Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold37
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: 836391
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:2069 original size:23 final size:23
Alignment explanation
Indices: 2039--2084 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2029 ATTACTTCAA
2039 ATTAAAGAAAATCCCAAATATAC
1 ATTAAAGAAAATCCCAAATATAC
2062 ATTAAAGAAAATCCCAAATATAC
1 ATTAAAGAAAATCCCAAATATAC
2085 CATTTGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.22
Consensus pattern (23 bp):
ATTAAAGAAAATCCCAAATATAC
Found at i:2219 original size:18 final size:19
Alignment explanation
Indices: 2198--2242 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 19
2188 ATTTAAAATA
2198 TATTAAAAATTT-ATTTTT
1 TATTAAAAATTTAATTTTT
2216 TATT--AAATTTAATTTTT
1 TATTAAAAATTTAATTTTT
2233 T-TTAACAAAT
1 TATTAA-AAAT
2243 GGAGTTATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 8 0.35
17 7 0.30
18 4 0.17
19 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTAAAAATTTAATTTTT
Found at i:3022 original size:14 final size:14
Alignment explanation
Indices: 3003--3032 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2993 TTATTATGTC
*
3003 ATCATTTAATTAAA
1 ATCATTAAATTAAA
3017 ATCATTAAATTAAA
1 ATCATTAAATTAAA
3031 AT
1 AT
3033 AAAAATTATT
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:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (14 bp):
ATCATTAAATTAAA
Found at i:6246 original size:58 final size:58
Alignment explanation
Indices: 6176--6286 Score: 204
Period size: 58 Copynumber: 1.9 Consensus size: 58
6166 CATTATGCTA
*
6176 TGTAACTTTTGCATACTGAAAGTGATCTGCTGATTATATTTGGACAAAGTTGCGCATG
1 TGTAACTTTTGCATACTGAAAGTGATCTACTGATTATATTTGGACAAAGTTGCGCATG
*
6234 TGTAACTTTTGCATACTGAAAGTGATCTACTGATTTTATTTGGACAAAGTTGC
1 TGTAACTTTTGCATACTGAAAGTGATCTACTGATTATATTTGGACAAAGTTGC
6287 AGACGTTGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (58 bp):
TGTAACTTTTGCATACTGAAAGTGATCTACTGATTATATTTGGACAAAGTTGCGCATG
Found at i:17561 original size:32 final size:33
Alignment explanation
Indices: 17525--17590 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
17515 TTATCATATT
* *
17525 TAAATTTTTATACATTAATA-ATTTATATTATA
1 TAAATTTTAATACATTAATATATTAATATTATA
* *
17557 TAAATTTTAATATATTTATATATTAATATTATA
1 TAAATTTTAATACATTAATATATTAATATTATA
17590 T
1 T
17591 TTTAATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (33 bp):
TAAATTTTAATACATTAATATATTAATATTATA
Found at i:17596 original size:29 final size:26
Alignment explanation
Indices: 17548--17601 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 26
17538 ATTAATAATT
17548 TATATTATATAAATTTTAATATATTTA
1 TATATTATATAAATTTTAAT-TATTTA
*
17575 TATATTAATATTATATTTTAATTATTT
1 TATATT-ATA-TAAATTTTAATTATTT
17602 TTTACTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 8 0.33
29 10 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TATATTATATAAATTTTAATTATTTA
Found at i:18948 original size:12 final size:12
Alignment explanation
Indices: 18931--18958 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18921 TTTAACCAAA
18931 AAAAATTAAAAT
1 AAAAATTAAAAT
18943 AAAAATTAAAAT
1 AAAAATTAAAAT
18955 AAAA
1 AAAA
18959 TGAAAATACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATTAAAAT
Found at i:18958 original size:11 final size:11
Alignment explanation
Indices: 18928--18966 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
18918 TGTTTTAACC
18928 AAAA-AAAATT
1 AAAATAAAATT
18938 AAAATAAAAATT
1 AAAAT-AAAATT
*
18950 AAAATAAAATG
1 AAAATAAAATT
18961 AAAATA
1 AAAATA
18967 CCCTTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 4 0.15
11 11 0.42
12 11 0.42
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
AAAATAAAATT
Found at i:19321 original size:20 final size:21
Alignment explanation
Indices: 19281--19328 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
19271 ATTTAAATCA
*
19281 ATTTAGTTTAATATGAATTATT
1 ATTTA-TTTAATATAAATTATT
19303 ATTTATTTAATA-AAATTATT
1 ATTTATTTAATATAAATTATT
19323 ATTTAT
1 ATTTAT
19329 ATTTATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 13 0.52
21 7 0.28
22 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
ATTTATTTAATATAAATTATT
Found at i:19573 original size:20 final size:19
Alignment explanation
Indices: 19524--19581 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
19514 ATATGATATG
19524 AAAATATAATATAA-AT-AA
1 AAAATATAATA-AATATAAA
*
19542 AAAATTTAATAAATATAAA
1 AAAATATAATAAATATAAA
19561 AATAATATAATAAATATAAA
1 AA-AATATAATAAATATAAA
19581 A
1 A
19582 TAAAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 2 0.06
18 12 0.34
19 4 0.11
20 17 0.49
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATATAATAAATATAAA
Found at i:19594 original size:20 final size:20
Alignment explanation
Indices: 19531--19596 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
19521 ATGAAAATAT
19531 AATAT-AAATAAAAAATTT-
1 AATATAAAATAAAAAATTTA
*
19549 AATA-AATATAAAAATAATATAATA
1 AATATAAAAT-AAAA-AAT-T--TA
19573 AATATAAAATAAAAAATTTA
1 AATATAAAATAAAAAATTTA
19593 AATA
1 AATA
19597 CGATCAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
18 7 0.18
19 4 0.11
20 9 0.24
21 1 0.03
22 1 0.03
23 4 0.11
24 8 0.21
25 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AATATAAAATAAAAAATTTA
Found at i:20606 original size:19 final size:23
Alignment explanation
Indices: 20576--20630 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
20566 TATCATAATC
*
20576 TGAAATAAAATT-AAC-GA-TTA
1 TGAAAAAAAATTGAACAGATTTA
20596 T-AAAAAAAATTGAACATGATTTA
1 TGAAAAAAAATTGAACA-GATTTA
20619 TGAAAAAAAATT
1 TGAAAAAAAATT
20631 TAATCATGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 9 0.31
20 4 0.14
22 2 0.07
23 4 0.14
24 10 0.34
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (23 bp):
TGAAAAAAAATTGAACAGATTTA
Found at i:21655 original size:18 final size:18
Alignment explanation
Indices: 21611--21646 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
21601 AAAATTTTAA
21611 AAATA-AAATAAATTAATT
1 AAATATAAA-AAATTAATT
21629 AAATATAAAAAATTAATT
1 AAATATAAAAAATTAATT
21647 GATTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAAAAAATTAATT
Found at i:21832 original size:9 final size:10
Alignment explanation
Indices: 21802--21838 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
21792 TACTTAAAAT
21802 TTTAATTATA
1 TTTAATTATA
*
21812 ATT-ATTATA
1 TTTAATTATA
21821 TTTAATTA-A
1 TTTAATTATA
21830 TTTAATTAT
1 TTTAATTAT
21839 TAATTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTAATTATA
Found at i:21848 original size:19 final size:21
Alignment explanation
Indices: 21801--21848 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
21791 ATACTTAAAA
21801 TTTTAATTATAATTATTATAT
1 TTTTAATTATAATTATTATAT
21822 TTAATTAATT-TAATTATTA-AT
1 TT--TTAATTATAATTATTATAT
21843 TTTTAA
1 TTTTAA
21849 ATATGATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.16
21 6 0.24
22 9 0.36
23 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAATTATAATTATTATAT
