Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold412
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: 4645160
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 17 of 32
Found at i:2228750 original size:18 final size:19
Alignment explanation
Indices: 2228714--2228751 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
2228704 TTTAGTTAAT
*
2228714 TTTAAAATTTATATCAAAA
1 TTTAAAATTAATATCAAAA
*
2228733 TTTAAAA-TAATATTAAAA
1 TTTAAAATTAATATCAAAA
2228751 T
1 T
2228752 GTTATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAAAATTAATATCAAAA
Found at i:2229854 original size:21 final size:22
Alignment explanation
Indices: 2229823--2229871 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
2229813 AATAAAATAA
2229823 GAAATAAAATTTG-ATTAA-ATTT
1 GAAA-AAAA-TTGCATTAATATTT
2229845 GAAAAAAATTGCATTAATATTT
1 GAAAAAAATTGCATTAATATTT
*
2229867 CAAAA
1 GAAAA
2229872 TATTATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.12
21 9 0.38
22 12 0.50
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (22 bp):
GAAAAAAATTGCATTAATATTT
Found at i:2230514 original size:24 final size:26
Alignment explanation
Indices: 2230487--2230552 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 26
2230477 TTATAGAAAA
2230487 AAAGAAAGAAAAAAAACAAGAAG-G-
1 AAAGAAAGAAAAAAAACAAGAAGAGT
* *
2230511 AAAGACAA-AAAAAAAAGAATAAGAGT
1 AAAGA-AAGAAAAAAAACAAGAAGAGT
2230537 AGAA-AAAGAAAAAAAA
1 A-AAGAAAGAAAAAAAA
2230553 AAAGGTGAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
24 18 0.51
25 5 0.14
26 10 0.29
27 2 0.06
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (26 bp):
AAAGAAAGAAAAAAAACAAGAAGAGT
Found at i:2230522 original size:21 final size:20
Alignment explanation
Indices: 2230490--2230529 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2230480 TAGAAAAAAA
*
2230490 GAAAGAAAAAAAACAAGAAG
1 GAAAGAAAAAAAAAAAGAAG
2230510 GAAAGACAAAAAAAAAAGAA
1 GAAAGA-AAAAAAAAAAGAA
2230530 TAAGAGTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (20 bp):
GAAAGAAAAAAAAAAAGAAG
Found at i:2230527 original size:13 final size:13
Alignment explanation
Indices: 2230481--2230528 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
2230471 TGAACTTTAT
2230481 AGAAAAAAAGA-A
1 AGAAAAAAAGACA
2230493 AGAAAAAAA-ACA
1 AGAAAAAAAGACA
**
2230505 AGAAGGAAAGACA
1 AGAAAAAAAGACA
*
2230518 AAAAAAAAAGA
1 AGAAAAAAAGA
2230529 ATAAGAGTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 1 0.03
12 17 0.59
13 11 0.38
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAGACA
Found at i:2231100 original size:15 final size:15
Alignment explanation
Indices: 2231080--2231129 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
2231070 AATAAATTCG
*
2231080 TAAAAATATATATTT
1 TAAAAAAATATATTT
2231095 TAAAAAAATAT-TTT
1 TAAAAAAATATATTT
2231109 TAAAAAAACT-TATTT
1 TAAAAAAA-TATATTT
2231124 TAAAAA
1 TAAAAA
2231130 TTAAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAAAAATATATTT
Found at i:2231107 original size:13 final size:13
Alignment explanation
Indices: 2231089--2231129 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 13
2231079 GTAAAAATAT
2231089 ATATTTTAAAAAA
1 ATATTTTAAAAAA
2231102 ATATTTTTAAAAAA
1 ATA-TTTTAAAAAA
2231116 ACTTATTTTAAAAA
1 A--TATTTTAAAAA
2231130 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.12
14 11 0.44
15 9 0.36
16 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATTTTAAAAAA
Found at i:2231145 original size:24 final size:22
Alignment explanation
Indices: 2231110--2231161 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
2231100 AAATATTTTT
* *
2231110 AAAAAAACTTATTTTAAAAATTA
1 AAAAAAAATTATTATAAAAA-TA
*
2231133 AAAAAATAATTATTATAATAATA
1 AAAAAA-AATTATTATAAAAATA
2231156 AAAAAA
1 AAAAAA
2231162 CCTCAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAAAAAATTATTATAAAAATA
Found at i:2231279 original size:8 final size:8
Alignment explanation
Indices: 2231266--2231291 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2231256 AAAAAAAGAG
2231266 AGAAGAAA
1 AGAAGAAA
2231274 AGAAGAAA
1 AGAAGAAA
2231282 AGAAGAAA
1 AGAAGAAA
2231290 AG
1 AG
2231292 GATCAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (8 bp):
AGAAGAAA
Found at i:2234606 original size:2 final size:2
Alignment explanation
Indices: 2234599--2234623 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2234589 ATGCTTATTC
2234599 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2234624 GATCAATATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2235442 original size:20 final size:20
Alignment explanation
Indices: 2235419--2235464 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2235409 ATTTAATACT
2235419 TATTTACTATCAAAATTATA
1 TATTTACTATCAAAATTATA
**
2235439 TATTTACTATTTAAATTATA
1 TATTTACTATCAAAATTATA
2235459 TATTTA
1 TATTTA
2235465 ATATTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTTACTATCAAAATTATA
Found at i:2235469 original size:20 final size:20
Alignment explanation
Indices: 2235431--2235475 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
2235421 TTTACTATCA
*
2235431 AAATTATATATTTACTATTT
1 AAATTATATATTTAATATTT
2235451 AAATTATATATTTAATATTT
1 AAATTATATATTTAATATTT
2235471 AAATT
1 AAATT
2235476 TTTATTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTATATATTTAATATTT
Found at i:2235488 original size:20 final size:20
Alignment explanation
Indices: 2235431--2235488 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
2235421 TTTACTATCA
* *
2235431 AAATTATATATTTACTATTT
1 AAATTATATATTAAATATTT
*
2235451 AAATTATATATTTAATATTT
1 AAATTATATATTAAATATTT
*
2235471 AAATT-TTTATTAATATAT
1 AAATTATATATTAA-ATAT
2235489 AATTAATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 6 0.18
20 28 0.82
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATTATATATTAAATATTT
Found at i:2235756 original size:27 final size:25
Alignment explanation
Indices: 2235692--2235840 Score: 91
Period size: 27 Copynumber: 5.9 Consensus size: 25
2235682 ACAACCTTTT
2235692 AATATTAT-TATTT-TGTATATTTAA
1 AATATTATATATTTAT-TATATTTAA
* *
2235716 ATATTTTTACATATTATAATTATATTTAA
1 A-A-TATTATATATT-T-ATTATATTTAA
*
2235745 AATATTATATATTTATATAAATTTTAA
1 AATATTATATATTTAT-TATA-TTTAA
*
2235772 AATATTA-ATAATTTA-TAT-TATATA
1 AATATTATAT-ATTTATTATATTTA-A
*
2235796 AATATTTATATATTTATT-TATAT-A
1 AATA-TTATATATTTATTATATTTAA
*
2235820 TATATTAT-T-TTTATTATATTT
1 AATATTATATATTTATTATATTT
2235841 TTTAATTTAT
Statistics
Matches: 101, Mismatches: 9, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
21 6 0.06
22 5 0.05
23 7 0.07
24 10 0.10
25 14 0.14
26 16 0.16
27 30 0.30
28 2 0.02
29 10 0.10
30 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.57
Consensus pattern (25 bp):
AATATTATATATTTATTATATTTAA
Found at i:2235762 original size:8 final size:8
Alignment explanation
Indices: 2235707--2235825 Score: 50
Period size: 8 Copynumber: 14.8 Consensus size: 8
2235697 TATTATTTTG
2235707 TATATTTA
1 TATATTTA
* *
2235715 AATATTTT
1 TATATTTA
*
2235723 TACATATTA
1 TATAT-TTA
2235732 TA-A-TTA
1 TATATTTA
*
2235738 TAT-TTAA
1 TATATTTA
*
2235745 AATA-TTA
1 TATATTTA
2235752 TATATTTA
1 TATATTTA
2235760 TATAAATTTTAA
1 TAT--A-TTT-A
* *
2235772 AATATTAA
1 TATATTTA
2235780 TA-ATTTA
