Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2621
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: 169170
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Found at i:2760 original size:15 final size:15
Alignment explanation
Indices: 2740--2770 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2730 TAAAAATGTC
*
2740 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2755 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2770 C
1 C
2771 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4871 original size:13 final size:13
Alignment explanation
Indices: 4853--4890 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4843 CATTTTTCTT
4853 TGTATCGATACAA
1 TGTATCGATACAA
*
4866 TGTATCGATACAC
1 TGTATCGATACAA
4879 TGTATCGATACA
1 TGTATCGATACA
4891 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5045 original size:20 final size:20
Alignment explanation
Indices: 5007--5046 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
4997 TTTTGTAAAA
5007 TACTTGTTTTTCACTTCAAAT
1 TACTTGTTTTTCAC-TCAAAT
5028 TACTTCGTTTTTCA-TCAAA
1 TACTT-GTTTTTCACTCAAA
5047 ACCAGCATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (20 bp):
TACTTGTTTTTCACTCAAAT
Found at i:7438 original size:13 final size:13
Alignment explanation
Indices: 7420--7444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7410 TAGCCAAAAT
7420 TGTATCGATACAA
1 TGTATCGATACAA
7433 TGTATCGATACA
1 TGTATCGATACA
7445 CAAAAAATTG
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:12490 original size:36 final size:36
Alignment explanation
Indices: 12443--12517 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
12433 ATAGATTGCA
12443 TGGATCAATACATATGTTCTCAAAGGCAAGGATGTG
1 TGGATCAATACATATGTTCTCAAAGGCAAGGATGTG
12479 TGGATCAATACATATGTTCTCAAAGGCAAGGATGTG
1 TGGATCAATACATATGTTCTCAAAGGCAAGGATGTG
12515 TGG
1 TGG
12518 TAGGTCCCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (36 bp):
TGGATCAATACATATGTTCTCAAAGGCAAGGATGTG
Found at i:14197 original size:2 final size:2
Alignment explanation
Indices: 14190--14224 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14180 TAGAAATTGT
14190 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
14225 TGTCTATTTT
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:19995 original size:18 final size:18
Alignment explanation
Indices: 19972--20009 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
19962 TTCAATTTAA
*
19972 TTTTAAA-ATATATAAATT
1 TTTTAAACA-ATAAAAATT
19990 TTTTAAACAATAAAAATT
1 TTTTAAACAATAAAAATT
20008 TT
1 TT
20010 GCTATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTAAACAATAAAAATT
Found at i:21636 original size:17 final size:17
Alignment explanation
Indices: 21614--21647 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21604 TAAAATTTTT
21614 TTAAATATTAA-TAAATA
1 TTAAATA-TAATTAAATA
21631 TTAAATATAATTAAATA
1 TTAAATATAATTAAATA
21648 CCAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATATAATTAAATA
Found at i:25239 original size:16 final size:16
Alignment explanation
Indices: 25218--25267 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
25208 TTGAAATATA
25218 TAAATATATTAAAATT
1 TAAATATATTAAAATT
25234 TAAATA-A-TATAAATT
1 TAAATATATTA-AAATT
*
25249 ATTAATATATTAAAATT
1 -TAAATATATTAAAATT
25266 TA
1 TA
25268 TTTAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 2 0.07
15 6 0.21
16 12 0.43
17 6 0.21
18 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATATATTAAAATT
Found at i:25258 original size:32 final size:33
Alignment explanation
Indices: 25202--25267 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 33
25192 TTACCATAAA
25202 AAATAATTGAAATATATAAATATATTAAAATTT
1 AAATAATTGAAATATATAAATATATTAAAATTT
*
25235 AAATAATAT-AAAT-TATTAATATATTAAAATTT
1 AAATAAT-TGAAATATATAAATATATTAAAATTT
25267 A
1 A
25268 TTTAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
32 19 0.61
33 11 0.35
34 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (33 bp):
AAATAATTGAAATATATAAATATATTAAAATTT
Found at i:25276 original size:18 final size:18
Alignment explanation
Indices: 25231--25287 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
25221 ATATATTAAA
*
25231 ATTTAAATAATATAAA-TT
1 ATTTAAATATTA-AAATTT
25249 A-TTAATATATTAAAATTT
1 ATTTAA-ATATTAAAATTT
25267 ATTTAAATATATAATAATTT
1 ATTTAAATAT-TAA-AATTT
25287 A
1 A
25288 AATATAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 7 0.21
18 13 0.39
19 7 0.21
20 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTAAATATTAAAATTT
Found at i:25288 original size:16 final size:15
Alignment explanation
Indices: 25218--25293 Score: 55
Period size: 16 Copynumber: 4.5 Consensus size: 15
25208 TTGAAATATA
25218 TAAATATATTAAAATT
1 TAAATATA-TAAAATT
25234 TAAATA-ATATAAATT
1 TAAATATATA-AAATT
*
25249 ATTAATATATTAAAATTTATT
1 -TAAATATA-T-AAA---ATT
25270 TAAATATATAATAATT
1 TAAATATATAA-AATT
25286 TAAATATA
1 TAAATATA
25294 ATTATAATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
14 2 0.04
15 6 0.12
16 22 0.45
17 1 0.02
18 5 0.10
19 3 0.06
20 7 0.14
21 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATATATAAAATT
Found at i:25306 original size:17 final size:17
Alignment explanation
Indices: 25270--25332 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
25260 AAAATTTATT
* *
25270 TAAATAT-ATAATAATT
1 TAAATATAATTATAATA
25286 TAAATATAATTATAATA
1 TAAATATAATTATAATA
*
25303 TAAAAATAA-TATGAATA
1 TAAATATAATTAT-AATA
*
25320 T-AATATAAATATA
1 TAAATATAATTATA
25333 TTGATCGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 17 0.43
17 23 0.57
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TAAATATAATTATAATA
Found at i:27373 original size:13 final size:13
Alignment explanation
Indices: 27355--27406 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 13
27345 ATAAAATATT
27355 TAAAAAATTTAAA
1 TAAAAAATTTAAA
*
27368 TAAAAATATTAAATA
1 TAAAAA-ATTTAA-A
*
27383 TAAAAAAACTTAAA
1 T-AAAAAATTTAAA
27397 T-AAAAATTTA
1 TAAAAAATTTA
27407 GATTCATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
12 8 0.25
13 6 0.19
14 7 0.22
15 6 0.19
16 5 0.16
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAAAATTTAAA
Found at i:27395 original size:16 final size:15
Alignment explanation
Indices: 27356--27402 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
27346 TAAAATATTT
*
27356 AAAAAATTTAA-ATA
1 AAAAAATTAAATATA
*
27370 AAAATATTAAATATA
1 AAAAAATTAAATATA
27385 AAAAAACTTAAATA-A
1 AAAAAA-TTAAATATA
27400 AAA
1 AAA
27403 TTTAGATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.32
15 12 0.43
16 7 0.25
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAAATTAAATATA
Found at i:27508 original size:25 final size:23
Alignment explanation
Indices: 27466--27528 Score: 56
Period size: 25 Copynumber: 2.6 Consensus size: 23
27456 GCTTGTTATT
* *
27466 TTTTTAATTATATAATATATTTTAA
1 TTTTT-ATTATAT-ATATAATATAA
27491 TTTTATATT-TATATATATAATATAA
1 TTTT-TATTATATAT--ATAATATAA
27516 TTTTTATTATATA
1 TTTTTATTATATA
27529 AAAAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
23 2 0.06
24 7 0.22
25 22 0.69
26 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTTATTATATATATAATATAA
Found at i:27553 original size:19 final size:20
Alignment explanation
Indices: 27524--27561 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27514 AATTTTTATT
*
27524 ATATAAAAAATTAATATATC
1 ATATAAAAAATAAATATATC
27544 ATAT-AAAAATAAATATAT
1 ATATAAAAAATAAATATAT
27562 TTAATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
ATATAAAAAATAAATATATC
Found at i:27655 original size:15 final size:15
Alignment explanation
Indices: 27637--27666 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27627 CAAAAATTAA
27637 ATTTTTAATAAAAAT
1 ATTTTTAATAAAAAT
*
27652 ATTTTTTATAAAAAT
1 ATTTTTAATAAAAAT
27667 TAAATTTATA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTTAATAAAAAT
Found at i:28664 original size:16 final size:17
Alignment explanation
Indices: 28636--28672 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
28626 TCATCAATTC
*
28636 GAATTTAAAAATGATTT
1 GAATTTAAAAATGACTT
28653 GAATTT-AAAATGACTT
1 GAATTTAAAAATGACTT
28669 GAAT
1 GAAT
28673 AATTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.38
Consensus pattern (17 bp):
GAATTTAAAAATGACTT
Found at i:28750 original size:37 final size:36
Alignment explanation
Indices: 28709--28804 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 36
28699 ATAAATCTGG
** *
28709 ATATTAAATTTAATTAATCTTAATTTAATTAACTCGA
1 ATATTAAATTTAATTAAT-TTAACCTAATTAACTCAA
* * * *
28746 ATATTAAATTAAATTAATTTTTACCTAATTAATTTAA
1 ATATTAAATTTAATTAA-TTTAACCTAATTAACTCAA