Found at i:21848 original size:23 final size:23
Alignment explanation
Indices: 21803--21844 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
21793 ACTTAAAATT
21803 TTAATTATAATTATTATATTTAA
1 TTAATTATAATTATTATATTTAA
21826 TTAATT-TAATTATTA-ATTT
1 TTAATTATAATTATTATATTT
21845 TTAAATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTAATTATAATTATTATATTTAA
Found at i:22421 original size:20 final size:20
Alignment explanation
Indices: 22379--22427 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
22369 TAACTAATTC
* * *
22379 TTATTTTTCTTTTATCTTGA
1 TTATTTTTATTTTATCGTAA
*
22399 TTATTTTTATTTTTTCGTAA
1 TTATTTTTATTTTATCGTAA
*
22419 TTATATTTA
1 TTATTTTTA
22428 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.69
Consensus pattern (20 bp):
TTATTTTTATTTTATCGTAA
Found at i:22874 original size:40 final size:40
Alignment explanation
Indices: 22823--22920 Score: 105
Period size: 39 Copynumber: 2.5 Consensus size: 40
22813 GTTATTTATT
22823 TAAAAAT--TAATATATTAATCTTAATAAAT-AGTTAAAAAA
1 TAAAAATGATAATATATTAAT-TTAATAAATCA-TTAAAAAA
* * * * *
22862 TAAATAT-ATAATATATTTATTTGATGAATCATTAAAAGA
1 TAAAAATGATAATATATTAATTTAATAAATCATTAAAAAA
22901 TAAAAATGATAATATATTAA
1 TAAAAATGATAATATATTAA
22921 AAAATTTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
39 26 0.53
40 23 0.47
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (40 bp):
TAAAAATGATAATATATTAATTTAATAAATCATTAAAAAA
Found at i:23642 original size:37 final size:36
Alignment explanation
Indices: 23601--23692 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 36
23591 ACGATAAATT
23601 TATTAAATATATTATGTTATAATATTTAAATATATAA
1 TATTAAATATATTAT-TTATAATATTTAAATATATAA
* * * *
23638 TATTATATTTATTATATTAT--TTTTTAAATATATTA
1 TATTAAATATATTAT-TTATAATATTTAAATATATAA
23673 TATTTAAA-AT-TTATTTATAA
1 TA-TTAAATATATTATTTATAA
23693 ATCGAGTTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
33 4 0.09
34 4 0.09
35 16 0.36
36 4 0.09
37 17 0.38
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (36 bp):
TATTAAATATATTATTTATAATATTTAAATATATAA
Found at i:23671 original size:16 final size:16
Alignment explanation
Indices: 23637--23687 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
23627 TAAATATATA
*
23637 ATATTATATTT--ATT
1 ATATTATATTTAAAAT
* *
23651 ATATTATTTTTTAAAT
1 ATATTATATTTAAAAT
23667 ATATTATATTTAAAAT
1 ATATTATATTTAAAAT
*
23683 TTATT
1 ATATT
23688 TATAAATCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 10 0.33
16 20 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTATATTTAAAAT
Found at i:25512 original size:25 final size:23
Alignment explanation
Indices: 25456--25513 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
25446 AAGCATGAAA
* *
25456 TAATATAAATTTTTTAAAATAAAT
1 TAATAT-AAGTTTTGAAAATAAAT
*
25480 TAAAATAAGTTTTGAAAATAAATAT
1 TAATATAAGTTTTGAAAAT-AA-AT
25505 TAATATAAG
1 TAATATAAG
25514 ATAATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 11 0.39
24 7 0.25
25 10 0.36
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (23 bp):
TAATATAAGTTTTGAAAATAAAT
Found at i:26048 original size:36 final size:32
Alignment explanation
Indices: 26008--26072 Score: 76
Period size: 32 Copynumber: 1.9 Consensus size: 32
25998 ATATAATTGG
*
26008 TTTAATTAGTTAAATTAATTATATTAAATAAATAAT
1 TTTAA-TA-TTAAA-TAAATAT-TTAAATAAATAAT
*
26044 TTTAATATTAAATAAATATTTAATTAAAT
1 TTTAATATTAAATAAATATTTAAATAAAT
26073 GACCTGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 9 0.33
33 6 0.22
34 5 0.19
35 2 0.07
36 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (32 bp):
TTTAATATTAAATAAATATTTAAATAAATAAT
Found at i:27308 original size:15 final size:15
Alignment explanation
Indices: 27281--27323 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27271 ATTAAAAATA
*
27281 ATAAATAAAATTATT
1 ATAAATAATATTATT
27296 -TAATATAATATTATT
1 ATAA-ATAATATTATT
*
27311 ATAAAAAATATTA
1 ATAAATAATATTA
27324 ATCAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATAATATTATT
Found at i:27823 original size:4 final size:4
Alignment explanation
Indices: 27814--27844 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
27804 TACTATACAT
27814 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
27845 TCAATTTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:28735 original size:12 final size:12
Alignment explanation
Indices: 28715--28747 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
28705 TTCGTACTAG
28715 TTTTTT-TTTT-
1 TTTTTTCTTTTC
28725 TTTTTTCTTTTC
1 TTTTTTCTTTTC
28737 TTTTTTCTTTT
1 TTTTTTCTTTT
28748 AAGTCCTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.29
11 4 0.19
12 11 0.52
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:36979 original size:3 final size:3
Alignment explanation
Indices: 36973--37003 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
36963 TAACAGTGGT
36973 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
37004 AAAGTTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37465 original size:32 final size:33
Alignment explanation
Indices: 37423--37493 Score: 92
Period size: 32 Copynumber: 2.1 Consensus size: 33
37413 TTTAATAATG
*
37423 AATTTTGATAAAAATATAAAG-TCA-AAAAAATA
1 AATTTCGATAAAAA-ATAAAGCTCATAAAAAATA
37455 AATTTCGATAAAAAATAAAGCTCATTTAAAAAATA
1 AATTTCGATAAAAAATAAAGCTCA--TAAAAAATA
37490 AATT
1 AATT
37494 AGGTAATGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
31 6 0.18
32 16 0.47
35 12 0.35
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.30
Consensus pattern (33 bp):
AATTTCGATAAAAAATAAAGCTCATAAAAAATA
Found at i:37907 original size:2 final size:2
Alignment explanation
Indices: 37900--37925 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37890 GCATACATAC
37900 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
37926 CAATTTGACC
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:38635 original size:3 final size:3
Alignment explanation
Indices: 38629--38657 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
38619 TAATAATAAT
38629 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
38658 TTCAACGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:47670 original size:37 final size:35
Alignment explanation
Indices: 47629--47702 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 35
47619 GATTTACATT
*
47629 TTAAATACATAATAAAATTTAAATTATCTGTCACAAA
1 TTAAATACAT-ATAAAAATTAAATTATCTGTCA-AAA
** * *
47666 TTAAATTTATTTAAAAATTAAATTATTTGTCAAAA
1 TTAAATACATATAAAAATTAAATTATCTGTCAAAA
47701 TT
1 TT
47703 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 5 0.16
36 19 0.59
37 8 0.25
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.42
Consensus pattern (35 bp):
TTAAATACATATAAAAATTAAATTATCTGTCAAAA
Found at i:47671 original size:19 final size:17
Alignment explanation
Indices: 47642--47702 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
47632 AATACATAAT
47642 AAAATTTAAATTATCTGTC
1 AAAA-TTAAATTAT-TGTC
*
47661 ACAAATTAAATTTATT-TA
1 A-AAATTAAA-TTATTGTC