1 TATATTTA
*
2235787 TATTATATA
1 TA-TATTTA
*
2235796 AATATTTA
1 TATATTTA
2235804 TATATTTA
1 TATATTTA
* *
2235812 TTTATATA
1 TATATTTA
2235820 TATATT
1 TATATT
2235826 ATTTTTATTA
Statistics
Matches: 79, Mismatches: 21, Indels: 22
0.65 0.17 0.18
Matches are distributed among these distances:
6 5 0.06
7 15 0.19
8 40 0.51
9 11 0.14
10 2 0.03
11 3 0.04
12 3 0.04
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.55
Consensus pattern (8 bp):
TATATTTA
Found at i:2235765 original size:20 final size:20
Alignment explanation
Indices: 2235726--2235765 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2235716 ATATTTTTAC
*
2235726 ATATTATAATTATATTTAAA
1 ATATTATAATTATATATAAA
2235746 ATATTATATATT-TATATAAA
1 ATATTATA-ATTATATATAAA
2235766 TTTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTATAATTATATATAAA
Found at i:2235806 original size:12 final size:12
Alignment explanation
Indices: 2235753--2235825 Score: 50
Period size: 12 Copynumber: 6.4 Consensus size: 12
2235743 AAAATATTAT
2235753 ATATTTATAT-A
1 ATATTTATATAA
2235764 A-ATTT-TA-AA
1 ATATTTATATAA
2235773 ATA-TTA-ATAA
1 ATATTTATATAA
*
2235783 TTTATATTATATAA
1 -ATAT-TTATATAA
*
2235797 ATATTTATATAT
1 ATATTTATATAA
* *
2235809 TTATTTATATAT
1 ATATTTATATAA
2235821 ATATT
1 ATATT
2235826 ATTTTTATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
9 7 0.14
10 7 0.14
11 3 0.06
12 22 0.45
13 6 0.12
14 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATTTATATAA
Found at i:2235816 original size:24 final size:24
Alignment explanation
Indices: 2235726--2235826 Score: 79
Period size: 24 Copynumber: 4.2 Consensus size: 24
2235716 ATATTTTTAC
2235726 ATATT-ATAA-TTATATT-TA-AA
1 ATATTAATAATTTATATTATATAA
* *
2235746 ATATT-ATATATTTATATAAATTTTAAA
1 ATATTAATA-ATTTATAT-TA-TAT-AA
2235773 ATATTAATAATTTATATTATATAA
1 ATATTAATAATTTATATTATATAA
* *
2235797 ATATTTATATATTTAT-TTATATAT
1 ATATTAATA-ATTTATATTATATAA
2235821 ATATTA
1 ATATTA
2235827 TTTTTATTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
20 8 0.12
21 1 0.02
22 6 0.09
24 22 0.34
25 9 0.14
26 1 0.02
27 15 0.23
28 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTAATAATTTATATTATATAA
Found at i:2235823 original size:16 final size:16
Alignment explanation
Indices: 2235802--2235844 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
2235792 TATAAATATT
2235802 TATATATTTATTTATA
1 TATATATTTATTTATA
*
2235818 TATATA-TTATTTTTA
1 TATATATTTATTTATA
2235833 T-TATATTT-TTTA
1 TATATATTTATTTA
2235845 ATTTATCAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.29
15 11 0.46
16 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATATTTATTTATA
Found at i:2236192 original size:16 final size:17
Alignment explanation
Indices: 2236171--2236225 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 17
2236161 CACGTTATAA
2236171 TTATATTTA-A-AATATT
1 TTATATTTACATAA-ATT
2236187 TTATATTTACATAAATT
1 TTATATTTACATAAATT
*
2236204 TTATAATATTATATAAATT
1 TTAT-AT-TTACATAAATT
2236223 TTA
1 TTA
2236226 AAATATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
16 9 0.26
17 8 0.24
18 4 0.12
19 13 0.38
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATATTTACATAAATT
Found at i:2236219 original size:19 final size:19
Alignment explanation
Indices: 2236184--2236232 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
2236174 TATTTAAAAT
2236184 ATTTTAT-AT-TTACATAA
1 ATTTTATAATATTACATAA
*
2236201 ATTTTATAATATTATATAA
1 ATTTTATAATATTACATAA
*
2236220 ATTTTAAAATATT
1 ATTTTATAATATT
2236233 TATTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.25
18 2 0.07
19 19 0.68
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTATAATATTACATAA
Found at i:2241837 original size:18 final size:18
Alignment explanation
Indices: 2241789--2241829 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2241779 GACGATCATA
2241789 AGGA-AAAGAAGGAGAAGC
1 AGGAGAAAGAA-GAGAAGC
*
2241807 ATGAGAAAGAAGAGAAGC
1 AGGAGAAAGAAGAGAAGC
2241825 AGGAG
1 AGGAG
2241830 GGAGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.54, C:0.05, G:0.39, T:0.02
Consensus pattern (18 bp):
AGGAGAAAGAAGAGAAGC
Found at i:2241875 original size:12 final size:12
Alignment explanation
Indices: 2241830--2241886 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
2241820 GAAGCAGGAG
2241830 GGAGAAGAAAATA
1 GGAGAAGAAAA-A
* *
2241843 AG-GAAGAAAAT
1 GGAGAAGAAAAA
*
2241854 GGAG-ATAAAAA
1 GGAGAAGAAAAA
2241865 GGAGAAGAAAAA
1 GGAGAAGAAAAA
*
2241877 GAAGAAGAAA
1 GGAGAAGAAA
2241887 GACAAGGAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
11 10 0.29
12 24 0.69
13 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (12 bp):
GGAGAAGAAAAA
Found at i:2243218 original size:2 final size:2
Alignment explanation
Indices: 2243211--2243254 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2243201 TCTTGAAGCA
2243211 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2243253 CT
1 CT
2243255 ATGGCGATGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2246187 original size:2 final size:2
Alignment explanation
Indices: 2246180--2246208 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2246170 AGTCTATTAT
2246180 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
2246209 AAAACACTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2253018 original size:18 final size:17
Alignment explanation
Indices: 2252984--2253040 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 17
2252974 TAAAAATTAA
*
2252984 TTAATTA-AATATTTTT
1 TTAATTATAATATATTT
* *
2253000 TTAATTTTAATTTACTTT
1 TTAATTATAATATA-TTT
*
2253018 TTAAATATAATATATTT
1 TTAATTATAATATATTT
2253035 TTAATT
1 TTAATT
2253041 GTGAGTGTGG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 6 0.19
17 12 0.38
18 14 0.44
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TTAATTATAATATATTT
Found at i:2254514 original size:24 final size:24
Alignment explanation
Indices: 2254462--2254519 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
2254452 ATGTTATATT
*
2254462 AATT-AATTATTTTTATTTATTTA
1 AATTAAATTATTTTTATATATTTA
2254485 ATATTAAATTATTTTTA-ATATTTA
1 A-ATTAAATTATTTTTATATATTTA
*
2254509 GAATTATATTA
1 -AATTAAATTA
2254520 ATCAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 1 0.03
24 17 0.57
25 12 0.40
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
AATTAAATTATTTTTATATATTTA
Found at i:2255033 original size:24 final size:25
Alignment explanation
Indices: 2254995--2255042 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
2254985 TTAAGGATTT
* *
2254995 ATTTATATATAAATTAAAACTTAAG
1 ATTTATATAGAAATTAAAAATTAAG
2255020 ATTTA-ATAGAAATTAAAAATTAA
1 ATTTATATAGAAATTAAAAATTAA
2255043 AAGCATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTTATATAGAAATTAAAAATTAAG
Found at i:2256024 original size:20 final size:20
Alignment explanation
Indices: 2255991--2256035 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
2255981 CTTCTTATTA
2255991 ATAAAAAATAATTTTAAACAC
1 ATAAAAAATAATTTTAAA-AC
2256012 ATAAAAAAT-ATTTTAAAAC
1 ATAAAAAATAATTTTAAAAC
2256031 ATAAA
1 ATAAA
2256036 TAAAGACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAAAATAATTTTAAAAC
Found at i:2256927 original size:33 final size:37
Alignment explanation