28783 ATATTAAATTTAATTAATTTAA
1 ATATTAAATTTAATTAATTTAA
28805 AATCAAAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
36 4 0.08
37 44 0.90
38 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (36 bp):
ATATTAAATTTAATTAATTTAACCTAATTAACTCAA
Found at i:28813 original size:22 final size:22
Alignment explanation
Indices: 28771--28814 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
28761 AATTTTTACC
*
28771 TAATTAATTTAAATATTAAATT
1 TAATTAATTTAAATATAAAATT
28793 TAATTAATTTAAA-ATCAAAATT
1 TAATTAATTTAAATAT-AAAATT
28815 ACTCAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATTAATTTAAATATAAAATT
Found at i:29573 original size:18 final size:18
Alignment explanation
Indices: 29553--29587 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29543 ATTTGATTTA
*
29553 AAAAAT-ATAATATTATC
1 AAAAATAATAAGATTATC
29570 AAAAATAATAAGATTATC
1 AAAAATAATAAGATTATC
29588 TATTATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAAATAATAAGATTATC
Found at i:34420 original size:24 final size:24
Alignment explanation
Indices: 34387--34442 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
34377 GTTTGATAAC
34387 ATGGAGGGGTCGAGTAAAGAAAAAA
1 ATGG-GGGGTCGAGTAAAGAAAAAA
*
34412 ATGGGGGGTTGAGTAAAGAAAAAA
1 ATGGGGGGTCGAGTAAAGAAAAAA
34436 A-GGGGGG
1 ATGGGGGG
34443 AGTGTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 6 0.20
24 20 0.67
25 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.43, T:0.12
Consensus pattern (24 bp):
ATGGGGGGTCGAGTAAAGAAAAAA
Found at i:41255 original size:16 final size:15
Alignment explanation
Indices: 41236--41286 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
41226 AATCAAAACC
41236 AAAAGCACAAAAAATG
1 AAAAGCA-AAAAAATG
41252 AAAAG-AAAAAAAGTG
1 AAAAGCAAAAAAA-TG
41267 CAAAAGCAAAATAAA-G
1 -AAAAGCAAAA-AAATG
41283 AAAA
1 AAAA
41287 AAGAACAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
14 6 0.19
15 7 0.23
16 11 0.35
17 4 0.13
18 3 0.10
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.06
Consensus pattern (15 bp):
AAAAGCAAAAAAATG
Found at i:41262 original size:15 final size:16
Alignment explanation
Indices: 41236--41286 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
41226 AATCAAAACC
*
41236 AAAAGCACAAAAAATG
1 AAAAGCAAAAAAAATG
*
41252 AAAAG-AAAAAAAGTG
1 AAAAGCAAAAAAAATG
*
41267 CAAAAGCAAAATAAA-G
1 -AAAAGCAAAAAAAATG
41283 AAAA
1 AAAA
41287 AAGAACAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 12 0.41
16 11 0.38
17 6 0.21
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.06
Consensus pattern (16 bp):
AAAAGCAAAAAAAATG
Found at i:42603 original size:28 final size:28
Alignment explanation
Indices: 42562--42963 Score: 346
Period size: 28 Copynumber: 14.3 Consensus size: 28
42552 ATGGAATTTT
* *
42562 TTTTCAAAGTCCACAACTCCATGGTATCC
1 TTTT-AAAGTCCACAACTCCGTGGCATCC
*
42591 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* *
42619 TGTTAAAGTCCATAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * * *
42647 TTTTAAAGTCCAGAACTCTGTGGTACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
42675 TTTTAAAGTCCACAACTCCGTGGCAT-C
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * * * *
42702 TTTTTAAGTCCACCACTCTGTGACACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
42730 TTTT-AAGTCCACAACTCTGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
42757 TTTT-AAGTCCATAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* *
42784 TTTT-AAGTCCACAACTCCATGGCAACAC
1 TTTTAAAGTCCACAACTCCGTGGCATC-C
* * * ** *
42812 TCATTTCAAAGCCCACAAGTCAGTGATATCA
1 T--TTT-AAAGTCCACAACTCCGTGGCATCC
* * **
42843 TTTTAAAGCCCACAAGTTAGTGGCAT-C
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * *
42870 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTT-AAAGTCCACAACTCCGTGGCATCC
* * * *
42899 TTTTAAAGCCCACAAGTCAGTGGCATCAT
1 TTTTAAAGTCCACAACTCCGTGGCATC-C
* * **
42928 TTTTAAAGCCCACAAGTTAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
42956 TTTCAAAG
1 TTTTAAAG
42964 CACACAAGTT
Statistics
Matches: 319, Mismatches: 45, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
27 94 0.29
28 168 0.53
29 38 0.12
30 3 0.01
31 1 0.00
32 15 0.05
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (28 bp):
TTTTAAAGTCCACAACTCCGTGGCATCC
Found at i:43001 original size:32 final size:31
Alignment explanation
Indices: 42810--43815 Score: 706
Period size: 32 Copynumber: 33.7 Consensus size: 31
42800 CCATGGCAAC
*
42810 ACTCATTTCAAAGCC-CACAAGTCAGT-G-A
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* **
42838 TA-TCATTTTAAAGCC-CACAAGTTAGTGGC-
1 -ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* *
42867 A-TCTTTTCAAAGCC-CACAAGTCAGTGGC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* * *
42895 A-TCCTTTTAAAGCC-CACAAGTCAGTGGC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* **
42923 A-TCATTTTTAAAGCC-CACAAGTTAGTGGC-
1 ACTCA-TTTCAAAGCCACACAAGTCGGTGGCA
* *
42952 A-TCCTTTCAAAG-CACACAAGTTGGTGGCA
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
*
42981 ACTCATTTGAAAGACCACACAAGTCGGTGGCA
1 ACTCATTTCAAAG-CCACACAAGTCGGTGGCA
43013 ACTCATTTCAAAGCCTACACAAGTCGGTGGCA
1 ACTCATTTCAAAGCC-ACACAAGTCGGTGGCA
*
43045 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACTCATTTCAAAG-CCACACAAGTCGGTGGCA
* * *
43077 ACCCATTTCAAAG-CTCACAAGTCGGTGAC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* * *
43106 A-TCTTTTCAAAGCC-CACAAGTCAGTAGC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* *** *
43134 AC-CCTTTCAAAGCC-CACAAGT-AAAGAC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* *
43161 A-TCATTTTTAAAGCC-CACAAGTCAGTGGC-
1 ACTCA-TTTCAAAGCCACACAAGTCGGTGGCA
* *
43190 A-TCCTTTCAAAG-CACACAAGTTGGTGGCA
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
*
43219 ACTCATTTGAAAGCCCACACAAGTCGGTGGCA
1 ACTCATTTCAAAG-CCACACAAGTCGGTGGCA
* *
43251 ACTCATTTGAAAGCCCACACAAGTTGGTGGCA
1 ACTCATTTCAAAG-CCACACAAGTCGGTGGCA
* *
43283 ACCCATTTCAAAGCCCACACAAGTTGGTGGCA
1 ACTCATTTCAAAG-CCACACAAGTCGGTGGCA
* *
43315 A-TCCATTTCAAAGCCCACACAAGTTGGTAGCA
1 ACT-CATTTCAAAG-CCACACAAGTCGGTGGCA
* *
43347 AC-CTATTTCAAAGCCCACACAAGTTGGTGGTA
1 ACTC-ATTTCAAAG-CCACACAAGTCGGTGGCA
* *
43379 ACCCATTTCAAAGCCCACACAAGTTGGTGGCA
1 ACTCATTTCAAAG-CCACACAAGTCGGTGGCA
* *
43411 ACTCATTTGAAAGGCCACACAAGTCGGTGGTA
1 ACTCATTTCAAA-GCCACACAAGTCGGTGGCA
*
43443 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACTCATTTCAAAG-CCACACAAGTCGGTGGCA
* *
43475 ACCCATTTCAAAGCC-CACAAGTCAGTGGCA
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* *
43505 TC-CATTTCAAAGCC-CACAAGTCAGTGGC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
*
43533 AC-CATTTCAAAGCC-CACAAGTCAGTGGC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* * *
43561 AC-C-CTTCAAAGCC-CACAAGTCAGTGAC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* * *
43588 ACTCTTTTCAAAGCC-CACAAGTCAGTAGC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* ** * **
43617 ATTTTTTTCAAAG-CTCACAAGTTAGTGGC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* **
43646 A-TCCTTTCAAAGCC-CACAAGTTAGTGGC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* * **
43674 AC-CCTTTCAAAACC-CACAAGTCAATGGC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* * * *
43702 ACTCTTTTCAAAG-CTCACAAGTCAGTGAC-
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* * *
43731 ACTCTTTTCAAAGCC-CACAAGTCAGTAGCA
1 ACTCATTTCAAAGCCACACAAGTCGGTGGCA
* ** *
43761 A-TCTTTTCAAAGCCTACACGTGTCGATGGCA
1 ACTCATTTCAAAGCC-ACACAAGTCGGTGGCA
* *
43792 ACTCTTTTCAAAGCCCATACAAGT
1 ACTCATTTCAAAG-CCACACAAGT
43816 TAGTAGCACT
Statistics
Matches: 851, Mismatches: 87, Indels: 75
0.84 0.09 0.07
Matches are distributed among these distances:
27 30 0.04
28 252 0.30
29 168 0.20
30 49 0.06
31 17 0.02
32 329 0.39
33 6 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (31 bp):
ACTCATTTCAAAGCCACACAAGTCGGTGGCA
Found at i:48542 original size:31 final size:31
Alignment explanation
Indices: 48482--48539 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
48472 TATTAATTTT
48482 TTTAAGAAAATTATTTAATTATTATTTTAAA
1 TTTAAGAAAATTATTTAATTATTATTTTAAA
*
48513 TTTAAGAAAATT-TTTAATTGTTATTTT
1 TTTAAGAAAATTATTTAATTATTATTTT
48540 TAAGAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (31 bp):
TTTAAGAAAATTATTTAATTATTATTTTAAA
Found at i:48716 original size:26 final size:27
Alignment explanation
Indices: 48687--48748 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 27
48677 TCATGTTTCC
*
48687 TAATTAAATTTAATT-TTTTAATTAAA
1 TAATTAAATTTAATTAATTTAATTAAA
*
48713 TAA-T-AATTCAAATTAATTTAATTAAA
1 TAATTAAATT-TAATTAATTTAATTAAA
48739 T--TTAAATTTA
1 TAATTAAATTTA
