Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
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: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 29
Found at i:2617 original size:12 final size:12
Alignment explanation
Indices: 2600--2624 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2590 CATGCATCCG
2600 ACCCTCGCTACC
1 ACCCTCGCTACC
2612 ACCCTCGCTACC
1 ACCCTCGCTACC
2624 A
1 A
2625 AGTCCAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.56, G:0.08, T:0.16
Consensus pattern (12 bp):
ACCCTCGCTACC
Found at i:7330 original size:15 final size:15
Alignment explanation
Indices: 7310--7462 Score: 70
Period size: 15 Copynumber: 9.9 Consensus size: 15
7300 TTAAATAATT
*
7310 TATTTATTTATATTA
1 TATTTATATATATTA
*
7325 TATTTATATATTTTA
1 TATTTATATATATTA
*
7340 TATTT-TA-ATTTTA
1 TATTTATATATATTA
*
7353 -ATTTTATAATATTTTA
1 TA-TTTAT-ATATATTA
*
7369 TATTTATATAAAATTTAA
1 TATTTATAT-ATA-TT-A
7387 TATGTTA-ATA-ATTTA
1 TAT-TTATATATA-TTA
* *
7402 TATTTTATAAATTTTAAAA
1 TA-TTTATATATATT---A
7421 TATTTATATAT-TTA
1 TATTTATATATATTA
7435 TA-TTATATTATATTA
1 TATTTATA-TATATTA
*
7450 CATTT-TATATATT
1 TATTTATATATATT
7463 TTATAAAAAG
Statistics
Matches: 112, Mismatches: 8, Indels: 37
0.71 0.05 0.24
Matches are distributed among these distances:
12 1 0.01
13 14 0.12
14 15 0.13
15 33 0.29
16 23 0.21
17 6 0.05
18 14 0.12
19 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.60
Consensus pattern (15 bp):
TATTTATATATATTA
Found at i:7374 original size:22 final size:22
Alignment explanation
Indices: 7307--7467 Score: 70
Period size: 24 Copynumber: 7.0 Consensus size: 22
7297 AAATTAAATA
*
7307 ATTTATTTA-TTTATA--TTAT
1 ATTTATATATTTTATATTTTAT
7326 ATTTATATATTTTATATTTTA-
1 ATTTATATATTTTATATTTTAT
7347 ATTT-TA-ATTTTATAATATTTTAT
1 ATTTATATA-TTT-T-ATATTTTAT
* *
7370 ATTTATATAAAATTTAATATGTTAAT
1 ATTTATAT---ATTTTATAT-TTTAT
*
7396 AATTTATAT-TTTATAAATTTTAAAAT
1 -ATTTATATATTT-TATATTTT---AT
*
7422 ATTTATATA-TTTATATTATATT
1 ATTTATATATTTTATATTTTA-T
*
7444 ATATTACAT-TTTATATATTTTAT
1 AT-TTATATATTT-TATATTTTAT
7467 A
1 A
7468 AAAAGTGATA
Statistics
Matches: 109, Mismatches: 10, Indels: 42
0.68 0.06 0.26
Matches are distributed among these distances:
19 9 0.08
20 11 0.10
21 6 0.06
22 14 0.13
23 18 0.17
24 19 0.17
25 14 0.13
26 6 0.06
27 11 0.10
28 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.60
Consensus pattern (22 bp):
ATTTATATATTTTATATTTTAT
Found at i:7378 original size:8 final size:8
Alignment explanation
Indices: 7310--7467 Score: 74
Period size: 7 Copynumber: 20.2 Consensus size: 8
7300 TTAAATAATT
*
7310 TATTTATT
1 TATTTATA
*
7318 TATAT-TA
1 TATTTATA
7325 TATTTATA
1 TATTTATA
7333 TATTT-TA
1 TATTTATA
7340 TATTT-TA
1 TATTTATA
7347 -ATTT-TA
1 TATTTATA
7353 -ATTTTATAA
1 TA-TTTAT-A
7362 TATTT-TA
1 TATTTATA
7369 TATTTATA
1 TATTTATA
7377 TAAAATTTA-A
1 T---ATTTATA
7387 TATGTTA-A
1 TAT-TTATA
7395 TAATTTATA
1 T-ATTTATA
7404 T-TTTATA
1 TATTTATA
* *
7411 AATTTTAAAA
1 TA-TTT-ATA
7421 TATTTATA
1 TATTTATA
7429 TATTTATA
1 TATTTATA
*
7437 T-TATAT-
1 TATTTATA
*
7443 TATATTACA
1 TAT-TTATA
7452 T-TTTATA
1 TATTTATA
7459 TATTT-TA
1 TATTTATA
7466 TA
1 TA
7468 AAAAGTGATA
Statistics
Matches: 120, Mismatches: 11, Indels: 39
0.71 0.06 0.23
Matches are distributed among these distances:
6 8 0.07
7 45 0.38
8 41 0.34
9 15 0.12
10 6 0.05
11 5 0.04
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.60
Consensus pattern (8 bp):
TATTTATA
Found at i:7396 original size:33 final size:33
Alignment explanation
Indices: 7359--7442 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 33
7349 TTTAATTTTA
* *
7359 TAATATTTTATATTTATATAAAATTTAATATGT
1 TAATATTTTATATTTATATAAAATTTAAAATAT
* *
7392 TAATAATTTATATTT-TATAAATTTTAAAATAT
1 TAATATTTTATATTTATATAAAATTTAAAATAT
*
7424 TTATATATTTATA-TTATAT
1 TAATAT-TTTATATTTATAT
7443 TATATTACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
32 20 0.47
33 23 0.53
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (33 bp):
TAATATTTTATATTTATATAAAATTTAAAATAT
Found at i:7409 original size:50 final size:43
Alignment explanation
Indices: 7322--7467 Score: 123
Period size: 48 Copynumber: 3.1 Consensus size: 43
7312 TTTATTTATA
* *
7322 TTATATTTATATATTTTATATTTTAATTTTAATTTTATAATATT
1 TTATATTTATATATTTAATATGTTAATTTTAATTTTATAA-ATT
7366 TTATATTTATATAAAATTTAATATGTTAATAATTTATATTTTATAAATT
1 TTATATTTATAT---ATTTAATATGTTAAT--TTTA-ATTTTATAAATT
* * *
7415 TTAAAATATTTATATATTTATATTATATT-ATATTACATTTTATATATT
1 TT---ATATTTATATATTTA-A-TATGTTAATTTTA-ATTTTATAAATT
7463 TTATA
1 TTATA
7468 AAAAGTGATA
Statistics
Matches: 85, Mismatches: 6, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
44 12 0.14
45 3 0.04
47 13 0.15
48 16 0.19
49 14 0.16
50 12 0.14
51 5 0.06
52 10 0.12
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.60
Consensus pattern (43 bp):
TTATATTTATATATTTAATATGTTAATTTTAATTTTATAAATT
Found at i:7612 original size:24 final size:25
Alignment explanation
Indices: 7584--7630 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
7574 ATATATTTTT
7584 ATAATTAA-ATTTAAA-TAAATAATA
1 ATAATTAATA-TTAAATTAAATAATA
*
7608 ATAATTTATATTAAATTAAATAA
1 ATAATTAATATTAAATTAAATAA
7631 ATTTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATTAATATTAAATTAAATAATA
Found at i:7640 original size:20 final size:21
Alignment explanation
Indices: 7584--7640 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
7574 ATATATTTTT
7584 ATAATTAAATTTAAA-TAAATA
1 ATAA-TAAATTTAAATTAAATA
* *
7605 ATAAT-AATTTATATTAAATT
1 ATAATAAATTTAAATTAAATA
7625 A-AATAAATTTAAATTA
1 ATAATAAATTTAAATTA
7641 TTAAATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 10 0.32
20 17 0.55
21 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAATAAATTTAAATTAAATA
Found at i:8165 original size:11 final size:11
Alignment explanation
Indices: 8146--8208 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
8136 AGGATCACAT
*
8146 ATATCTTAAAA
1 ATATATTAAAA
8157 ATATATTAAAA
1 ATATATTAAAA
*
8168 AAATAATTAAAA
1 ATAT-ATTAAAA
*
8180 A-ATA-AATAAA
1 ATATATTA-AAA
8190 ATATA-TAAAA
1 ATATATTAAAA
*
8200 ATATCTTAA
1 ATATATTAA
8209 TTTATTTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 1 0.02
10 12 0.28
11 22 0.51
12 8 0.19
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
ATATATTAAAA
Found at i:9191 original size:23 final size:22
Alignment explanation
Indices: 9155--9225 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 22
9145 TTTTAGGTAG
* *
9155 AATAAAAAAATATAATATATTT
1 AATAAAATAATATATTATATTT
*
9177 AATAAATATAATATATTTTATTT
1 AATAAA-ATAATATATTATATTT
*
9200 AATATAAATATTATATTTATATTT
1 AATA-AAATAATATA-TTATATTT
9224 AA
1 AA
9226 AAATTTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 6 0.15
23 24 0.59
24 11 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATAAAATAATATATTATATTT
Found at i:9210 original size:18 final size:18
Alignment explanation
Indices: 9163--9258 Score: 63
Period size: 19 Copynumber: 5.3 Consensus size: 18
9153 AGAATAAAAA
* *
9163 AATAT-AATATATTTAATA
1 AATATAAATAT-TTTATTT
9181 AATATAATATATTTTATTT
1 AATATAA-ATATTTTATTT
*
9200 AATATAAATATTATATTT
1 AATATAAATATTTTATTT
* * *
9218 ATATTTAAAAATTTAATTT
1 A-ATATAAATATTTTATTT
*
9237 -AT-TTAATAATTTTATTT
1 AATATAAAT-ATTTTATTT
*
9254 TATAT
1 AATAT
9259 TTATTTTTAC
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