Indices: 2256890--2256960 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
2256880 AAAATTTAAT
2256890 TATTTAA-TAAAAAT-A-AAAATA-ATTTAATAAATA
1 TATTTAAGTAAAAATAATAAAATATATTTAATAAATA
* *
2256923 TATTTAAGTAAAATTAATAAAATATTTTTAATAAATA
1 TATTTAAGTAAAAATAATAAAATATATTTAATAAATA
2256960 T
1 T
2256961 CATATTCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 7 0.22
34 6 0.19
35 1 0.03
36 6 0.19
37 12 0.38
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (37 bp):
TATTTAAGTAAAAATAATAAAATATATTTAATAAATA
Found at i:2256952 original size:24 final size:22
Alignment explanation
Indices: 2256913--2256957 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
2256903 TAAAAATAAT
2256913 TTAATAAATATATTTAAGTAAAA
1 TTAATAAATATATTTAA-TAAAA
*
2256936 TTAATAAAATATTTTTAATAAA
1 TTAAT-AAATATATTTAATAAA
2256958 TATCATATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAATAAATATATTTAATAAAA
Found at i:2257015 original size:23 final size:23
Alignment explanation
Indices: 2256954--2257015 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
2256944 ATATTTTTAA
*
2256954 TAAATATCATATTCATATTTAAAAT
1 TAAATAT-A-ATTAATATTTAAAAT
* * *
2256979 TATAATATATTTAATATTTATATT
1 TA-AATATAATTAATATTTAAAAT
2257003 TAAATATAATTAA
1 TAAATATAATTAA
2257016 AAAAATAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 10 0.32
24 13 0.42
25 3 0.10
26 5 0.16
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAATATAATTAATATTTAAAAT
Found at i:2266336 original size:27 final size:29
Alignment explanation
Indices: 2266280--2266335 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
2266270 ATGAAATTAA
*
2266280 AATAATTTATGGAATTTTTTCAATGAAAAT
1 AATAATTTATGGAATTTTTTAAAT-AAAAT
2266310 AATAATTTATGGAA-TTTTTAAATAAA
1 AATAATTTATGGAATTTTTTAAATAAA
2266336 TTTTATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.12
29 8 0.32
30 14 0.56
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (29 bp):
AATAATTTATGGAATTTTTTAAATAAAAT
Found at i:2267033 original size:37 final size:35
Alignment explanation
Indices: 2266946--2267035 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 35
2266936 TCATTTAATT
2266946 TTATTA-TTTATTTTATAATAAAATAAATAAAAAA
1 TTATTATTTTATTTTATAATAAAATAAATAAAAAA
*
2266980 TTATT-TTTATATTTTATAATTAAATTTAAAT-AAAAA
1 TTATTATTT-TATTTTATAA-TAAA-ATAAATAAAAAA
*
2267016 TATATTATTTTAATTTATAA
1 T-TATTATTTTATTTTATAA
2267036 ATATTATTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
34 7 0.15
35 10 0.21
36 10 0.21
37 18 0.38
38 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
TTATTATTTTATTTTATAATAAAATAAATAAAAAA
Found at i:2268441 original size:2 final size:2
Alignment explanation
Indices: 2268436--2268470 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2268426 ATAAATTTTT
2268436 TA TA TA TA TA 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 TA TA TA TA TA T
2268471 TGACTTGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2271756 original size:20 final size:19
Alignment explanation
Indices: 2271731--2271775 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2271721 TTATATAATA
2271731 TTTATAAATATTTTGTATAT
1 TTTATAAATATTTT-TATAT
**
2271751 TTTATATTTATTTTTATAT
1 TTTATAAATATTTTTATAT
2271770 TTTATA
1 TTTATA
2271776 TTAATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTATAAATATTTTTATAT
Found at i:2271758 original size:7 final size:7
Alignment explanation
Indices: 2271746--2271777 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
2271736 AAATATTTTG
2271746 TATATTT
1 TATATTT
2271753 TATA-TT
1 TATATTT
2271759 TAT-TTT
1 TATATTT
2271765 TATATTT
1 TATATTT
2271772 TATATT
1 TATATT
2271778 AATTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 10 0.43
7 13 0.57
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATATTT
Found at i:2271772 original size:19 final size:20
Alignment explanation
Indices: 2271739--2271777 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
2271729 TATTTATAAA
2271739 TATTTTGTATATTTTATATT
1 TATTTTGTATATTTTATATT
2271759 TATTTT-TATATTTTATATT
1 TATTTTGTATATTTTATATT
2271778 AATTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TATTTTGTATATTTTATATT
Found at i:2272235 original size:4 final size:4
Alignment explanation
Indices: 2272226--2272263 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
2272216 ACGTGGTGGA
2272226 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA- AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
2272264 AAAATTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:2272265 original size:8 final size:8
Alignment explanation
Indices: 2272225--2272267 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
2272215 CACGTGGTGG
2272225 AAAAGAAA
1 AAAAGAAA
*
2272233 GAAAGAAA
1 AAAAGAAA
*
2272241 GAAAGAAA
1 AAAAGAAA
*
2272249 GAAAG-AA
1 AAAAGAAA
2272256 AAAAGAAA
1 AAAAGAAA
2272264 AAAA
1 AAAA
2272268 TTTATATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 6 0.19
8 26 0.81
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:2272308 original size:25 final size:25
Alignment explanation
Indices: 2272279--2272351 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 25
2272269 TTATATATTT
2272279 ATATTTATATTTTTTTATTTTTAAA
1 ATATTTATATTTTTTTATTTTTAAA
* *
2272304 ATA-TTATATTTTTATATTTTTTAAT
1 ATATTTATATTTTTTTA-TTTTTAAA
*
2272329 ATATTAATAATTTATTTTATTTT
1 ATATTTAT-ATTT-TTTTATTTT
2272352 ATGTATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 12 0.30
25 13 0.32
26 3 0.08
27 8 0.20
28 4 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
ATATTTATATTTTTTTATTTTTAAA
Found at i:2272310 original size:24 final size:24
Alignment explanation
Indices: 2272283--2272351 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 24
2272273 ATATTTATAT
2272283 TTATATTTTTTTATTTTTAAAATA
1 TTATATTTTTTTATTTTTAAAATA
* *
2272307 TTATATTTTTATATTTTTTAATATA
1 TTATATTTTTTTA-TTTTTAAAATA
2272332 TTAATAATTTATTTTATTTT
1 TT-AT-ATTT-TTTTATTTT
2272352 ATGTATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
24 12 0.32
25 12 0.32
26 2 0.05
27 8 0.21
28 4 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTATATTTTTTTATTTTTAAAATA
Found at i:2272486 original size:8 final size:8
Alignment explanation
Indices: 2272473--2272514 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
2272463 TATAAATATT
2272473 TTTTTATA
1 TTTTTATA
2272481 TTTTTATA
1 TTTTTATA
2272489 TTTTTATTA
1 TTTTTA-TA
*
2272498 TATTTAT-
1 TTTTTATA
2272505 TTTTTATA
1 TTTTTATA
2272513 TT
1 TT
2272515 GTGTTTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 6 0.20
8 17 0.57
9 7 0.23
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTATA
Found at i:2272503 original size:17 final size:18
Alignment explanation
Indices: 2272468--2272565 Score: 62
Period size: 18 Copynumber: 5.5 Consensus size: 18
2272458 ATATTTATAA
2272468 ATATTTTT-TTATATTTTT
1 ATATTTTTATTATA-TTTT
2272486 ATATTTTTATTATA-TTT
1 ATATTTTTATTATATTTT
* * *
2272503 ATTTTTTATATTGTGTTTT
1 ATATTTT-TATTATATTTT
2272522 A-ATTAATTT-TTA-ATTTT
1 ATATT--TTTATTATATTTT
** *
2272539 ATATTCGTATTATTTTTT
1 ATATTTTTATTATATTTT
*
2272557 ATATATTTA
1 ATATTTTTA
2272566 AAAAATTAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
16 1 0.02
17 17 0.28
18 30 0.50
19 10 0.17
20 2 0.03