48749 TTTCATTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
24 4 0.14
25 7 0.24
26 18 0.62
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
TAATTAAATTTAATTAATTTAATTAAA
Found at i:49308 original size:18 final size:17
Alignment explanation
Indices: 49275--49308 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
49265 ACGTGTGCTG
*
49275 CAAAGTATTTTTGTGAT
1 CAAAGTATTTTAGTGAT
49292 CAAAGTATTTATAGTGA
1 CAAAGTATTT-TAGTGA
49309 CAATGATACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (17 bp):
CAAAGTATTTTAGTGAT
Found at i:51384 original size:20 final size:20
Alignment explanation
Indices: 51359--51403 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
51349 AAAAAATTAT
*
51359 AAAAAAAAGAGTTAAAAGAG
1 AAAAAAAAGAGTTAAAAAAG
**
51379 AAAAAAAATTGTTAAAAAAG
1 AAAAAAAAGAGTTAAAAAAG
51399 AAAAA
1 AAAAA
51404 GAGAGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (20 bp):
AAAAAAAAGAGTTAAAAAAG
Found at i:52534 original size:14 final size:14
Alignment explanation
Indices: 52515--52544 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
52505 TTCCACAAAA
52515 AAATAAAAAAGAAT
1 AAATAAAAAAGAAT
*
52529 AAATAAAAAATAAT
1 AAATAAAAAAGAAT
52543 AA
1 AA
52545 TAGAAAGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (14 bp):
AAATAAAAAAGAAT
Found at i:53538 original size:20 final size:20
Alignment explanation
Indices: 53496--53543 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
53486 CACTGGAGAC
* *
53496 CGACGATCGACGGTGGTCGT
1 CGACGATCAACGGTGGTCAT
* *
53516 CGATGATCAACGGTGGTTAT
1 CGACGATCAACGGTGGTCAT
53536 CGACGATC
1 CGACGATC
53544 GGCATGGTGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (20 bp):
CGACGATCAACGGTGGTCAT
Found at i:53660 original size:14 final size:14
Alignment explanation
Indices: 53641--53667 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53631 TATTGCTGAA
53641 GAAGAAGAAGAAAT
1 GAAGAAGAAGAAAT
53655 GAAGAAGAAGAAA
1 GAAGAAGAAGAAA
53668 ATGATGAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.04
Consensus pattern (14 bp):
GAAGAAGAAGAAAT
Found at i:54173 original size:2 final size:2
Alignment explanation
Indices: 54166--54194 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
54156 TTGCTTGTTT
54166 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 T
54195 TGAAAATCCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56634 original size:20 final size:20
Alignment explanation
Indices: 56597--56635 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
56587 GTGAGCTATT
*
56597 TCCCTTAGTGATGGTTACCA
1 TCCCTTAGTGATGATTACCA
56617 TCCCTTAGTG-TAGATTACC
1 TCCCTTAGTGAT-GATTACC
56636 TATGCTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.36
Consensus pattern (20 bp):
TCCCTTAGTGATGATTACCA
Found at i:67408 original size:20 final size:20
Alignment explanation
Indices: 67380--67454 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
67370 TTTTACCCAG
67380 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
67400 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
67420 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
67440 ATGTATCGATACATT
1 ATGTATCGATACATT
67455 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:67440 original size:40 final size:39
Alignment explanation
Indices: 67380--67457 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
67370 TTTTACCCAG
*
67380 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
67420 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
67458 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:81452 original size:13 final size:12
Alignment explanation
Indices: 81433--81462 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
81423 CGTCCTTTAC
81433 AAAAAAAACAAA
1 AAAAAAAACAAA
81445 ACAAAAAAACAAA
1 A-AAAAAAACAAA
81458 AAAAA
1 AAAAA
81463 CGAAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:82775 original size:28 final size:28
Alignment explanation
Indices: 82706--83689 Score: 1160
Period size: 28 Copynumber: 34.5 Consensus size: 28
82696 TGTTCATCCC
* *
82706 TTTCAAAGCTCACAAGTCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * *
82735 TTTCAAAACCCACGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
82763 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* *
82792 TTTCAAAGCCCATAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* *
82821 TTTGAAAGCCCACAAGTC-GATGGCACCC
1 TTTCAAAGCCCACAAGTCAG-TGGCACCT
* *
82849 TTTCAAAGCCCACAAGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * *
82878 TTTCAAAGCCCACAAGTTAGTCGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
82906 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* *
82935 TTTCAAAGCCCATAAGTTAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
82963 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* *
82992 TTTCAAAGCCCATAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* *
83021 TTTCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
83049 TTTCAAAGCCCACAAGTCAATGGCACCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
83077 TTTCAAAGCCCACAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
*
83106 TTTCAAACCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* *
83135 TTTCAAAGCCCACAAATCAGGGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
*
83164 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
83192 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * *
83221 TTTCAAAGCCCATAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
83249 TTTCAAAGCCCACAATTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * *
83278 TTTCAAAACCCACAAGTTAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
83306 TTTCAAAGCCCACAAGTTAATGGCATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* *
83334 TTTC-AAGCCCACGAGTCAGTGGCACAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
83361 TTTCAAAGCCCACGAGTCAGTGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
83389 TTTCAAAGCTCACGTAAGTTAGTGGCACCCT
1 TTTCAAAGCCCAC--AAGTCAGTGGCA-CCT
83420 TTT-AAAGCCCACGCAAGTCAGTGGCACCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCT
*
83449 TTTCAAAGCCCACGAGTCAGTGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACC-T
*
83478 TTTCAAAGCCCACGAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
83505 CTTTCAAAGCCCACAAGTCAGTGGCATCC-
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CCT
83534 TTTCAAAGCCCACGCAAGTCAGTGGCACCCTT
1 TTTCAAAGCCCA--CAAGTCAGTGGCA-CC-T
**
83566 TTTC-AAGCCCACAAGTCAGTGGCATTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
83593 TTTC-AAGCCCACAAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
83619 TTCTCAAAGCCCACAAGTTAGTGGCATCC-
1 TT-TCAAAGCCCACAAGTCAGTGGCA-CCT
* *
83648 TTTCAAAGCCCACAAGTTAGTGGCACAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
83676 TTTCAAATCCCACA
1 TTTCAAAGCCCACA
83690 CGTGTCGGTG
Statistics
Matches: 843, Mismatches: 81, Indels: 63
0.85 0.08 0.06
Matches are distributed among these distances:
26 4 0.00
27 50 0.06
28 370 0.44
29 350 0.42
30 53 0.06
31 11 0.01
32 5 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:82777 original size:57 final size:56
Alignment explanation
Indices: 82706--83689 Score: 1160
Period size: 57 Copynumber: 17.2 Consensus size: 56
82696 TGTTCATCCC
* * * * *
82706 TTTCAAAGCTCACAAGTCAATGGCACTCTTTTCAAAACCCACGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACCT
* *
82763 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * * *
82821 TTTGAAAGCCCACAAGTC-GATGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAG-TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * * *
82878 TTTCAAAGCCCACAAGTTAGTCGCACCCTTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* *
82935 TTTCAAAGCCCATAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * * *
82992 TTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
83049 TTTCAAAGCCCACAAGTCAATGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * *
83106 TTTCAAACCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGGGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* *
83164 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * * * *
83221 TTTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAGCCCACAATTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * * * *
83278 TTTCAAAACCCACAAGTTAGTGGCACTTTTTCAAAGCCCACAAGTTAATGGCATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * * * *
83334 TTTC-AAGCCCACGAGTCAGTGGCACATTTTCAAAGCCCACGAGTCAGTGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCT
* *
83389 TTTCAAAGCTCACGTAAGTTAGTGGCACCCTTTT-AAAGCCCACGCAAGTCAGTGGCACCT