16 3 0.05
17 10 0.16
18 18 0.29
19 27 0.44
20 4 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATATAAATATTTTATTT
Found at i:9239 original size:17 final size:17
Alignment explanation
Indices: 9219--9253 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9209 ATTATATTTA
9219 TATTTAAAAATTTAATT
1 TATTTAAAAATTTAATT
* *
9236 TATTTAATAATTTTATT
1 TATTTAAAAATTTAATT
9253 T
1 T
9254 TATATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTAAAAATTTAATT
Found at i:9239 original size:23 final size:24
Alignment explanation
Indices: 9170--9241 Score: 80
Period size: 23 Copynumber: 3.1 Consensus size: 24
9160 AAAAATATAA
*
9170 TATATTTAATAAATATAATATATT
1 TATATTTAATAAATATAATTTATT
9194 T-TATTTAATATAA-AT-ATTATATT
1 TATATTTAATA-AATATAATT-TATT
*
9217 TATATTTAA-AAATTTAATTTATT
1 TATATTTAATAAATATAATTTATT
9240 TA
1 TA
9242 ATAATTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
22 4 0.10
23 24 0.59
24 13 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATTTAATAAATATAATTTATT
Found at i:9585 original size:20 final size:19
Alignment explanation
Indices: 9560--9619 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
9550 AAAATATTAA
9560 TTTTAAAAAATAATTTATTT
1 TTTTAAAAAAT-ATTTATTT
9580 TTTTAAAAAATATTTATATT
1 TTTTAAAAAATATTTAT-TT
** *
9600 TAATAAAAATTATTTATTT
1 TTTTAAAAAATATTTATTT
9619 T
1 T
9620 ATTTTTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.25
20 27 0.75
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAAAAAATATTTATTT
Found at i:9587 original size:19 final size:19
Alignment explanation
Indices: 9560--9619 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
9550 AAAATATTAA
*
9560 TTTTAAAAAATAATTTATT
1 TTTTTAAAAATAATTTATT
9579 TTTTTAAAAA-ATATTTATAT
1 TTTTTAAAAATA-ATTTAT-T
** *
9599 TTAATAAAAATTATTTATT
1 TTTTTAAAAATAATTTATT
9618 TT
1 TT
9620 ATTTTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 15 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTTAAAAATAATTTATT
Found at i:9620 original size:19 final size:19
Alignment explanation
Indices: 9548--9620 Score: 71
Period size: 20 Copynumber: 3.9 Consensus size: 19
9538 ATATATATTT
*
9548 TAAAAA-TATTAATTTT-A
1 TAAAAATTATTTATTTTAA
* **
9565 -AAAAATAATTTATTTTTT
1 TAAAAATTATTTATTTTAA
*
9583 TAAAAAATATTTATATTTAA
1 TAAAAATTATTTAT-TTTAA
9603 TAAAAATTATTTATTTTA
1 TAAAAATTATTTATTTTA
9621 TTTTTTAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
16 5 0.11
17 8 0.18
19 15 0.34
20 16 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAAAATTATTTATTTTAA
Found at i:9620 original size:36 final size:37
Alignment explanation
Indices: 9534--9620 Score: 101
Period size: 36 Copynumber: 2.4 Consensus size: 37
9524 TTTTTAATTT
9534 ATTTATATATATTTT-AAAAATATTAATTTTAAAAAATA
1 ATTTAT-T-TATTTTAAAAAATATTAATTTTAAAAAATA
* *
9572 ATTTATTT-TTTTAAAAAATATTTATATTTAATAAA-A
1 ATTTATTTATTTTAAAAAATATTAAT-TTTAAAAAATA
9608 A-TTATTTATTTTA
1 ATTTATTTATTTTA
9621 TTTTTTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
35 10 0.23
36 19 0.43
37 9 0.20
38 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (37 bp):
ATTTATTTATTTTAAAAAATATTAATTTTAAAAAATA
Found at i:9631 original size:42 final size:39
Alignment explanation
Indices: 9528--9631 Score: 106
Period size: 42 Copynumber: 2.6 Consensus size: 39
9518 TTTTGTTTTT
*
9528 TAATTTATTTATATATATTTTAAAAATATTAATTTTAAAAAA
1 TAATTTATTT-TAT-T-TTTTAAAAATATTAATTTAAAAAAA
*
9570 TAATTTA--TT-TTTTTAAAAAATATTTATATTTAATAAAAA
1 TAATTTATTTTATTTTTTAAAAATA-TTA-ATTTAA-AAAAA
*
9609 TTATTTATTTTATTTTTTAAAAA
1 TAATTTATTTTATTTTTTAAAAA
9632 ACATTTTCTT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
36 10 0.19
37 4 0.08
38 6 0.12
39 12 0.23
40 1 0.02
41 2 0.04
42 17 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (39 bp):
TAATTTATTTTATTTTTTAAAAATATTAATTTAAAAAAA
Found at i:9637 original size:19 final size:19
Alignment explanation
Indices: 9560--9638 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 19
9550 AAAATATTAA
*
9560 TTTTAAAAAATAATTTATTT
1 TTTTAAAAAATATTTTA-TT
9580 TTTTAAAAAATATTTATATT
1 TTTTAAAAAATATTT-TATT
**
9600 TAATAAAAATTATTTATTTTATT
1 TTTTAAAAA--A--TATTTTATT
*
9623 TTTTAAAAAACATTTT
1 TTTTAAAAAATATTTT
9639 CTTAAAGAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
19 5 0.10
20 23 0.48
21 3 0.06
22 1 0.02
23 11 0.23
24 5 0.10
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAAAAAATATTTTATT
Found at i:10094 original size:2 final size:2
Alignment explanation
Indices: 10026--10075 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
10016 CTAGATTCGC
10026 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10068 AG AG AG AG
1 AG AG AG AG
10076 GTAGATAGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16916 original size:2 final size:2
Alignment explanation
Indices: 16909--16936 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16899 TGTATGTATG
16909 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16937 ATGAATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17810 original size:22 final size:20
Alignment explanation
Indices: 17772--17811 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
17762 TACCTCGCCG
17772 TTTAAAATTACTATTTTACT
1 TTTAAAATTACTATTTTACT
*
17792 TTTAAATAGTTACTTTTTTA
1 TTTAAA-A-TTACTATTTTA
17812 AGAAAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTAAAATTACTATTTTACT
Found at i:19106 original size:20 final size:19
Alignment explanation
Indices: 19081--19150 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
19071 TTCTCGATTC
19081 ATTTAAATAAAATTTTAAAT
1 ATTTAAATAAAATTTT-AAT
19101 ATTT-AATAAATAATTTTAAT
1 ATTTAAAT-AA-AATTTTAAT
*
19121 A-TTAAATATAA--TTAAT
1 ATTTAAATAAAATTTTAAT
*
19137 AATT-AATAAAATTT
1 ATTTAAATAAAATTT
19151 ACTGATATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
16 12 0.29
17 2 0.05
18 3 0.07
19 6 0.14
20 13 0.31
21 6 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTAAATAAAATTTTAAT
Found at i:20154 original size:2 final size:2
Alignment explanation
Indices: 20147--20186 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
20137 GCTACCATGG
20147 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20187 CTATCACACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21804 original size:66 final size:66
Alignment explanation
Indices: 21698--21832 Score: 270
Period size: 66 Copynumber: 2.0 Consensus size: 66
21688 ACCTTAGAAT
21698 AAGAATGTTCACTGCTTATGGAAGTACGTTTTCATAGAAAGTTGCTGTGAGGGTGCTGAGTGTTT
1 AAGAATGTTCACTGCTTATGGAAGTACGTTTTCATAGAAAGTTGCTGTGAGGGTGCTGAGTGTTT
21763 C
66 C
21764 AAGAATGTTCACTGCTTATGGAAGTACGTTTTCATAGAAAGTTGCTGTGAGGGTGCTGAGTGTTT
1 AAGAATGTTCACTGCTTATGGAAGTACGTTTTCATAGAAAGTTGCTGTGAGGGTGCTGAGTGTTT
21829 C
66 C
21830 AAG
1 AAG
21833 GTTGATAATA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (66 bp):
AAGAATGTTCACTGCTTATGGAAGTACGTTTTCATAGAAAGTTGCTGTGAGGGTGCTGAGTGTTT
C
Found at i:24004 original size:2 final size:2
Alignment explanation
Indices: 23997--24044 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
23987 AAAGAAAAAG
23997 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
24039 GA GA GA
1 GA GA GA
24045 AACCTAAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:28039 original size:29 final size:28
Alignment explanation
