Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167908.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_173, 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: 58917
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Found at i:10635 original size:25 final size:26
Alignment explanation
Indices: 10607--10667 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
10597 TATTATGCTT
*
10607 GAAAAAAAAGAGAAAAAT-TG-AAAAG
1 GAAAAAAAA-AGAAAAATGTGAAAAAA
10632 GAAAAAAAAAGAAAAATGTGAAAAAA
1 GAAAAAAAAAGAAAAATGTGAAAAAA
10658 GAAAAAAAAA
1 GAAAAAAAAA
10668 AGGGATGACT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 8 0.24
25 11 0.33
26 14 0.42
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (26 bp):
GAAAAAAAAAGAAAAATGTGAAAAAA
Found at i:11776 original size:41 final size:41
Alignment explanation
Indices: 11660--11811 Score: 184
Period size: 41 Copynumber: 3.8 Consensus size: 41
11650 GATTGTCGAT
* *
11660 GAGCCATTTATTTTCTCAAAGTTTGTTGCCTTTATTTAGAG
1 GAGCCATTTATTTTCTCAAAGTTCGTTGCCTTTATTCAGAG
* *
11701 GAGCTATTTA-TTT-TCAAAGTTCGTTG-CTTCTATTCGGAG
1 GAGCCATTTATTTTCTCAAAGTTCGTTGCCTT-TATTCAGAG
* * *
11740 GAGCCATTTATTTTCTCAAAGTTTGTTGCCTTTATTCAAAT
1 GAGCCATTTATTTTCTCAAAGTTCGTTGCCTTTATTCAGAG
* **
11781 GAACCATTTGGTTTCTCAAAGTTCGTTGCCT
1 GAGCCATTTATTTTCTCAAAGTTCGTTGCCT
11812 CTTCTCAAAG
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
38 3 0.03
39 28 0.30
40 6 0.06
41 54 0.57
42 3 0.03
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (41 bp):
GAGCCATTTATTTTCTCAAAGTTCGTTGCCTTTATTCAGAG
Found at i:11818 original size:20 final size:20
Alignment explanation
Indices: 11793--11833 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11783 ACCATTTGGT
*
11793 TTCTCAAAGTTCGTTGCCTC
1 TTCTCAAAGTTCATTGCCTC
11813 TTCTCAAAGTTCATTGCCTC
1 TTCTCAAAGTTCATTGCCTC
11833 T
1 T
11834 ATTTAGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.29, G:0.12, T:0.41
Consensus pattern (20 bp):
TTCTCAAAGTTCATTGCCTC
Found at i:11820 original size:61 final size:62
Alignment explanation
Indices: 11752--11875 Score: 160
Period size: 61 Copynumber: 2.0 Consensus size: 62
11742 GCCATTTATT
** * *
11752 TTCTCAAAGTTTGTTGCCTTTATTCAAATGAACCATTTGGTTTCTCAAAG-TTCGTTGCCTC
1 TTCTCAAAGTTCATTGCCTCTATTCAAATGAACCATTTAGTTTCTCAAAGTTTCGTTGCCTC
* * * * *
11813 TTCTCAAAGTTCATTGCCTCTATTTAGATGAGCCATTTATTTTCTCAAAGTTTTGTTGCCTC
1 TTCTCAAAGTTCATTGCCTCTATTCAAATGAACCATTTAGTTTCTCAAAGTTTCGTTGCCTC
11875 T
1 T
11876 ATTTAGAGGA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
61 42 0.79
62 11 0.21
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (62 bp):
TTCTCAAAGTTCATTGCCTCTATTCAAATGAACCATTTAGTTTCTCAAAGTTTCGTTGCCTC
Found at i:13013 original size:9 final size:9
Alignment explanation
Indices: 12999--13032 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
12989 TTTATGTAAA
12999 AATAAAAAT
1 AATAAAAAT
13008 AATAAAAAT
1 AATAAAAAT
13017 AATATAAAAT
1 AATA-AAAAT
13027 -ATAAAA
1 AATAAAA
13033 TTTTAGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 3 0.12
9 16 0.67
10 5 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AATAAAAAT
Found at i:14139 original size:22 final size:23
Alignment explanation
Indices: 14094--14170 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 23
14084 TGATTTTCTT
**
14094 TTAAATT-TCA-ATAATAAACTA
1 TTAAATTATCATATAATTTACTA
*
14115 TTAAATTATCAT-TGATTTACTA
1 TTAAATTATCATATAATTTACTA
*
14137 TTAAATTAT-TTATAATTTACTA
1 TTAAATTATCATATAATTTACTA
14159 TTAAATTTATCA
1 TTAAA-TTATCA
14171 ATTAATTAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 8 0.18
22 33 0.73
23 4 0.09
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.48
Consensus pattern (23 bp):
TTAAATTATCATATAATTTACTA
Found at i:14584 original size:22 final size:22
Alignment explanation
Indices: 14568--14641 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
14558 TTTATCATTT
*
14568 ATTTACTACTAAGTTATCAAAG
1 ATTTACTACTAAATTATCAAAG
*
14590 ATTTACTACTAAATTATCAATGAT
1 ATTTACTACTAAATTATCAA--AG
* * * *
14614 ATTTACTTCTAATTTATGAATG
1 ATTTACTACTAAATTATCAAAG
14636 ATTTAC
1 ATTTAC
14642 CATTAAGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 25 0.58
24 18 0.42
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAAAG
Found at i:14625 original size:24 final size:24
Alignment explanation
Indices: 14567--14637 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