47679 AAAATTAAATTATTTGTC
1 AAAATTAAATTA-TTGTC
47697 AAAATT
1 AAAATT
47703 TAAAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 3 0.08
17 10 0.28
18 9 0.25
19 7 0.19
20 7 0.19
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (17 bp):
AAAATTAAATTATTGTC
Found at i:47705 original size:19 final size:19
Alignment explanation
Indices: 47642--47706 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
47632 AATACATAAT
*
47642 AAAATTTAAATTATCTGTC
1 AAAATTTAAATTATTTGTC
47661 ACAAA-TTAAATT-TATT-T-
1 A-AAATTTAAATTAT-TTGTC
*
47678 AAAAATTAAATTATTTGTC
1 AAAATTTAAATTATTTGTC
47697 AAAATTTAAA
1 AAAATTTAAA
47707 AATAAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
16 3 0.08
17 10 0.26
18 4 0.11
19 18 0.47
20 3 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (19 bp):
AAAATTTAAATTATTTGTC
Found at i:48629 original size:14 final size:13
Alignment explanation
Indices: 48607--48642 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
48597 GTTTGAAGTG
48607 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
48620 AAAAATAAAAAGAA
1 AAAAA-AAAAAGAA
48634 AGAAAAAAA
1 A-AAAAAAA
48643 TTATGTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 12 0.57
15 4 0.19
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:48635 original size:18 final size:18
Alignment explanation
Indices: 48608--48643 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
48598 TTTGAAGTGA
48608 AAAAAAAAAGAAAAAAAT
1 AAAAAAAAAGAAAAAAAT
*
48626 AAAAAGAAAGAAAAAAAT
1 AAAAAAAAAGAAAAAAAT
48644 TATGTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAT
Found at i:48694 original size:21 final size:21
Alignment explanation
Indices: 48648--48711 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
48638 AAAAATTATG
* *
48648 TATTTATATATTTATATTA-TT
1 TATTT-TATATTTAAAATATTT
48669 T-TTTTATATTTAAAATATTT
1 TATTTTATATTTAAAATATTT
* *
48689 TATTTTTTATATAAAAT-TTT
1 TATTTTATATTTAAAATATTT
48709 TAT
1 TAT
48712 ATATTAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 11 0.30
20 12 0.32
21 14 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTTTATATTTAAAATATTT
Found at i:49231 original size:12 final size:12
Alignment explanation
Indices: 49211--49255 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
49201 CGTATCATAT
*
49211 TTATTTTTTATA
1 TTATGTTTTATA
49223 TTATGTTTTA-A
1 TTATGTTTTATA
49234 TTAT-TTTTATGA
1 TTATGTTTTAT-A
49246 -TATGTTTTAT
1 TTATGTTTTAT
49256 TTTTTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 5 0.17
11 8 0.28
12 16 0.55
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (12 bp):
TTATGTTTTATA
Found at i:49243 original size:22 final size:19
Alignment explanation
Indices: 49210--49265 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
49200 TCGTATCATA
49210 TTTATTTTTTATATTATGT
1 TTTATTTTTTATATTATGT
49229 TTTAATTATTTT-TATGATATGT
1 TTT-ATT-TTTTATAT--TATGT
49251 TTTATTTTTTATATT
1 TTTATTTTTTATATT
49266 TAAAGTAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
19 4 0.12
20 10 0.31
21 10 0.31
22 8 0.25
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTATTTTTTATATTATGT
Found at i:49630 original size:18 final size:19
Alignment explanation
Indices: 49607--49655 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
49597 ATTATTATTT
*
49607 ATTAAAATTTATT-TTATA
1 ATTAAAATTTATTATAATA
*
49625 ATTAAATTTTTATTAATAATA
1 ATTAAA-ATTTATT-ATAATA
49646 ATTAAAATTT
1 ATTAAAATTT
49656 CTAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 6 0.24
19 6 0.24
20 3 0.12
21 10 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTAAAATTTATTATAATA
Found at i:49663 original size:21 final size:22
Alignment explanation
Indices: 49622--49673 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
49612 AATTTATTTT
* *
49622 ATAATT-AAATTTTTATTAATA
1 ATAATTAAAATTTCTATAAATA
49643 ATAATTAAAATTTCTA-AAATA
1 ATAATTAAAATTTCTATAAATA
* *
49664 AAAATAAAAA
1 ATAATTAAAA
49674 ACCCTAGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAATTAAAATTTCTATAAATA
Found at i:49903 original size:19 final size:18
Alignment explanation
Indices: 49858--49899 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
49848 TATTATAAAT
49858 TATTTTAAA-AATTATTA
1 TATTTTAAATAATTATTA
*
49875 TCTTTT--ATAATTATTA
1 TATTTTAAATAATTATTA
49891 TATTTTAAA
1 TATTTTAAA
49900 ATAAATTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
15 1 0.05
16 13 0.65
17 5 0.25
18 1 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTTAAATAATTATTA
Found at i:50059 original size:3 final size:3
Alignment explanation
Indices: 50053--50085 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
50043 TTTTTATACA
50053 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50086 TCAATCCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:60972 original size:21 final size:21
Alignment explanation
Indices: 60948--60989 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
60938 AATAAAATTT
*
60948 TTAAATTAAATAATATATTAA
1 TTAAATTAAAAAATATATTAA
* *
60969 TTAATTTAAAAAATATGTTAA
1 TTAAATTAAAAAATATATTAA
60990 AAACATTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TTAAATTAAAAAATATATTAA
Found at i:64175 original size:8 final size:8
Alignment explanation
Indices: 64164--64293 Score: 54
Period size: 8 Copynumber: 14.9 Consensus size: 8
64154 TTAATAATTC
64164 ATATATTT
1 ATATATTT
64172 ATATATTTTT
1 ATATA--TTT
64182 ATTATATTAT
1 A-TATATT-T
64192 AATTATATTT
1 -A-TATATTT
64202 ATAATATTT
1 AT-ATATTT
64211 -TATATTT
1 ATATATTT
64218 ATATAAAATTT
1 ATAT---ATTT
64229 A-ATAATTT
1 ATAT-ATTT
64237 A-ATAATTT
1 ATAT-ATTT
64245 -T-TATTAT
1 ATATATT-T
*
64252 ATAAATTTT
1 ATATA-TTT
*
64261 AAAATATTT
1 -ATATATTT
64270 ATATATTT
1 ATATATTT
*
64278 ATATTATGT
1 ATA-TATTT
64287 ATATATT
1 ATATATT
64294 ATTTTTTCAT
Statistics
Matches: 99, Mismatches: 6, Indels: 34
0.71 0.04 0.24
Matches are distributed among these distances:
6 3 0.03
7 8 0.08
8 37 0.37
9 21 0.21
10 13 0.13
11 17 0.17
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.58
Consensus pattern (8 bp):
ATATATTT
Found at i:64201 original size:22 final size:22
Alignment explanation
Indices: 64173--64221 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
64163 CATATATTTA
* *
64173 TATATTTTTATTATATTATAAT
1 TATATTTATAATATATTATAAT
* *
64195 TATATTTATAATATTTTATATT
1 TATATTTATAATATATTATAAT
64217 TATAT
1 TATAT
64222 AAAATTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATATTTATAATATATTATAAT
Found at i:64201 original size:30 final size:32
Alignment explanation
Indices: 64165--64289 Score: 100
Period size: 32 Copynumber: 3.8 Consensus size: 32
64155 TAATAATTCA
*
64165 TATATTTATATATTTTTATTATAT-TATAA-T
1 TATATTTATATATTTTTATTATATATAAAATT
64195 TATATTTATAATATTTTATATT-TATATAAAATT
1 TATATTTAT-ATATTTT-TATTATATATAAAATT
*
64228 TAATAATTTA-ATAATTTTTA-T-TATATAAATTT
1 T-AT-ATTTATAT-ATTTTTATTATATATAAAATT
* *
64260 TAAAATATTTATATATTTATATTATGTATA
1 T---ATATTTATATATTTTTATTATATATA
64290 TATTATTTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