1 TTTCAAAGCCCAC--AAGTCAGTGGCA-CCTTTTCAAAGCCCA--CAAGTCAGTGGCACCT
* *
83449 TTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAGCCCACGAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACC-TTTTCAAAGCCCACAAGTCAGTGGCACCT
83505 CTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACGCAAGTCAGTGGCACCCTT
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCA--CAAGTCAGTGGCA-CC-T
**
83566 TTTC-AAGCCCACAAGTCAGTGGCATTTTTTC-AAGCCCACAAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
83619 TTCTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCACAT
1 TT-TCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCT
*
83676 TTTCAAATCCCACA
1 TTTCAAAGCCCACA
83690 CGTGTCGGTG
Statistics
Matches: 818, Mismatches: 80, Indels: 59
0.85 0.08 0.06
Matches are distributed among these distances:
53 3 0.00
54 4 0.00
55 68 0.08
56 94 0.11
57 423 0.52
58 158 0.19
59 37 0.05
60 30 0.04
61 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:83046 original size:200 final size:200
Alignment explanation
Indices: 82703--83689 Score: 1291
Period size: 200 Copynumber: 4.9 Consensus size: 200
82693 GAATGTTCAT
* * * * *
82703 CCCTTTCAAAGCTCACAAGTCAATGGCACTCTTTTCAAAACCCACGAGTCAGTGGCACCCTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCA
*
82768 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTGAAAGCCCA
66 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCA
* *
82833 CAAGTC-GATGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCACAAGTTA
131 CAAGTCAG-TGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCA
*
82897 GTCGCA
195 GTGGCA
* * *
82903 CCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGGCACCTTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCA
82968 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCA
66 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCA
* * * *
83033 CAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAATGGCAC-CATTTCAAAGCCCACAAGTCAG
131 CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
83097 TGGCA
196 TGGCA
* * *
83102 CTCCTTTCAAACCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGGGGCACTCTTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTT
* *
83167 CAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCC
64 CAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCC
* * * * *
83231 CATAAGTTAGTGGCACCCTTTCAAAGCCCACAATTTAGTGGCACTCTTTTCAAAACCCACAAGTT
129 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTC
83296 AGTGGCA
194 AGTGGCA
** * * * * *
83303 CTTTTTCAAAGCCCACAAGTTAATGGCA-TCCTTTC-AAGCCCACGAGTCAGTGGCACATTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCA
* * * * * *
83366 AAGCCCACGAGTCAGTGGCA-TCATTTCAAAGCTCACGTAAGTTAGTGGCACCCTTTT-AAAGCC
66 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC-C-CATAAATCAGTGGCACTCTTTTCAAAGCC
* * * *
83429 CACGCAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCAC-CTTTTTCAAAGCCCACGA
129 CA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTC-TTTTCAAAGCCCACAA
83493 GTCAGTGGCA
191 GTCAGTGGCA
* *
83503 CTCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCA-CC-TT
* * * *
83567 TTC-AAGCCCACAAGTCAGTGGCA-TTTTTTC-AAGCCCACAAGTCAGTGGCACT-TTCTCAAAG
62 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAG
* * * *
83628 CCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAC-ATTTTCAAATCCCACA
127 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACA
83690 CGTGTCGGTG
Statistics
Matches: 692, Mismatches: 79, Indels: 34
0.86 0.10 0.04
Matches are distributed among these distances:
197 35 0.05
198 40 0.06
199 86 0.12
200 403 0.58
201 81 0.12
202 1 0.00
203 16 0.02
204 25 0.04
205 5 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (200 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCA
AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCA
CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
TGGCA
Found at i:88816 original size:62 final size:62
Alignment explanation
Indices: 88718--89536 Score: 765
Period size: 62 Copynumber: 13.1 Consensus size: 62
88708 ATGCTTGAAA
* * * *
88718 CACCCTTTTAGTCCTCAAAGAGCATGATGCCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCCATTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
88780 CACCCATTCAGTCCTCAAAGAGTATGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCCATTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * **
88842 CACCCGTTTAGTCCTCAAAGAATAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCCATTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
88904 CACCCGTTCAATCCTTAAAGAGCAGGACGCCTTTTTCTTGTAAAGCCCACACAAGTTGGTGG
1 CACCCATTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
88966 CACCCATTCAGTCTTCAAA-AGCATGATGCTTTTTTCTTTTAAAGCCCACTCAAGTTGGTAG
1 CACCCATTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * * * * * * *
89027 CACCCGTTAAGTCCT-TAAGAGTAGGACGCCTTTTTATTTTAAAGCCCACAGAAGTTAGTCG
1 CACCCATTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * * * *
89088 CACCCATTCAATCCTCAAAAAGTAGGACGCCTTTTTCTTTAAAAGCCCATACAAGTTGGTGG
1 CACCCATTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
89150 CACCCGTTCAGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTAAAGCCCATACAAATTGGTGG
1 CACCCATTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * ** * * *
89212 CATCCGTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTAAAAGCTCACCCAAGTTGGTGG
1 CACCCATTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * * * * * *
89274 CA-CTAGTTCAGTCTTGAAAGGGTAGGATG-CTTTTT-TTTAAAAAAAAAACTCACACAAGTTGG
1 CACCCA-TTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTT-----TAAAGCCCACACAAGTTGG
89336 TGG
60 TGG
** * * *
89339 CACCCATTCAGTCCTCAAAGAGCAGGACACCTTTTTCTTTAAAAGCTCACCCAAGTTGGTGG
1 CACCCATTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * * * * *
89401 CA-CTAGTTCAGTCTTGAAAGGGTAGGATG--TTTTT-TTTTAAAAAAAAAAAAACTCACACAAG
1 CACCCA-TTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTT---------AAAGCCCACACAAG
89462 TTGGTGG
56 TTGGTGG
* * * * * *
89469 CACCCATTCAGTCCTCAAAGAGCAGGACGCTTTTTTTCTTTTCAAGCCCACATAAGTCGGTAG
1 CACCCATTCAGTCCTCAAAGAGCAGGATGC-CTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
89532 CACCC
1 CACCC
89537 CTTTTCAAAA
Statistics
Matches: 624, Mismatches: 107, Indels: 51
0.80 0.14 0.07
Matches are distributed among these distances:
59 3 0.00
60 10 0.02
61 102 0.16
62 389 0.62
63 20 0.03
65 39 0.06
66 8 0.01
67 3 0.00
68 39 0.06
69 2 0.00
71 5 0.01
72 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (62 bp):
CACCCATTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:89503 original size:68 final size:68
Alignment explanation
Indices: 89379--89505 Score: 157
Period size: 68 Copynumber: 1.9 Consensus size: 68
89369 CTTTTTCTTT
* * * * * * * * *
89379 AAAAGCTCACCCAAGTTGGTGGCACTAGTTCAGTCTTGAAAGGGTAGGATGTTTTTTTTTAAAAA
1 AAAAACTCACACAAGTTGGTGGCACCAGTTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTAAAAA
89444 AAA
66 AAA
89447 AAAAACTCACACAAGTTGGTGGCACCCA-TTCAGTCCTCAAAGAGCAGGACGCTTTTTTT
1 AAAAACTCACACAAGTTGGTGGCA-CCAGTTCAGTCCTCAAAGAGCAGGACGCTTTTTTT
89506 CTTTTCAAGC
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 47 0.96
69 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (68 bp):
AAAAACTCACACAAGTTGGTGGCACCAGTTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTAAAAA
AAA
Found at i:90675 original size:20 final size:20
Alignment explanation
Indices: 90650--90691 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
90640 ATGATTGACA
90650 ATCGACGGTGGTCATCGACG
1 ATCGACGGTGGTCATCGACG
* *
90670 ATCGACTGTGGTCATCGGCG
1 ATCGACGGTGGTCATCGACG
90690 AT
1 AT
90692 TGGCATGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (20 bp):
ATCGACGGTGGTCATCGACG
Found at i:91314 original size:2 final size:2
Alignment explanation
Indices: 91307--91357 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
91297 ATTTGCTTGT
91307 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
91349 TA TA CA TA T
1 TA TA TA TA T
91358 TGAAAATCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:108540 original size:20 final size:20
Alignment explanation
Indices: 108490--108540 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
108480 TTTTATCCAG
* * *
108490 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATGTATGA
* *
108510 ATATATTGATACATGTATGA
1 ATGTATCGATACATGTATGA
108530 ATGTATCGATA
1 ATGTATCGATA
108541 TATTCTTCAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATGTATGA
Found at i:108562 original size:40 final size:39
Alignment explanation
Indices: 108490--108567 Score: 93