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (18 bp):
ATATTTTTATTATATTTT
Found at i:2272508 original size:24 final size:23
Alignment explanation
Indices: 2272476--2272565 Score: 78
Period size: 24 Copynumber: 3.8 Consensus size: 23
2272466 AAATATTTTT
2272476 TTATATTTTTATATTTTTATTATA
1 TTAT-TTTTTATATTTTTATTATA
2272500 TTTATTTTTTATATTGTGTT-TTA-A
1 -TTATTTTTTATATT-T-TTATTATA
* *
2272524 TTAATTTTTA-ATTTTATATTCGTA
1 TTATTTTTTATATTTT-TATT-ATA
*
2272548 TTATTTTTTATATATTTA
1 TTATTTTTTATATTTTTA
2272566 AAAAATTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
20 1 0.02
21 2 0.04
22 5 0.09
23 9 0.17
24 23 0.43
25 12 0.22
26 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (23 bp):
TTATTTTTTATATTTTTATTATA
Found at i:2274074 original size:20 final size:21
Alignment explanation
Indices: 2274035--2274074 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2274025 ATTTTTATAT
* *
2274035 AAAATATTATATTTTTATAAA
1 AAAATATTATATATTAATAAA
2274056 AAAAT-TTATATATTAATAA
1 AAAATATTATATATTAATAA
2274075 TTTATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATATTATATATTAATAAA
Found at i:2274096 original size:11 final size:11
Alignment explanation
Indices: 2274082--2274106 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2274072 TAATTTATTT
2274082 TATTTTATATA
1 TATTTTATATA
2274093 TATTTTATATA
1 TATTTTATATA
2274104 TAT
1 TAT
2274107 ATATATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATATA
Found at i:2274779 original size:24 final size:25
Alignment explanation
Indices: 2274748--2274795 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2274738 ACTTTAAATT
2274748 AAATTATTA-TAATAAA-ATATGAA
1 AAATTATTATTAATAAAGATATGAA
2274771 AAATATATTATTAATAAAGATATGA
1 AAAT-TATTATTAATAAAGATATGA
2274796 CACGAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.18
24 5 0.23
25 7 0.32
26 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (25 bp):
AAATTATTATTAATAAAGATATGAA
Found at i:2275499 original size:14 final size:15
Alignment explanation
Indices: 2275473--2275506 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2275463 TTAATTATTT
2275473 TATTTATAAATAATA
1 TATTTATAAATAATA
2275488 TATTTA-AAATAATA
1 TATTTATAAATAATA
*
2275502 AATTT
1 TATTT
2275507 TAACGTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTTATAAATAATA
Found at i:2275592 original size:17 final size:17
Alignment explanation
Indices: 2275570--2275623 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
2275560 TTAAATACAT
2275570 AATTATTATTTAATAAA
1 AATTATTATTTAATAAA
*
2275587 AATTATT-TTATAAT-TA
1 AATTATTATT-TAATAAA
* *
2275603 AATTTTTA-TTAATAAT
1 AATTATTATTTAATAAA
2275619 AATTA
1 AATTA
2275624 AAATTTATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
15 4 0.14
16 14 0.48
17 11 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTATTATTTAATAAA
Found at i:2275637 original size:18 final size:21
Alignment explanation
Indices: 2275596--2275638 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2275586 AAATTATTTT
*
2275596 ATAATTAAATTTTTATTAATA
1 ATAATTAAATATTTATTAATA
2275617 ATAATTAAA-ATTTA-TAA-A
1 ATAATTAAATATTTATTAATA
2275635 ATAA
1 ATAA
2275639 AAAAAATCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 3 0.14
20 4 0.19
21 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAATTAAATATTTATTAATA
Found at i:2275771 original size:4 final size:4
Alignment explanation
Indices: 2275753--2275809 Score: 66
Period size: 4 Copynumber: 14.8 Consensus size: 4
2275743 TCCATCTGAA
* *
2275753 AAAG AAA- AGAAG AAAG AAA- AAAA AAAG AAAG AAAG AAAG AAGG AAA-
1 AAAG AAAG A-AAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
2275799 AAAG AAAG AAA
1 AAAG AAAG AAA
2275810 AAGATTATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
3 7 0.15
4 38 0.83
5 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:2275778 original size:23 final size:22
Alignment explanation
Indices: 2275751--2275813 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
2275741 ATTCCATCTG
2275751 AAAAAGAAAAGAAGAAAGAAAAA
1 AAAAAG-AAAGAAGAAAGAAAAA
**
2275774 AAAAAGAAAGAAAGAAAGAAGGA
1 AAAAAGAAAG-AAGAAAGAAAAA
2275797 AAAAAGAAAGAA-AAAGA
1 AAAAAGAAAGAAGAAAGA
2275814 TTATATGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.14
22 6 0.16
23 26 0.70
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAGAAGAAAGAAAAA
Found at i:2275780 original size:15 final size:17
Alignment explanation
Indices: 2275752--2275813 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 17
2275742 TTCCATCTGA
2275752 AAAAGAAAAGAAGAAAG
1 AAAAGAAAAGAAGAAAG
2275769 AAAA-AAAA-AAGAAAG
1 AAAAGAAAAGAAGAAAG
*
2275784 -AAAG-AAAGAAGGAA-
1 AAAAGAAAAGAAGAAAG
2275798 AAAAG-AAAGAA-AAAG
1 AAAAGAAAAGAAGAAAG
2275813 A
1 A
2275814 TTATATGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 8 0.21
15 23 0.59
16 4 0.10
17 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAAGAAAG
Found at i:2275784 original size:19 final size:19
Alignment explanation
Indices: 2275750--2275813 Score: 87
Period size: 19 Copynumber: 3.4 Consensus size: 19
2275740 GATTCCATCT
2275750 GAAAAAGAAAAG-AAGAAA
1 GAAAAAGAAAAGAAAGAAA
*
2275768 GAAAAAAAAAAGAAAGAAA
1 GAAAAAGAAAAGAAAGAAA
*
2275787 GAAAGAAGGAAA-AAAGAAA
1 GAAA-AAGAAAAGAAAGAAA
2275806 GAAAAAGA
1 GAAAAAGA
2275814 TTATATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
18 14 0.35
19 21 0.52
20 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
GAAAAAGAAAAGAAAGAAA
Found at i:2275909 original size:37 final size:33
Alignment explanation
Indices: 2275827--2275915 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 33
2275817 TATGTTTATA
*
2275827 TTTATATTTTTTTATAT-TTAAAATATTATATT
1 TTTATATATTTTTATATATTAAAATATTATATT
*
2275859 TTTATATATTTTTTATATATTAATAATTTATTTTATT
1 TTTATATA-TTTTTATATATTAA-AA--TATTATATT
*
2275896 TTATGTATATTTTTATATAT
1 TT-TATATATTTTTATATAT
2275916 ATATATATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
32 7 0.15
33 9 0.19
34 4 0.08
35 2 0.04
37 21 0.44
38 5 0.10
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (33 bp):
TTTATATATTTTTATATATTAAAATATTATATT
Found at i:2275911 original size:12 final size:12
Alignment explanation
Indices: 2275853--2275917 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
2275843 TTTAAAATAT
2275853 TATATTTTTATA
1 TATATTTTTATA
2275865 TAT-TTTTTATA
1 TATATTTTTATA
*
2275876 TATTAATAATTTAT-
1 TA-T-AT-TTTTATA
* *
2275890 TTTA-TTTTATG
1 TATATTTTTATA
2275901 TATATTTTTATA
1 TATATTTTTATA
2275913 TATAT
1 TATAT
2275918 ATATATATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
10 5 0.12
11 13 0.31
12 16 0.38
13 1 0.02
14 2 0.05
15 5 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (12 bp):
TATATTTTTATA
Found at i:2275914 original size:10 final size:10
Alignment explanation
Indices: 2275853--2275925 Score: 55
Period size: 10 Copynumber: 7.5 Consensus size: 10
2275843 TTTAAAATAT
2275853 TATATTTTTA
1 TATATTTTTA
2275863 TATATTTTT-
1 TATATTTTTA
* *
2275872 TATATATTAA
1 TATATTTTTA
2275882 TA-ATTTATT-
1 TATATTT-TTA
*
2275891 T-TATTTTATG
1 TATATTTT-TA
2275901 TATATTTTTA
1 TATATTTTTA
* *
2275911 TATATATATA
1 TATATTTTTA
2275921 TATAT
1 TATAT
2275926 GTGTATTTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