30 9 0.11
31 10 0.13
32 20 0.25
33 17 0.22
34 13 0.16
35 10 0.13
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.58
Consensus pattern (32 bp):
TATATTTATATATTTTTATTATATATAAAATT
Found at i:64213 original size:16 final size:16
Alignment explanation
Indices: 64165--64220 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
64155 TAATAATTCA
64165 TATATTTAT-ATATTT
1 TATATTTATAATATTT
* *
64180 T-TA-TTATATTATAAT
1 TATATTTATAATAT-TT
64195 TATATTTATAATATTT
1 TATATTTATAATATTT
64211 TATATTTATA
1 TATATTTATA
64221 TAAAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
13 4 0.12
14 5 0.15
15 3 0.09
16 13 0.39
17 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATTTATAATATTT
Found at i:64228 original size:18 final size:17
Alignment explanation
Indices: 64194--64261 Score: 65
Period size: 16 Copynumber: 4.2 Consensus size: 17
64184 TATATTATAA
*
64194 TTATATTTATA-ATATT
1 TTATATTTATATAAATT
64210 TTATATTTATATAAAATT
1 TTATATTTATAT-AAATT
*
64228 TAATAATTTA-AT-AATT
1 TTAT-ATTTATATAAATT
64244 TT-TA-TTATATAAATT
1 TTATATTTATATAAATT
64259 TTA
1 TTA
64262 AAATATTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
13 3 0.07
14 3 0.07
15 7 0.16
16 16 0.37
18 9 0.21
19 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATATTTATATAAATT
Found at i:64283 original size:33 final size:33
Alignment explanation
Indices: 64166--64284 Score: 106
Period size: 33 Copynumber: 3.6 Consensus size: 33
64156 AATAATTCAT
* *
64166 ATATTTATATATTTTTATTATATTATAA-TT---
1 ATATTTATATATTTATATTATA-TAAAATTTAAA
*
64196 ATATTTATAATATTTTATATTTATATAAAATTTAAT
1 ATATTTAT-ATA-TTTATA-TTATATAAAATTTAAA
* *
64232 A-ATTTA-ATAATTTTTATTATATAAATTTTAAA
1 ATATTTATAT-ATTTATATTATATAAAATTTAAA
64264 ATATTTATATATTTATATTAT
1 ATATTTATATATTTATATTAT
64285 GTATATATTA
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
30 8 0.11
31 3 0.04
32 24 0.33
33 29 0.40
34 3 0.04
35 5 0.07
36 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
ATATTTATATATTTATATTATATAAAATTTAAA
Found at i:64364 original size:3 final size:3
Alignment explanation
Indices: 64347--64387 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
64337 ATTTTTTCTT
*
64347 TTA TCA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64388 AAAAATGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:64606 original size:3 final size:3
Alignment explanation
Indices: 64600--64637 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
64590 TTTTCATGTC
64600 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
64638 CGCTTTTGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65029 original size:2 final size:2
Alignment explanation
Indices: 65022--65068 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
65012 TATCATGTTA
65022 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
65064 AT AT A
1 AT AT A
65069 GTACAATGGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:65902 original size:14 final size:14
Alignment explanation
Indices: 65885--65912 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65875 ATCTTATTAA
65885 AAATATAATTATTT
1 AAATATAATTATTT
65899 AAATATAATTATTT
1 AAATATAATTATTT
65913 GTATTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATATAATTATTT
Found at i:67368 original size:21 final size:21
Alignment explanation
Indices: 67318--67374 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
67308 ATTTTTATAA
67318 TTAAATTTAAATAAAAAATTAT
1 TTAAA-TTAAATAAAAAATTAT
** * *
67340 TTTTATTACATAAATAATTAT
1 TTAAATTAAATAAAAAATTAT
*
67361 TTAAATTAAGTAAA
1 TTAAATTAAATAAA
67375 CCCAAAACAC
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAAATTAAATAAAAAATTAT
Found at i:67986 original size:2 final size:2
Alignment explanation
Indices: 67979--68021 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
67969 AGACCTTGTT
*
67979 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68021 T
1 T
68022 GATGAAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:69354 original size:23 final size:23
Alignment explanation
Indices: 69321--69401 Score: 69
Period size: 25 Copynumber: 3.5 Consensus size: 23
69311 ATAATACTTT
69321 TTAT-AAATATTTATTATTTAAA
1 TTATAAAATATTTATTATTTAAA
* *
69343 TTATAAAATATTTTATATTTTGTTAA
1 TTATAAAATA-TTTAT-TATT-TAAA
*
69369 -TATTAAATAATTTATTA-TTAAA
1 TTATAAAAT-ATTTATTATTTAAA
*
69391 ATATAAAATAT
1 TTATAAAATAT
69402 ATATGTTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
22 9 0.19
23 13 0.28
24 6 0.13
25 15 0.32
26 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (23 bp):
TTATAAAATATTTATTATTTAAA
Found at i:69443 original size:49 final size:45
Alignment explanation
Indices: 69385--69490 Score: 117
Period size: 49 Copynumber: 2.3 Consensus size: 45
69375 ATAATTTATT
69385 ATTAAAATATAAAATA-TATATGTTTAATAATATTCAACAAATATTTTAA
1 ATTAAAATATAAAATACTATAT-TTTAA-AAT-TT-AAC-AATATTTTAA
* * *
69434 ATTAAAATATTAAATACTTTATTTTAAAATTTAACAATATTTTTA
1 ATTAAAATATAAAATACTATATTTTAAAATTTAACAATATTTTAA
*
69479 ACTAAAAT-TAAA
1 ATTAAAATATAAA
69491 TAAAGTAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
44 3 0.06
45 16 0.31
46 3 0.06
47 2 0.04
48 3 0.06
49 20 0.39
50 4 0.08
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (45 bp):
ATTAAAATATAAAATACTATATTTTAAAATTTAACAATATTTTAA
Found at i:69448 original size:22 final size:22
Alignment explanation
Indices: 69423--69487 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
69413 AATATTCAAC
69423 AAATATTTTAAATTAAAATATT-
1 AAATATTTTAAATTAAAAT-TTA
* **
69445 AAATACTTTATTTTAAAATTTA
1 AAATATTTTAAATTAAAATTTA
* *
69467 ACAATATTTTTAACTAAAATT
1 A-AATATTTTAAATTAAAATT
69488 AAATAAAGTA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
21 2 0.06
22 17 0.52
23 14 0.42
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATATTTTAAATTAAAATTTA
Found at i:70103 original size:18 final size:17
Alignment explanation
Indices: 70071--70104 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
70061 TACTTATCTT
*
70071 AATATTTATATTAATAA
1 AATATTTATACTAATAA
70088 AATATATTATACTAATA
1 AATAT-TTATACTAATA
70105 TCATTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTTATACTAATAA
Found at i:70531 original size:2 final size:2
Alignment explanation
Indices: 70524--70556 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
70514 AATTAGTCTT
70524 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 T
70557 GCATGGGAGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71146 original size:21 final size:21
Alignment explanation
Indices: 71107--71162 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
71097 ATATTTAATA
* *
71107 ATTAA-ATAAATTATTTAAAT
1 ATTAATATAAAATATATAAAT
71127 -TTAATTATAAAATATATAAAT
1 ATTAA-TATAAAATATATAAAT
71148 ATTAATATAAAATAT
1 ATTAATATAAAATAT
71163 TTTTTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 4 0.13
21 23 0.74
22 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTAATATAAAATATATAAAT
Found at i:72411 original size:36 final size:38
Alignment explanation