Period size: 40 Copynumber: 2.0 Consensus size: 39
108480 TTTTATCCAG
* * **
108490 ATGTATCGATACATTTTTTAATATATTGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCAATACAT-TATGA
* *
108530 ATGTATCGATATATTCTTCAATGTATCAATACATTATG
1 ATGTATCGATACATTCTTCAATATATCAATACATTATG
108568 TCTTTTTACC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.44
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCAATACATTATGA
Found at i:116964 original size:27 final size:27
Alignment explanation
Indices: 116899--117278 Score: 454
Period size: 27 Copynumber: 13.8 Consensus size: 27
116889 GACCACTTCA
* * * *
116899 AAGTCCACGATTCAGTGGCATCTCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
*
116927 AAAGTCCACAACTCCGTGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* * *
116955 AAGTCTACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
116982 AAAGTCCACAACTCTGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
117010 AAAGTTCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* **
117038 AAGTCCACAACTCCGTGGTACTTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
117065 AAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
117093 TAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
117120 AATTCTACAACTCCGTGGCACTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
117147 AAAGTCCACAACTCTGTGGTACCCTTTA
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
117175 AAGTCCACAACTCCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
117202 AAGTCCACAACTCCGTGGCACTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
117229 AAAGTCCACAACTCTGTGGCACCTTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* * *
117257 AAATCCATAACTCCGTAGCACC
1 AAGTCCACAACTCCGTGGCACC
117279 TTTCAAAGCC
Statistics
Matches: 307, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
27 165 0.54
28 125 0.41
29 17 0.06
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.30
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:116995 original size:28 final size:28
Alignment explanation
Indices: 116910--118099 Score: 969
Period size: 28 Copynumber: 42.2 Consensus size: 28
116900 AGTCCACGAT
* *
116910 TCAGTGGCATCTCTTTTAAAGTCCACAAC
1 TCAGTGGCATC-CTTTTAAAGCCCACAAG
* * * *
116939 TCCGTGGCATCCTTTT-AAGTCTACAAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * *
116966 TCTGTGGCATCCTTTTAAAGTCCACAAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * ** *
116994 TCTGTGGCACCCTTTTAAAGTTCACAAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * * *
117022 TCCGTGGCACCCTTTT-AAGTCCACAAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * * * *
117049 TCCGTGGTA-CTTTTTTAAAGTCCACAAC
1 TCAGTGGCATC-CTTTTAAAGCCCACAAG
* * * * *
117077 TCCGTGGCACCCTTTT-TAGTCCACAAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * ** * *
117104 TCCGTGGCACCCTTTT-AATTCTACAAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * *
117131 TCCGTGGCA-CTCTTTTAAAGTCCACAAC
1 TCAGTGGCATC-CTTTTAAAGCCCACAAG
* * * * *
117159 TCTGTGGTA-CCCTTTAAAGTCCACAAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * * *
117186 TCCGTGGCA-CCCTTTAAAGTCCACAAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * *
117213 TCCGTGGCA-CTCTTTTAAAGTCCACAAC
1 TCAGTGGCATC-CTTTTAAAGCCCACAAG
* * * *
117241 TCTGTGGCA-CCTTTTTAAA-TCCATAAC
1 TCAGTGGCATCC-TTTTAAAGCCCACAAG
* * *
117268 TCCGTAGCA-CCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
*
117295 TCAGTGGCATCCTTCTCAAAGCCCACAAG
1 TCAGTGGCATCCTT-TTAAAGCCCACAAG
* * **
117324 TCAATGGCATCTTTTTAAAGCATACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* *
117352 TCAGTGGCATCCTTCTCAAAGCCCATAAG
1 TCAGTGGCATCCTT-TTAAAGCCCACAAG
117381 TCAGTGGCAT-CTTTCTCAAAGCCCACAAG
1 TCAGTGGCATCCTTT-T-AAAGCCCACAAG
117410 TCAGTGGCAT-CTTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTT-AAAGCCCACAAG
*
117438 TCAGTGGCAT-CTTTTCAGAGCCCACAAG
1 TCAGTGGCATCCTTTT-AAAGCCCACAAG
*
117466 TTAGTGGCATCCTTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTT-AAAGCCCACAAG
* *
117495 TCAGTGGCATCATTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * * *
117523 TCAGTGGCATCATTTCAAAGACCATAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
*
117551 TCAGTGGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
*
117579 TCAGTGGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* *
117607 TCAATGGCA-CCATTTCAAAGCCCACAAG
1 TCAGTGGCATCC-TTTTAAAGCCCACAAG
* *
117635 TCAGTGGCATCATTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* *
117663 TCAGTGGCATCATTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * *
117691 TCAGTGGCATCATTTCAAAGACCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * *
117719 TCAGTGGCATCATTTCAAAACCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* *
117747 TCAGTGGCATCATTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* *
117775 TCATTGGCATCATTTTAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
117803 TCAGTGGCAT-CTTTTCAAAGCCCACAA-
1 TCAGTGGCATCCTTTT-AAAGCCCACAAG
* *
117830 ACAGTGGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * * *
117858 TTAGTGGCATCATTTTTAAAGCCCATAAC
1 TCAGTGGCATC-CTTTTAAAGCCCACAAG
* *
117887 TCAGTGGCATCGTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* *
117915 TTC-GTGGCATCATTTCAAAGCCCACAAG
1 -TCAGTGGCATCCTTTTAAAGCCCACAAG
* * * **
117943 TCGGTGGTAACTCATTTCGAAGCTCACACAAG
1 TCAGTGG-CA-TCCTTTTAAAGC-C-CACAAG
* * *
117975 TCGGTGGCAACTTATTTGAAAGCCCACACAAG
1 TCAGTGGCATCCT-TTT-AAAG-CC-CACAAG
*
118007 TCAGTGGCAACCCATTTTAAAGCCCACAAG
1 TCAGTGGC-ATCC-TTTTAAAGCCCACAAG
* * *
118037 TCGGTAGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
** * *
118065 TTTGTGGCATCATTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
*
118093 TCGGTGG
1 TCAGTGG
118100 TAACTCATTT
Statistics
Matches: 1026, Mismatches: 103, Indels: 65
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.01
27 204 0.20
28 599 0.58
29 142 0.14
30 25 0.02
31 6 0.01
32 35 0.03
33 6 0.01
34 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
TCAGTGGCATCCTTTTAAAGCCCACAAG
Found at i:117133 original size:82 final size:82
Alignment explanation
Indices: 116898--117278 Score: 530
Period size: 82 Copynumber: 4.6 Consensus size: 82
116888 TGACCACTTC
* * * * * *
116898 AAAGTCCACGATTCAGTGGCATCTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCTAC
1 AAAGTCCACAACTCTGTGGCA-CCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCAC
*
116963 AACTCTGTGGCA-TCCTTTT
64 AACTCCGTGGCACT-CTTTT
*
116982 AAAGTCCACAACTCTGTGGCACCCTTTTAAAGTTCACAACTCCGTGGCACCCTTTTAAGTCCACA
1 AAAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
* *
117047 ACTCCGTGGTACTTTTTT
65 ACTCCGTGGCACTCTTTT
* * * *
117065 AAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCCGTGGCACCCTTTTAATTCTACAA
1 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
117130 CTCCGTGGCACTCTTTT
66 CTCCGTGGCACTCTTTT
* * *
117147 AAAGTCCACAACTCTGTGGTACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAA
1 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
117212 CTCCGTGGCACTCTTTT
66 CTCCGTGGCACTCTTTT
* * * *
117229 AAAGTCCACAACTCTGTGGCACCTTTTTAAATCCATAACTCCGTAGCACC
1 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
117279 TTTCAAAGCC
Statistics
Matches: 266, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
82 167 0.63
83 80 0.30
84 19 0.07
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (82 bp):
AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
CTCCGTGGCACTCTTTT
Found at i:117608 original size:84 final size:84
Alignment explanation
Indices: 117279--118152 Score: 1086
Period size: 84 Copynumber: 10.2 Consensus size: 84
117269 CCGTAGCACC
* * * *
117279 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAATGGCATCTTTTTAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCATT-TCAAAGCCCACAAGTCAGTGGCATCATTTCAAAG
** *
117344 CATACAAGTCAGTGGCATCC
65 CCCACAAGTCAGTGGCATCA
* * *
117364 TTCTCAAAGCCCATAAGTCAGTGGCATCTTTCTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAA
1 TT-TCAAAGCCCACAAGTCAGTGGCATCATT-TCAAAGCCCACAAGTCAGTGGCATCATTTCAAA
*
117429 GCCCACAAGTCAGTGGCATCT
64 GCCCACAAGTCAGTGGCATCA
* * *
117450 TTTCAGAGCCCACAAGTTAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAG
117515 CCCACAAGTCAGTGGCATCA
65 CCCACAAGTCAGTGGCATCA
* * * *
117535 TTTCAAAGACCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* *
117600 CCACAAGTCAATGGCACCA
66 CCACAAGTCAGTGGCATCA
117619 TTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
117684 CCACAAGTCAGTGGCATCA
66 CCACAAGTCAGTGGCATCA
* *
117703 TTTCAAAGACCACAAGTCAGTGGCATCATTTCAAAACCCACAAGTCAGTGGCATCATTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
*