Indices: 28007--28074 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
27997 AACATTCAAT
*
28007 TTTTATTTATTAAATAATAAATATTTTA-A
1 TTTTATATATTAAATAA-AAA-ATTTTATA
* *
28036 TTTTATAAATAAAATAAAAAATTTTATA
1 TTTTATATATTAAATAAAAAATTTTATA
28064 TTTTATATATT
1 TTTTATATATT
28075 TTAATTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 6 0.18
28 13 0.39
29 14 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTTATATATTAAATAAAAAATTTTATA
Found at i:30640 original size:23 final size:23
Alignment explanation
Indices: 30614--30666 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
30604 GTTGTATTTT
30614 TTTA-ATAATTATTATATATTATA
1 TTTATATAATTATT-TATATTATA
* *
30637 TTTATATTATTCTTTATATTATA
1 TTTATATAATTATTTATATTATA
*
30660 CTTATAT
1 TTTATAT
30667 TAAGATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTATATAATTATTTATATTATA
Found at i:30644 original size:11 final size:11
Alignment explanation
Indices: 30623--30668 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
30613 TTTTAATAAT
30623 TATTATATATTA
1 TATT-TATATTA
30635 TATTTATATTA
1 TATTTATATTA
*
30646 TTCTTTATATTA
1 -TATTTATATTA
*
30658 TACTTATATTA
1 TATTTATATTA
30669 AGATTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 16 0.53
12 14 0.47
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTATATTA
Found at i:30675 original size:23 final size:23
Alignment explanation
Indices: 30628--30676 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30618 ATAATTATTA
* ***
30628 TATATTATATTTATATTATTCTT
1 TATATTATACTTATATTAAGATT
30651 TATATTATACTTATATTAAGATT
1 TATATTATACTTATATTAAGATT
30674 TAT
1 TAT
30677 TTAAATTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (23 bp):
TATATTATACTTATATTAAGATT
Found at i:30726 original size:14 final size:15
Alignment explanation
Indices: 30709--30741 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
30699 CATATAGATA
30709 TATTTGTA-TATTTT
1 TATTTGTATTATTTT
30723 TA-TTGTATTATTTT
1 TATTTGTATTATTTT
30737 TATTT
1 TATTT
30742 TTCATTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.29
14 10 0.59
15 2 0.12
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (15 bp):
TATTTGTATTATTTT
Found at i:30758 original size:17 final size:18
Alignment explanation
Indices: 30736--30775 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
30726 TGTATTATTT
*
30736 TTATTTTTCAT-TTTATA
1 TTATTTTTAATATTTATA
30753 TTATTTTTTAATATTTATA
1 TTA-TTTTTAATATTTATA
30772 TTAT
1 TTAT
30776 GTCTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 8 0.40
19 9 0.45
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTTTAATATTTATA
Found at i:31020 original size:55 final size:56
Alignment explanation
Indices: 30949--31055 Score: 137
Period size: 55 Copynumber: 1.9 Consensus size: 56
30939 ATTTGTATTG
* * *
30949 TGTTAGTGTTACTTTTTAATATTTTATTGTATTTTAATTATTT-TTACTTTATTTTA
1 TGTTAGTATTACTTTTTAATATTGTATTATATTTTAATTATTTGTTA-TTTATTTTA
* * *
31005 TGTTAGTATTA-TTTTTCATATTGTATTATGTTTTAATTTTTTGTTATTTAT
1 TGTTAGTATTACTTTTTAATATTGTATTATATTTTAATTATTTGTTATTTAT
31056 ATCGTGTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
55 31 0.70
56 13 0.30
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.66
Consensus pattern (56 bp):
TGTTAGTATTACTTTTTAATATTGTATTATATTTTAATTATTTGTTATTTATTTTA
Found at i:31102 original size:23 final size:22
Alignment explanation
Indices: 31076--31119 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
31066 AAATTATCAA
*
31076 GTTTAATAAATATTATTTAAATT
1 GTTTAAT-AATACTATTTAAATT
**
31099 GTTTGCTAATACTATTTAAAT
1 GTTTAATAATACTATTTAAAT
31120 AACTCGACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (22 bp):
GTTTAATAATACTATTTAAATT
Found at i:31941 original size:41 final size:42
Alignment explanation
Indices: 31896--31980 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 42
31886 AATTTATATG
31896 TTTGTTT-TATCAGATCAT-TTTCAAACAAAGAATAATTATCA
1 TTTGTTTGT-TCAGATCATATTTCAAACAAAGAATAATTATCA
* * *
31937 TTTGTTTGTTGAGTTCATAGATTTCAAACTAAGAATAATTATCA
1 TTTGTTTGTTCAGATCAT--ATTTCAAACAAAGAATAATTATCA
31981 GTTGCTTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
41 14 0.38
42 1 0.03
44 22 0.59
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (42 bp):
TTTGTTTGTTCAGATCATATTTCAAACAAAGAATAATTATCA
Found at i:32809 original size:18 final size:18
Alignment explanation
Indices: 32782--32838 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
32772 TTATTAATAT
*
32782 ATATATATATATATTAAA
1 ATATAAATATATATTAAA
*
32800 ATATAAATATAAAATATAATA
1 ATATAAATAT-ATAT-TAA-A
*
32821 ATCTAAATATATA-TAAA
1 ATATAAATATATATTAAA
32838 A
1 A
32839 AATTATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 2 0.06
18 12 0.38
19 3 0.09
20 5 0.16
21 10 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAAATATATATTAAA
Found at i:33687 original size:2 final size:2
Alignment explanation
Indices: 33680--33719 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
33670 ATGATCCATA
33680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33720 TCTTCAGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34070 original size:174 final size:174
Alignment explanation
Indices: 33780--34131 Score: 607
Period size: 174 Copynumber: 2.0 Consensus size: 174
33770 ACTTAGAAGC
* *
33780 TTATAATTGTGATGGAATTAGACAAGATAAAAGATTTTGATGACAATAAAATTGATTATTATAAT
1 TTATAATTGTGATGAAATTAGACAAGATAAAAGATTTTGATGACAATAAAATTAATTATTATAAT
*
33845 AATAAAATTAATAATAGTTTAAGCATTTGGATACAAAAATAATGGTGATGACAAATTGAAATTAA
66 AATAAAATTAATAATAGTTTAAGCATTTGAATACAAAAATAATGGTGATGACAAATTGAAATTAA
*
33910 AATAAAATATGTAATGAAGACACCAATATAAGCGTATCAAAAAA
131 AATAAAATACGTAATGAAGACACCAATATAAGCGTATCAAAAAA
*
33954 TTATAATTGTGATGAAATTAGACAAGATTAAAGATTTTCG-TGACAATAAAATTAATTATTATAA
1 TTATAATTGTGATGAAATTAGACAAGATAAAAGATTTT-GATGACAATAAAATTAATTATTATAA
*
34018 TTATAAAATTAATAATAGTTTAAGCATTTGAATACAAAAATAATGGTGATGACAAATTGAAATTA
65 TAATAAAATTAATAATAGTTTAAGCATTTGAATACAAAAATAATGGTGATGACAAATTGAAATTA
* **
34083 AAATTAAATACGTAATGAAGACACCAATATAAGTTTATCAAAAAA
130 AAATAAAATACGTAATGAAGACACCAATATAAGCGTATCAAAAAA
34128 TTAT
1 TTAT
34132 CATCTTTACA
Statistics
Matches: 168, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
174 167 0.99
175 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.32
Consensus pattern (174 bp):
TTATAATTGTGATGAAATTAGACAAGATAAAAGATTTTGATGACAATAAAATTAATTATTATAAT
AATAAAATTAATAATAGTTTAAGCATTTGAATACAAAAATAATGGTGATGACAAATTGAAATTAA
AATAAAATACGTAATGAAGACACCAATATAAGCGTATCAAAAAA
Found at i:34177 original size:17 final size:17
Alignment explanation
Indices: 34147--34180 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34137 TTACATGTAT
*
34147 TTTAATAATATTTAATA
1 TTTAAAAATATTTAATA
*
34164 TTTAAAAATTTTTAATA
1 TTTAAAAATATTTAATA
34181 AAATCAAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAAAATATTTAATA
Found at i:35387 original size:17 final size:18
Alignment explanation
Indices: 35346--35403 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
35336 TATATAATTA
35346 AGATATTTTATAATTATAT
1 AGAT-TTTTATAATTATAT
35365 AGATTTTTATATATTA-AT
1 AGATTTTTATA-ATTATAT
35383 A-A--TTTAT-ATTATAT
1 AGATTTTTATAATTATAT
35397 AGATTTT
1 AGATTTT
35404 AAAATATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 4 0.12
14 3 0.09
15 6 0.18
17 3 0.09
18 10 0.29
19 8 0.24
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
AGATTTTTATAATTATAT
