTCTGTTGCTGCAATATTTTTTTCTAGTTTCTGTT
10166744 CTATTTGTTGTAGTA
66 CTATTTGTTGTAGTA
* * *
10166759 TCTGCTTGCTGCAGTAT-TTTTTTGGTTTCTGTTCTGCTTGCTGCAATATATTTTTT-TGGTTTC
1 TCTGC-TG-TGCAGTATAATTTCTGGTTTCTGTTCTG-TTGCTGCAATAT-TTTTTTCTAGTTTC
10166822 TGTTCT
62 TGTTCT
10166828 TCTTGTTCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 5 0.09
81 19 0.33
82 28 0.48
83 6 0.10
ACGTcount: A:0.10, C:0.14, G:0.18, T:0.58
Consensus pattern (80 bp):
TCTGCTGTGCAGTATAATTTCTGGTTTCTGTTCTGTTGCTGCAATATTTTTTTCTAGTTTCTGTT
CTATTTGTTGTAGTA
Found at i:10167274 original size:7 final size:7
Alignment explanation
Indices: 10167264--10167288 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10167254 TTTATATTTT
10167264 TAATCTC
1 TAATCTC
10167271 TAATCTC
1 TAATCTC
10167278 TAATCTC
1 TAATCTC
10167285 TAAT
1 TAAT
10167289 TTGTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (7 bp):
TAATCTC
Found at i:10171013 original size:11 final size:11
Alignment explanation
Indices: 10170994--10171027 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10170984 TAGTATTATT
10170994 ACAAACAAACA
1 ACAAACAAACA
* *
10171005 GCTAACAAACA
1 ACAAACAAACA
10171016 ACAAACAAACA
1 ACAAACAAACA
10171027 A
1 A
10171028 GCTTTAAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.68, C:0.26, G:0.03, T:0.03
Consensus pattern (11 bp):
ACAAACAAACA
Found at i:10172361 original size:29 final size:28
Alignment explanation
Indices: 10172305--10172407 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 28
10172295 CATATATTAT
* *
10172305 TATTTA-AAATTAAATATATTAATTAATA
1 TATTTATAATTTAAATAT-TAAATTAATA
10172333 TATTTATAATTTAAATATTAAATTAAATA
1 TATTTATAATTTAAATATTAAATT-AATA
* * *
10172362 TTTTTAAAATTTAAATATTATATTGAATA
1 TATTTATAATTTAAATATTAAATT-AATA
*
10172391 TTTTATTATAATTTAAA
1 -TAT-TTATAATTTAAA
10172408 AATCATGACA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 11 0.17
29 39 0.61
30 3 0.05
31 11 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
TATTTATAATTTAAATATTAAATTAATA
Found at i:10172363 original size:12 final size:12
Alignment explanation
Indices: 10172311--10172363 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 12
10172301 TTATTATTTA
10172311 AAATTAAATATAT
1 AAATTAAATAT-T
*
10172324 TAATTAATATATTT
1 AAATTAA-ATA-TT
10172338 ATAATTTAAATATT
1 A-AA-TTAAATATT
10172352 AAATTAAATATT
1 AAATTAAATATT
10172364 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 9 0.26
13 8 0.24
14 7 0.21
15 6 0.18
16 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATTAAATATT
Found at i:10172771 original size:16 final size:16
Alignment explanation
Indices: 10172747--10172777 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10172737 AATGCATGAA
*
10172747 AATATATTTATATATC
1 AATAAATTTATATATC
10172763 AATAAATTTATATAT
1 AATAAATTTATATAT
10172778 ATTATAAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTATATATC
Found at i:10173007 original size:2 final size:2
Alignment explanation
Indices: 10173000--10173037 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10172990 GTTGCTTGAG
10173000 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
10173038 TTAGAATGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10173357 original size:17 final size:16
Alignment explanation
Indices: 10173324--10173361 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
10173314 ATTAATTTAG
10173324 TTAA-AATTAAATCAA
1 TTAAGAATTAAATCAA
*
10173339 TTAAGAATTAAAATTAA
1 TTAAGAATT-AAATCAA
10173356 TTAAGA
1 TTAAGA
10173362 GAGAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 4 0.20
17 12 0.60
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (16 bp):
TTAAGAATTAAATCAA
Found at i:10173428 original size:78 final size:77
Alignment explanation
Indices: 10173191--10173422 Score: 283
Period size: 77 Copynumber: 3.0 Consensus size: 77
10173181 AAAAAATAGT
* * *
10173191 AATTAAAATTAATTAAGAGAG-ATATATGCTATTAAAAATAAATATAATTAATTTAATCAAAATC
1 AATTAAAATTAATTAAGAGAGAATTTAAGCTATT-AAAATAAATATAATTAATTTAGTCAAAATC
* *
10173255 TAATTAAATTAAG
65 AAATCAAATTAAG
* *
10173268 AATTAAAATTAATT--GAGAGATATTTAATCTATTAAAAGTAAATATAATTAATTTAGTTAAAAT
1 AATTAAAATTAATTAAGAGAGA-ATTTAAGCTATTAAAA-TAAATATAATTAATTTAGTCAAAAT
*
10173331 TAAATC-AATTAAG