117768 CCACAAGTCATTGGCATCA
66 CCACAAGTCAGTGGCATCA
* * * *
117787 TTTTAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAA-ACAGTGGCATCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
*
117851 CCACAAGTTAGTGGCATCA
66 CCACAAGTCAGTGGCATCA
* * * *
117870 TTTTTAAAGCCCATAACTCAGTGGCATCGTTTCAAAGCCCACAAGTTC-GTGGCATCATTTCAAA
1 -TTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAG-TCAGTGGCATCATTTCAAA
* *
117934 GCCCACAAGTCGGTGGTAACTCA
64 GCCCACAAGTCAGTGG-CA-TCA
* * * * *
117957 TTTCGAAGCTCACACAAGTCGGTGGCAACTTATTTGAAAGCCCACACAAGTCAGTGGCAACCCAT
1 TTTCAAAGC-C-CACAAGTCAGTGGC-A-TCATTTCAAAG-CC-CACAAGTCAGTGGC-A-TCAT
* * * *
118022 TTTAAAGCCCACAAGTCGGTAGCATCC
58 TTCAAAGCCCACAAGTCAGTGGCATCA
** * *
118049 TTTCAAAGCCCACAAGTTTGTGGCATCATTTCAAAGCCCACAAGTCGGTGGTAACTCATTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGG-CA-TCATTTCAAA
* * *
118114 GCCCACATGAGTCGGTGGCAACCC
64 GCCCACA--AGTCAGTGGC-ATCA
118138 TTGTCAAAGCCCACA
1 TT-TCAAAGCCCACA
118153 CAAGTTGATG
Statistics
Matches: 699, Mismatches: 69, Indels: 37
0.87 0.09 0.05
Matches are distributed among these distances:
83 36 0.05
84 292 0.42
85 126 0.18
86 120 0.17
87 6 0.01
88 29 0.04
89 7 0.01
90 32 0.05
91 5 0.01
92 21 0.03
93 2 0.00
94 23 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (84 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
CCACAAGTCAGTGGCATCA
Found at i:118177 original size:32 final size:32
Alignment explanation
Indices: 117927--118177 Score: 140
Period size: 32 Copynumber: 8.2 Consensus size: 32
117917 CGTGGCATCA
*
117927 TTTCAAAG-CC-CACAAGTCGGTGGTAA-CTC
1 TTTCAAAGCCCACACAAGTCGGTGGAAACCTC
* * * * *
117956 ATTTCGAAGCTCACACAAGTCGGTGGCAACTTA
1 -TTTCAAAGCCCACACAAGTCGGTGGAAACCTC
* * *
117989 TTTGAAAGCCCACACAAGTCAGTGGCAACC-C
1 TTTCAAAGCCCACACAAGTCGGTGGAAACCTC
* * * *
118020 ATTTTAAAG-CC-CACAAGTCGGTAG-CATC-C
1 -TTTCAAAGCCCACACAAGTCGGTGGAAACCTC
** *
118049 TTTCAAAG-CC-CACAAGTTTGTGG---CATC
1 TTTCAAAGCCCACACAAGTCGGTGGAAACCTC
*
118076 ATTTCAAAG-CC-CACAAGTCGGTGGTAA-CTC
1 -TTTCAAAGCCCACACAAGTCGGTGGAAACCTC
** *
118106 ATTTCAAAGCCCACATGAGTCGGTGGCAACC-C
1 -TTTCAAAGCCCACACAAGTCGGTGGAAACCTC
* *
118138 TTGTCAAAGCCCACACAAGTTGATGGAAACCTC
1 TT-TCAAAGCCCACACAAGTCGGTGGAAACCTC
118171 TTTCAAA
1 TTTCAAA
118178 AGTTCACACT
Statistics
Matches: 174, Mismatches: 33, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
27 1 0.01
28 40 0.23
29 3 0.02
30 29 0.17
31 7 0.04
32 89 0.51
33 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGAAACCTC
Found at i:118797 original size:20 final size:20
Alignment explanation
Indices: 118769--118843 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
118759 TTTTACCCAG
*
118769 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * ***
118789 ATATATCGATACATGTAAGA
1 ATGTATCGATACATTTTTCA
* *
118809 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
118829 ATGTATCGATACATT
1 ATGTATCGATACATT
118844 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:125977 original size:59 final size:58
Alignment explanation
Indices: 125800--126189 Score: 393
Period size: 59 Copynumber: 6.5 Consensus size: 58
125790 TATTCAATCT
* * *
125800 TCAAAGAGCATGACGTTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCC
1 TCAAAGAGCATGACG--TCTTT-TTTAAAAG-CCACACAAGTTGGTGGCACCCGTTCAGTCC
* * * * **
125862 TCAAAGAGCATGACGCCTTTTTAAAAAAAGTCTACACAAGTTGGTGGCACCCGTTCAATTT
1 TCAAAGAGCATGACGTCTTTTT--TAAAAG-CCACACAAGTTGGTGGCACCCGTTCAGTCC
* *
125923 TCAAAGAGCAAGACGTCTTTTTTAAAATCTCACACAAGTTGGTGGCACCCGTTCAGTCC
1 TCAAAGAGCATGACGTCTTTTTTAAAAGC-CACACAAGTTGGTGGCACCCGTTCAGTCC
* * * * *
125982 TCAAAGAGCAGGACACCTTTTTCTTTTAAAGCCTACACAAGTTGGTGGCACCCGTTCAATCC
1 TCAAAGAGCATG--ACGTCTTT-TTTAAAAGCC-ACACAAGTTGGTGGCACCCGTTCAGTCC
** * **
126044 TCAAAGAATAGGACACCTTTTTTAAAAGTCCACACAAGTTGGTGGCACCCGTTCAGTCC
1 TCAAAGAGCATGACGTCTTTTTTAAAAG-CCACACAAGTTGGTGGCACCCGTTCAGTCC
* * * * * * *
126103 TCAAAGAGCAGGACGCCATTTTTAAAAGCCCACACAAGTTAGTGGCACTCGTTTAGTTC
1 TCAAAGAGCATGACGTCTTTTTTAAAAG-CCACACAAGTTGGTGGCACCCGTTCAGTCC
126162 TCAAAGAGCATGACGTCTTTTTTTAAAA
1 TCAAAGAGCATGACGTC-TTTTTTAAAA
126190 AAAAAAACCC
Statistics
Matches: 276, Mismatches: 43, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
58 1 0.00
59 141 0.51
60 19 0.07
61 56 0.20
62 59 0.21
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (58 bp):
TCAAAGAGCATGACGTCTTTTTTAAAAGCCACACAAGTTGGTGGCACCCGTTCAGTCC
Found at i:126078 original size:121 final size:120
Alignment explanation
Indices: 125823--126155 Score: 440
Period size: 121 Copynumber: 2.8 Consensus size: 120
125813 CGTTTTTTTC
* * * ***
125823 TTTT-AAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCATGACGCCTTTTTAAA
1 TTTTAAAAGTCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTTTTT
* ** * **
125887 AAAAGTCTACACAAGTTGGTGGCACCCGTTCAATTTTCAAAGAGCAAGACGTCTT
66 AAAAGCCTACACAAGTTGGTGGCACCCGTTCAATCCTCAAAGAACAAGACACCTT
*
125942 TTTTAAAA-TCTCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACACCTTTTTCT
1 TTTTAAAAGTC-CACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT-T
* * *
126006 TTTAAAGCCTACACAAGTTGGTGGCACCCGTTCAATCCTCAAAGAATAGGACACCTT
64 TTAAAAGCCTACACAAGTTGGTGGCACCCGTTCAATCCTCAAAGAACAAGACACCTT
*
126063 TTTTAAAAGTCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCC--ATTTTT
1 TTTTAAAAGTCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTTTTT
* * *
126126 AAAAGCCCACACAAGTTAGTGGCACTCGTT
66 AAAAGCCTACACAAGTTGGTGGCACCCGTT
126156 TAGTTCTCAA
Statistics
Matches: 188, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
118 29 0.15
119 7 0.04
120 51 0.27
121 99 0.53
122 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (120 bp):
TTTTAAAAGTCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTTTTT
AAAAGCCTACACAAGTTGGTGGCACCCGTTCAATCCTCAAAGAACAAGACACCTT
Found at i:126150 original size:180 final size:181
Alignment explanation
Indices: 125817--126171 Score: 505
Period size: 180 Copynumber: 2.0 Consensus size: 181
125807 GCATGACGTT
* * * * *
125817 TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCATGACGCCTTT
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAATCCTCAAAGAACAGGACACCTTT
* ** * *
125882 TTAAAAAAAGTCTACACAAGTTGGTGGCACCCGTTCAATTTTCAAAGAGCAAGACGTCTTTTTTA
66 TT-AAAAAAGTCCACACAAGTTGGTGGCACCCGTTCAATCCTCAAAGAGCAAGACGCCATTTTTA
* * *
125947 AAATCTCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACACC
130 AAAGCCCACACAAGTTAGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACACC
* *
125999 TTTTTCTTTTAAAGCCTACACAAGTTGGTGGCACCCGTTCAATCCTCAAAGAATAGGACACCTTT
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAATCCTCAAAGAACAGGACACCTTT
* * *
126064 TT-TAAAAGTCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCATTTTTAA
66 TTAAAAAAGTCCACACAAGTTGGTGGCACCCGTTCAATCCTCAAAGAGCAAGACGCCATTTTTAA
* * *
126128 AAGCCCACACAAGTTAGTGGCACTCGTTTAGTTCTCAAAGAGCA
131 AAGCCCACACAAGTTAGTGGCACCCGTTCAGTCCTCAAAGAGCA
126172 TGACGTCTTT
Statistics
Matches: 152, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
180 92 0.61
182 60 0.39
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (181 bp):
TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAATCCTCAAAGAACAGGACACCTTT
TTAAAAAAGTCCACACAAGTTGGTGGCACCCGTTCAATCCTCAAAGAGCAAGACGCCATTTTTAA
AAGCCCACACAAGTTAGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACACC
Found at i:126249 original size:66 final size:66
Alignment explanation
Indices: 126126--126255 Score: 163
Period size: 66 Copynumber: 2.0 Consensus size: 66
126116 CGCCATTTTT
* * * * *
126126 AAAAGCCCACACAAGTTAGTGGCACTCGTTTAGTTCTCAAAGAGCATGACGTCTTTTTTTAAAAA
1 AAAAACCCACACAAGTTAGTGGCACCCATTTAGTTCTCAAAGAGCAGGACGTCTTTTTCTAAAAA
126191 A
66 A
* * * *
126192 AAAAACCCACAGAAGTTAGTGGCACCCATTTAG-TCTTCAAAGAGTAGGATGTTTTTTTCTAAAA
1 AAAAACCCACACAAGTTAGTGGCACCCATTTAGTTC-TCAAAGAGCAGGACGTCTTTTTCTAAAA
126256 GCCGCACGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 2 0.04
66 52 0.96
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (66 bp):
AAAAACCCACACAAGTTAGTGGCACCCATTTAGTTCTCAAAGAGCAGGACGTCTTTTTCTAAAAA
A
Found at i:126947 original size:20 final size:20
Alignment explanation
Indices: 126924--126972 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
126914 AAAAAGTTAT
*
126924 AAAAAAAAAGGTTAAAAGAG
1 AAAAAAAAAGGTTAAAAAAG
***
126944 AAAAAAAGTTGTTAAAAAAG
1 AAAAAAAAAGGTTAAAAAAG
126964 AAAAAAAAA
1 AAAAAAAAA
126973 AAAGAGAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.12
Consensus pattern (20 bp):
AAAAAAAAAGGTTAAAAAAG
Found at i:126973 original size:13 final size:14
Alignment explanation