Found at i:35402 original size:15 final size:15
Alignment explanation
Indices: 35352--35402 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
35342 ATTAAGATAT
35352 TTTATAATTATATAGA
1 TTTAT-ATTATATAGA
*
35368 TTTTTATATATTAATA-A
1 TTTATAT-TA-T-ATAGA
35385 TTTATATTATATAGA
1 TTTATATTATATAGA
35400 TTT
1 TTT
35403 TAAAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 7 0.24
16 8 0.28
17 8 0.28
18 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (15 bp):
TTTATATTATATAGA
Found at i:37606 original size:16 final size:15
Alignment explanation
Indices: 37567--37604 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
37557 ATATTAAAAT
37567 TTAAATAATATTTTA
1 TTAAATAATATTTTA
37582 TTAAATAATATTTT-
1 TTAAATAATATTTTA
37596 TTAAA-AATA
1 TTAAATAATA
37605 ATTATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 5 0.22
15 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAAATAATATTTTA
Found at i:39148 original size:50 final size:50
Alignment explanation
Indices: 39021--39195 Score: 181
Period size: 50 Copynumber: 3.5 Consensus size: 50
39011 TTTACAATTA
* * ** *
39021 AGAGAGGTGGTCGTAATTGTTGATTATCCTTT-ACCAATATCTGACAATCG
1 AGAGAGGTGGTCGTAATTGTTGACTAT-TTTTCACCAACCTTTGACAATCG
* * *
39071 AGAGAAGTGGCCGTAATTGTTAACTATTTTTCACCAACCTTTGACAATCG
1 AGAGAGGTGGTCGTAATTGTTGACTATTTTTCACCAACCTTTGACAATCG
* * * * *
39121 AGAGAGGTGGTCGTAATTATTGACTATTCTTCATCAACCTTTGATAATAG
1 AGAGAGGTGGTCGTAATTGTTGACTATTTTTCACCAACCTTTGACAATCG
* ***
39171 AGAAAGGTTACCGTAATTGTTGACT
1 AGAGAGGTGGTCGTAATTGTTGACT
39196 CTAAACATCT
Statistics
Matches: 103, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
49 3 0.03
50 100 0.97
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (50 bp):
AGAGAGGTGGTCGTAATTGTTGACTATTTTTCACCAACCTTTGACAATCG
Found at i:45601 original size:17 final size:18
Alignment explanation
Indices: 45581--45617 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
45571 TTAATTTTAT
*
45581 TAATTTTTTAAA-TTAAA
1 TAATTTTTAAAATTTAAA
45598 TAATTTTTAAAATTTAAA
1 TAATTTTTAAAATTTAAA
45616 TA
1 TA
45618 TATAACCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTTTTAAAATTTAAA
Found at i:50119 original size:18 final size:17
Alignment explanation
Indices: 50091--50132 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
50081 AATATAATTT
*
50091 TTTAAATATTAAAAAAA
1 TTTAAAAATTAAAAAAA
*
50108 TTATAAAAATTAAATAAA
1 TT-TAAAAATTAAAAAAA
50126 TTTAAAA
1 TTTAAAA
50133 CAAATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTAAAAATTAAAAAAA
Found at i:50207 original size:2 final size:2
Alignment explanation
Indices: 50200--50227 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50190 CTAGGAGTTA
50200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50228 GTAAAGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54701 original size:12 final size:12
Alignment explanation
Indices: 54655--54710 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
54645 ATAATTTTTA
54655 TTTAAAT-TTAAT
1 TTTAAATATT-AT
* *
54667 TATAAATATTAA
1 TTTAAATATTAT
* *
54679 TATAAAAATTAT
1 TTTAAATATTAT
*
54691 TTTTAATATTAT
1 TTTAAATATTAT
54703 TTTAAATA
1 TTTAAATA
54711 ATAAAATCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 33 0.94
13 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAAATATTAT
Found at i:54856 original size:2 final size:2
Alignment explanation
Indices: 54849--54883 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
54839 TACCTTAATC
54849 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
54884 TATTTAAAAA
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:55727 original size:34 final size:34
Alignment explanation
Indices: 55700--55773 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
55690 ATTTTTTAAT
55700 TAAT-TTTATTTGTTTTTTTATTTTATTTAATAA
1 TAATATTTATTTGTTTTTTTATTTTATTTAATAA
* *
55733 TAATATTTCTTTGTTTTATT-TTTT-TTTACATAA
1 TAATATTTATTTGTTTTTTTATTTTATTTA-ATAA
55766 -AA-ATTTAT
1 TAATATTTAT
55774 GATTTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
31 5 0.14
32 6 0.17
33 12 0.33
34 13 0.36
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (34 bp):
TAATATTTATTTGTTTTTTTATTTTATTTAATAA
Found at i:60629 original size:2 final size:2
Alignment explanation
Indices: 60622--60661 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
60612 GTCTCATGAA
*
60622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60662 GTTAAGTGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61243 original size:2 final size:2
Alignment explanation
Indices: 61238--61263 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61228 ATATACATTT
61238 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
61264 TGAAACTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:62267 original size:11 final size:11
Alignment explanation
Indices: 62243--62305 Score: 62
Period size: 10 Copynumber: 6.0 Consensus size: 11
62233 ATAATATTAA
62243 AAATAATAATAT
1 AAAT-ATAATAT
*
62255 AAATATAACAT
1 AAATATAATAT
62266 AAATA-AA-AT
1 AAATATAATAT
* *
62275 AATTAAAATAT
1 AAATATAATAT
62286 -AATATAATAT
1 AAATATAATAT
62296 AAATA-AATAT
1 AAATATAATAT
62306 TTAAAAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.14
10 17 0.39
11 17 0.39
12 4 0.09
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATATAATAT
Found at i:62292 original size:30 final size:29
Alignment explanation
Indices: 62242--62311 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
62232 GATAATATTA
*
62242 AAAATAA-TAATATAAATATAACATAAAT
1 AAAATAATTAAAATAAATATAACATAAAT
*
62270 AAAATAATTAAAATATAATATAATATAAAT
1 AAAATAATTAAAATA-AATATAACATAAAT
*
62300 -AAATATTTAAAA
1 AAAATAATTAAAA
62312 ATTTTTATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.19
29 17 0.46
30 13 0.35
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAATAATTAAAATAAATATAACATAAAT
Found at i:62301 original size:25 final size:25
Alignment explanation
Indices: 62247--62298 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
62237 TATTAAAAAT
62247 AATAATATAAATATAACATAAATAA
1 AATAATATAAATATAACATAAATAA
*
62272 AATAAT-TAAAATATAATATAATATAA
1 AATAATAT-AAATATAACATAA-ATAA
62298 A
1 A
62299 TAAATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 1 0.04
25 18 0.75
26 5 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AATAATATAAATATAACATAAATAA
Found at i:62390 original size:30 final size:29
Alignment explanation
Indices: 62250--62417 Score: 91
Period size: 29 Copynumber: 5.8 Consensus size: 29
62240 TAAAAATAAT
* * *
62250 AATATAAATATAACATAAATAAAATAATTAA
1 AATATAATTATAATAT-AATAAAAT-ATTTA
62281 AATATAA-TATAATATAA-ATAAATATTTA
1 AATATAATTATAATATAATA-AAATATTTA
* ** * * *
62309 AAAATTTTTATAATATAA-ATTATTAACTT-
1 AATATAATTATAATATAATA-AAAT-ATTTA
* *
62338 ATTATAATTTATAA-AAATATAAAATATTTTA
1 AATATAA-TTATAATATA-ATAAAATA-TTTA
*
62369 AATATAATTATAATATAAT-AAATATATA
1 AATATAATTATAATATAATAAAATATTTA
62397 AATATAA-TATTAATAT-ATAAA
1 AATATAATTA-TAATATAATAAA
62418 TTTTCAAGTC
Statistics
Matches: 107, Mismatches: 19, Indels: 25
0.71 0.13 0.17
Matches are distributed among these distances:
27 4 0.04
28 27 0.25
29 31 0.29
30 29 0.27
31 16 0.15
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (29 bp):
AATATAATTATAATATAATAAAATATTTA
Found at i:65429 original size:17 final size:17
Alignment explanation