Indices: 72345--72421 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
72335 GAATTATAGA
* *
72345 TTTTTTAAGAATTTTAAACTTTTTAGAAATCAAAGATT
1 TTTTTTAAGAATTATAAACTTTCTAGAAATCAAAGATT
* *
72383 TTTTTTAAGAATTATAAA-TTTCTA-AAATCATATATT
1 TTTTTTAAGAATTATAAACTTTCTAGAAATCAAAGATT
72419 TTT
1 TTT
72422 AACCGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 5 0.14
38 17 0.49
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (38 bp):
TTTTTTAAGAATTATAAACTTTCTAGAAATCAAAGATT
Found at i:77903 original size:11 final size:11
Alignment explanation
Indices: 77887--77913 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
77877 TTGTTGATGC
77887 TAATGTAATTA
1 TAATGTAATTA
77898 TAATGTAATTA
1 TAATGTAATTA
77909 TAATG
1 TAATG
77914 AAAATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (11 bp):
TAATGTAATTA
Found at i:78364 original size:14 final size:14
Alignment explanation
Indices: 78345--78374 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
78335 TTTTAATAAG
78345 TTAATAAATTTAAT
1 TTAATAAATTTAAT
78359 TTAATAAATTTAAT
1 TTAATAAATTTAAT
78373 TT
1 TT
78375 TTATCTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAATAAATTTAAT
Found at i:79706 original size:13 final size:13
Alignment explanation
Indices: 79690--79736 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
79680 AGGGATACAA
79690 GAGAGGGATGCTT
1 GAGAGGGATGCTT
*
79703 GAGAGAGATGCTT
1 GAGAGGGATGCTT
* *
79716 AAGAGGGATACTT
1 GAGAGGGATGCTT
79729 GAGAGGGA
1 GAGAGGGA
79737 GGAGAGAGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.32, C:0.06, G:0.43, T:0.19
Consensus pattern (13 bp):
GAGAGGGATGCTT
Found at i:79707 original size:26 final size:26
Alignment explanation
Indices: 79678--79736 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
79668 AAAGAATTGA
*
79678 AGAGGGATAC-AAGAGAGGGATGCTTG
1 AGAGGGATACTAA-AGAGGGATACTTG
* * *
79704 AGAGAGATGCTTAAGAGGGATACTTG
1 AGAGGGATACTAAAGAGGGATACTTG
79730 AGAGGGA
1 AGAGGGA
79737 GGAGAGAGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.36, C:0.07, G:0.41, T:0.17
Consensus pattern (26 bp):
AGAGGGATACTAAAGAGGGATACTTG
Found at i:79858 original size:27 final size:27
Alignment explanation
Indices: 79821--79893 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
79811 ATAAGCTATA
* * *
79821 ATTTTTTACAAACAAAAAGAAACTACC
1 ATTTTTGACAAACACAAAGAAACCACC
* *
79848 ATTTTTGACAAATACAAAGTAACCACC
1 ATTTTTGACAAACACAAAGAAACCACC
*
79875 ATTGTTGACAAACACAAAG
1 ATTTTTGACAAACACAAAG
79894 GGTGGCTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.25
Consensus pattern (27 bp):
ATTTTTGACAAACACAAAGAAACCACC
Found at i:84291 original size:13 final size:13
Alignment explanation
Indices: 84276--84321 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
84266 GAGATACAAG
*
84276 AGAGGGATGCTTG
1 AGAGGGATGCTTA
*
84289 AGAGAGATGCTTA
1 AGAGGGATGCTTA
* *
84302 AGAAGGATACTTA
1 AGAGGGATGCTTA
84315 AGAGGGA
1 AGAGGGA
84322 GGAGGGAGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.37, T:0.20
Consensus pattern (13 bp):
AGAGGGATGCTTA
Found at i:84403 original size:24 final size:24
Alignment explanation
Indices: 84375--84478 Score: 61
Period size: 24 Copynumber: 4.1 Consensus size: 24
84365 AATAAAAATT
*
84375 AGCCACCAATTTTGACAAACAATA
1 AGCCACCAATTTTGACAAACAAAA
* *
84399 AGCCA-TAATTTTTTACAAACAAAA
1 AGCCACCAA-TTTTGACAAACAAAA
*
84423 AGGAACCACCATTTTTGACAAATACAAAGTA
1 A-G--CCACCAATTTTGAC-AA-ACAAA--A
*
84454 A-CCACC-ATTGTTGACAAACACAA
1 AGCCACCAATT-TTGACAAACAAAA
84477 AG
1 AG
84479 GGTGGCTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
23 4 0.07
24 19 0.31
25 5 0.08
26 4 0.07
27 19 0.31
28 3 0.05
29 5 0.08
31 2 0.03
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAAAA
Found at i:84443 original size:27 final size:27
Alignment explanation
Indices: 84377--84479 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 27
84367 TAAAAATTAG
* *
84377 CCACCAATTTTGACAAACAATAA-G--
1 CCACCATTTTTGACAAACAAAAAGGAA
** *
84401 CCATAATTTTTTACAAACAAAAAGGAA
1 CCACCATTTTTGACAAACAAAAAGGAA
* * *
84428 CCACCATTTTTGACAAATACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAGGAA
* *
84455 CCACCATTGTTGACAAACACAAAGG
1 CCACCATTTTTGACAAACAAAAAGG
84480 GTGGCTTTTG
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 18 0.29
25 1 0.02
27 43 0.69
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGGAA
Found at i:89162 original size:22 final size:22
Alignment explanation
Indices: 89137--89184 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
89127 ACTTTTGTGT
89137 TAAAAATATTTTTAATGTGAAA
1 TAAAAATATTTTTAATGTGAAA
89159 TAAAAATATTTTTAATGTGAAA
1 TAAAAATATTTTTAATGTGAAA
89181 TAAA
1 TAAA
89185 TATAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (22 bp):
TAAAAATATTTTTAATGTGAAA
Found at i:89481 original size:7 final size:7
Alignment explanation
Indices: 89469--89513 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
89459 AAGTCACCCC
89469 TTATTAT
1 TTATTAT
89476 TTATTAT
1 TTATTAT
*
89483 TTTTTAT
1 TTATTAT
89490 TGATATT-T
1 T--TATTAT
89498 TTATTAT
1 TTATTAT
89505 TTATTAT
1 TTATTAT
89512 TT
1 TT
89514 TGATAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 4 0.12
7 24 0.73
8 2 0.06
9 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (7 bp):
TTATTAT
Found at i:91490 original size:2 final size:2
Alignment explanation
Indices: 91483--91519 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
91473 TGGGTCCTTT
91483 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 T
91520 GGCTAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:96782 original size:25 final size:25
Alignment explanation
Indices: 96754--96847 Score: 84
Period size: 27 Copynumber: 3.6 Consensus size: 25
96744 AAGCCACCCA
96754 TTTGTTTGTCAAAAATGGTGGTTATT
1 TTTGTTTGTCAAAAATGGTGGTTA-T
96780 TTGTGTTTGTCAAAAATGGTGGTT-T
1 TT-TGTTTGTCAAAAATGGTGGTTAT
* *
96805 CCTTTGGATTTGTCAAATATGGAGGCTTA-
1 --TTT-G-TTTGTCAAAAATGGTGG-TTAT
*
96834 TTTATTTGTCAAAA
1 TTTGTTTGTCAAAA
96848 TTTGTGGCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
25 10 0.18
26 3 0.05
27 27 0.47
28 15 0.26
29 2 0.04
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.46
Consensus pattern (25 bp):
TTTGTTTGTCAAAAATGGTGGTTAT
Found at i:97638 original size:12 final size:12
Alignment explanation
Indices: 97621--97656 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
97611 ATTTTGTGAG
97621 ATTTTTATATAA
1 ATTTTTATATAA
97633 ATTTTTATAT--
1 ATTTTTATATAA
97643 ATTTTTAT-TAA
1 ATTTTTATATAA
97654 ATT
1 ATT
97657 CATATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.05
10 8 0.36
11 3 0.14
12 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTTTATATAA
Found at i:97668 original size:21 final size:22
Alignment explanation
Indices: 97621--97673 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
97611 ATTTTGTGAG
**
97621 ATTTTTATATAAATTTTTATAT
1 ATTTTTATATAAATTCATATAT
97643 ATTTTTAT-TAAATTCATAT-T
1 ATTTTTATATAAATTCATATAT
97663 ATTTTTTATAT
1 A-TTTTTATAT
97674 CATATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.07