Indices: 126957--126985 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
126947 AAAAGTTGTT
126957 AAAAAAGA-AAAAA
1 AAAAAAGAGAAAAA
126970 AAAAAAGAGAAAAA
1 AAAAAAGAGAAAAA
126984 AA
1 AA
126986 CGGGTGGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAGAGAAAAA
Found at i:130016 original size:16 final size:16
Alignment explanation
Indices: 129997--130050 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
129987 GAGTTTTGGA
*
129997 TTTTTTAAGTTTATAT
1 TTTTTTAAGTTTAAAT
* *
130013 TTTTTAAAATTTAAAT
1 TTTTTTAAGTTTAAAT
*
130029 TATTTT-AGATTTAAAT
1 TTTTTTAAG-TTTAAAT
130045 TTTTTT
1 TTTTTT
130051 TATATTTCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 1 0.03
16 29 0.97
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
TTTTTTAAGTTTAAAT
Found at i:130100 original size:16 final size:16
Alignment explanation
Indices: 130014--130100 Score: 77
Period size: 16 Copynumber: 5.4 Consensus size: 16
130004 AGTTTATATT
*
130014 TTTTAAAATTTAAATTA
1 TTTT-AAATTTAAATCA
* **
130031 TTTTAGATTTAAATTTT
1 TTTTAAATTTAAA-TCA
* *
130048 TTTTATATTTCAATCA
1 TTTTAAATTTAAATCA
* *
130064 TTTCAAATTTAAAT-T
1 TTTTAAATTTAAATCA
130079 TTTTAAATTTAAATCA
1 TTTTAAATTTAAATCA
130095 TTTTAA
1 TTTTAA
130101 TTTCATAAGC
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
15 13 0.23
16 26 0.46
17 17 0.30
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (16 bp):
TTTTAAATTTAAATCA
Found at i:130507 original size:2 final size:2
Alignment explanation
Indices: 130500--130531 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
130490 AGTTAAATTC
130500 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
130532 TATTTACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:131031 original size:19 final size:19
Alignment explanation
Indices: 130985--131039 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 19
130975 CTATATTTTC
*
130985 TAAATATTTTTAATTTTAT
1 TAAATATTTATAATTTTAT
* *
131004 T-ATTATTTAGAATTTTAT
1 TAAATATTTATAATTTTAT
131022 TAAATATTTATAATTTTA
1 TAAATATTTATAATTTTA
131040 AATTTATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TAAATATTTATAATTTTAT
Found at i:131339 original size:60 final size:61
Alignment explanation
Indices: 131275--131394 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 61
131265 AGTATTTTTC
* *
131275 TCTCATAATTATGTATGAATTTTTAAATTTATAATATATA-AAAAAATATATCCAATATAT
1 TCTCATAATTAGGTATGAATTTTGAAATTTATAATATATATAAAAAATATATCCAATATAT
*
131335 TCTCATAATTAGGTATGAATTTTGAAATTTATAATATATATAAAAAATATATCCCATATA
1 TCTCATAATTAGGTATGAATTTTGAAATTTATAATATATATAAAAAATATATCCAATATA
131395 GCATATCATA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 38 0.68
61 18 0.32
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (61 bp):
TCTCATAATTAGGTATGAATTTTGAAATTTATAATATATATAAAAAATATATCCAATATAT
Found at i:132389 original size:12 final size:11
Alignment explanation
Indices: 132360--132393 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
132350 TTGTGAAATT
132360 TGTGAAAAAAA
1 TGTGAAAAAAA
132371 T-TGAAAAATAA
1 TGTGAAAAA-AA
132382 TGTGAAAAAAA
1 TGTGAAAAAAA
132393 T
1 T
132394 AAAATCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 7 0.33
11 7 0.33
12 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (11 bp):
TGTGAAAAAAA
Found at i:132737 original size:18 final size:18
Alignment explanation
Indices: 132704--132748 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
132694 TAAATTACAA
*
132704 TAAATATTTGAAGATTAAT
1 TAAATATAT-AAGATTAAT
* *
132723 TGAATATATAAGATTATT
1 TAAATATATAAGATTAAT
132741 TAAATATA
1 TAAATATA
132749 AAATTAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TAAATATATAAGATTAAT
Found at i:133143 original size:14 final size:14
Alignment explanation
Indices: 133120--133159 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
133110 ATAACGTAAA
*
133120 ATTTACAAATTAAT
1 ATTTAAAAATTAAT
*
133134 ATTTAAAAATTTAT
1 ATTTAAAAATTAAT
*
133148 ATTTCAAAATTA
1 ATTTAAAAATTA
133160 CATTTGTCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTAAAAATTAAT
Found at i:134741 original size:14 final size:14
Alignment explanation
Indices: 134713--134780 Score: 52
Period size: 14 Copynumber: 4.7 Consensus size: 14
134703 TAAAGTTAAT
134713 TAATATATTATTTA
1 TAATATATTATTTA
134727 TAATAATATTATTATA
1 TAAT-ATATTATT-TA
*
134743 TTTAATATATAACTTTA
1 --TAATATATTA-TTTA
*
134760 T--T-TATTATTTT
1 TAATATATTATTTA
134771 TAATATATTA
1 TAATATATTA
134781 AATAAAGATA
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
11 4 0.09
12 4 0.09
13 2 0.05
14 9 0.21
15 9 0.21
16 2 0.05
17 7 0.16
18 6 0.14
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATATATTATTTA
Found at i:135476 original size:84 final size:82
Alignment explanation
Indices: 135378--135624 Score: 304
Period size: 82 Copynumber: 3.0 Consensus size: 82
135368 TTCATATCAC
*
135378 ATTATATATTAATATTTTATTAATGTTTAAATAATTTTTAAAATACAATTAATCATTTTTTATTT
1 ATTATATATTAATATTTTATTAATATTTAAATAATTTTTAAAATA-AATTAAT-ATTTTTTATTT
*
135443 ATTATAATTTTCAAAATAT
64 ATTATAATTTTAAAAATAT
* * * *
135462 ATTATTTATTAATATTTTATCAATATTTAAATAATTTTTAATAT-AATTAATTATTTTTTATTTG
1 ATTATATATTAATATTTTATTAATATTTAAATAATTTTTAAAATAAATTAA-TATTTTTTATTTA
**
135526 TTATAA-TAAAAAACATAT
65 TTATAATTTTAAAA-ATAT
* * * * *
135544 ATGATACATTAATATTTTATTAATATTTAAATAATTTTCAACAT-TATTAA-ATTTTTTATTTAT
1 ATTATATATTAATATTTTATTAATATTTAAATAATTTTTAAAATAAATTAATATTTTTTATTTAT
*
135607 TATAATTTTTAAAATAT
66 TATAATTTTAAAAATAT
135624 A
1 A
135625 AAAATTAAAA
Statistics
Matches: 141, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
80 22 0.16
81 8 0.06
82 70 0.50
83 1 0.01
84 40 0.28
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (82 bp):
ATTATATATTAATATTTTATTAATATTTAAATAATTTTTAAAATAAATTAATATTTTTTATTTAT
TATAATTTTAAAAATAT
Found at i:136068 original size:20 final size:21
Alignment explanation
Indices: 136036--136108 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
136026 AAATTAAGAG
136036 ATTATATAATATAAAAATAAA
1 ATTATATAATATAAAAATAAA
* *
136057 ATTATA-AATATAATAATTAA
1 ATTATATAATATAAAAATAAA
* **
136077 ATTAAATTTTATATAAAAT-AA
1 ATTATATAATATA-AAAATAAA
136098 ATTAT-TAATAT
1 ATTATATAATAT
136109 TTAAAATTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 21 0.51
21 16 0.39
22 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTATATAATATAAAAATAAA
Found at i:136096 original size:25 final size:23
Alignment explanation
Indices: 136037--136098 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
136027 AATTAAGAGA
*
136037 TTATATAATATAAAAATAAAATT
1 TTATATAAAATAAAAATAAAATT
* * * *
136060 ATAAATATAATAATTAAATTAAATT
1 TTATATAAAATAA--AAATAAAATT
136085 TTATATAAAATAAA
1 TTATATAAAATAAA
136099 TTATTAATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
23 10 0.34
25 19 0.66
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TTATATAAAATAAAAATAAAATT
Found at i:136119 original size:31 final size:30
Alignment explanation
Indices: 136062--136128 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
136052 ATAAAATTAT
*
136062 AAATATAATAATTAAATTAAATTTTATATA
1 AAATATAATAATTAAATTAAAATTTATATA
*
136092 AAATA-AATTATTAATATTTAAAATTTATATA
1 AAATATAATAATTAA-A-TTAAAATTTATATA
*
136123 ATATAT
1 AAATAT
136129 TATTATAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 8 0.26
30 6 0.19
31 17 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
AAATATAATAATTAAATTAAAATTTATATA
Found at i:136125 original size:29 final size:27
Alignment explanation
Indices: 136053--136133 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 27
136043 AATATAAAAA
*
136053 TAAAA-TTATA-AATATAATAATTAAAT
1 TAAAATTTATATAATA-AATTATTAAAT
*
136079 TAAATTTTATATAAAATAAATTATTAATATT
1 TAAAATTTATAT--AATAAATTATTAA-A-T
*
136110 TAAAATTTATATAATATATTATTA
1 TAAAATTTATATAATAAATTATTA
136134 TAAGTATGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
26 4 0.09
27 5 0.11
29 19 0.42
30 5 0.11
31 12 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAAATTTATATAATAAATTATTAAAT
Found at i:136588 original size:8 final size:7
Alignment explanation
Indices: 136572--136601 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
136562 ACTAATTTAT
136572 AAATTAA
1 AAATTAA
136579 AAATTAAA
1 AAATT-AA
136587 AAATTAA
1 AAATTAA
136594 AAATTAA
1 AAATTAA
136601 A
1 A
136602 GATTTATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATTAA
Found at i:136590 original size:15 final size:15
Alignment explanation
Indices: 136572--136601 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
136562 ACTAATTTAT
136572 AAATTAAAAATTAAA
1 AAATTAAAAATTAAA
136587 AAATTAAAAATTAAA
1 AAATTAAAAATTAAA