64 CAAATCAAATTAAG
** *
10173344 AATTAAAATTAATTAAGAGAGAAATTTAAGCTATTAAATATAAATGCAATTAATTTTGGTCAAAA
1 AATTAAAATTAATTAAGAGAG-AATTTAAGCTATTAAA-ATAAATATAATTAA-TTTAGTCAAAA
10173409 TCAAATCAAATTAA
63 TCAAATCAAATTAA
10173423 TTTAAATTGA
Statistics
Matches: 132, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
75 5 0.04
76 25 0.19
77 49 0.37
78 30 0.23
79 17 0.13
80 6 0.05
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (77 bp):
AATTAAAATTAATTAAGAGAGAATTTAAGCTATTAAAATAAATATAATTAATTTAGTCAAAATCA
AATCAAATTAAG
Found at i:10173957 original size:19 final size:19
Alignment explanation
Indices: 10173924--10173977 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
10173914 AATGAGAAAA
* *
10173924 TAAAAAAT-AGAAAAATAT
1 TAAAAAATAAGCAAAATAG
*
10173942 TAAAAAATAAGCAAAAAAG
1 TAAAAAATAAGCAAAATAG
10173961 TAAAAAATTAA-CAAAAT
1 TAAAAAA-TAAGCAAAAT
10173978 CAACCAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 8 0.27
19 19 0.63
20 3 0.10
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.19
Consensus pattern (19 bp):
TAAAAAATAAGCAAAATAG
Found at i:10186768 original size:33 final size:33
Alignment explanation
Indices: 10186718--10186798 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 33
10186708 TCTATGTGTG
* * **
10186718 CTTTATGTTAAGTTTGCCCAATGTTTTTATCTA
1 CTTTATGTTAGGCTTGCCCAACATTTTTATCTA
* * * *
10186751 CTTTGTGTTAGGCTTGCCCAACATTTTTGTGTG
1 CTTTATGTTAGGCTTGCCCAACATTTTTATCTA
10186784 CTTTATGTTAGGCTT
1 CTTTATGTTAGGCTT
10186799 AATAAGGAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (33 bp):
CTTTATGTTAGGCTTGCCCAACATTTTTATCTA
Found at i:10189794 original size:22 final size:22
Alignment explanation
Indices: 10189766--10189808 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10189756 AATTAACAAT
10189766 TAAAAATAATAAT-AATAAAATC
1 TAAAAATAA-AATAAATAAAATC
10189788 TAAAAATAAAATAAATAAAAT
1 TAAAAATAAAATAAATAAAAT
10189809 AAATCAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAAAATAAAATAAATAAAATC
Found at i:10191081 original size:42 final size:42
Alignment explanation
Indices: 10191010--10191133 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 42
10191000 AACAAAATAA
* *
10191010 ACTCCTTTATACAGAGGTAAACAAATTTAAGATAGGAAATTG
1 ACTCCTTTATACAGAGGCAAACAAATTTAAAATAGGAAATTG
** *
10191052 ACTCCTTTATACAGAGGCAAATGACTTTAAAATAGGAAATGTG
1 ACTCCTTTATACAGAGGCAAACAAATTTAAAATAGGAAAT-TG
* * * * *
10191095 -CTTCTCTATACAAAAGCTAAACAACTTTAAAATA-GAAAT
1 ACTCCTTTATACAGAGGC-AAACAAATTTAAAATAGGAAAT
10191134 CCTCTAACCA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 53 0.77
43 16 0.23
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.28
Consensus pattern (42 bp):
ACTCCTTTATACAGAGGCAAACAAATTTAAAATAGGAAATTG
Found at i:10194204 original size:18 final size:18
Alignment explanation
Indices: 10194176--10194249 Score: 130
Period size: 18 Copynumber: 4.1 Consensus size: 18
10194166 TAGTAGCATT
*
10194176 TTAGGTCTAGCAATCTCA
1 TTAGATCTAGCAATCTCA
*
10194194 TTAGATTTAGCAATCTCA
1 TTAGATCTAGCAATCTCA
10194212 TTAGATCTAGCAATCTCA
1 TTAGATCTAGCAATCTCA
10194230 TTAGATCTAGCAATCTCA
1 TTAGATCTAGCAATCTCA
10194248 TT
1 TT
10194250 GCTGCTAAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (18 bp):
TTAGATCTAGCAATCTCA
Found at i:10201937 original size:13 final size:14
Alignment explanation
Indices: 10201912--10201942 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
10201902 AATAATAAAA
10201912 AAAATCTAAAAATC
1 AAAATCTAAAAATC
10201926 AAAATC-AAAAATC
1 AAAATCTAAAAATC
10201939 AAAA
1 AAAA
10201943 AAATGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATCTAAAAATC
Found at i:10201944 original size:8 final size:7
Alignment explanation
Indices: 10201911--10201943 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
10201901 TAATAATAAA
10201911 AAAAATC
1 AAAAATC
10201918 TAAAAATC
1 -AAAAATC
10201926 -AAAATC
1 AAAAATC
10201932 AAAAATC
1 AAAAATC
10201939 AAAAA
1 AAAAA
10201944 AATGGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATC
Found at i:10204720 original size:37 final size:36
Alignment explanation
Indices: 10204670--10204741 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 36
10204660 ATACATTGTA
*
10204670 ACATTTTTCCTAGCAAAAGGAGCATCAAGTCGTTATG