21 16 0.59
22 9 0.33
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTTATATAAATTCATATAT
Found at i:97705 original size:23 final size:24
Alignment explanation
Indices: 97669--97716 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
97659 TATTATTTTT
97669 TATATCATATTAAATTTTAA-ATA
1 TATATCATATTAAATTTTAACATA
97692 TATAT-ATATATAAATTTTAACATA
1 TATATCATAT-TAAATTTTAACATA
97716 T
1 T
97717 TATTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TATATCATATTAAATTTTAACATA
Found at i:97723 original size:35 final size:35
Alignment explanation
Indices: 97684--97752 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
97674 CATATTAAAT
97684 TTTAAATATATATATATATAAATTTTAACATATTA
1 TTTAAATATATATATATATAAATTTTAACATATTA
* * * * * *
97719 TTTAATTATTTATTTTTATAGATTTTAATATATT
1 TTTAAATATATATATATATAAATTTTAACATATT
97753 TATATATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (35 bp):
TTTAAATATATATATATATAAATTTTAACATATTA
Found at i:99304 original size:14 final size:14
Alignment explanation
Indices: 99272--99305 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99262 CATATATCAA
* *
99272 ATTTGATTTATTTT
1 ATTTTATTTATTTG
99286 ATTTTATTTATTTG
1 ATTTTATTTATTTG
99300 ATTTTA
1 ATTTTA
99306 AAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (14 bp):
ATTTTATTTATTTG
Found at i:99321 original size:16 final size:17
Alignment explanation
Indices: 99300--99331 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
99290 TATTTATTTG
99300 ATTTT-AAAATTAATTA
1 ATTTTAAAAATTAATTA
99316 ATTTTAAAAATTAATT
1 ATTTTAAAAATTAATT
99332 TATTCTTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTAAAAATTAATTA
Found at i:99435 original size:25 final size:25
Alignment explanation
Indices: 99401--99468 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
99391 TTTTATTTTT
*
99401 AATTATATTTATATAATATAAATGC
1 AATTATATTTATATAATATAAATGA
* * *
99426 AATTATATTTGTATAATA-AATTTA
1 AATTATATTTATATAATATAAATGA
*
99450 AATTATA-TAATATAATATA
1 AATTATATTTATATAATATA
99469 TCATTTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 8 0.22
24 11 0.31
25 17 0.47
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (25 bp):
AATTATATTTATATAATATAAATGA
Found at i:100672 original size:22 final size:21
Alignment explanation
Indices: 100646--100686 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
100636 TTATTTAAAA
100646 TTAAATCATTAAAAAATTTATC
1 TTAAAT-ATTAAAAAATTTATC
**
100668 TTAAATATTACTAAATTTA
1 TTAAATATTAAAAAATTTA
100687 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAATATTAAAAAATTTATC
Found at i:102728 original size:53 final size:53
Alignment explanation
Indices: 102648--102755 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
102638 ACAACAAATG
*
102648 ATATGTTTGTTTTGATGCAATGGGGGATCTAGATTTTTTACACCCAATAAAGC
1 ATATGTTTGATTTGATGCAATGGGGGATCTAGATTTTTTACACCCAATAAAGC
* *
102701 ATATGTTTGATTTGATGGAATGGGGGATCTAGATTTTTTACACCTAATAAAGC
1 ATATGTTTGATTTGATGCAATGGGGGATCTAGATTTTTTACACCCAATAAAGC
102754 AT
1 AT
102756 TATATCTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (53 bp):
ATATGTTTGATTTGATGCAATGGGGGATCTAGATTTTTTACACCCAATAAAGC
Found at i:106108 original size:22 final size:25
Alignment explanation
Indices: 106082--106133 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
106072 AATAAATTTT
106082 TAATTTTATTAT-AATAT-TAAAAA
1 TAATTTTATTATCAATATATAAAAA
*
106105 -AATTTTATTATCGATATATAAAAA
1 TAATTTTATTATCAATATATAAAAA
106129 TAATT
1 TAATT
106134 CATCATCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 11 0.44
23 4 0.16
24 6 0.24
25 4 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
TAATTTTATTATCAATATATAAAAA
Found at i:106935 original size:8 final size:8
Alignment explanation
Indices: 106922--106954 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
106912 TAAGATTTTA
106922 TTTATTAT
1 TTTATTAT
106930 TTTATTAT
1 TTTATTAT
106938 TTT-TTAT
1 TTTATTAT
*
106945 TTTATAAT
1 TTTATTAT
106953 TT
1 TT
106955 AAAATTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATTAT
Found at i:106937 original size:15 final size:15
Alignment explanation
Indices: 106919--106955 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
106909 GATTAAGATT
106919 TTATTTATTATTTTA
1 TTATTTATTATTTTA
*
106934 TTATTTTTTATTTTA
1 TTATTTATTATTTTA
*
106949 TAATTTA
1 TTATTTA
106956 AAATTATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTATTATTTTA
Found at i:108216 original size:18 final size:18
Alignment explanation
Indices: 108190--108230 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
108180 TTTTAGTATG
* **
108190 AATTCAATCAATTTAATT
1 AATTGAATCAATGAAATT
108208 AATTGAATCAATGAAATT
1 AATTGAATCAATGAAATT
108226 AATTG
1 AATTG
108231 TTTATGTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (18 bp):
AATTGAATCAATGAAATT
Found at i:108269 original size:24 final size:24
Alignment explanation
Indices: 108242--108287 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
108232 TTATGTCAAA
108242 AAAT-TTTAAATAAAAAAATATAAT
1 AAATATTT-AATAAAAAAATATAAT
*
108266 AAATATTTAATAAAAATATATA
1 AAATATTTAATAAAAAAATATA
108288 TTTAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATATTTAATAAAAAAATATAAT
Found at i:108309 original size:21 final size:18
Alignment explanation
Indices: 108263--108311 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
108253 AAAAAAATAT
108263 AATA-AATATTTAATAAA
1 AATATAATATTTAATAAA
108280 AATAT-ATATTTAATTAAA
1 AATATAATATTTAA-TAAA
108298 TAATATTAATATTT
1 -AATA-TAATATTT
108312 TTAATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 12 0.44
18 4 0.15
19 4 0.15
20 1 0.04
21 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATATAATATTTAATAAA
Found at i:108720 original size:20 final size:21
Alignment explanation
Indices: 108697--108850 Score: 78
Period size: 19 Copynumber: 7.5 Consensus size: 21
108687 TTACTAAATT
108697 ATAATATTATATTAT-TTATA
1 ATAATATTATATTATATTATA
108717 ATAATA-TA-ATTAATATTATA
1 ATAATATTATATT-ATATTATA
108737 CATTAATAATT-T-TTATATTAT-
1 -A-TAAT-ATTATATTATATTATA
* *
108758 ATAA-ATTTTAATATATTTATA
1 ATAATATTATATTATA-TTATA
*
108779 ATTATATTATATTTATATT-T-
1 ATAATATTATA-TTATATTATA
* * *
108799 TTAATCTTATTTTA-ATTAT-
1 ATAATATTATATTATATTATA
* *
108818 TTTATATTATATTCATATTATA
1 ATAATATTATATT-ATATTATA
*
108840 TCTAATATTAT
1 -ATAATATTAT
108851 TAAATTAAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
17 3 0.03
18 7 0.07
19 25 0.24
20 24 0.23
21 10 0.10
22 18 0.17
23 15 0.15
24 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
ATAATATTATATTATATTATA
Found at i:108781 original size:17 final size:17
Alignment explanation
Indices: 108742--108803 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
108732 TTATACATTA
108742 ATAATTTT--TATATTAT
1 ATAATTTTAATATATT-T
108758 ATAAATTTTAATATATTT
1 AT-AATTTTAATATATTT
* *
108776 ATAATTATATTATATTT
1 ATAATTTTAATATATTT
*
108793 ATATTTTTAAT
1 ATAATTTTAAT
108804 CTTATTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
16 2 0.05
17 27 0.71
18 3 0.08