14557 ATTTATCATT
*
14567 TATTTACTACTAAGTTATCAA--A
1 TATTTACTACTAAATTATCAATGA
*
14589 GATTTACTACTAAATTATCAATGA
1 TATTTACTACTAAATTATCAATGA
* * *
14613 TATTTACTTCTAATTTATGAATGA
1 TATTTACTACTAAATTATCAATGA
14637 T
1 T
14638 TTACCATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 19 0.46
24 22 0.54
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (24 bp):
TATTTACTACTAAATTATCAATGA
Found at i:14652 original size:22 final size:22
Alignment explanation
Indices: 14627--14717 Score: 80
Period size: 22 Copynumber: 4.2 Consensus size: 22
14617 TACTTCTAAT
*
14627 TTATGAATGATTTACCATTAAG
1 TTATGAATGATTTACCATTAAA
* * *
14649 TTATAAAAT-ATTTATCATTAAG
1 TTAT-GAATGATTTACCATTAAA
* *
14671 TTGTGAATGATTT-CTATTAAA
1 TTATGAATGATTTACCATTAAA
*
14692 TTACTG-ATGATTTACCACTAAA
1 TTA-TGAATGATTTACCATTAAA
14714 TTAT
1 TTAT
14718 TGACTTTATT
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
21 18 0.33
22 34 0.62
23 3 0.05
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (22 bp):
TTATGAATGATTTACCATTAAA
Found at i:14901 original size:22 final size:22
Alignment explanation
Indices: 14797--14910 Score: 74
Period size: 22 Copynumber: 5.4 Consensus size: 22
14787 TTAACTGATA
* * *
14797 TACTGTTAAATTATCATTGATT
1 TACTATTAAATTATCAGTAATT
* *
14819 TAC-AATAAATTATTAGTAATT
1 TACTATTAAATTATCAGTAATT
* * *
14840 TACTATTATATTATTAGTGATT
1 TACTATTAAATTATCAGTAATT
* ** *
14862 TATTGCTAAGTTAT---TAATT
1 TACTATTAAATTATCAGTAATT
*
14881 TACTATTAAATTATCAATAATT
1 TACTATTAAATTATCAGTAATT
*
14903 TATTATTA
1 TACTATTA
14911 CATTTTTATA
Statistics
Matches: 69, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
19 14 0.20
21 16 0.23
22 39 0.57
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (22 bp):
TACTATTAAATTATCAGTAATT
Found at i:14931 original size:44 final size:44
Alignment explanation
Indices: 14872--14993 Score: 106
Period size: 44 Copynumber: 2.8 Consensus size: 44
14862 TATTGCTAAG
* *
14872 TTATTAATTTACTATTAAATTATCAATAATTTATTA-TTACAT-TT
1 TTATT-ATCTACTATTAAATTATCAATAATTTACTACTTA-ATCTT
*** * *
14916 TTATATATCTACTATTAGGGTATCATTGATTTACTACTTAATCTT
1 TTAT-TATCTACTATTAAATTATCAATAATTTACTACTTAATCTT
* *
14961 TTATTATTTACTA-TAGAATTATCACTAATTTAC
1 TTATTATCTACTATTA-AATTATCAATAATTTAC
14994 AACTAAATTA
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
43 2 0.03
44 49 0.80
45 10 0.16
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.51
Consensus pattern (44 bp):
TTATTATCTACTATTAAATTATCAATAATTTACTACTTAATCTT
Found at i:15223 original size:35 final size:37
Alignment explanation
Indices: 15153--15240 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 37
15143 ACTACTAAAT
* * * *
15153 TATCAATTATTTACTATTAATTTTATTATTGATTTAC
1 TATCAATTAATTACTATTAAATTGATAATTGATTTAC
15190 TATCAATTAATTA-TATTAAATTGA-AATTGATTTAC
1 TATCAATTAATTACTATTAAATTGATAATTGATTTAC
*
15225 TATTAAATT-ATTACTA
1 TA-TCAATTAATTACTA
15241 ATTTACTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 16 0.36
36 16 0.36
37 12 0.27
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (37 bp):
TATCAATTAATTACTATTAAATTGATAATTGATTTAC
Found at i:15263 original size:44 final size:44
Alignment explanation
Indices: 15215--15303 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
15205 TTAAATTGAA
* * * ** *
15215 ATTGATTTACTATTAAATTATTACTAATTTACTATTAAATTATC
1 ATTGATTTACTACTAAATAATTAATAATCAACTACTAAATTATC
*
15259 ATTGATTTATTACTAAATAATTAATAATCAACTACTAAATTATC
1 ATTGATTTACTACTAAATAATTAATAATCAACTACTAAATTATC
15303 A
1 A
15304 CTTATTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (44 bp):
ATTGATTTACTACTAAATAATTAATAATCAACTACTAAATTATC
Found at i:15266 original size:22 final size:22
Alignment explanation
Indices: 15219--15498 Score: 95
Period size: 22 Copynumber: 12.8 Consensus size: 22
15209 ATTGAAATTG
* *
15219 ATTTACTATTAAATTATTACTA
1 ATTTACTATTAAATTATCATTA
*
15241 ATTTACTATTAAATTATCATTG
1 ATTTACTATTAAATTATCATTA
* * * * *
15263 ATTTATTACTAAATAATTAATA
1 ATTTACTATTAAATTATCATTA
** *
15285 ATCAACTACTAAATTATCACTT-
1 ATTTACTATTAAATTATCA-TTA
** * *
15307 ATTTTTTGTTAAGTTATTC-TTA
1 ATTTACTATTAAATTA-TCATTA
* ** *
15329 ATTTAGTATTATGTTATTA-TA
1 ATTTACTATTAAATTATCATTA
* * * * * *
15350 CATTGACAACTATATTATAATTG
1 -ATTTACTATTAAATTATCATTA
* * * *
15373 ATTTACCATTAAGTTATTA-TC
1 ATTTACTATTAAATTATCATTA
* * * * *
15394 ATATATTATTATATTATTATTG