1 ACATTTTCCCTAGCAAAAGGAGCATCAAGTC-TTATG
*
10204707 ACATTTTCCCTAGCAAAAGGAGCATCGAGTCTTAT
1 ACATTTTCCCTAGCAAAAGGAGCATCAAGTCTTAT
10204742 TGCATAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 4 0.12
37 29 0.88
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (36 bp):
ACATTTTCCCTAGCAAAAGGAGCATCAAGTCTTATG
Found at i:10206965 original size:21 final size:21
Alignment explanation
Indices: 10206941--10206984 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10206931 GTGAGTTTCT
* *
10206941 TATTTTTTATTATTGGATTTA
1 TATTATTTATTATTGAATTTA
*
10206962 TATTATTTATTATTTAATTTA
1 TATTATTTATTATTGAATTTA
10206983 TA
1 TA
10206985 ATATATCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (21 bp):
TATTATTTATTATTGAATTTA
Found at i:10207089 original size:22 final size:23
Alignment explanation
Indices: 10207045--10207089 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
10207035 TTTATATATT
* *
10207045 ATATTATTTGTATATAATTTTAA
1 ATATAATTTGTATATAATATTAA
*
10207068 ATATAATTT-TATATCATATTAA
1 ATATAATTTGTATATAATATTAA
10207090 TTATCTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
ATATAATTTGTATATAATATTAA
Found at i:10207205 original size:21 final size:21
Alignment explanation
Indices: 10207164--10207205 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10207154 TTCAGTGAAA
* *
10207164 AAAAGTAAGGAATATCGAACT
1 AAAAGTAAAGAATATCAAACT
10207185 AAAAGTAAAGAATTAT-AAACT
1 AAAAGTAAAGAA-TATCAAACT
10207206 TGAAACACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (21 bp):
AAAAGTAAAGAATATCAAACT
Found at i:10207908 original size:10 final size:10
Alignment explanation
Indices: 10207871--10207907 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
10207861 GGGTACCTCC
10207871 TTTTTTTTGT
1 TTTTTTTTGT
*
10207881 TTTGTTTTGT
1 TTTTTTTTGT
10207891 TTTTTTTT-T
1 TTTTTTTTGT
10207900 TTTTTTTT
1 TTTTTTTT
10207908 TAACATTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:10212435 original size:24 final size:24
Alignment explanation
Indices: 10212407--10212458 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
10212397 AAATAATTGC
*
10212407 AAAAT-ATGAGGCTATGCAAAACAG
1 AAAATAATGAGGCAATG-AAAACAG
10212431 AAAATAATGAGGCAATGAAAACAG
1 AAAATAATGAGGCAATGAAAACAG
10212455 AAAA
1 AAAA
10212459 CTTCAAGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.58, C:0.10, G:0.19, T:0.13
Consensus pattern (24 bp):
AAAATAATGAGGCAATGAAAACAG
Found at i:10215832 original size:25 final size:24
Alignment explanation
Indices: 10215804--10215851 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10215794 GCATAAAAAA
10215804 TATATGAAAATATTTATTTCTTTTG
1 TATATGAAAAT-TTTATTTCTTTTG
* *
10215829 TATATGATACTTTTATTTCTTTT
1 TATATGAAAATTTTATTTCTTTT
10215852 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.60
Consensus pattern (24 bp):
TATATGAAAATTTTATTTCTTTTG
Found at i:10215994 original size:18 final size:18
Alignment explanation
Indices: 10215964--10216007 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10215954 TCAAATTCAA
10215964 TTATTTGATTAAAAAATAT
1 TTATTT-ATTAAAAAATAT
*
10215983 TTATTTATTAAATAATAT
1 TTATTTATTAAAAAATAT
*
10216001 ATATTTA
1 TTATTTA
10216008 CTATAATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTATTTATTAAAAAATAT
Found at i:10218961 original size:16 final size:16
Alignment explanation
Indices: 10218942--10218973 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10218932 TATCCCTTCC
10218942 TATATGTATATGATCA
1 TATATGTATATGATCA
10218958 TATATGTATATGATCA
1 TATATGTATATGATCA
10218974 CTAAAAGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
TATATGTATATGATCA
Found at i:10219106 original size:32 final size:32
Alignment explanation
Indices: 10219065--10219125 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
10219055 TATATGTGAA
*
10219065 ATTCTTTAGTGCGTTGGGGGTAAGCAATATAT
1 ATTCTTTAGTGCGTTGGGAGTAAGCAATATAT
*
10219097 ATTCTTTAGTGTGTTGGGAGTAAGCAATA
1 ATTCTTTAGTGCGTTGGGAGTAAGCAATA
10219126 AGATAGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (32 bp):
ATTCTTTAGTGCGTTGGGAGTAAGCAATATAT
Found at i:10219282 original size:2 final size:2
Alignment explanation
Indices: 10219277--10219302 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10219267 AAAAAAAAAG