19 6 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTAATATATTT
Found at i:108781 original size:34 final size:34
Alignment explanation
Indices: 108742--108829 Score: 92
Period size: 34 Copynumber: 2.5 Consensus size: 34
108732 TTATACATTA
108742 ATAATTTTTATATTATATAAATTTTAAT-ATATTT
1 ATAATTTTTATATTATAT-AATTTTAATCATATTT
* *
108776 ATAATTATATTATATT-TATATTTTTAATCTTATTT
1 ATAATT-T-TTATATTATATAATTTTAATCATATTT
108811 -TAATTATTTTATATTATAT
1 ATAA-T-TTTTATATTATAT
108830 TCATATTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 24 0.52
35 14 0.30
36 8 0.17
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (34 bp):
ATAATTTTTATATTATATAATTTTAATCATATTT
Found at i:108796 original size:6 final size:6
Alignment explanation
Indices: 108769--108840 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 6
108759 TAAATTTTAA
* *
108769 TATATT TATAAT TATA-T TATATT TATATT TTTAATCT TAT-TT TA-A-T
1 TATATT TATATT TATATT TATATT TATATT TAT-AT-T TATATT TATATT
*
108815 TAT-TT TATA-T TATATT CATA-T TATAT
1 TATATT TATATT TATATT TATATT TATAT
108841 CTAATATTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
4 3 0.06
5 21 0.40
6 23 0.44
7 2 0.04
8 3 0.06
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (6 bp):
TATATT
Found at i:108819 original size:9 final size:10
Alignment explanation
Indices: 108780--108838 Score: 59
Period size: 11 Copynumber: 5.9 Consensus size: 10
108770 ATATTTATAA
108780 TTATATTATAT
1 TTATATTAT-T
108791 TTATATT-TT
1 TTATATTATT
* *
108800 TAATCTTATT
1 TTATATTATT
108810 TTA-ATTATT
1 TTATATTATT
108819 TTATATTATAT
1 TTATATTAT-T
*
108830 TCATATTAT
1 TTATATTAT
108839 ATCTAATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 14 0.35
10 10 0.25
11 16 0.40
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATATTATT
Found at i:109076 original size:19 final size:20
Alignment explanation
Indices: 109040--109078 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
109030 TTATATTTTT
*
109040 ATATTAATTATATAAATATA
1 ATATAAATTATATAAATATA
109060 ATATAAATTAT-TAAATATA
1 ATATAAATTATATAAATATA
109079 TTAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATAAATTATATAAATATA
Found at i:109152 original size:19 final size:19
Alignment explanation
Indices: 109130--109170 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
109120 TACTATCATA
109130 TTATA-TTATTATATGATTT
1 TTATATTTATTATAT-ATTT
109149 TTATATTTATTATATATTT
1 TTATATTTATTATATATTT
109168 TTA
1 TTA
109171 AAATTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATATTTATTATATATTT
Found at i:109177 original size:19 final size:20
Alignment explanation
Indices: 109134--109182 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
109124 ATCATATTAT
*
109134 ATTATTATATGATTTTTATA
1 ATTATTATATGATTTTTAAA
*
109154 TTTATTATAT-ATTTTTAAA
1 ATTATTATATGATTTTTAAA
*
109173 ATTATCATAT
1 ATTATTATAT
109183 TTACTAAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTATTATATGATTTTTAAA
Found at i:110098 original size:17 final size:17
Alignment explanation
Indices: 110076--110117 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
110066 TAATTAATAT
110076 AATTAAAATTATAAAAA
1 AATTAAAATTATAAAAA
* *
110093 AATTAAAATTTTAATAA
1 AATTAAAATTATAAAAA
110110 AATTAAAA
1 AATTAAAA
110118 ATTACATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTAAAATTATAAAAA
Found at i:110608 original size:22 final size:19
Alignment explanation
Indices: 110578--110619 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
110568 AATTTTTATT
110578 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAA-ATA
110599 TAAATATTAATATAAAAATA
1 TAAAT-TTAATATAAAAATA
110619 T
1 T
110620 TTTACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATTTAATATAAAAATA
Found at i:111030 original size:19 final size:20
Alignment explanation
Indices: 110997--111036 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
110987 TTTTAAATAC
*
110997 AAATATAATATAATAAAAAT
1 AAATATAATACAATAAAAAT
*
111017 AAATA-AATACAATATAAAT
1 AAATATAATACAATAAAAAT
111036 A
1 A
111037 TATGAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATATAATACAATAAAAAT
Found at i:111881 original size:2 final size:2
Alignment explanation
Indices: 111874--111901 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
111864 GGTAGTCATA
111874 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
111902 TTTTGCATAT
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:112475 original size:24 final size:23
Alignment explanation
Indices: 112448--112498 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
112438 ATAATACTAT
*
112448 TAAACATAATATAATTACACGATA
1 TAAACATAATATAA-AACACGATA
* *
112472 TAAATATAATATAAAATACGATA
1 TAAACATAATATAAAACACGATA
112495 TAAA
1 TAAA
112499 AATATTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAACATAATATAAAACACGATA
Found at i:113417 original size:23 final size:24
Alignment explanation
Indices: 113374--113418 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
113364 CATATAACTT
113374 TATATTTGATGAATTACTAATACA
1 TATATTTGATGAATTACTAATACA
* *
113398 TATATTT-ATGTATTATTAATA
1 TATATTTGATGAATTACTAATA
113419 AATCATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (24 bp):
TATATTTGATGAATTACTAATACA
Found at i:115087 original size:18 final size:18
Alignment explanation
Indices: 115061--115102 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
115051 TTATTTTTAT
*
115061 TATTCAAAATATAT-TAAA
1 TATTAAAAATATATAT-AA
*
115079 TATTAAAAATTTATATAA
1 TATTAAAAATATATATAA
115097 TATTAA
1 TATTAA
115103 TATTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TATTAAAAATATATATAA
Found at i:115120 original size:31 final size:32
Alignment explanation
Indices: 115085--115156 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 32
115075 TAAATATTAA
* *
115085 AAATTTATAT-AATATTAATATTTTTAT-AATT
1 AAATTTATATAAAAAATAAT-TTTTTATAAATT
*
115116 AAATTTAAATAAAAAATAATTTTTTATAAATT
1 AAATTTATATAAAAAATAATTTTTTATAAATT
115148 AAATATTAT
1 AAAT-TTAT
115157 TTTAACTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 16 0.47
32 15 0.44
33 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
AAATTTATATAAAAAATAATTTTTTATAAATT
Found at i:117684 original size:2 final size:2
Alignment explanation
Indices: 117677--117705 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
117667 CAGATCATTC
117677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117706 GACACTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:118874 original size:90 final size:90
Alignment explanation
Indices: 118721--118896 Score: 334
Period size: 90 Copynumber: 2.0 Consensus size: 90
118711 CATGATAGAA
118721 CCCAGATAACAGCCAAACTGTACAGTTACAGACAGTGAACTTACCCACAGGCATTGCAAAGAGAG
1 CCCAGATAACAGCCAAACTGTACAGTTACAGACAGTGAACTTACCCACAGGCATTGCAAAGAGAG
*
118786 TTAATCTCATCAATAAAAATTTTAG
66 TCAATCTCATCAATAAAAATTTTAG
*
118811 CCCAGATAACAGCCAAACTGTACAGTTACAGACAGTGAACTTACCCACGGGCATTGCAAAGAGAG
1 CCCAGATAACAGCCAAACTGTACAGTTACAGACAGTGAACTTACCCACAGGCATTGCAAAGAGAG