136602 GATTTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTAAAAATTAAA
Found at i:137842 original size:11 final size:11
Alignment explanation
Indices: 137826--137850 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
137816 ACATATCATA
137826 TAATTTTTTTT
1 TAATTTTTTTT
137837 TAATTTTTTTT
1 TAATTTTTTTT
137848 TAA
1 TAA
137851 AAAAAGACAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TAATTTTTTTT
Found at i:139348 original size:3 final size:3
Alignment explanation
Indices: 139340--139369 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
139330 GTTCATTCTT
139340 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
139370 GTTTTGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:142754 original size:23 final size:24
Alignment explanation
Indices: 142710--142754 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
142700 CAAATTAATT
* *
142710 AAATATATAATTTTTGTACATATA
1 AAATATATAAATTTTCTACATATA
*
142734 AAAT-TATAAATTTTCTTCATA
1 AAATATATAAATTTTCTACATA
142755 ATCAACATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (24 bp):
AAATATATAAATTTTCTACATATA
Found at i:143052 original size:17 final size:18
Alignment explanation
Indices: 143020--143065 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
143010 TGAGATTTTT
*
143020 TTATTAAA-AATATTTAC
1 TTATTAAATAATATTTAA
143037 TTATTAAATAAT-TTTAA
1 TTATTAAATAATATTTAA
*
143054 TTAATAAATAAT
1 TTATTAAATAAT
143066 GTACAATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TTATTAAATAATATTTAA
Found at i:143625 original size:33 final size:33
Alignment explanation
Indices: 143555--143626 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
143545 TTATTTTTTG
* *
143555 TATTTTTATTTTTATTTAATTTATTTATTTCCT
1 TATTTTTATTTTTATTTAATTTATTTATTTACA
*
143588 TATTTTTTTGTTTTATTT-ATTTATTT-TTATACA
1 TATTTTTAT-TTTTATTTAATTTATTTATT-TACA
143621 TATTTT
1 TATTTT
143627 CTTCTTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 2 0.06
33 24 0.71
34 8 0.24
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (33 bp):
TATTTTTATTTTTATTTAATTTATTTATTTACA
Found at i:145557 original size:2 final size:2
Alignment explanation
Indices: 145552--145577 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
145542 AAGAATTTAA
145552 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
145578 GCATTTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:147526 original size:27 final size:28
Alignment explanation
Indices: 147470--147530 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
147460 TATTTGACAA
* * *
147470 TTTA-TACATTTATATTGTATTTTATTT
1 TTTATTACATTTATATTGTATATCATCT
*
147497 TTTATTAC-TTTATATTTTATATCATCT
1 TTTATTACATTTATATTGTATATCATCT
147524 TTTATTA
1 TTTATTA
147531 TTTTGTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTATTACATTTATATTGTATATCATCT
Found at i:148104 original size:3 final size:3
Alignment explanation
Indices: 148096--148138 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
148086 ACATTGTATA
148096 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
148139 GGAATGAGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:148605 original size:2 final size:2
Alignment explanation
Indices: 148598--148625 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
148588 TGATGTTGAG
148598 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
148626 TGTTACAAAT
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:149878 original size:20 final size:20
Alignment explanation
Indices: 149853--149891 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
149843 TGGGTTTTGG
* *
149853 ATTTTTTTTTTAATAAAATA
1 ATTTTTTATTAAATAAAATA
149873 ATTTTTTATTAAATAAAAT
1 ATTTTTTATTAAATAAAAT
149892 GGAAAAACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTTTATTAAATAAAATA
Found at i:150400 original size:12 final size:11
Alignment explanation
Indices: 150382--150414 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
150372 CATATTTTTC
150382 ATTTTTTATTA
1 ATTTTTTATTA
150393 ATTTTTT-TTA
1 ATTTTTTATTA
150403 ATTTTTTTATTA
1 A-TTTTTTATTA
150415 TACCTTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 13 0.65
12 3 0.15
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTTTTATTA
Found at i:150411 original size:9 final size:10
Alignment explanation
Indices: 150376--150410 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
150366 TATTTACATA
*
150376 TTTTTCATTT
1 TTTTTAATTT
150386 TTTATTAATTT
1 TTT-TTAATTT
150397 TTTTTAATTT
1 TTTTTAATTT
150407 TTTT
1 TTTT
150411 ATTATACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:150560 original size:20 final size:20
Alignment explanation
Indices: 150531--150585 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
150521 TATATTCATA
150531 TATATATATATATATTATTTT
1 TATAT-TATATATATTATTTT
* *
150552 TATATTATATTTA-AATTTT
1 TATATTATATATATTATTTT
150571 T-TATTATATA-ATTAT
1 TATATTATATATATTAT
150586 ATTATATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.03
18 10 0.34
19 6 0.21
20 7 0.24
21 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTATATATATTATTTT
Found at i:152477 original size:14 final size:14
Alignment explanation
Indices: 152460--152507 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
152450 TTAACGATCA
*
152460 AATTTGATTTATTT
1 AATTTAATTTATTT
152474 AATTTAATTTATTT
1 AATTTAATTTATTT
*
152488 GATTTTAATTTTATTT
1 -AATTTAA-TTTATTT
152504 AATT
1 AATT
152508 AAATAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 13 0.45
15 9 0.31
16 7 0.24
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (14 bp):
AATTTAATTTATTT
Found at i:152760 original size:13 final size:13
Alignment explanation
Indices: 152742--152789 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
152732 TTTTTCTCCA
152742 TTTAAATTAATTT
1 TTTAAATTAATTT
*
152755 TTTAAATTTATTT
1 TTTAAATTAATTT
*
152768 GATTT-ATTTAATTT
1 --TTTAAATTAATTT
152782 TTTAAATT
1 TTTAAATT
152790 TAAAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 3 0.11
13 15 0.54
14 7 0.25
15 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (13 bp):
TTTAAATTAATTT
Found at i:157355 original size:6 final size:6
Alignment explanation
Indices: 157314--157358 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
157304 CCATGCATGG
* * *
157314 GCTAAG GCTAAG GCTAAG GCTAAT GCTAAT GCTAAT GCTAAT GCT
1 GCTAAT GCTAAT GCTAAT GCTAAT GCTAAT GCTAAT GCTAAT GCT
157359 GCATACAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (6 bp):
GCTAAT
Found at i:158063 original size:16 final size:15
Alignment explanation
Indices: 158026--158063 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
158016 TCCCCTTTGA
158026 CGTGGCAACTAGTAC
1 CGTGGCAACTAGTAC
158041 C-TGGCAACTAGTAC
1 CGTGGCAACTAGTAC
158055 TCGTGGCAA
1 -CGTGGCAA
158064 GAACTGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.62
15 2 0.10
16 6 0.29
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (15 bp):
CGTGGCAACTAGTAC
Found at i:166128 original size:20 final size:20
Alignment explanation
Indices: 166103--166144 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
166093 TACCATATAG
166103 TTCTCAAAGTAAGCAAACAA
1 TTCTCAAAGTAAGCAAACAA
*
166123 TTCTCAAAGTAAGCAAATAA
1 TTCTCAAAGTAAGCAAACAA
166143 TT
1 TT
166145 TAACTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.26
Consensus pattern (20 bp):
TTCTCAAAGTAAGCAAACAA
Found at i:166643 original size:3 final size:3
Alignment explanation
Indices: 166635--166673 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
166625 AATCCCAAAA
166635 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
166674 CAGTAGAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:167405 original size:5 final size:5
Alignment explanation
Indices: 167395--167485 Score: 50
Period size: 5 Copynumber: 19.0 Consensus size: 5
167385 AAATTATAAA
* * *
167395 AATAT AATAT AATAT ATTTTAT AAT-T TATAT AATAT AA-AT TAT-T AATAT
1 AATAT AATAT AATAT A--ATAT AATAT AATAT AATAT AATAT AATAT AATAT
* * * **
167444 ATTAA AAT-T AATAT -ATAA AATAT TTTA- AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
167486 GATCAAATAA
Statistics
Matches: 62, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
4 17 0.27
5 41 0.66
7 4 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (5 bp):
AATAT
Found at i:168317 original size:17 final size:18
Alignment explanation
Indices: 168295--168331 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
168285 AATTTTATAT
168295 TTTTTATTAATAAAA-AA
1 TTTTTATTAATAAAATAA
*
168312 TTTTTATTAGTAAAATAA
1 TTTTTATTAATAAAATAA
168330 TT
1 TT
168332 AAAAATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTTTATTAATAAAATAA
Done.