10219277 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
10219303 AAATCGTAAC
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10220743 original size:26 final size:27
Alignment explanation
Indices: 10220714--10220768 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
10220704 AGAGATAGAT
10220714 TTTTATTTGTC-TCAAA-TTTA-ATTTTA
1 TTTTATTT-TCAT-AAATTTTAGATTTTA
10220740 TTTTATTTTCATAAATTTTAGATTTTA
1 TTTTATTTTCATAAATTTTAGATTTTA
10220767 TT
1 TT
10220769 CAATCTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 5 0.19
26 13 0.50
27 8 0.31
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTATTTTCATAAATTTTAGATTTTA
Found at i:10220845 original size:36 final size:36
Alignment explanation
Indices: 10220797--10220865 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
10220787 ATTTTTTTCT
* *
10220797 TATTCAAATTTGATCCGATTTGATATTATATAAATCA
1 TATTCAAATTTGATCCGATTCGAAATTA-ATAAATCA
*
10220834 TATTC-AATTTGATCTGATTCGAAATTAATAAA
1 TATTCAAATTTGATCCGATTCGAAATTAATAAA
10220866 ATATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 5 0.17
36 19 0.66
37 5 0.17
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (36 bp):
TATTCAAATTTGATCCGATTCGAAATTAATAAATCA
Found at i:10220893 original size:8 final size:8
Alignment explanation
Indices: 10220880--10220918 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
10220870 TATTTTTTAA
10220880 ATATAAAT
1 ATATAAAT
*
10220888 ATATAATT
1 ATATAAAT
10220896 ATATAAAT
1 ATATAAAT
*
10220904 ATATATAT
1 ATATAAAT
*
10220912 AAATAAA
1 ATATAAA
10220919 GAATTAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:10222782 original size:21 final size:21
Alignment explanation
Indices: 10222735--10222785 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
10222725 GAAGTAGTTC
*
10222735 TAAAATTTTTAGGATTTTTTT
1 TAAAATTTTTAGAATTTTTTT
*
10222756 T-GAATTTTT-GAATTTTTTT
1 TAAAATTTTTAGAATTTTTTT
10222775 TAAAAATTTTT
1 T-AAAATTTTT
10222786 TTGAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 10 0.40
20 7 0.28
21 8 0.32
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (21 bp):
TAAAATTTTTAGAATTTTTTT
Found at i:10227172 original size:7 final size:7
Alignment explanation
Indices: 10227160--10227199 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
10227150 AAAGAGAATC
10227160 AATTACA
1 AATTACA
10227167 AATTACA
1 AATTACA
10227174 AATTACA
1 AATTACA
10227181 AATTACA
1 AATTACA
10227188 AATTACA
1 AATTACA
*
10227195 TATTA
1 AATTA
10227200 ATGCTCTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (7 bp):
AATTACA
Found at i:10229551 original size:12 final size:12
Alignment explanation
Indices: 10229534--10229566 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10229524 AGTGAACACT
10229534 AAAAAAAAGGAA
1 AAAAAAAAGGAA
10229546 AAAAAAAA-GAA
1 AAAAAAAAGGAA
10229557 AAAAAGAAAG
1 AAAAA-AAAG
10229567 AGTCAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGGAA
Found at i:10229567 original size:12 final size:11
Alignment explanation
Indices: 10229534--10229567 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
10229524 AGTGAACACT
*
10229534 AAAAAAAAGGA
1 AAAAAAAAAGA
10229545 AAAAAAAAAGA
1 AAAAAAAAAGA
10229556 AAAAAAGAAAGA
1 AAAAAA-AAAGA
10229568 GTCAAATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:10229883 original size:16 final size:16
Alignment explanation
Indices: 10229862--10229897 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
10229852 ACAATACCTT
10229862 TATAAAT-ATAAAATTA
1 TATAAATAATAAAA-TA
10229878 TATAAATAATAAAATA
1 TATAAATAATAAAATA
10229894 TATA
1 TATA
10229898 TTTTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TATAAATAATAAAATA
Found at i:10234658 original size:46 final size:46
Alignment explanation
Indices: 10234590--10234677 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
10234580 GATAAAATAA
*
10234590 TATTATAAATAGGATTATATTAAATAATATTATCCTATCTTGATAG
1 TATTATAAATAGGATTAGATTAAATAATATTATCCTATCTTGATAG
*
10234636 TATTATAAATAGGATTAGATTAAATAATATTATTCTATCTTG
1 TATTATAAATAGGATTAGATTAAATAATATTATCCTATCTTG
10234678 TATTTAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (46 bp):
TATTATAAATAGGATTAGATTAAATAATATTATCCTATCTTGATAG