8 1 0.02
9 16 0.32
10 27 0.54
11 6 0.12
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (10 bp):
TATATTTTTA
Found at i:2275933 original size:37 final size:36
Alignment explanation
Indices: 2275829--2275933 Score: 94
Period size: 37 Copynumber: 2.9 Consensus size: 36
2275819 TGTTTATATT
* *
2275829 TATATTTTTT-TATATT--TAAAATATTATATTTTTA
1 TATATTTTTTATATATTAATAATATATTGTA-TTTTA
* *
2275863 TATATTTTTTATATATTAATAATTTATTTTATTTTA
1 TATATTTTTTATATATTAATAATATATTGTATTTTA
*
2275899 TGTATATTTTTATATA-T-ATATATATATGTGTATTT
1 TATAT-TTTTTATATATTAATA-ATATAT-TGTATTT
2275934 GTATTATGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
34 10 0.17
35 9 0.15
36 15 0.25
37 25 0.42
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (36 bp):
TATATTTTTTATATATTAATAATATATTGTATTTTA
Found at i:2276097 original size:11 final size:11
Alignment explanation
Indices: 2276083--2276121 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
2276073 TCATATTGTG
2276083 TTTATATTATT
1 TTTATATTATT
*
2276094 TTTATATTATA
1 TTTATATTATT
*
2276105 TTTAAATT-TT
1 TTTATATTATT
2276115 TTTATAT
1 TTTATAT
2276122 CTATCTATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTATATTATT
Found at i:2276490 original size:11 final size:11
Alignment explanation
Indices: 2276474--2276529 Score: 60
Period size: 11 Copynumber: 4.8 Consensus size: 11
2276464 CGAATATTCG
2276474 TATTATGTTTT
1 TATTATGTTTT
2276485 TATTATGTTTTTTT
1 TATTATG---TTTT
2276499 TATTATGTTTT
1 TATTATGTTTT
*
2276510 AATTAT-TTTT
1 TATTATGTTTT
2276520 TATTTATGTT
1 TA-TTATGTT
2276530 GTGTTAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 5 0.13
11 20 0.53
12 2 0.05
14 11 0.29
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (11 bp):
TATTATGTTTT
Found at i:2276500 original size:14 final size:14
Alignment explanation
Indices: 2276481--2276509 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2276471 TCGTATTATG
2276481 TTTTTATTATGTTT
1 TTTTTATTATGTTT
2276495 TTTTTATTATGTTT
1 TTTTTATTATGTTT
2276509 T
1 T
2276510 AATTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTTATTATGTTT
Found at i:2276507 original size:25 final size:25
Alignment explanation
Indices: 2276474--2276526 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
2276464 CGAATATTCG
*
2276474 TATTATGTTTTTATTATGTTTTT-TT
1 TATTATGTTTTAATTAT-TTTTTATT
2276499 TATTATGTTTTAATTATTTTTTATT
1 TATTATGTTTTAATTATTTTTTATT
2276524 TAT
1 TAT
2276527 GTTGTGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (25 bp):
TATTATGTTTTAATTATTTTTTATT
Found at i:2276536 original size:25 final size:25
Alignment explanation
Indices: 2276474--2276537 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
2276464 CGAATATTCG
* *
2276474 TATTATGTTTTTATTATGTTTTTTT
1 TATTATGTGTTAATTATGTTTTTTT
*
2276499 TATTATGTTTTAATTAT-TTTTTATT
1 TATTATGTGTTAATTATGTTTTT-TT
2276524 TATGT-TGTGTTAAT
1 TAT-TATGTGTTAAT
2276538 ATCGTAGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 5 0.14
25 29 0.83
26 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.70
Consensus pattern (25 bp):
TATTATGTGTTAATTATGTTTTTTT
Found at i:2277142 original size:18 final size:16
Alignment explanation
Indices: 2277115--2277151 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
2277105 TATTCGTGTA
2277115 TTTTTATTTTGTTTATT
1 TTTTTATTTTGTTT-TT
2277132 TTTTGTATTTTGTTTTT
1 TTTT-TATTTTGTTTTT
2277149 TTT
1 TTT
2277152 AGATTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (16 bp):
TTTTTATTTTGTTTTT
Found at i:2277614 original size:19 final size:18
Alignment explanation
Indices: 2277581--2277621 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
2277571 AATAAAGAAC
2277581 ATAAAAATTTTATTTAA-
1 ATAAAAATTTTATTTAAT
2277598 ATAAATAATTATTATTTAAT
1 ATAAA-AATT-TTATTTAAT
2277618 ATAA
1 ATAA
2277622 TTTAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 8 0.38
20 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAAAAATTTTATTTAAT
Found at i:2277618 original size:18 final size:17
Alignment explanation
Indices: 2277581--2277633 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 17
2277571 AATAAAGAAC
2277581 ATAAAAATTTTATTTAA
1 ATAAAAATTTTATTTAA
2277598 ATAAATAATTATTATTT-A
1 ATAAA-AATT-TTATTTAA
* *
2277616 AT-ATAATTTAATTTAA
1 ATAAAAATTTTATTTAA
2277632 AT
1 AT
2277634 TATATAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 5 0.16
16 7 0.23
17 6 0.19
18 7 0.23
19 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAAAAATTTTATTTAA
Found at i:2278634 original size:26 final size:26
Alignment explanation
Indices: 2278604--2278654 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
2278594 TTTTTGAATT
2278604 GTATATTTGATTCTTAATAAGAATAC
1 GTATATTTGATTCTTAATAAGAATAC
2278630 GTATATTTGATTCTTAATAAGAATA
1 GTATATTTGATTCTTAATAAGAATA
2278655 AGAGTTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (26 bp):
GTATATTTGATTCTTAATAAGAATAC
Found at i:2279310 original size:22 final size:22
Alignment explanation
Indices: 2279282--2279324 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2279272 AAAATTTTAA
2279282 TAATAATAACATAAATTAAAGC
1 TAATAATAACATAAATTAAAGC
*
2279304 TAATAATAATATAAATTAAAG
1 TAATAATAACATAAATTAAAG
2279325 GTATTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (22 bp):
TAATAATAACATAAATTAAAGC
Found at i:2279821 original size:19 final size:18
Alignment explanation
Indices: 2279797--2279855 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
2279787 TTTTTATGAG
2279797 AAAAATAGATAATTTTTAAA
1 AAAAATA-ATAA-TTTTAAA
* *
2279817 AAAATTATTAATTTTAAA
1 AAAAATAATAATTTTAAA
*
2279835 AAAAATTATAA--TTAAA
1 AAAAATAATAATTTTAAA
2279851 AAAAA
1 AAAAA
2279856 AGTTACATTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 10 0.29
18 15 0.44
19 3 0.09
20 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAATAATAATTTTAAA
Found at i:2279831 original size:18 final size:18
Alignment explanation
Indices: 2279805--2279855 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 18
2279795 AGAAAAATAG
*
2279805 ATAATTTTTAAAAAAATT
1 ATAATTTTAAAAAAAATT
2279823 ATTAATTTTAAAAAAAATT
1 A-TAATTTTAAAAAAAATT
2279842 ATAA--TTAAAAAAAA
1 ATAATTTTAAAAAAAA
2279856 AGTTACATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 10 0.32
18 4 0.13
19 17 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATTTTAAAAAAAATT
Found at i:2279856 original size:19 final size:19
Alignment explanation
Indices: 2279814--2279856 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
2279804 GATAATTTTT
**
2279814 AAAAAAATTATTAATTTTA
1 AAAAAAATTATTAATTAAA
2279833 AAAAAAATTA-TAATTAAA
1 AAAAAAATTATTAATTAAA
2279851 AAAAAA
1 AAAAAA
2279857 GTTACATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAAAATTATTAATTAAA
Found at i:2280509 original size:2 final size:2
Alignment explanation
Indices: 2280502--2280536 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
2280492 CATGGAATAC
* *
2280502 AT AT AT AT AT AC AT AT AT AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2280537 GTAGTTGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:2281988 original size:20 final size:20
Alignment explanation
Indices: 2281942--2281997 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
2281932 TAATGACATG