Indices: 65407--65439 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65397 TATGTCAGTA
*
65407 TTTAATTTTTTTTAATT
1 TTTAATTTATTTTAATT
65424 TTTAATTTATTTTAAT
1 TTTAATTTATTTTAAT
65440 AACTAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTAATTTATTTTAATT
Found at i:70342 original size:2 final size:2
Alignment explanation
Indices: 70335--70373 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
70325 ATTCCTTCTT
70335 TA TA 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 TA TA T
70374 TATTTTTGCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:74626 original size:2 final size:2
Alignment explanation
Indices: 74619--74654 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
74609 TTTATTCGAC
74619 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74655 GAACATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75301 original size:4 final size:4
Alignment explanation
Indices: 75287--75329 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
75277 TACGTTTTGC
75287 AGAA A-AA AGAA AGAA AGAA AGAA AGAA AGAA A-AA A-AA A-AA AGA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA
75330 GAAAAAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 12 0.32
4 25 0.68
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:75309 original size:12 final size:11
Alignment explanation
Indices: 75287--75356 Score: 60
Period size: 12 Copynumber: 6.4 Consensus size: 11
75277 TACGTTTTGC
75287 AGAAAAAAGAA
1 AGAAAAAAGAA
75298 AGAAAGAAAGAA
1 AGAAA-AAAGAA
75310 AGAAAGAAA-AA
1 AGAAA-AAAGAA
75321 A-AAAAAAG--
1 AGAAAAAAGAA
75329 AGAAAAAAGGAGA
1 AGAAAAAA-GA-A
75342 A-AAAAAAGGAA
1 AGAAAAAA-GAA
75353 AGAA
1 AGAA
75357 TTTTTTTTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
8 1 0.02
9 9 0.18
10 4 0.08
11 10 0.20
12 26 0.51
13 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AGAAAAAAGAA
Found at i:75408 original size:27 final size:27
Alignment explanation
Indices: 75359--75449 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 27
75349 GGAAAGAATT
**
75359 TTTTTTTATATGTTGATATTTATATTA
1 TTTTTTTATATGTAAATATTTATATTA
*
75386 TTTTTTTATATGTAAAATATTATATTTTTA
1 TTTTTTTATATGT-AAATATT-TA-TATTA
* * *
75416 TATATTTTTATATATTAATAATTTATTTTA
1 T-T-TTTTTATATGTAAAT-ATTTATATTA
75446 TTTT
1 TTTT
75450 ATGTATATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
27 13 0.25
28 7 0.13
29 3 0.06
30 11 0.21
31 6 0.11
32 13 0.25
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTTTTATATGTAAATATTTATATTA
Found at i:75421 original size:10 final size:10
Alignment explanation
Indices: 75406--75431 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
75396 TGTAAAATAT
75406 TATATTTTTA
1 TATATTTTTA
75416 TATATTTTTA
1 TATATTTTTA
75426 TATATT
1 TATATT
75432 AATAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATATTTTTA
Found at i:75450 original size:35 final size:34
Alignment explanation
Indices: 75377--75467 Score: 94
Period size: 37 Copynumber: 2.6 Consensus size: 34
75367 TATGTTGATA
*
75377 TTTATATTATTTTTTTATATGTAAAATATTATATT
1 TTTATA-TATTTTTATATATGTAAAATATTATATT
*
75412 TTTATATATTTTTATATAT-TAATAATTTATTTTATT
1 TTTATATATTTTTATATATGTAA-AA--TATTATATT
* *
75448 TTATGTATATTTATATATAT
1 TT-TATATATTTTTATATAT
75468 ATATGTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
33 3 0.06
34 14 0.29
35 6 0.12
36 10 0.21
37 15 0.31
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (34 bp):
TTTATATATTTTTATATATGTAAAATATTATATT
Found at i:75802 original size:9 final size:9
Alignment explanation
Indices: 75788--75828 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
75778 GAGGAAAGAA
75788 AAAAAAAAG
1 AAAAAAAAG
75797 AAAAAAAAAG
1 -AAAAAAAAG
75807 AAAAAAAAG
1 AAAAAAAAG
*
75816 -AAAGAAAG
1 AAAAAAAAG
75824 AAAAA
1 AAAAA
75829 GAGAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.25
9 12 0.43
10 9 0.32
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:75802 original size:10 final size:10
Alignment explanation
Indices: 75782--75818 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
75772 GTTCAGGAGG
75782 AAAGAAAAAAA
1 AAAG-AAAAAA
75793 AAAGAAAAAA
1 AAAGAAAAAA
75803 AAAG-AAAAA
1 AAAGAAAAAA
75812 AAAGAAA
1 AAAGAAA
75819 GAAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.36
10 12 0.48
11 4 0.16
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:75819 original size:23 final size:22
Alignment explanation
Indices: 75782--75830 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
75772 GTTCAGGAGG
75782 AAAG-AAAAAAAAAAGAAAAAA
1 AAAGAAAAAAAAAAAGAAAAAA
*
75803 AAAGAAAAAAAAGAAAGAAAGAA
1 AAAGAAAAAAAA-AAAGAAAAAA
75826 AAAGA
1 AAAGA
75831 GAATAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.16
22 7 0.28
23 14 0.56
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAAAAAAAGAAAAAA
Found at i:75829 original size:10 final size:10
Alignment explanation
Indices: 75781--75830 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
75771 TGTTCAGGAG
75781 GAAAGAAAAAA
1 GAAAG-AAAAA
*
75792 AAAAGAAAAA
1 GAAAGAAAAA
*
75802 AAAAGAAAAA
1 GAAAGAAAAA
75812 -AAAG--AAA
1 GAAAGAAAAA
75819 GAAAGAAAAA
1 GAAAGAAAAA
75829 GA
1 GA
75831 GAATAAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
7 3 0.09
8 4 0.11
9 4 0.11
10 20 0.57
11 4 0.11
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:75881 original size:19 final size:19
Alignment explanation
Indices: 75844--75881 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
75834 TAAATTTACG
* *
75844 TTTTTATATTTACATTATT
1 TTTTTATATTTAAAATATT
75863 TTTTTATATTTAAAATATT
1 TTTTTATATTTAAAATATT
75882 ATATTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTATATTTAAAATATT
Found at i:75969 original size:17 final size:18
Alignment explanation
Indices: 75931--75970 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
75921 TTATTTCATA
*
75931 TATATTTTTATACATATG
1 TATATTTATATACATATG
*
75949 TATATTTATAT-CATGTG
1 TATATTTATATACATATG
75966 TATAT
1 TATAT
75971 CATTTTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (18 bp):
TATATTTATATACATATG
Found at i:76424 original size:20 final size:20
Alignment explanation
Indices: 76399--76442 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
76389 GTCATATTTA
*
76399 TTTTTATATTATGTTTTAAT
1 TTTTTATATTATATTTTAAT
* *
76419 TTTTTATGTTATATTTTTAT
1 TTTTTATATTATATTTTAAT
76439 TTTT
1 TTTT
76443 CGTATATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (20 bp):
TTTTTATATTATATTTTAAT
Found at i:77378 original size:16 final size:17
Alignment explanation
Indices: 77359--77398 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
77349 TTATTTTAAA
77359 ATAAAATTTATTT-ATT
1 ATAAAATTTATTTAATT
*
77375 AT-AATTTTATTTAATT
1 ATAAAATTTATTTAATT
77391 A-AAAATTT
1 ATAAAATTT
77399 TATAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATAAAATTTATTTAATT
Found at i:77385 original size:15 final size:17
Alignment explanation
Indices: 77361--77401 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
77351 ATTTTAAAAT
77361 AAAA-TTTATTT-ATT-
1 AAAATTTTATTTAATTA
*
77375 ATAATTTTATTTAATTA
1 AAAATTTTATTTAATTA
77392 AAAATTTTAT
1 AAAATTTTAT
77402 AAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 3 0.14
15 7 0.32
16 3 0.14
17 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAAATTTTATTTAATTA
Found at i:77923 original size:17 final size:16
Alignment explanation