118876 TCAATCTCATCAATAAAAATT
66 TCAATCTCATCAATAAAAATT
118897 GTACTAGGGG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (90 bp):
CCCAGATAACAGCCAAACTGTACAGTTACAGACAGTGAACTTACCCACAGGCATTGCAAAGAGAG
TCAATCTCATCAATAAAAATTTTAG
Found at i:122830 original size:16 final size:15
Alignment explanation
Indices: 122806--122839 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
122796 TCGATATTTA
*
122806 AAATTTTAAATTTATT
1 AAATATTAAATTT-TT
122822 AAATATTAAATTTTT
1 AAATATTAAATTTTT
122837 AAA
1 AAA
122840 AAAGTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATATTAAATTTTT
Found at i:125264 original size:15 final size:15
Alignment explanation
Indices: 125240--125282 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
125230 ATTTAAAATA
125240 AAAT-TTAATTATTT
1 AAATATTAATTATTT
* *
125254 AATTATTAATTTTTT
1 AAATATTAATTATTT
125269 AAATATTAAATTAT
1 AAATATT-AATTAT
125283 AAATAAAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 3 0.13
15 15 0.65
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AAATATTAATTATTT
Found at i:125318 original size:12 final size:12
Alignment explanation
Indices: 125294--125327 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
125284 AATAAAAGTA
*
125294 TAATTAAAATAT
1 TAATTAATATAT
125306 TAATTAATATAT
1 TAATTAATATAT
125318 TAACTTAATA
1 TAA-TTAATA
125328 GTAAAATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATTAATATAT
Found at i:129821 original size:2 final size:2
Alignment explanation
Indices: 129814--129864 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
129804 TTTAATCTCC
129814 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
*
129856 TG TA TA TA T
1 TA TA TA TA T
129865 TCAGCTTGTC
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:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:136439 original size:28 final size:28
Alignment explanation
Indices: 136408--136498 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 28
136398 TTTAATTTTT
136408 AATTTATATTTAAATAAATATAAATAAA
1 AATTTATATTTAAATAAATATAAATAAA
*
136436 AATTTAT-TTAAATATAAAT-TAAA-AATA
1 AATTTATATTTAA-ATAAATATAAATAA-A
*
136463 AA-TAATTATTTAAATATAATATAAATATAA
1 AATTTA-TATTTAAATA-AATATAAATA-AA
136493 AATTTA
1 AATTTA
136499 CTTAAAAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
26 4 0.08
27 15 0.30
28 20 0.40
29 4 0.08
30 4 0.08
31 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AATTTATATTTAAATAAATATAAATAAA
Found at i:136474 original size:33 final size:33
Alignment explanation
Indices: 136400--136494 Score: 86
Period size: 33 Copynumber: 2.8 Consensus size: 33
136390 AATAAATTTT
* * *
136400 TAATT-TTTAATTTATATTTAAA-TAAATATAAA
1 TAATTATTT-ATTTAAATATAAATTAAAAATAAA
**
136432 TAAAAATTTATTTAAATATAAATTAAAAATAAA
1 TAATTATTTATTTAAATATAAATTAAAAATAAA
**
136465 TAATTATTTAAATATAATATAAATATAAAA
1 TAATTATTTATTTA-AATATAAAT-TAAAA
136495 TTTACTTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
32 14 0.28
33 22 0.44
34 9 0.18
35 5 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
TAATTATTTATTTAAATATAAATTAAAAATAAA
Found at i:136517 original size:29 final size:29
Alignment explanation
Indices: 136419--136519 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
136409 ATTTATATTT
136419 AAAT-AAATATAAATA-AAAATTTATTTAA
1 AAATAAAATA-AAATATAAAATTTATTTAA
* * *
136447 ATATAAATTAAAA-ATAAATAATTATTTAA
1 AAATAAAATAAAATATAAA-ATTTATTTAA
* * *
136476 ATATAATAT-AAATATAAAATTTACTTAA
1 AAATAAAATAAAATATAAAATTTATTTAA
136504 AAATAAAATAAAATAT
1 AAATAAAATAAAATAT
136520 TTATTTTTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
27 1 0.02
28 27 0.46
29 31 0.53
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATAAAATAAAATATAAAATTTATTTAA
Found at i:141992 original size:2 final size:2
Alignment explanation
Indices: 141985--142011 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
141975 GCATACACAA
141985 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
142012 AACATGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:142299 original size:20 final size:20
Alignment explanation
Indices: 142276--142317 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
142266 AATATATTTG
142276 TTATTTATTTAATA-TTAAAA
1 TTATTT-TTTAATATTTAAAA
*
142296 TTATTTTTTTATATTTAAAA
1 TTATTTTTTAATATTTAAAA
142316 TT
1 TT
142318 GTTATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTTTTAATATTTAAAA
Found at i:144126 original size:16 final size:17
Alignment explanation
Indices: 144097--144143 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
144087 TAATATATAT
144097 TTATATAAATTTTAATA
1 TTATATAAATTTTAATA
144114 -TAT-TAATATTTT-ATA
1 TTATATAA-ATTTTAATA
144129 TTATATAAATTTTAA
1 TTATATAAATTTTAA
144144 CACGTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 6 0.23
16 16 0.62
17 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATATAAATTTTAATA
Found at i:144159 original size:32 final size:32
Alignment explanation
Indices: 144087--144164 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
144077 TTATTTATCG
* * *
144087 TAATATATATTTATATAAATTTTAATATATTAA
1 TAATTTATA-TTATATAAATTTTAACACATTAA
* * *
144120 TATTTTATATTATATAAATTTTAACACGTTTA
1 TAATTTATATTATATAAATTTTAACACATTAA
144152 TAATTTATATTAT
1 TAATTTATATTAT
144165 GTTTTACTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 31 0.82
33 7 0.18
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (32 bp):
TAATTTATATTATATAAATTTTAACACATTAA
Found at i:146897 original size:16 final size:16
Alignment explanation
Indices: 146832--146897 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
146822 ATGATATAAA
146832 AAATATA-AATATATTT
1 AAATATATAATAT-TTT
* *
146848 AATTATAT-ATATTAT
1 AAATATATAATATTTT
*
146863 AAAT-TATTAATATATT
1 AAATATA-TAATATTTT
146879 AAATATATAATATTTT
1 AAATATATAATATTTT
146895 AAA
1 AAA
146898 AATAATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
14 2 0.05
15 6 0.15
16 30 0.75
17 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATATATAATATTTT
Found at i:146902 original size:14 final size:16
Alignment explanation
Indices: 146832--146922 Score: 61
Period size: 15 Copynumber: 5.9 Consensus size: 16
146822 ATGATATAAA
146832 AAATATA-AATATATT
1 AAATATATAATATATT
*
146847 TAAT-TAT-ATATATT
1 AAATATATAATATATT
146861 ATAA-ATTATTAATATATT
1 A-AATA-TA-TAATATATT
*
146879 AAATATATAATATTTT
1 AAATATATAATATATT
*
146895 AAA-A-ATAATTATAAT
1 AAATATATAA-TATATT
*
146910 AAA-AAATAATATA
1 AAATATATAATATA
146923 AATATAAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 13 0.21
15 18 0.29
16 17 0.27
17 5 0.08
18 9 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATATATAATATATT
Found at i:146914 original size:16 final size:16
Alignment explanation
Indices: 146895--146934 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
146885 ATAATATTTT
146895 AAAAATAAT-TATAATA
1 AAAAATAATATA-AATA
146911 AAAAATAATATAAATA
1 AAAAATAATATAAATA
*
146927 TAAAATAA
1 AAAAATAA
146935 AACGCGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATAATATAAATA
Done.