1 ATTTACTATTAAATTATCATTA
*
15416 ATTTACTA-AAAAGTTATCAATT-
1 ATTTACTATTAAA-TTATC-ATTA
* * * * *
15438 ATTTATTACTAAACTATCGTTC
1 ATTTACTATTAAATTATCATTA
* *
15460 ATTTATTATTAAGTTATCATTA
1 ATTTACTATTAAATTATCATTA
15482 ATTTACTATTAAATTAT
1 ATTTACTATTAAATTAT
15499 TGATGATTAT
Statistics
Matches: 184, Mismatches: 63, Indels: 22
0.68 0.23 0.08
Matches are distributed among these distances:
21 24 0.13
22 150 0.82
23 10 0.05
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAATTATCATTA
Found at i:17752 original size:23 final size:22
Alignment explanation
Indices: 17703--17744 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
17693 TCATCAAATA
17703 AAAAAAGTTTCATATTAATCAT
1 AAAAAAGTTTCATATTAATCAT
17725 AAAAAAGTTTCATATTAATC
1 AAAAAAGTTTCATATTAATC
17745 GTACAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (22 bp):
AAAAAAGTTTCATATTAATCAT
Found at i:18674 original size:15 final size:14
Alignment explanation
Indices: 18645--18679 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
18635 AAACTATAAC
*
18645 TAAACAAATTTAAA
1 TAAATAAATTTAAA
18659 TAAATAAATATTAAA
1 TAAATAAAT-TTAAA
18674 TAAATA
1 TAAATA
18680 TAACGAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATAAATTTAAA
Found at i:22446 original size:10 final size:11
Alignment explanation
Indices: 22431--22459 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
22421 TTTTATTGGC
22431 TTTATTTTA-T
1 TTTATTTTATT
22441 TTTATTTTATT
1 TTTATTTTATT
22452 TTTATTTT
1 TTTATTTT
22460 TCTTTTCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:23307 original size:12 final size:13
Alignment explanation
Indices: 23290--23344 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 13
23280 TCGTTTCTAT
23290 TTTTTTTTTA-TA
1 TTTTTTTTTAGTA
23302 TTTTTTATTTAGTA
1 TTTTTT-TTTAGTA
*
23316 -TTTTATTTA-T-
1 TTTTTTTTTAGTA
23326 TGTTTTTTTTAGTA
1 T-TTTTTTTTAGTA
23340 TTTTT
1 TTTTT
23345 GCATGATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
11 1 0.03
12 18 0.51
13 13 0.37
14 3 0.09
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (13 bp):
TTTTTTTTTAGTA
Found at i:24616 original size:17 final size:16
Alignment explanation
Indices: 24594--24659 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 16
24584 TCATTTTCAT
24594 ATCATTTCATTCTATAC
1 ATCATTTCATT-TATAC
* *
24611 ATCATTTTCCTATTATCAT
1 ATCA-TTTCAT-TTAT-AC
*
24630 ATCATTTCATTTTATGC
1 ATCATTTCA-TTTATAC
24647 ATCATTATCATTT
1 ATCATT-TCATTT
24660 CATTCTATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
17 13 0.33
18 19 0.49
19 7 0.18
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.52
Consensus pattern (16 bp):
ATCATTTCATTTATAC
Found at i:24658 original size:23 final size:23
Alignment explanation
Indices: 24625--24680 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
24615 TTTTCCTATT
*
24625 ATCA-TATCATTTCATTTTATGC
1 ATCATTATCATTTCATTCTATGC
24647 ATCATTATCATTTCATTCTATGC
1 ATCATTATCATTTCATTCTATGC
*
24670 ATCATTTTCAT
1 ATCATTATCAT
24681 GCTCATGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.50
Consensus pattern (23 bp):
ATCATTATCATTTCATTCTATGC
Found at i:27222 original size:26 final size:27
Alignment explanation
Indices: 27172--27221 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
27162 TCTCAAGTAG
27172 AAAGAAAAAAGAAAGAAAAGCAAAACA
1 AAAGAAAAAAGAAAGAAAAGCAAAACA
*
27199 AAAG-AAAAAGAAAGAGAA-CAAAA
1 AAAGAAAAAAGAAAGAAAAGCAAAA
27222 AAATAAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 13 0.59
27 4 0.18
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (27 bp):
AAAGAAAAAAGAAAGAAAAGCAAAACA
Found at i:27578 original size:66 final size:66
Alignment explanation
Indices: 27467--27663 Score: 277
Period size: 66 Copynumber: 3.0 Consensus size: 66
27457 AAATTGTAAA
* * * * *
27467 TGCTCGAAATGAATGATCATATGTTAGGCAAGGGCATGCTCATGATGAAACGATAGAATCATGCT
1 TGCTCGAATTGAATGATTATATGTTGGGCAAAGGCATGCTTATGATGAAACGATAGAATCATGCT
27532 T
66 T
* * * *
27533 TGCTCGAATTGAATGATTATATGTTGGGCAAAAGTATGTTTATGATGAAATGATAGAATCATGCT
1 TGCTCGAATTGAATGATTATATGTTGGGCAAAGGCATGCTTATGATGAAACGATAGAATCATGCT
27598 T
66 T
* * * *
27599 TGCTCGAATTGAATGATTATATGTTGGGCTAAGGCATGCTTATGATGGAACAACAGAATCATGCT
1 TGCTCGAATTGAATGATTATATGTTGGGCAAAGGCATGCTTATGATGAAACGATAGAATCATGCT
27664 ATGTTGCTTT
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 114 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.31