Indices: 77899--77939 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
77889 TTAAAATTTT
*
77899 TTTAATTTTATATTTAAA
1 TTTATTTTTA-ATTT-AA
77917 TTTATTTTTAATTTAA
1 TTTATTTTTAATTTAA
77933 TTTATTT
1 TTTATTT
77940 ATTTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
18 9 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTTTTAATTTAA
Found at i:77954 original size:13 final size:13
Alignment explanation
Indices: 77899--77953 Score: 60
Period size: 12 Copynumber: 4.3 Consensus size: 13
77889 TTAAAATTTT
77899 TTTAATTTTA-TA
1 TTTAATTTTATTA
*
77911 TTTAAATTTATT-
1 TTTAATTTTATTA
*
77923 TTTAATTTAATTTA
1 TTTAATTTTA-TTA
*
77937 TTTATTTTTATTA
1 TTTAATTTTATTA
77950 TTTA
1 TTTA
77954 TAATTAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
12 17 0.49
13 10 0.29
14 8 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTAATTTTATTA
Found at i:77954 original size:17 final size:17
Alignment explanation
Indices: 77894--77954 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
77884 CATGTTTAAA
* *
77894 ATTTTTTTAATTTTA-T
1 ATTTATTTATTTTTATT
77910 ATTTAAATTTATTTTTAATTT
1 ATTT--ATTTATTTTT-A-TT
77931 AATTTATTTATTTTTATT
1 -ATTTATTTATTTTTATT
77949 ATTTAT
1 ATTTAT
77955 AATTAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
16 4 0.11
17 6 0.16
18 10 0.27
19 2 0.05
20 10 0.27
21 1 0.03
22 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTATTTATTTTTATT
Found at i:82412 original size:22 final size:20
Alignment explanation
Indices: 82384--82425 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
82374 CTGCCTTCAC
82384 TTTCCTTTTTTCTGTTTTTTTT
1 TTTCCTTTTTT-T-TTTTTTTT
82406 TTTCCTTTTTTTTTTTTTTT
1 TTTCCTTTTTTTTTTTTTTT
82426 GCATTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (20 bp):
TTTCCTTTTTTTTTTTTTTT
Found at i:82423 original size:15 final size:14
Alignment explanation
Indices: 82389--82422 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
82379 TTCACTTTCC
82389 TTTTTTCTGTTTTT
1 TTTTTTCTGTTTTT
82403 TTTTTTCCT-TTTTT
1 TTTTTT-CTGTTTTT
82417 TTTTTT
1 TTTTTT
82423 TTTGCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTTCTGTTTTT
Found at i:83380 original size:2 final size:2
Alignment explanation
Indices: 83373--83405 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
83363 CTGTTGGAAA
83373 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
83406 AGAAGAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:83411 original size:3 final size:3
Alignment explanation
Indices: 83403--83429 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
83393 AGAGAGAGAG
83403 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
83430 GTGAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:83512 original size:15 final size:15
Alignment explanation
Indices: 83494--83537 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
83484 TAAAATTAAA
*
83494 ATATTTTTTTATATT
1 ATATATTTTTATATT
83509 ATATATTTTTATATTT
1 ATATATTTTTATA-TT
* *
83525 AAACATTTTTATA
1 ATATATTTTTATA
83538 AAATACATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
ATATATTTTTATATT
Found at i:83537 original size:31 final size:31
Alignment explanation
Indices: 83499--83557 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
83489 TTAAAATATT
** * *
83499 TTTTTATATTATATATTTTTATATTTAAACA
1 TTTTTATAAAATACATTTATATATTTAAACA
83530 TTTTTATAAAATACATTTATATATTTAA
1 TTTTTATAAAATACATTTATATATTTAA
83558 GAATATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (31 bp):
TTTTTATAAAATACATTTATATATTTAAACA
Found at i:83678 original size:26 final size:27
Alignment explanation
Indices: 83607--83678 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 27
83597 ATATAATTTG
* * *
83607 TTAAAATATTTATAGATATTAATTTTCA
1 TTAAAATATTTCTATA-AATAATTTTCA
*
83635 TTAAAATATTTTTATAAATAATTTT-A
1 TTAAAATATTTCTATAAATAATTTTCA
** *
83661 TTAATTTATTTCTCTAAA
1 TTAAAATATTTCTATAAA
83679 ATATTATTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
26 15 0.41
27 8 0.22
28 14 0.38
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (27 bp):
TTAAAATATTTCTATAAATAATTTTCA
Found at i:84941 original size:2 final size:2
Alignment explanation
Indices: 84934--84979 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
84924 GTAATGATTG
84934 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84976 AT AT
1 AT AT
84980 CCTGGTCAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90720 original size:314 final size:316
Alignment explanation
Indices: 90332--90922 Score: 778
Period size: 316 Copynumber: 1.9 Consensus size: 316
90322 AACACATTGC
* * * * * * * *
90332 ATTCAAGACTTGTCAGTATTGAAAGTATTTCTGAAATCTTGTATTTTATAGGAATGTCTGATATA
1 ATTCAAGACTTGTCAGTATTGAAAGCATATATGAAAACTTATATATTATAAGAATATCTGATATA
* * * **
90397 CGTAATTGGTCCATTGCTTGCC-CTTTT-AAAGTTGTTTTTGTAGCTTCCTTGTG-CTGACTGTA
66 CGCAATTGGTCCAATGCTTGCCTCTTTTAAAAGTTGTTTTTATAGCTTCCCGGTGTCT-ACTGTA
* * * * *
90459 AATTGGGAAGTGACTTCTTATGCATCTCTGAACGTCATCTTGAGATGGTGAAGAAGTTTGCTAGC
130 AATTGGGAAGTAACTTCTTATGCATCACTGAACGTCATCTTAAGATGGTGAAGAAGTTTGCCAAC
* *
90524 CTTTTTCTCACAACTCTTCATTCAGTTCTGAAGCAGGAAAAC-TTTTAGACTTAA-CCTGAGATA
195 CTTTTTCTCACAACTCTTCATTCAGTACTGAACCAGGAAAACATTTTAGACTTAAGCC-GAGAT-
90587 AAACAATGTTGAAATGGTTGAATGGTTGCCTCCTTATTTTCATCTTTATTACATGCTGG
258 AAACAATGTTGAAATGGTTGAATGGTTGCCTCCTTATTTTCATCTTTATTACATGCTGG
* * * *
90646 ATTCAAGAGTTGTCAGTGTTGAAAGCGTATATGAAAACTTATATATTATAAGAATATCTGCTATA
1 ATTCAAGACTTGTCAGTATTGAAAGCATATATGAAAACTTATATATTATAAGAATATCTGATATA
* * * **
90711 TGCAATTGGTCCAATGCTTTCCTTTTTTAAAAGTTGTTTTTATAGCTTCCCGGTGTCTACTGTCT
66 CGCAATTGGTCCAATGCTTGCCTCTTTTAAAAGTTGTTTTTATAGCTTCCCGGTGTCTACTGTAA
* * *
90776 GTTGGGAAGTAACTTCTTATGCGTCACTGAATGTCATCTTAAGATGGTGAAGAAGTTTGCCAACC
131 ATTGGGAAGTAACTTCTTATGCATCACTGAACGTCATCTTAAGATGGTGAAGAAGTTTGCCAACC
*** * *
90841 TTTTTCTGGTAATTCTTCATTCAGTACTGAACCAGGAAAACATTTTAGACTTAAGCCGAGGTAAA
196 TTTTTCTCACAACTCTTCATTCAGTACTGAACCAGGAAAACATTTTAGACTTAAGCCGAGATAAA
*
90906 CAATTTTGAAATGGTTG
261 CAATGTTGAAATGGTTG
90923 CCTACTTGGT
Statistics
Matches: 234, Mismatches: 38, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
314 71 0.30
315 4 0.02
316 139 0.59
317 18 0.08
318 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (316 bp):
ATTCAAGACTTGTCAGTATTGAAAGCATATATGAAAACTTATATATTATAAGAATATCTGATATA
CGCAATTGGTCCAATGCTTGCCTCTTTTAAAAGTTGTTTTTATAGCTTCCCGGTGTCTACTGTAA
ATTGGGAAGTAACTTCTTATGCATCACTGAACGTCATCTTAAGATGGTGAAGAAGTTTGCCAACC
TTTTTCTCACAACTCTTCATTCAGTACTGAACCAGGAAAACATTTTAGACTTAAGCCGAGATAAA
CAATGTTGAAATGGTTGAATGGTTGCCTCCTTATTTTCATCTTTATTACATGCTGG
Found at i:100589 original size:2 final size:2
Alignment explanation
Indices: 100582--100619 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
100572 ACGAGTTTCA
100582 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
100620 AGGCCTCCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:101513 original size:9 final size:9
Alignment explanation
Indices: 101462--101559 Score: 65
Period size: 9 Copynumber: 10.4 Consensus size: 9
101452 TATAATTTTA
101462 AATAAGATAT
1 AATAA-ATAT
*
101472 AA-AATTAT
1 AATAAATAT
101480 AATATGAATAT
1 AATA--AATAT
* * *
101491 GATATATTT
1 AATAAATAT
101500 AATAAATAT
1 AATAAATAT
101509 AATAAATAT
1 AATAAATAT
101518 ATAGTAAATAT
1 A-A-TAAATAT
101529 AATAAGATAT
1 AATAA-ATAT
*
101539 -TTAAATAT