* * *
2281942 GTGTTGATTTTGTTGATGTG
1 GTGTTGATCTTGTTGACGTA
* *
2281962 GTCTTGATCTTGTTGGCGTA
1 GTGTTGATCTTGTTGACGTA
2281982 GTGTTGA-CATTGTTGA
1 GTGTTGATC-TTGTTGA
2281998 TGTGGCTTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.12, C:0.07, G:0.32, T:0.48
Consensus pattern (20 bp):
GTGTTGATCTTGTTGACGTA
Found at i:2284997 original size:6 final size:6
Alignment explanation
Indices: 2284961--2285043 Score: 55
Period size: 6 Copynumber: 13.7 Consensus size: 6
2284951 TTAATACTAC
* * * *
2284961 ATATTT AATATAT ATATAT ATATATT ATATTT ATATTTT AAATTT -TA-AT
1 ATATTT -ATATTT ATATTT ATAT-TT ATATTT ATA-TTT ATATTT ATATTT
* *
2285010 ATATTT AAAATTT ATA-TA ATATTT ATATTT ATAT
1 ATATTT -ATATTT ATATTT ATATTT ATATTT ATAT
2285044 AATTAATATA
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
4 1 0.02
5 7 0.12
6 32 0.53
7 20 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
ATATTT
Found at i:2285026 original size:15 final size:15
Alignment explanation
Indices: 2284989--2285027 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
2284979 TATATATTAT
2284989 ATTTATAT-TTTAAA
1 ATTTATATATTTAAA
*
2285003 TTTTAATATATTTAAA
1 ATTT-ATATATTTAAA
2285019 ATTTATATA
1 ATTTATATA
2285028 ATATTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 9 0.43
16 9 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATATATTTAAA
Found at i:2285039 original size:17 final size:17
Alignment explanation
Indices: 2284961--2285046 Score: 59
Period size: 17 Copynumber: 4.8 Consensus size: 17
2284951 TTAATACTAC
*
2284961 ATATTTAATATATATATAT
1 ATATTT-ATATA-ATATTT
*
2284980 ATATATTATATTTATATTTT
1 ATAT-TTATA-TAATA-TTT
*
2285000 AAATTT-TA-ATATATTT
1 ATATTTATATA-ATATTT
*
2285016 AAAATTTATATAATATTT
1 -ATATTTATATAATATTT
2285034 ATATTTATATAAT
1 ATATTTATATAAT
2285047 TAATATAGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
16 3 0.05
17 21 0.38
18 10 0.18
19 13 0.24
20 8 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTTATATAATATTT
Found at i:2287056 original size:21 final size:21
Alignment explanation
Indices: 2287018--2287057 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2287008 TTTTAATTAA
*
2287018 TATATATTAAAAAGTTAAACT
1 TATATATTAAAAACTTAAACT
* *
2287039 TATATTTTAAAATCTTAAA
1 TATATATTAAAAACTTAAA
2287058 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (21 bp):
TATATATTAAAAACTTAAACT
Found at i:2287245 original size:18 final size:18
Alignment explanation
Indices: 2287210--2287245 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2287200 ATTTTATATT
*
2287210 TTATTTTAAATAATTTAA
1 TTATTTTAAATAAGTTAA
*
2287228 TTATTTTAATTAAGTTAA
1 TTATTTTAAATAAGTTAA
2287246 CTGATAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TTATTTTAAATAAGTTAA
Found at i:2288180 original size:5 final size:5
Alignment explanation
Indices: 2288170--2288200 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
2288160 ACAAAATGTA
2288170 AATAT AATAT AATAT AATAT AAATAT AATAT
1 AATAT AATAT AATAT AATAT -AATAT AATAT
2288201 TAAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:2288185 original size:10 final size:11
Alignment explanation
Indices: 2288168--2288210 Score: 61
Period size: 10 Copynumber: 3.8 Consensus size: 11
2288158 TTACAAAATG
2288168 TAAATATAATA
1 TAAATATAATA
2288179 T-AATATAATA
1 TAAATATAATA
2288189 TAAATATAATA
1 TAAATATAATA
2288200 TTAAAATATAA
1 -T-AAATATAA
2288211 ATATTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.34
11 10 0.34
12 1 0.03
13 8 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAATATAATA
Found at i:2288209 original size:19 final size:20
Alignment explanation
Indices: 2288162--2288214 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
2288152 ACACCATTAC
*
2288162 AAAATGTAAATATAATATAAT
1 AAAATATAAATATAATAT-AT
*
2288183 ATAATATAAATATAATAT-T
1 AAAATATAAATATAATATAT
2288202 AAAATATAAATAT
1 AAAATATAAATAT
2288215 TTTATTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.45
21 16 0.55
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATATAAATATAATATAT
Found at i:2288558 original size:18 final size:16
Alignment explanation
Indices: 2288532--2288608 Score: 57
Period size: 17 Copynumber: 4.6 Consensus size: 16
2288522 TAATAATTAA
*
2288532 AATATAAAATATAATAT
1 AATATAAAAAATAA-AT
2288549 AATATAAAAAATTAAATT
1 AATATAAAAAA-TAAA-T
* *
2288567 TATATAAATATATAAAT
1 AATATAAA-AAATAAAT
*
2288584 -ATATAAAAAATTATAT
1 AATATAAAAAA-TAAAT
*
2288600 ATTATAAAA
1 AATATAAAA
2288609 TTTTTTAACA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
15 2 0.04
16 11 0.22
17 19 0.39
18 15 0.31
19 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATAAAAAATAAAT
Found at i:2288565 original size:24 final size:23
Alignment explanation
Indices: 2288524--2288578 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
2288514 ATGTCAAATA
*
2288524 ATAAT-TAAAATATAAAATATAAT
1 ATAATATAAAAAATAAAAT-TAAT
* *
2288547 ATAATATAAAAAATTAAATTTAT
1 ATAATATAAAAAATAAAATTAAT
2288570 ATAAATATA
1 AT-AATATA
2288579 TAAATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAATATAAAAAATAAAATTAAT
Found at i:2288578 original size:8 final size:8
Alignment explanation
Indices: 2288531--2288590 Score: 54
Period size: 8 Copynumber: 7.4 Consensus size: 8
2288521 ATAATAATTA
2288531 AAATATA-
1 AAATATAT
2288538 AAATATAAT
1 AAATAT-AT
2288547 ATAATATA-
1 A-AATATAT
*
2288555 AAAAAT-T
1 AAATATAT
2288562 AAATTTATAT
1 AAA--TATAT
2288572 AAATATAT
1 AAATATAT
2288580 AAATATAT
1 AAATATAT
2288588 AAA
1 AAA
2288591 AAATTATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
7 13 0.30
8 18 0.41
9 4 0.09
10 9 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAATATAT
Found at i:2288588 original size:34 final size:37
Alignment explanation
Indices: 2288533--2288609 Score: 110
Period size: 34 Copynumber: 2.2 Consensus size: 37
2288523 AATAATTAAA
2288533 ATATAAA-ATATAATATAATATAAAAAATTAAAT-TT
1 ATATAAATATATAATATAATATAAAAAATTAAATATT
*
2288568 ATATAAATATATAA-AT-ATATAAAAAATTATATATT
1 ATATAAATATATAATATAATATAAAAAATTAAATATT
2288603 ATA-AAAT
1 ATATAAAT
2288610 TTTTTAACAC
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 19 0.49
35 14 0.36
36 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (37 bp):
ATATAAATATATAATATAATATAAAAAATTAAATATT
Found at i:2290761 original size:15 final size:15
Alignment explanation
Indices: 2290741--2290770 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2290731 TAATTTAGAA
*
2290741 ATTTTTATTTAACAT
1 ATTTTTATATAACAT
2290756 ATTTTTATATAACAT
1 ATTTTTATATAACAT
2290771 GATATTTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTATATAACAT
Found at i:2291763 original size:22 final size:21
Alignment explanation
Indices: 2291733--2291778 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2291723 TTTAGTTCAG
2291733 TTAATAATTAAAAAAATAAAA
1 TTAATAATTAAAAAAATAAAA
* **
2291754 TTAATTAATTCAATTAATAAAA
1 TTAA-TAATTAAAAAAATAAAA
2291776 TTA
1 TTA
2291779 CGATTAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAATAATTAAAAAAATAAAA
Found at i:2293874 original size:32 final size:32
Alignment explanation
Indices: 2293831--2293891 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
2293821 GTTCGAGCTT
*
2293831 TTTAAATTTTTTTGAGTTC-AGATTTATTCGGA