Consensus pattern (66 bp):
TGCTCGAATTGAATGATTATATGTTGGGCAAAGGCATGCTTATGATGAAACGATAGAATCATGCT
T
Found at i:27732 original size:10 final size:10
Alignment explanation
Indices: 27719--27827 Score: 51
Period size: 10 Copynumber: 10.2 Consensus size: 10
27709 GAAAAAAAAT
*
27719 AAAAAATGGA
1 AAAAAAAGGA
27729 AAAAAAAGGA
1 AAAAAAAGGA
*
27739 AAAAATAGTGA
1 AAAAAAAG-GA
*
27750 AAAAGAGAAAGA
1 AAAA-A-AAGGA
27762 AAAAGAAA--A
1 AAAA-AAAGGA
*
27771 AAATAAAAGAAA
1 AAA-AAAAG-GA
*
27783 AAAATAAAAGA
1 AAAA-AAAGGA
*
27794 AAAAAAAAGA
1 AAAAAAAGGA
*
27804 AAGAAAAAGAGG
1 AA-AAAAAG-GA
*
27816 AAAAAATGGA
1 AAAAAAAGGA
27826 AA
1 AA
27828 TGAGAGAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
9 7 0.09
10 28 0.35
11 24 0.30
12 19 0.24
13 1 0.01
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (10 bp):
AAAAAAAGGA
Found at i:27760 original size:6 final size:6
Alignment explanation
Indices: 27748--27813 Score: 60
Period size: 6 Copynumber: 10.3 Consensus size: 6
27738 AAAAAATAGT
* * *
27748 GAAAAA GAGAAA GAAAAA GAAAAA AATAAAA GAAAAA AATAAAA GAAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GA-AAAA GAAAAA GA-AAAA G-AAAAA
*
27799 AAAGAAA GAAAAA GA
1 GAA-AAA GAAAAA GA
27814 GGAAAAAATG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
6 29 0.60
7 18 0.38
8 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:27784 original size:14 final size:13
Alignment explanation
Indices: 27762--27811 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
27752 AAGAGAAAGA
27762 AAAAGAAAAAAAT
1 AAAAGAAAAAAAT
27775 AAAAGAAAAAAAT
1 AAAAGAAAAAAAT
*
27788 AAAAGAAAAAAAA
1 AAAAGAAAAAAAT
27801 AGAAAGAAAAA
1 A-AAAGAAAAA
27812 GAGGAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
13 26 0.74
14 9 0.26
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.04
Consensus pattern (13 bp):
AAAAGAAAAAAAT
Found at i:27785 original size:32 final size:32
Alignment explanation
Indices: 27705--27810 Score: 85
Period size: 32 Copynumber: 3.3 Consensus size: 32
27695 GTGAAAGAAT
* *
27705 GAAAGAAAA-AAAATAAA-AAATGGAAAAAAAAG
1 GAAAGAAAAGAAAA-AAATAAA-AGAAAAAAAAA
** *
27737 GAAA-AAATAGTGAAAAAGAGAAAGAAAAAGAAAA
1 GAAAGAAA-AGAAAAAAATA-AAAGAAAAA-AAAA
*
27771 -AAATAAAAGAAAAAAATAAAAGAAAAAAAAA
1 GAAAGAAAAGAAAAAAATAAAAGAAAAAAAAA
27802 GAAAGAAAA
1 GAAAGAAAA
27811 AGAGGAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
31 7 0.12
32 24 0.41
33 20 0.34
34 8 0.14
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (32 bp):
GAAAGAAAAGAAAAAAATAAAAGAAAAAAAAA
Found at i:27795 original size:36 final size:36
Alignment explanation
Indices: 27728--27841 Score: 95
Period size: 36 Copynumber: 3.0 Consensus size: 36
27718 TAAAAAATGG
*
27728 AAAAAAAAGGAAAAAATAGTGAAAAAGAGAAAGAAAAAGAA
1 AAAAAAAAAGAAAAAA-A-TG--AAA-AGAAAGAAAAAGAA
*
27769 AAAAATAAAAGAAAAAAAT-AAAAGAAAAAAAAAGAA
1 AAAAA-AAAAGAAAAAAATGAAAAGAAAGAAAAAGAA
* * * * *
27805 AGAAAAAGAGGAAAAAATGGAAATGAGAGAAAAAGAA
1 AAAAAAAAAGAAAAAAAT-GAAAAGAAAGAAAAAGAA
27842 TACTCAAATC
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
35 11 0.18
36 17 0.27
37 17 0.27
40 1 0.02
41 6 0.10
42 10 0.16
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (36 bp):
AAAAAAAAAGAAAAAAATGAAAAGAAAGAAAAAGAA
Found at i:27810 original size:19 final size:18
Alignment explanation
Indices: 27706--27810 Score: 70
Period size: 18 Copynumber: 5.6 Consensus size: 18
27696 TGAAAGAATG
27706 AAAGAAAAAAA-ATAAAAA
1 AAAGAAAAAAAGA-AAAAA
**
27724 ATGGAAAAAAAAGGAAAAAA
1 AAAG-AAAAAAA-GAAAAAA
** * *
27744 TAGTGAAAAAGAGAAAGAA
1 -AAAGAAAAAAAGAAAAAA
*
27763 AAAGAAAAAAATAAAAGAA
1 AAAGAAAAAAAGAAAA-AA
*
27782 AAA-AATAAAAGAAAAAA
1 AAAGAAAAAAAGAAAAAA
27799 AAAGAAAGAAAA
1 AAAGAAA-AAAA
27811 AGAGGAAAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 13
0.71 0.15 0.14
Matches are distributed among these distances:
17 5 0.08
18 25 0.38
19 22 0.33
20 11 0.17
21 3 0.05
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAGAAAAAAAGAAAAAA
Found at i:29003 original size:21 final size:21
Alignment explanation
Indices: 28961--29044 Score: 123
Period size: 21 Copynumber: 4.0 Consensus size: 21
28951 TCACCTGAAA
* * *
28961 GAGAAATTATGAATCTTTAAAT
1 GAGAATTTTTGAAT-TTCAAAT
28983 GAGAATTTTTGAATTTCAAAT
1 GAGAATTTTTGAATTTCAAAT
29004 GAGAATTTTTGAATTTCAAAT
1 GAGAATTTTTGAATTTCAAAT
*
29025 GAGAATCTTTGAATTTCAAA