1 AATAAATAT
* *
101547 AATTAACAT
1 AATAAATAT
101556 AATA
1 AATA
101560 TATTTAATAC
Statistics
Matches: 68, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
8 9 0.13
9 36 0.53
10 8 0.12
11 15 0.22
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (9 bp):
AATAAATAT
Found at i:101517 original size:20 final size:21
Alignment explanation
Indices: 101494--101568 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 21
101484 TGAATATGAT
101494 ATATTTAATAAATATAATAA-
1 ATATTTAATAAATATAATAAG
* *
101514 ATATATAGTAAATATAATAAG
1 ATATTTAATAAATATAATAAG
*
101535 ATATTTAAATATAAT-TAACATAAT
1 ATATTT-AATA-AATAT-A-ATAAG
101559 ATATTTAATA
1 ATATTTAATA
101569 CATAGATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 18 0.40
21 5 0.11
22 4 0.09
23 8 0.18
24 10 0.22
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (21 bp):
ATATTTAATAAATATAATAAG
Found at i:102293 original size:14 final size:15
Alignment explanation
Indices: 102276--102306 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
102266 AACTAATATT
102276 AATTAAATT-TAAAA
1 AATTAAATTATAAAA
102290 AATTAAATTATAAAA
1 AATTAAATTATAAAA
102305 AA
1 AA
102307 ATAATATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATTAAATTATAAAA
Found at i:103287 original size:25 final size:24
Alignment explanation
Indices: 103258--103305 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
103248 GATATACTTT
103258 ATTATAAAATCTTTAA-ATGAAAAAA
1 ATTATAAAAT-TTTAAGAT-AAAAAA
*
103283 ATTATCAAATTTTAAGATAAAAA
1 ATTATAAAATTTTAAGATAAAAA
103306 TAATATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
ATTATAAAATTTTAAGATAAAAAA
Found at i:103791 original size:37 final size:37
Alignment explanation
Indices: 103742--103845 Score: 99
Period size: 38 Copynumber: 2.8 Consensus size: 37
103732 ATTTATTTTA
* *
103742 AAATA-TAATATAATTTTAATAACTTATT-TTTAATAT
1 AAATATTATTATAATTTT-ATAACTTATTATTTAATAC
*
103778 AAATATTATTATAATATTTTTTAA-TTATTATTTAATAC
1 AAATATTATTAT-A-ATTTTATAACTTATTATTTAATAC
* *
103816 AAATATAATT-TATATTTTATTACTTATTAT
1 AAATATTATTATA-ATTTTATAACTTATTAT
103846 GATTTTAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
36 14 0.25
37 18 0.32
38 20 0.35
39 5 0.09
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (37 bp):
AAATATTATTATAATTTTATAACTTATTATTTAATAC
Found at i:107600 original size:13 final size:13
Alignment explanation
Indices: 107582--107606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107572 AAATTCTTTC
107582 TTTTTTATTTTTA
1 TTTTTTATTTTTA
107595 TTTTTTATTTTT
1 TTTTTTATTTTT
107607 TGTCTTTGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:108225 original size:20 final size:20
Alignment explanation
Indices: 108202--108275 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
108192 ACAATTCAAA
108202 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
108222 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
108243 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
108263 GTATCGATACATG
1 GTATCGATACATG
108276 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:108246 original size:21 final size:21
Alignment explanation
Indices: 108220--108295 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
108210 ACATGTTGCA
108220 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
108241 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
108261 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
108282 ATGTATCGATACAT
1 ATGTATCGATACAT
108296 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:108253 original size:41 final size:41
Alignment explanation
Indices: 108202--108295 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
108192 ACAATTCAAA
108202 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
108243 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
108284 GTATCGATACAT
1 GTATCGATACAT
108296 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:108352 original size:13 final size:13
Alignment explanation
Indices: 108334--108359 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108324 TACAGCAAGT
108334 ATGTATCGATACA
1 ATGTATCGATACA
108347 ATGTATCGATACA
1 ATGTATCGATACA
108360 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:108881 original size:34 final size:35
Alignment explanation
Indices: 108818--108884 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
108808 CTAAGTGATT
108818 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
108854 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
108885 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:110558 original size:84 final size:84
Alignment explanation
Indices: 110398--110558 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 84
110388 ACTCAAAGAA
* * * *
110398 GAAAATAAATCAATAAGTGTAGAGAATCATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
* *
110463 TATGAAAGAGTTACAAAAT
66 AAAGAAAGAGTTACAAAAT
* *
110482 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATT--AGAAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTC--TTAAAAAGAAAATAAATGAATTAGAGAAG
110543 AGAAAAGAAATGAGTT
64 AG-AAAGAAA-GAGTT
110559 GCAAGTCGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
82 11 0.17
83 6 0.09
84 48 0.74
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
AAAGAAAGAGTTACAAAAT
Found at i:112029 original size:13 final size:13
Alignment explanation
Indices: 112011--112035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112001 TTTTCCAGAT
112011 TGTATCGATACAA
1 TGTATCGATACAA
112024 TGTATCGATACA
1 TGTATCGATACA
112036 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:113713 original size:20 final size:20
Alignment explanation
Indices: 113690--113763 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
113680 ACAATTCAAA
113690 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
113710 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
113731 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
113751 GTATCGATACATG
1 GTATCGATACATG
113764 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:113734 original size:21 final size:21
Alignment explanation
Indices: 113708--113783 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
113698 ACATGTTGCA
113708 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
113729 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
113749 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
113770 ATGTATCGATACAT
1 ATGTATCGATACAT
113784 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:113741 original size:41 final size:41
Alignment explanation
Indices: 113690--113783 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
113680 ACAATTCAAA
113690 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
113731 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
113772 GTATCGATACAT
1 GTATCGATACAT
113784 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:113840 original size:13 final size:13
Alignment explanation
Indices: 113822--113847 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113812 TACAGCAAGT
113822 ATGTATCGATACA
1 ATGTATCGATACA
113835 ATGTATCGATACA
1 ATGTATCGATACA
113848 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:114369 original size:34 final size:35
Alignment explanation
Indices: 114306--114372 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