Found at i:10235966 original size:26 final size:26
Alignment explanation
Indices: 10235937--10235986 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10235927 TGATCTAAAA
10235937 TATTATTATATTA-ATAAAAATTTATT
1 TATT-TTATATTATATAAAAATTTATT
* *
10235963 TATTTTATTTTATTTAAAAATTTA
1 TATTTTATATTATATAAAAATTTA
10235987 AAAATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTTTATATTATATAAAAATTTATT
Found at i:10236015 original size:23 final size:24
Alignment explanation
Indices: 10235975--10236034 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
10235965 TTTTATTTTA
*
10235975 TTTAAAAATTTAAAAATA-TTAAT
1 TTTAAAAATTTTAAAATATTTAAT
**
10235998 TTTAAAAATTTTCTAATATTTTAAT
1 TTTAAAAATTTTAAAATA-TTTAAT
*
10236023 TTTAAACATTTT
1 TTTAAAAATTTT
10236035 TTTAATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 15 0.48
25 16 0.52
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTAAAAATTTTAAAATATTTAAT
Found at i:10236874 original size:23 final size:22
Alignment explanation
Indices: 10236847--10236890 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
10236837 AGAAGTTATA
*
10236847 AAAAAGTAAAAAGGAAAAAAAAGT
1 AAAAA-TAAAAA-AAAAAAAAAGT
10236871 AAAAATAAAAAAAAAAAAAA
1 AAAAATAAAAAAAAAAAAAA
10236891 CTCATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (22 bp):
AAAAATAAAAAAAAAAAAAAGT
Found at i:10236885 original size:17 final size:17
Alignment explanation
Indices: 10236846--10236885 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
10236836 TAGAAGTTAT
*
10236846 AAAAAAGTAAAAAGGAA
1 AAAAAAGTAAAAAGAAA
*
10236863 AAAAAAGTAAAAATAAA
1 AAAAAAGTAAAAAGAAA
10236880 AAAAAA
1 AAAAAA
10236886 AAAAACTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (17 bp):
AAAAAAGTAAAAAGAAA
Found at i:10237185 original size:19 final size:19
Alignment explanation
Indices: 10237147--10237200 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
10237137 TTTTTTTAAA
*
10237147 TAAAATAAATTATTAAATATG
1 TAAAA-AAATTA-AAAATATG
*
10237168 TAAAAAAATTAAAAATATT
1 TAAAAAAATTAAAAATATG
*
10237187 TTAAAAAA-TAAAAA
1 TAAAAAAATTAAAAA
10237201 AGCAAAAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.20
19 13 0.43
20 6 0.20
21 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAAAATTAAAAATATG
Found at i:10238996 original size:19 final size:19
Alignment explanation
Indices: 10238953--10238998 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
10238943 TAAGGAAATC
*
10238953 ATTTGTGCAATTCATATGG
1 ATTTGTGTAATTCATATGG
10238972 -TTTGTGTAATTCA-ACTGG
1 ATTTGTGTAATTCATA-TGG
10238990 ATTTGTGTA
1 ATTTGTGTA
10238999 CAATTCCTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 15 0.62
19 8 0.33
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.46
Consensus pattern (19 bp):
ATTTGTGTAATTCATATGG
Found at i:10239215 original size:12 final size:12
Alignment explanation
Indices: 10239198--10239222 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10239188 TGGTGTAGGC
10239198 ATTATGATAAGT
1 ATTATGATAAGT
10239210 ATTATGATAAGT
1 ATTATGATAAGT
10239222 A
1 A
10239223 CTTAATGTAA
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTATGATAAGT
Found at i:10243536 original size:17 final size:19
Alignment explanation
Indices: 10243495--10243536 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
10243485 GAGATTTTCT
*
10243495 AGATTTGCTAAATCTTTGA
1 AGATTTGCTAAATCATTGA
*
10243514 ATATTTGC-AAAT-ATTGA
1 AGATTTGCTAAATCATTGA
10243531 AGATTT
1 AGATTT
10243537 TCTAGATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 9 0.45
18 4 0.20
19 7 0.35
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (19 bp):
AGATTTGCTAAATCATTGA
Found at i:10246810 original size:18 final size:19
Alignment explanation
Indices: 10246787--10246822 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10246777 TATGTCGATT
10246787 TCATTG-AATTTTATTTTG
1 TCATTGTAATTTTATTTTG
*
10246805 TCATTGTATTTTTATTTT
1 TCATTGTAATTTTATTTT
10246823 ATTAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.19, C:0.06, G:0.08, T:0.67
Consensus pattern (19 bp):
TCATTGTAATTTTATTTTG
Found at i:10247045 original size:17 final size:17
Alignment explanation
Indices: 10247025--10247072 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