1 GAGAATTTTTGAATTTCAAA
29045 AAAAAATCTT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 46 0.79
22 12 0.21
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.39
Consensus pattern (21 bp):
GAGAATTTTTGAATTTCAAAT
Found at i:29677 original size:41 final size:41
Alignment explanation
Indices: 29587--29704 Score: 112
Period size: 41 Copynumber: 2.8 Consensus size: 41
29577 AGCATTTATG
* * * **
29587 CCTCTATTTAAAGGAGCAATTTATTTTT-CAAAGTTGTAGTG
1 CCTCTGTTTAGAGGAGC-ATTTATTTTTCCAAAGTCGTAGAA
* * *
29628 CTTTTGTTTAGAGGAGCATTTATTTTTCCAAAGTCGTTGAA
1 CCTCTGTTTAGAGGAGCATTTATTTTTCCAAAGTCGTAGAA
29669 CCTCTGTTTAGAGGAGTTTCATTTACTTTTTCCAAA
1 CCTCTGTTTAGAGGAG---CATTTA-TTTTTCCAAA
29705 AAAAAAACCC
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
40 10 0.16
41 36 0.58
44 6 0.10
45 10 0.16
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.43
Consensus pattern (41 bp):
CCTCTGTTTAGAGGAGCATTTATTTTTCCAAAGTCGTAGAA
Found at i:31115 original size:35 final size:35
Alignment explanation
Indices: 31072--31146 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
31062 TAGAATATGT
* *
31072 AAATACTCAATGTTTCATAGAATATAATTTAAGTA
1 AAATACTCAATGTTTCATAGAATATAATTCAAATA
*
31107 AAATACTCAATGTTTTATAGAATATAATTCAAATA
1 AAATACTCAATGTTTCATAGAATATAATTCAAATA
31142 AAATA
1 AAATA
31147 AGGAAACTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (35 bp):
AAATACTCAATGTTTCATAGAATATAATTCAAATA
Found at i:32232 original size:14 final size:14
Alignment explanation
Indices: 32213--32330 Score: 62
Period size: 14 Copynumber: 8.1 Consensus size: 14
32203 CATTTGAATT
32213 TTTATTTTTATTTA
1 TTTATTTTTATTTA
* *
32227 TTTATTATTATATA
1 TTTATTTTTATTTA
32241 -TTATTTTTA-TTA
1 TTTATTTTTATTTA
32253 TTTATCTGTTAATATATTTA
1 TTTA--T-TT--T-TATTTA
*
32273 TTTATTTATTAATTA
1 TTTATTT-TTATTTA
* ** *
32288 TCTATTAGTATATA
1 TTTATTTTTATTTA
* *
32302 TATATTTTTATCTA
1 TTTATTTTTATTTA
32316 TTT-TTTTTACTTTA
1 TTTATTTTTA-TTTA
32330 T
1 T
32331 CTTTTTCTTG
Statistics
Matches: 79, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
12 2 0.03
13 17 0.22
14 32 0.41
15 11 0.14
16 4 0.05
17 2 0.03
18 2 0.03
19 2 0.03
20 7 0.09
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTATTTTTATTTA
Found at i:32250 original size:27 final size:27
Alignment explanation
Indices: 32214--32294 Score: 91
Period size: 26 Copynumber: 3.1 Consensus size: 27
32204 ATTTGAATTT
32214 TTATTTTTATTTATTTATTATTATATA
1 TTATTTTTATTTATTTATTATTATATA
*
32241 TTATTTTTA-TTATTTATCTGTTA-ATA
1 TTATTTTTATTTATTTAT-TATTATATA
*
32267 -TA--TTTATTTATTTATTAATTATCTA
1 TTATTTTTATTTATTTATT-ATTATATA
32292 TTA
1 TTA
32295 GTATATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
23 5 0.11
24 11 0.24
25 4 0.09
26 13 0.28
27 13 0.28
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (27 bp):
TTATTTTTATTTATTTATTATTATATA
Found at i:32312 original size:31 final size:31
Alignment explanation
Indices: 32224--32312 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
32214 TTATTTTTAT
* * *
32224 TTATTTATTATTATATAT-TATTTTTATTAT
1 TTATCTATTAATATATATATATTTTTATTAA
* *
32254 TTATCTGTTAATATATTTAT-TTATTTATTAA
1 TTATCTATTAATATATATATATT-TTTATTAA
*
32285 TTATCTATTAGTATATATATATTTTTAT
1 TTATCTATTAATATATATATATTTTTAT
32313 CTATTTTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
30 16 0.33
31 30 0.62
32 2 0.04
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (31 bp):
TTATCTATTAATATATATATATTTTTATTAA
Found at i:33058 original size:4 final size:4
Alignment explanation
Indices: 33041--33085 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
33031 ACGTTAAGGT
33041 TTTA TTTA TATTA TTTA TTTA -TTA TATTA -TTA -TTA TTTA TTTA TT
1 TTTA TTTA T-TTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TT
33086 ATTATTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 9 0.24
4 21 0.57
5 7 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:33065 original size:3 final size:3
Alignment explanation
Indices: 33049--33160 Score: 120
Period size: 3 Copynumber: 36.0 Consensus size: 3
33039 GTTTTATTTA
33049 TAT TATT TATT TAT TA- TAT TAT TAT TATT TATT TAT TAT TAT TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT
* * *
33097 TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TCCT TAAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT T-AT TAT TAT
*
33144 TTT TAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