114296 CTAAGTGATT
114306 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
114342 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
114373 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:124302 original size:2 final size:2
Alignment explanation
Indices: 124295--124324 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
124285 GAACTAAGAT
124295 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
124325 CGGCTAGAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:124433 original size:3 final size:3
Alignment explanation
Indices: 124425--124450 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
124415 AACCCTAAAA
124425 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
124451 ATTAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:124728 original size:27 final size:27
Alignment explanation
Indices: 124698--124749 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
124688 GAATGAGTTT
124698 AATAAATATGATTTTACTTTAATTATA
1 AATAAATATGATTTTACTTTAATTATA
124725 AATAAATATGATTTTACTTTAATTA
1 AATAAATATGATTTTACTTTAATTA
124750 ATTCTATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (27 bp):
AATAAATATGATTTTACTTTAATTATA
Found at i:126379 original size:16 final size:16
Alignment explanation
Indices: 126358--126397 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 16
126348 TAATTAAACT
126358 TTTTAAAAATATATTA
1 TTTTAAAAATATATTA
126374 TTTTAATAAAATATATTA
1 TTTT-A-AAAATATATTA
126392 TTTTAA
1 TTTTAA
126398 TTAATCCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.23
17 2 0.09
18 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTAAAAATATATTA
Found at i:126386 original size:18 final size:18
Alignment explanation
Indices: 126363--126398 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
126353 AAACTTTTTA
126363 AAAATATATTATTTTAAT
1 AAAATATATTATTTTAAT
126381 AAAATATATTATTTTAAT
1 AAAATATATTATTTTAAT
126399 TAATCCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAATATATTATTTTAAT
Found at i:131091 original size:3 final size:3
Alignment explanation
Indices: 131083--131114 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
131073 GGTTACCAAG
131083 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
131115 ACTAAAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:131164 original size:13 final size:13
Alignment explanation
Indices: 131132--131170 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
131122 GATTAATATT
131132 TTTATT-ATTAATA
1 TTTATTAATTAA-A
131145 TTT-TTAATTAAA
1 TTTATTAATTAAA
131157 TTTATTAATTAAA
1 TTTATTAATTAAA
131170 T
1 T
131171 ACATTAGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 18 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTATTAATTAAA
Found at i:132081 original size:11 final size:11
Alignment explanation
Indices: 132060--132099 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
132050 ATAATTAATT
132060 ATTTAAAATTTA
1 ATTT-AAATTTA
132072 ATTTAAATTTA
1 ATTTAAATTTA
132083 ATTT-AATTTA
1 ATTTAAATTTA
*
132093 AATTAAA
1 ATTTAAA
132100 GTTACCCACC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.35
11 13 0.50
12 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:132085 original size:16 final size:16
Alignment explanation
Indices: 132066--132096 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
132056 AATTATTTAA
132066 AATTTAATTTAAATTT
1 AATTTAATTTAAATTT
132082 AATTTAATTTAAATT
1 AATTTAATTTAAATT
132097 AAAGTTACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTAATTTAAATTT
Found at i:132577 original size:18 final size:17
Alignment explanation
Indices: 132549--132583 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
132539 AAAAATTCAT
132549 AAATAATATTTTTTAAA
1 AAATAATATTTTTTAAA
132566 AAATAGATATTTTTTAAA
1 AAATA-ATATTTTTTAAA
132584 TTAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
AAATAATATTTTTTAAA
Found at i:132600 original size:22 final size:23
Alignment explanation
Indices: 132561--132604 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
132551 ATAATATTTT
*
132561 TTAAAAAATAGATATTTTTTAAA
1 TTAAAAAATAAATATTTTTTAAA
*
132584 TTAAAAATTAAAT-TTTTTTAA
1 TTAAAAAATAAATATTTTTTAA
132605 TTTCTTGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAAAAAATAAATATTTTTTAAA
Found at i:132991 original size:17 final size:17
Alignment explanation
Indices: 132971--133003 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
132961 CGTGATGAGT
132971 TTTAA-TAATTAAAATAA
1 TTTAATTAA-TAAAATAA
132988 TTTAATTAATAAAATA
1 TTTAATTAATAAAATA
133004 TTTTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAATTAATAAAATAA
Found at i:133764 original size:4 final size:4
Alignment explanation
Indices: 133755--133825 Score: 70
Period size: 4 Copynumber: 17.8 Consensus size: 4
133745 TCCTAAAAAT
* * * * *
133755 TATA TATA TATG TATA TATA TATA TATA TGTA TATA TATG TATG TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * *
133803 TATA TATA TGTA TGTA TGTA TAT
1 TATA TATA TATA TATA TATA TAT
133826 GTATTTAGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (4 bp):
TATA
Found at i:133772 original size:10 final size:10
Alignment explanation
Indices: 133757--133815 Score: 81
Period size: 10 Copynumber: 6.3 Consensus size: 10
133747 CTAAAAATTA
133757 TATATATATG
1 TATATATATG
133767 TATATATA--
1 TATATATATG
133775 TATATATATG
1 TATATATATG
133785 TATATATATG
1 TATATATATG
*
133795 --TATGTATG
1 TATATATATG
133803 TATATATATG
1 TATATATATG
133813 TAT
1 TAT
133816 GTATGTATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 15 0.35
10 28 0.65
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (10 bp):
TATATATATG
Found at i:133774 original size:14 final size:14
Alignment explanation
Indices: 133757--133829 Score: 92
Period size: 14 Copynumber: 5.2 Consensus size: 14
133747 CTAAAAATTA
* *
133757 TATATATATGTATA
1 TATATATATATATG
133771 TATATATATATATG
1 TATATATATATATG
*
133785 TATATATATGTATG
1 TATATATATATATG
*
133799 TATGTATATATATG
1 TATATATATATATG
* *
133813 TATGTATGTATATG
1 TATATATATATATG
133827 TAT
1 TAT
133830 TTAGATTTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 53 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (14 bp):
TATATATATATATG
Found at i:133778 original size:18 final size:18
Alignment explanation
Indices: 133755--133825 Score: 106
Period size: 18 Copynumber: 3.9 Consensus size: 18
133745 TCCTAAAAAT
133755 TATATATATATGTATATA
1 TATATATATATGTATATA
133773 TATATATATATGTATATA
1 TATATATATATGTATATA
* *
133791 TATGTATGTATGTATATA
1 TATATATATATGTATATA
* *
133809 TATGTATGTATGTATAT
1 TATATATATATGTATAT
133826 GTATTTAGAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TATATATATATGTATATA
Found at i:134826 original size:38 final size:37
Alignment explanation
Indices: 134784--134876 Score: 91
Period size: 38 Copynumber: 2.5 Consensus size: 37
134774 TCTCTCAAGT
* *
134784 TAAATTTAAATTTTAAAATTTAAACTTTATTTACTAAA
1 TAAATTTAAATTTTAAAATATAAACATTATTTA-TAAA
* *
134822 TAAATTATAAGA--ATAAAATATACACATTATTTATAAA
1 TAAATT-TAA-ATTTTAAAATATAAACATTATTTATAAA
* *
134859 TTAATTAAAATTTTAAAA
1 TAAATTTAAATTTTAAAA
134877 AATATTTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
35 1 0.02
36 2 0.05
37 14 0.32
38 23 0.52
39 3 0.07
40 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (37 bp):
TAAATTTAAATTTTAAAATATAAACATTATTTATAAA
Done.