10247015 ACTAAATATT
10247025 AATAAAAAATTAAGAAA
1 AATAAAAAATTAAGAAA
*
10247042 AATAAAAAAATTAAGTAA
1 AAT-AAAAAATTAAGAAA
**
10247060 AATCCAAAATTAA
1 AATAAAAAATTAA
10247073 ATCATAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (17 bp):
AATAAAAAATTAAGAAA
Found at i:10247068 original size:19 final size:18
Alignment explanation
Indices: 10247028--10247062 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10247018 AAATATTAAT
10247028 AAAAAATTAAGAAAAATA
1 AAAAAATTAAGAAAAATA
*
10247046 AAAAAATTAAGTAAAAT
1 AAAAAATTAAGAAAAAT
10247063 CCAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (18 bp):
AAAAAATTAAGAAAAATA
Found at i:10247268 original size:26 final size:26
Alignment explanation
Indices: 10247239--10247293 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
10247229 CACTGAAACT
**
10247239 AAACAAAAGTGACCATTCTGGATAAC
1 AAACAAAAGTGACCATTAAGGATAAC
*
10247265 AAACACAAGTGACCATTAAGGATAAC
1 AAACAAAAGTGACCATTAAGGATAAC
10247291 AAA
1 AAA
10247294 TTCTTCAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.16
Consensus pattern (26 bp):
AAACAAAAGTGACCATTAAGGATAAC
Found at i:10249046 original size:22 final size:22
Alignment explanation
Indices: 10249020--10249075 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
10249010 AGTCAAAGCA
*
10249020 TGTGAATTCAAAGCTGCTACCT
1 TGTGAAATCAAAGCTGCTACCT
* *
10249042 TGTGAAATCGAAGCTGGTACCT
1 TGTGAAATCAAAGCTGCTACCT
*
10249064 TCATGAAATCAA
1 T-GTGAAATCAA
10249076 CAGCAAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (22 bp):
TGTGAAATCAAAGCTGCTACCT
Found at i:10250163 original size:2 final size:2
Alignment explanation
Indices: 10250156--10250184 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10250146 AAAAATAGAA
10250156 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10250185 TTGACTAAAA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10256962 original size:7 final size:7
Alignment explanation
Indices: 10256941--10256979 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
10256931 AAACCTGGAG
10256941 AAAGAATA
1 AAAGAA-A
10256949 AAGAGAAA
1 AA-AGAAA
10256957 AAAGAAA
1 AAAGAAA
10256964 AAAG-AA
1 AAAGAAA
10256970 AAAGAAA
1 AAAGAAA
10256977 AAA
1 AAA
10256980 CTGAAGCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.21
7 14 0.48
8 5 0.17
9 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:10256971 original size:13 final size:14
Alignment explanation
Indices: 10256941--10256979 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
10256931 AAACCTGGAG
10256941 AAAGAATAAAGAGAAA
1 AAAGAA-AAA-AGAAA
10256957 AAAGAAAAAAG-AA
1 AAAGAAAAAAGAAA
10256970 AAAGAAAAAA
1 AAAGAAAAAA
10256980 CTGAAGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.52
14 2 0.09
15 3 0.13
16 6 0.26
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (14 bp):
AAAGAAAAAAGAAA
Found at i:10260534 original size:25 final size:24
Alignment explanation
Indices: 10260509--10260563 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
10260499 TAAACTTAGA
10260509 AATCAAGCTGCACTAATGTAAGAG
1 AATCAAGCTGCACTAATGTAAGAG
** *
10260533 AATCAGATTTGCACTAATGTAGGAG
1 AATCA-AGCTGCACTAATGTAAGAG
10260558 AATCAA
1 AATCAA
10260564 ATTTCTACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.24
Consensus pattern (24 bp):
AATCAAGCTGCACTAATGTAAGAG
Found at i:10260567 original size:25 final size:25
Alignment explanation
Indices: 10260517--10260567 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
10260507 GAAATCAAGC
*
10260517 TGCACTAATGTAAGAGAATCAGATT
1 TGCACTAATGTAAGAGAATCAAATT
*
10260542 TGCACTAATGTAGGAGAATCAAATT
1 TGCACTAATGTAAGAGAATCAAATT
10260567 T
1 T
10260568 CTACACTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (25 bp):
TGCACTAATGTAAGAGAATCAAATT
Found at i:10262514 original size:27 final size:28
Alignment explanation
Indices: 10262484--10262566 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 28
10262474 CTGATAGGTT
10262484 GGCTAGGTTGAGAATCTAG-TTTGAAGG
1 GGCTAGGTTGAGAATCTAGTTTTGAAGG
* *
10262511 GGCTA-CTTGAGATTCTAGTTTTGAAGG
1 GGCTAGGTTGAGAATCTAGTTTTGAAGG
* *
10262538 GGC-AGGTTGGGAATCTGGTTTTGAAGG
1 GGCTAGGTTGAGAATCTAGTTTTGAAGG
10262565 GG
1 GG
10262567 TTGGTTGGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.25