33161 GATTCTTTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
2 4 0.04
3 73 0.77
4 18 0.19
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:33276 original size:53 final size:54
Alignment explanation
Indices: 33204--33415 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 54
33194 AAAAATATCT
*
33204 ATATTTTT-AGGGAGAAGTTGAAACTATCAATTTTTCTTAAAAATAATTTTTTT-
1 ATATTTTTAAGGGA-AAGTTGAAAGTATCAATTTTTCTTAAAAATAATTTTTTTA
* * *
33257 TTATTTTTAAGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAATAATTTTTTTAAAA
1 ATATTTTTAAGGGAAAGTTGAAAGTATCAATTTTTCTTAAAAATAATTTTTTT---A
* * * * * **
33314 ATATTTCTAAAGGAAAGTTGAAAGTACCAATTTTTCTGAAAATAAAAAATGTTTTAAA
1 ATATTTTTAAGGGAAAGTTGAAAGTATCAATTTTTCT--TAA-AAATAAT-TTTTTTA
* *
33372 AAATTAATTTTAGGGAAAGTTGAAAGTATCAATTTTTCTTAAAA
1 ATATT--TTTAAGGGAAAGTTGAAAGTATCAATTTTTCTTAAAA
33416 TTAAAATTTC
Statistics
Matches: 128, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
53 43 0.34
54 5 0.04
57 34 0.27
58 7 0.05
59 1 0.01
60 34 0.27
61 4 0.03
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (54 bp):
ATATTTTTAAGGGAAAGTTGAAAGTATCAATTTTTCTTAAAAATAATTTTTTTA
Found at i:33396 original size:60 final size:59
Alignment explanation
Indices: 33261--33489 Score: 229
Period size: 59 Copynumber: 3.9 Consensus size: 59
33251 TTTTTTTTAT
* *
33261 TTTTAAGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAAT--AATTTTTTTAAAAAT-A
1 TTTTAAGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTTTAAAAAATAA
* * *
33317 TTTCTAAAGGAAAGTTGAAAGTACCAATTTTTC-TGAAAATAAAAAATGTTTTAAAAAATTAA
1 TTT-TAAGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAAAT-TTTTAAAAAA-TAA
* * ** *
33379 TTTT-AGGGAAAGTTGAAAGTATCAATTTTTCTT-AAAATTAAAATTTCAAAAAAAAATA
1 TTTTAAGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTTTAAAAAATA-A
* * * * *
33437 TTTTTAGGAAAAGTTGAAAGTGTCAATTTTCCTTGAAAGT-AAAATTTCTAAAA
1 TTTTAAGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTTTAAAA
33490 TGAATTTTTC
Statistics
Matches: 146, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
56 10 0.07
57 27 0.18
58 13 0.09
59 46 0.32
60 43 0.29
61 3 0.02
62 4 0.03
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (59 bp):
TTTTAAGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTTTAAAAAATAA
Found at i:33567 original size:57 final size:57
Alignment explanation
Indices: 33500--33613 Score: 160
Period size: 57 Copynumber: 2.0 Consensus size: 57
33490 TGAATTTTTC
* * * *
33500 AAAAAGTATTTTTG-GAGAAAAGTTGGAAGTA-TCAATTTTCCTTGAAATTAAAAATTA
1 AAAAAATATTTTTGAGA-AAAAGTTGGAAGTACT-AATATTCCTTAAAAATAAAAATTA
33557 AAAAAATATTTTTGAGAAAAAGTTGGAAGTACTAATATTCCTTAAAAATAAAAATTA
1 AAAAAATATTTTTGAGAAAAAGTTGGAAGTACTAATATTCCTTAAAAATAAAAATTA
33614 TCAAGAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
57 48 0.94
58 3 0.06
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.33
Consensus pattern (57 bp):
AAAAAATATTTTTGAGAAAAAGTTGGAAGTACTAATATTCCTTAAAAATAAAAATTA
Found at i:44565 original size:19 final size:19
Alignment explanation
Indices: 44541--44579 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
44531 ATCCCTTCTA
44541 TTGATTATTTCCTAATCAT
1 TTGATTATTTCCTAATCAT
44560 TTGATTATTTCCTAATCAT
1 TTGATTATTTCCTAATCAT
44579 T
1 T
44580 CTTATTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.05, T:0.54
Consensus pattern (19 bp):
TTGATTATTTCCTAATCAT
Found at i:45504 original size:44 final size:44
Alignment explanation
Indices: 45357--45518 Score: 195
Period size: 44 Copynumber: 3.7 Consensus size: 44
45347 GAGCAATTTA
* * *
45357 TTTTAAAAGTTGTTGAGCCTCTATTTAAAAGAGTTTTATTTA--
1 TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGTTTTATTTATT
* * * *
45399 TTTT-AAAGTTGTTGAGCCTCTGTTTAGAAAAGCTTTATTTATTT
1 TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGTTTTATTTA-TT
* * * *
45443 TTTTCAAAGTCGTTGAGCCTTTAATTAGAGGAGTTTTGTTTATT
1 TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGTTTTATTTATT
45487 TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGA
1 TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGA
45519 ACTTTGTTCA
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 33 0.33
42 4 0.04
44 35 0.35
45 29 0.29
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (44 bp):
TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGTTTTATTTATT
Found at i:45525 original size:44 final size:44