1 TTTAAAATTTTTTGAGTTCAAG-TTTATTCGGA
*
2293863 TTTAAAATTTTTTGGGTTCAAGTTTATTC
1 TTTAAAATTTTTTGAGTTCAAGTTTATTC
2293892 AGTTTTGGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.54
Consensus pattern (32 bp):
TTTAAAATTTTTTGAGTTCAAGTTTATTCGGA
Found at i:2294013 original size:37 final size:36
Alignment explanation
Indices: 2293945--2294014 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
2293935 TTGAGTTCAA
* * *
2293945 ATTTATTTTATATTATTTTTATTTTATATTAAATGG
1 ATTTATTTTATATAATTTATATTTTACATTAAATGG
2293981 ATTTACTTTTATATAATTTA-ATATTTACATTAAA
1 ATTTA-TTTTATATAATTTATAT-TTTACATTAAA
2294015 AAGTAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 7 0.24
37 22 0.76
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (36 bp):
ATTTATTTTATATAATTTATATTTTACATTAAATGG
Found at i:2294073 original size:19 final size:20
Alignment explanation
Indices: 2294049--2294097 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
2294039 TTTTAAGTAA
2294049 ATTTTTATTATACT-ATTAT
1 ATTTTTATTATACTAATTAT
* *
2294068 ATTTTTAATATATTAATTAT
1 ATTTTTATTATACTAATTAT
2294088 -TTATTTATTA
1 ATT-TTTATTA
2294098 AAATCTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTTATTATACTAATTAT
Found at i:2295557 original size:2 final size:2
Alignment explanation
Indices: 2295534--2295577 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
2295524 ATATCATAAT
* *
2295534 TA TA TC TA TA TT TA TA -A 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 TA TA TA
2295575 TA T
1 TA T
2295578 TAACTCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2295889 original size:29 final size:28
Alignment explanation
Indices: 2295855--2295924 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 28
2295845 TCCGTATTGA
2295855 TAATTTTTATA-ATTATGAAAGTAATATTT
1 TAATTTTTATACATTA--AAAGTAATATTT
*
2295884 TAATTTATGTA-ACATTAAAATTAATATTT
1 TAATTT-T-TATACATTAAAAGTAATATTT
2295913 TAATTTTTATAC
1 TAATTTTTATAC
2295925 TTTTCATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 2 0.06
28 3 0.08
29 23 0.64
30 2 0.06
31 6 0.17
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (28 bp):
TAATTTTTATACATTAAAAGTAATATTT
Found at i:2295953 original size:18 final size:19
Alignment explanation
Indices: 2295932--2295973 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
2295922 TACTTTTCAT
2295932 AATTATA-GCAAG-TAAAAA
1 AATTATACG-AAGTTAAAAA
2295950 AATTA-ACGAAGTTAAAAA
1 AATTATACGAAGTTAAAAA
2295968 AATTAT
1 AATTAT
2295974 TTGAATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.26
Consensus pattern (19 bp):
AATTATACGAAGTTAAAAA
Found at i:2296184 original size:14 final size:14
Alignment explanation
Indices: 2296167--2296215 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
2296157 TACAATTTAA
2296167 AAAATATAAAAATT
1 AAAATATAAAAATT
* *
2296181 AAAATATTAAATTT
1 AAAATATAAAAATT
* *
2296195 AATAGTATAAAGATT
1 AA-AATATAAAAATT
2296210 AAAATA
1 AAAATA
2296216 CATTTTTCAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:2296508 original size:34 final size:34
Alignment explanation
Indices: 2296443--2296508 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
2296433 TATATTTTAA
*
2296443 ATATAAATATAATATATATAATATATTAAAATTT
1 ATATAAATATAATATATATAATATATAAAAATTT
*
2296477 ATATAAATAT-ATATTATTTTAA-ATATAAAAAT
1 ATATAAATATAATA-TA-TATAATATATAAAAAT
2296509 AATATACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 3 0.11
34 21 0.75
35 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (34 bp):
ATATAAATATAATATATATAATATATAAAAATTT
Found at i:2298370 original size:5 final size:5
Alignment explanation
Indices: 2298360--2298400 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
2298350 ATTCGTGTAT
*
2298360 TTATA TTATA TT-TA -TATA TTTTA TTATA TTATAA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTAT-A TTATA TT
2298401 TAAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
3 1 0.03
4 4 0.13
5 21 0.68
6 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:2298373 original size:11 final size:11
Alignment explanation
Indices: 2298357--2298416 Score: 51
Period size: 10 Copynumber: 5.9 Consensus size: 11
2298347 ATAATTCGTG
2298357 TATTTATATTA
1 TATTTATATTA
2298368 TA-TT-TA-TA
1 TATTTATATTA
2298376 TATTT-TATTA
1 TATTTATATTA
2298386 TA-TTATAATTA
1 TATTTAT-ATTA
* *
2298397 TATTTAAAATA
1 TATTTATATTA
2298408 T-TTTATATT
1 TATTTATATT
2298417 TTAATACGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 4 0.10
9 8 0.20
10 13 0.32
11 12 0.30
12 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTATATTA
Found at i:2298469 original size:28 final size:27
Alignment explanation
Indices: 2298432--2298489 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
2298422 ACGTTAATAA
2298432 TTTATATTATA-TAAATTTTAAGATATT
1 TTTATATTATATTAAATTTTAA-ATATT
* *
2298459 TTTATATTTATATTATATTTTAATTATT
1 TTTATA-TTATATTAAATTTTAAATATT
2298487 TTT
1 TTT
2298490 TTCATATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 6 0.22
28 12 0.44
29 9 0.33
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTATATTATATTAAATTTTAAATATT
Found at i:2304047 original size:11 final size:11
Alignment explanation
Indices: 2304033--2304066 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
2304023 GTGGATATTT
2304033 TAATTAAAATA
1 TAATTAAAATA
2304044 TAATTAAAATA
1 TAATTAAAATA
*
2304055 TAAATAAAATA
1 TAATTAAAATA
2304066 T
1 T
2304067 TAAAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATTAAAATA
Found at i:2304096 original size:29 final size:30
Alignment explanation
Indices: 2304055--2304112 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
2304045 AATTAAAATA
2304055 TAAATAAAATATTAAAATATTA-TATTTTT
1 TAAATAAAATATTAAAATATTATTATTTTT
** *
2304084 TAAATAATTTATTAAATTATTATTATTTT
1 TAAATAAAATATTAAAATATTATTATTTT
2304113 AATTTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TAAATAAAATATTAAAATATTATTATTTTT
Found at i:2305459 original size:22 final size:22
Alignment explanation
Indices: 2305414--2305460 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
2305404 ATTATTACAT
* *
2305414 AAATTAATTAAATTAAAATTTA
1 AAATTAATTAAACTAAAATATA
2305436 AAATTAATTAAACTAGAAA-ATA
1 AAATTAATTAAACTA-AAATATA
2305458 AAA
1 AAA
2305461 AAATTAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
AAATTAATTAAACTAAAATATA
Found at i:2305533 original size:22 final size:22
Alignment explanation
Indices: 2305508--2305550 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2305498 CTACATGATA
2305508 TAAAAT-TAATATGAAAAAATAT
1 TAAAATGTAATAT-AAAAAATAT
2305530 TAAAATGTAATATAAAAAATA
1 TAAAATGTAATATAAAAAATA
2305551 AACATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (22 bp):
TAAAATGTAATATAAAAAATAT
Found at i:2311891 original size:3 final size:3
Alignment explanation
Indices: 2311883--2311932 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
2311873 TTTTATTTTT
*
2311883 ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2311931 AT
1 AT
2311933 TAGCATGATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2312464 original size:12 final size:12
Alignment explanation
Indices: 2312447--2312476 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2312437 AATTTAATTC
*
2312447 ATAAATAATTTT
1 ATAAATAATTAT