27 36 0.75
ACGTcount: A:0.22, C:0.08, G:0.39, T:0.31
Consensus pattern (28 bp):
GGCTAGGTTGAGAATCTAGTTTTGAAGG
Found at i:10263887 original size:35 final size:35
Alignment explanation
Indices: 10263841--10263910 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
10263831 CAAAACTATC
*
10263841 ATAGCAAGGCCTATATGTGTTGAATAAGGATGCAT
1 ATAGCAAGGCCTATATGTGTTGAACAAGGATGCAT
10263876 ATAGCAAGGCCTATATGTGTTGAACAAGGATGCAT
1 ATAGCAAGGCCTATATGTGTTGAACAAGGATGCAT
10263911 CTCTAGTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (35 bp):
ATAGCAAGGCCTATATGTGTTGAACAAGGATGCAT
Found at i:10264458 original size:25 final size:24
Alignment explanation
Indices: 10264433--10264487 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
10264423 TAAATTAAGA
*
10264433 AATCAAGTTGTACTAATGTAGGAG
1 AATCAAGTTGCACTAATGTAGGAG
*
10264457 AATCATATTTGCACTAATGTAGGAG
1 AATCA-AGTTGCACTAATGTAGGAG
10264482 AATCAA
1 AATCAA
10264488 ATTTCTACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (24 bp):
AATCAAGTTGCACTAATGTAGGAG
Found at i:10264491 original size:25 final size:25
Alignment explanation
Indices: 10264444--10264491 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
10264434 ATCAAGTTGT
*
10264444 ACTAATGTAGGAGAATCATATTTGC
1 ACTAATGTAGGAGAATCAAATTTGC
10264469 ACTAATGTAGGAGAATCAAATTT
1 ACTAATGTAGGAGAATCAAATTT
10264492 CTACAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (25 bp):
ACTAATGTAGGAGAATCAAATTTGC
Found at i:10270340 original size:125 final size:125
Alignment explanation
Indices: 10270118--10270356 Score: 460
Period size: 125 Copynumber: 1.9 Consensus size: 125
10270108 CTCTAATGAT
*
10270118 TCATGTACTCAGCACCCTATTAGTAACTTTGTTTCCTATGAAGGGTTGTTTCCTATTTACCGAGC
1 TCATGTACTCAGCACCCTATTAGTAACTTTGTTTCCTATGAAGGGTTGTTTCCTATTTACCAAGC
10270183 ACTGGTTACATCATTAATTGATGTTCATATACCAAACACCATCCAAGAAAAAGTGTGAGA
66 ACTGGTTACATCATTAATTGATGTTCATATACCAAACACCATCCAAGAAAAAGTGTGAGA
10270243 TCATGTACTCAGCACCCTATTAGTAACTTTGTTTCCTATGAAGGGTTGTTTCCTATTTACCAAGC
1 TCATGTACTCAGCACCCTATTAGTAACTTTGTTTCCTATGAAGGGTTGTTTCCTATTTACCAAGC
*
10270308 ACTGGTTACATCATTAATTGATGTTCATATACCGAACACCATCCAAGAA
66 ACTGGTTACATCATTAATTGATGTTCATATACCAAACACCATCCAAGAA
10270357 GCGCTCATAT
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 112 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (125 bp):
TCATGTACTCAGCACCCTATTAGTAACTTTGTTTCCTATGAAGGGTTGTTTCCTATTTACCAAGC
ACTGGTTACATCATTAATTGATGTTCATATACCAAACACCATCCAAGAAAAAGTGTGAGA
Found at i:10270374 original size:29 final size:29
Alignment explanation
Indices: 10270332--10270390 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
10270322 TAATTGATGT
10270332 TCATATACCGAACACCATCCAAGAAGCGC
1 TCATATACCGAACACCATCCAAGAAGCGC
10270361 TCATATACCGAACACCATCCAAGAAGCGC
1 TCATATACCGAACACCATCCAAGAAGCGC
10270390 T
1 T
10270391 TGACCAACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.34, G:0.14, T:0.15
Consensus pattern (29 bp):
TCATATACCGAACACCATCCAAGAAGCGC
Found at i:10277861 original size:18 final size:18
Alignment explanation
Indices: 10277838--10277874 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10277828 TGTTGGAAGA
10277838 TAATTTGAACATTATAGG
1 TAATTTGAACATTATAGG
10277856 TAATTTGAACATTATAGG
1 TAATTTGAACATTATAGG
10277874 T
1 T
10277875 GCTATTGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (18 bp):
TAATTTGAACATTATAGG
Found at i:10282147 original size:34 final size:34
Alignment explanation
Indices: 10282068--10282147 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
10282058 CTTTTTGACC
* * * *
10282068 AAAATGAATTTTTGAGAAATCTTTAAAGTTCTTT
1 AAAATAAATTTTTGAGAAATCTTTAAAGCTCGTG
10282102 AAAATAAATTTTTGAGAAA-CTTTTAAAGCTCGTG
1 AAAATAAATTTTTGAGAAATC-TTTAAAGCTCGTG
* *
10282136 AAATTATATTTT
1 AAAATAAATTTT
10282148 CGAGGATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.42
Consensus pattern (34 bp):
AAAATAAATTTTTGAGAAATCTTTAAAGCTCGTG
Found at i:10282898 original size:34 final size:35
Alignment explanation
Indices: 10282816--10282898 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 35
10282806 TTTCAAAAAC
10282816 TCATTTTCGAGAAA-ACTTAAAACTTCTTGGATAT
1 TCATTTTCGAGAAACACTTAAAACTTCTTGGATAT
* * *