Alignment explanation
Indices: 45357--45568 Score: 196
Period size: 45 Copynumber: 4.8 Consensus size: 44
45347 GAGCAATTTA
* * * *
45357 TTTTAAAAGTTGTTGAGCCTCTATTTAAAAGAGTTTTATTTA--
1 TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGCTTTATTTATT
* * *
45399 TTTT-AAAGTTGTTGAGCCTCTGTTTAGAAAAGCTTTATTTATTT
1 TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGCTTTATTTA-TT
* * * * *
45443 TTTTCAAAGTCGTTGAGCCTTTAATTAGAGGAGTTTTGTTTATT
1 TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGCTTTATTTATT
* * *
45487 TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAACTTTGTTCATGT
1 TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGCTTTATTTAT-T
* * * * * *
45532 TTCTCAAAGGCATTAAGCCTCTACTTAAAAGAGCTTT
1 TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGCTTT
45569 CATCAAAATT
Statistics
Matches: 140, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
41 33 0.24
42 4 0.03
44 43 0.31
45 60 0.43
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (44 bp):
TTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGCTTTATTTATT
Found at i:45539 original size:89 final size:86
Alignment explanation
Indices: 45362--45564 Score: 219
Period size: 89 Copynumber: 2.3 Consensus size: 86
45352 ATTTATTTTA
* * * *
45362 AAAGTTGTTGAGCCTCTATTTAAAAGAGTTTTATTTATTTTAAAGTTGTTGAGCCTCTGTTTAGA
1 AAAGTCGTTGAGCCTCTAATTAAAAGAGTTTTATTTATTTTAAAGTCGTTGAGCCTCTATTTAGA
* * *
45427 AAAGCTTTATTTATTTTTTTC
66 AAAGCTTTATTCATGTTTCTC
* * * *
45448 AAAGTCGTTGAGCCTTTAATTAGAGGAGTTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTATTT
1 AAAGTCGTTGAGCCTCTAATTAAAAGAGTTTTATTTA--TTTT-AAAGTCGTTGAGCCTCTATTT
*
45513 AGAAGAA-CTTTGTTCATGTTTCTC
63 AGAA-AAGCTTTATTCATGTTTCTC
* * * *
45537 AAAGGCATTAAGCCTCTACTTAAAAGAG
1 AAAGTCGTTGAGCCTCTAATTAAAAGAG
45565 CTTTCATCAA
Statistics
Matches: 94, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
86 31 0.33
88 4 0.04
89 57 0.61
90 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (86 bp):
AAAGTCGTTGAGCCTCTAATTAAAAGAGTTTTATTTATTTTAAAGTCGTTGAGCCTCTATTTAGA
AAAGCTTTATTCATGTTTCTC
Found at i:45795 original size:16 final size:16
Alignment explanation
Indices: 45776--45855 Score: 55
Period size: 16 Copynumber: 5.2 Consensus size: 16
45766 TTTTATTTAT
45776 TATTATTATTAATATA
1 TATTATTATTAATATA
* *
45792 TATTGTT-TTTAT-TA
1 TATTATTATTAATATA
45806 T-TTATCTATTAATATA
1 TATTAT-TATTAATATA
*
45822 T-TTATTTATT--TATT
1 TATTA-TTATTAATATA
*
45836 TATTATCTATTAGTATA
1 TATTAT-TATTAATATA
45853 TAT
1 TAT
45856 ATTTTTATCT
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
13 3 0.06
14 9 0.18
15 15 0.30
16 16 0.32
17 7 0.14
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
TATTATTATTAATATA
Found at i:45804 original size:28 final size:28
Alignment explanation
Indices: 45766--45863 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 28
45756 GCATTTTTAT
45766 TTTTATTTATTATTAT-TATTAATATATA
1 TTTT-TTTATTATTATCTATTAATATATA
45794 TTGTTTTTATTATTTATCTATTAATATATTTA
1 TT-TTTTTATTA-TTATCTATTAATATA--TA
* *
45826 TTTATTTATTTATTATCTATTAGTATATA
1 TTTTTTTA-TTATTATCTATTAATATATA
*
45855 TATTTTTAT
1 TTTTTTTAT
45864 CTTTTTTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
28 10 0.17
29 14 0.23
30 10 0.17
31 19 0.32
32 7 0.12
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTTTTATTATTATCTATTAATATATA
Found at i:46612 original size:4 final size:4
Alignment explanation
Indices: 46603--46642 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
46593 TGTTAAGGTT
46603 TTTA TTTA TTTA TTTA TTTA TTT- TATTA -TTA -TTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TT
46643 ATTATTATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 7 0.21
4 26 0.79
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:46629 original size:13 final size:13
Alignment explanation
Indices: 46603--46686 Score: 58
Period size: 12 Copynumber: 6.9 Consensus size: 13
46593 TGTTAAGGTT
46603 TTTATTTA-TTTA
1 TTTATTTATTTTA
46615 TTTATTTATTTTA
1 TTTATTTATTTTA
46628 -TTA-TTA--TTA
1 TTTATTTATTTTA
46637 TTTA-TTATTATTA
1 TTTATTTATT-TTA
** *
46650 TTCCTTAATTTT-
1 TTTATTTATTTTA
46662 TATT-TTTATTTTA
1 T-TTATTTATTTTA
*
46675 TTTTTTTATTTT
1 TTTATTTATTTT
46687 TTATGATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
9 3 0.05
10 6 0.10
11 3 0.05
12 21 0.36
13 21 0.36
14 4 0.07