2312459 ATAAATAATTAT
1 ATAAATAATTAT
2312471 ATAAAT
1 ATAAAT
2312477 TCACTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATAAATAATTAT
Found at i:2312721 original size:18 final size:17
Alignment explanation
Indices: 2312688--2312729 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
2312678 TTTATAAATT
2312688 AAAATA-AAAAAATTTA
1 AAAATATAAAAAATTTA
*
2312704 AAAATATAAATAATTTTA
1 AAAATATAAA-AAATTTA
*
2312722 TAAATATA
1 AAAATATA
2312730 CATATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 6 0.27
17 3 0.14
18 13 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATATAAAAAATTTA
Found at i:2312761 original size:23 final size:23
Alignment explanation
Indices: 2312734--2312781 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2312724 AATATACATA
* * *
2312734 TTTAATTCATATTATTTTATTTT
1 TTTAATTCAAAATAATTTATTTT
*
2312757 TTTAATTTAAAATAATTTATTTT
1 TTTAATTCAAAATAATTTATTTT
2312780 TT
1 TT
2312782 ATTAAAAGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTAATTCAAAATAATTTATTTT
Found at i:2312875 original size:12 final size:11
Alignment explanation
Indices: 2312857--2312888 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
2312847 ACACTCAAAA
2312857 ATTTTTTTTTC
1 ATTTTTTTTTC
2312868 ACTTTTTTTTTC
1 A-TTTTTTTTTC
2312880 ATTTTTTTT
1 ATTTTTTTT
2312889 CTATTCCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTTTTTTC
Found at i:2313429 original size:14 final size:14
Alignment explanation
Indices: 2313410--2313453 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
2313400 ATAAAAAACG
2313410 AAAATACATAATTT
1 AAAATACATAATTT
* *
2313424 AAAATAAAAAATTT
1 AAAATACATAATTT
2313438 -AAATAACATAATTT
1 AAAAT-ACATAATTT
2313452 AA
1 AA
2313454 GGCACCGGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 4 0.17
14 19 0.79
15 1 0.04
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAATACATAATTT
Found at i:2313433 original size:27 final size:29
Alignment explanation
Indices: 2313394--2313453 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
2313384 TTTATATTTA
2313394 TTAAATATAAAAAACGAAAAT-ACATAAT
1 TTAAATATAAAAAACGAAAATAACATAAT
***
2313422 TTAAA-ATAAAAAATTTAAATAACATAAT
1 TTAAATATAAAAAACGAAAATAACATAAT
2313450 TTAA
1 TTAA
2313454 GGCACCGGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (29 bp):
TTAAATATAAAAAACGAAAATAACATAAT
Found at i:2315441 original size:30 final size:30
Alignment explanation
Indices: 2315390--2315447 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2315380 CTTAGTTTCA
*
2315390 TTTAATTTACACCCAAATAAACCTTTAAAC
1 TTTAATTTACACCCAAATAAACCATTAAAC
*
2315420 TTTAATTTACA-CCATATTAAACCATTAA
1 TTTAATTTACACCCA-AATAAACCATTAA
2315448 CATAATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (30 bp):
TTTAATTTACACCCAAATAAACCATTAAAC
Found at i:2317020 original size:20 final size:20
Alignment explanation
Indices: 2316960--2317020 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
2316950 TTATTTATAA
* *
2316960 AAATT-ATTATTTTATTCATA
1 AAATTAATT-TTTTATTAATT
* * *
2316980 AAATTTAAATTTTCATCAATT
1 AAA-TTAATTTTTTATTAATT
2317001 AAATTAATTTTTTATTAATT
1 AAATTAATTTTTTATTAATT
2317021 TATTATATCT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 17 0.55
21 12 0.39
22 2 0.06
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATTAATTTTTTATTAATT
Found at i:2317999 original size:15 final size:16
Alignment explanation
Indices: 2317979--2318013 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2317969 CATTTATTTT
2317979 TTTTAAAA-AAAATTA
1 TTTTAAAATAAAATTA
*
2317994 TTTTAAAATAATATTA
1 TTTTAAAATAAAATTA
2318010 TTTT
1 TTTT
2318014 TTATGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTAAAATAAAATTA
Found at i:2318450 original size:22 final size:21
Alignment explanation
Indices: 2318420--2318473 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
2318410 AAATTTTATT
2318420 TAAATTTAAT-TATAAAATATA
1 TAAATTTAATAT-TAAAATATA
2318441 TAAATATTAATATTAAAATA-A
1 TAAAT-TTAATATTAAAATATA
*
2318462 T-ATTTTAATATT
1 TAAATTTAATATT
2318474 TTTAAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 8 0.27
20 2 0.07
21 7 0.23
22 12 0.40
23 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATTTAATATTAAAATATA
Found at i:2319382 original size:16 final size:16
Alignment explanation
Indices: 2319361--2319391 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2319351 AATATTAAAG
*
2319361 ATTTTTATTTAAATTT
1 ATTTTTAATTAAATTT
2319377 ATTTTTAATTAAATT
1 ATTTTTAATTAAATT
2319392 AAATTTATAT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTTAATTAAATTT
Found at i:2319415 original size:21 final size:21
Alignment explanation
Indices: 2319369--2319411 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2319359 AGATTTTTAT
*
2319369 TTAAATTTATTTTTAATTAAA
1 TTAAATTTATTTGTAATTAAA
2319390 TTAAATTTATATTAGTAATTAA
1 TTAAATTTAT-TT-GTAATTAA
2319412 TAAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 2 0.11
23 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAAATTTATTTGTAATTAAA
Found at i:2321006 original size:17 final size:17
Alignment explanation
Indices: 2320985--2321034 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
2320975 TTTTTAAATG
2320985 ATAAAATCAAAATTGTTT
1 ATAAAATCAAAATT-TTT
*
2321003 -T-AAAGCAACAATTTTT
1 ATAAAATCAA-AATTTTT
*
2321019 ATAAAATTAAAATTTT
1 ATAAAATCAAAATTTT
2321035 AAATTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
16 9 0.35
17 12 0.46
18 5 0.19
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (17 bp):
ATAAAATCAAAATTTTT
Found at i:2321420 original size:25 final size:25
Alignment explanation
Indices: 2321392--2321462 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
2321382 TATTTTTTTC
*
2321392 ATTTTAAATATATTTTATTAAATGT
1 ATTTTAAATATATTTTATTAAATAT
2321417 ATTTTAAATATATTTTATTAAATAT
1 ATTTTAAATATATTTTATTAAATAT
2321442 A-TTT---TATATTTTATTAAATAT
1 ATTTTAAATATATTTTATTAAATAT
2321463 TAAATATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
21 17 0.38
24 3 0.07
25 25 0.56
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (25 bp):
ATTTTAAATATATTTTATTAAATAT
Found at i:2321451 original size:16 final size:14
Alignment explanation
Indices: 2321395--2321448 Score: 78
Period size: 14 Copynumber: 4.1 Consensus size: 14
2321385 TTTTTTCATT
2321395 TTAAATATATTTTA
1 TTAAATATATTTTA
*
2321409 TTAAATGTA--TT-
1 TTAAATATATTTTA
2321420 TTAAATATATTTTA
1 TTAAATATATTTTA
2321434 TTAAATATATTTTA
1 TTAAATATATTTTA
2321448 T
1 T
2321449 ATTTTATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 8 0.23
12 2 0.06
13 2 0.06
14 23 0.66
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTAAATATATTTTA
Found at i:2321469 original size:19 final size:21
Alignment explanation
Indices: 2321401--2321473 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 21
2321391 CATTTTAAAT
*
2321401 ATATTTTATTAAATGTATTTTAAA
1 ATATTTTATTAAA--TATATT-AA
**
2321425 TATATTTTATTAAATATATTTT
1 -ATATTTTATTAAATATATTAA
2321447 ATATTTTATT-AA-ATATTAA
1 ATATTTTATTAAATATATTAA
2321466 ATATTTTA
1 ATATTTTA
2321474 AATATTAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 13 0.30
20 2 0.05
21 10 0.23
23 5 0.12
25 13 0.30
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
ATATTTTATTAAATATATTAA
Done.