10282850 TCATTTTCAAGAAACA-TT-AAAGTTTTATGGATA-
1 TCATTTTCGAGAAACACTTAAAACTTCT-TGGATAT
10282883 TCTATTTTCGAGAAAC
1 TC-ATTTTCGAGAAAC
10282899 TCAATTAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
33 8 0.19
34 33 0.79
35 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (35 bp):
TCATTTTCGAGAAACACTTAAAACTTCTTGGATAT
Found at i:10283795 original size:26 final size:24
Alignment explanation
Indices: 10283749--10283806 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
10283739 AATGCCTTTT
*
10283749 AAAGCTTTCGAAAATAGATTTCCG
1 AAAGCTTTCGAAAATACATTTCCG
* **
10283773 AAAGCTTACTCGAAAATCCATTTTTG
1 AAAGCTT--TCGAAAATACATTTCCG
10283799 AAAGCTTT
1 AAAGCTTT
10283807 AAAACCTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 8 0.29
26 20 0.71
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (24 bp):
AAAGCTTTCGAAAATACATTTCCG
Found at i:10283830 original size:34 final size:33
Alignment explanation
Indices: 10283781--10283877 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 33
10283771 CGAAAGCTTA
*
10283781 CTCGAAAATCCATTTTTGAAAGCTTTAAAACCTT
1 CTCGAAAATTCATTTTTGAAAGCTTTAAAACC-T
* * * *
10283815 CTTGAAAATAT-ATTTTTGATAGCCTTTTAAAGCT
1 CTCGAAAAT-TCATTTTTGAAAG-CTTTAAAACCT
* *
10283849 CTCGAAAATTCATTTTCGAAAACTTTAAA
1 CTCGAAAATTCATTTTTGAAAGCTTTAAA
10283878 GTTGGAGTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
33 7 0.14
34 35 0.70
35 8 0.16
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (33 bp):
CTCGAAAATTCATTTTTGAAAGCTTTAAAACCT
Found at i:10287406 original size:20 final size:21
Alignment explanation
Indices: 10287370--10287421 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
10287360 TCCGAAATTA
10287370 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
10287392 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
10287413 AT-AAATATT
1 ATAAAATATT
10287422 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:10287412 original size:21 final size:22
Alignment explanation
Indices: 10287370--10287421 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
10287360 TCCGAAATTA
10287370 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
10287392 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
10287413 AT-AAATATT
1 ATAAAATATT
10287422 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:10287429 original size:30 final size:30
Alignment explanation
Indices: 10287394--10287450 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
10287384 TTTAAAATAT
* * *
10287394 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
10287424 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
10287451 AAATAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:10287459 original size:24 final size:23
Alignment explanation
Indices: 10287411--10287475 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
10287401 TATTTTTTAA
10287411 ATATAAATATTTAAAAATATCATT
1 ATATAAATATTTAAAAATA-CATT
*
10287435 ATATAAATATATATATAAATA-ATT
1 ATATAAATAT-T-TAAAAATACATT
* * *
10287459 AAATAATTAATTAAAAA
1 ATATAAATATTTAAAAA
10287476 ATAATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 5 0.15
23 1 0.03
24 20 0.59
25 1 0.03
26 7 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATAAATATTTAAAAATACATT
Found at i:10287464 original size:12 final size:12
Alignment explanation
Indices: 10287413--10287481 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
10287403 TTTTTTAAAT
*
10287413 ATAAATATTTAA
1 ATAAATAATTAA
* *
10287425 A-AATATCATTAT
1 ATAA-ATAATTAA
*
10287437 ATAAAT-ATATAT
1 ATAAATAAT-TAA
10287449 ATAAATAATTAA
1 ATAAATAATTAA
*
10287461 ATAATTAATTAA
1 ATAAATAATTAA
10287473 A-AAATAATT
1 ATAAATAATT
10287482 TTTTATATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
11 11 0.23
12 32 0.68
13 4 0.09
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAAATAATTAA
Found at i:10291520 original size:17 final size:17
Alignment explanation
Indices: 10291479--10291522 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
10291469 TGAATTAGTG
**
10291479 TAATAAAAAATTACTAT
1 TAATAAAAAATTAAAAT
10291496 TAGA-AAAAAATTAAAAT
1 TA-ATAAAAAATTAAAAT
10291513 TAATAAAAAA
1 TAATAAAAAA
10291523 GTTACTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
TAATAAAAAATTAAAAT
Done.