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:46666 original size:6 final size:6
Alignment explanation
Indices: 46601--46687 Score: 52
Period size: 6 Copynumber: 13.8 Consensus size: 6
46591 CGTGTTAAGG
* * * *
46601 TTTTTA TTTATT- TATTTA TTTATT- TTATTA TTATTA TTTATTA TTATTA
1 TTTTTA TTT-TTA TTTTTA TTT-TTA TTTTTA TTTTTA TTT-TTA TTTTTA
* *
46650 TTCCTTAA TTTTTA TTTTTA TTTTATT TTTTTA TTTTT
1 TT--TTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTT
46688 TATGATTTTC
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 41 0.65
7 14 0.22
8 4 0.06
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:46868 original size:63 final size:60
Alignment explanation
Indices: 46729--46932 Score: 254
Period size: 63 Copynumber: 3.3 Consensus size: 60
46719 ATTTAGGGAG
*
46729 AAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAGGTTT----AAAAAATATTTTGGGGAAA
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAA--TTTCAAAAAAAAATATTTTGAGG-AA
*
46788 AAGTTGAAAGTATCAATTTTCCTTGAAATTAAAAATTTCAGCAAAAAAAATATTTTTGAGGAA
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCA--AAAAAAAATA-TTTTGAGGAA
* * * *
46851 AAGTTGAAAGTACCAATTTTCCTTAAAAATAAAAATTATCAAGAAAAAAACATTTTAAGGAA
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATT-TCAA-AAAAAAATATTTTGAGGAA
46913 AAGTTGAAAGTATCAATTTT
1 AAGTTGAAAGTATCAATTTT
46933 TCTTCTACAA
Statistics
Matches: 128, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
57 3 0.02
59 34 0.27
62 29 0.23
63 52 0.41
64 10 0.08
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.32
Consensus pattern (60 bp):
AAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCAAAAAAAAATATTTTGAGGAA
Found at i:48281 original size:6 final size:6
Alignment explanation
Indices: 48272--48305 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
48262 ATAAGAGTTT
48272 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT
48306 TACAATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTATAA
Found at i:51560 original size:16 final size:14
Alignment explanation
Indices: 51512--51576 Score: 64
Period size: 13 Copynumber: 4.6 Consensus size: 14
51502 TATTAATATC
51512 ATATTAATAATATTA
1 ATATTAATAAT-TTA
* *
51527 TTATT-ATCATTT-
1 ATATTAATAATTTA
51539 ATATTAATCAATTATA
1 ATATTAAT-AATT-TA
51555 ATATTAATAATTTA
1 ATATTAATAATTTA
51569 A-ATTAATA
1 ATATTAATA
51577 TTATCAGAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 4 0.10
13 11 0.26
14 10 0.24
15 9 0.21
16 8 0.19
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATTAATAATTTA
Found at i:54061 original size:24 final size:24
Alignment explanation
Indices: 54008--54063 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
53998 AATATTTTAG
* *
54008 TAAATTTTTTTAATTACAGTTACAA
1 TAAA-TTTTTTAATCACAATTACAA
*
54033 T-AATTTTTTAATCACAATTATAA
1 TAAATTTTTTAATCACAATTACAA
54056 TAAATTTT
1 TAAATTTT
54064 ATTATTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 18 0.67
24 8 0.30
25 1 0.04
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (24 bp):
TAAATTTTTTAATCACAATTACAA
Found at i:55869 original size:21 final size:19
Alignment explanation
Indices: 55831--55871 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
55821 CGATTTTGAT
*
55831 TTTTTATTTTTGATTTTAA
1 TTTTTATTTTTCATTTTAA
55850 TTTTTATTTATTCATCTTTAA
1 TTTTTATTT-TTCAT-TTTAA
55871 T
1 T
55872 AAAAAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTATTTTTCATTTTAA
Found at i:58187 original size:34 final size:35
Alignment explanation
Indices: 58144--58212 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
58134 GAATGATAAT
58144 CATAAATGTAAGGTTTCACAAA-TTTTATCATATA
1 CATAAATGTAAGGTTTCACAAATTTTTATCATATA
58178 CATAAATGTAAGGTTTCACAAATTTTTATCATATA
1 CATAAATGTAAGGTTTCACAAATTTTTATCATATA
58213 ATTTACACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 22 0.65
35 12 0.35
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.39
Consensus pattern (35 bp):
CATAAATGTAAGGTTTCACAAATTTTTATCATATA
Found at i:58771 original size:15 final size:14
Alignment explanation
Indices: 58740--58775 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
58730 TTACTTGATG
58740 TTTTTGTTATTTAC
1 TTTTTGTTATTTAC
*
58754 TTTTTGTTATTTGC
1 TTTTTGTTATTTAC
*
58768 CTTTTGTT
1 TTTTTGTT
58776 TCTTGTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.08, C:0.08, G:0.11, T:0.72
Consensus pattern (14 bp):
TTTTTGTTATTTAC
Done.