Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2004
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: 82970
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Found at i:871 original size:19 final size:18
Alignment explanation
Indices: 839--877 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
829 GAATCAATTA
* *
839 AAAATTGATTAAATTAAT
1 AAAATTGATAAAATCAAT
857 AAAATTGAATAAAATCAAT
1 AAAATTG-ATAAAATCAAT
876 AA
1 AA
878 TTGAATCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATTGATAAAATCAAT
Found at i:1031 original size:17 final size:17
Alignment explanation
Indices: 994--1031 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
984 AATATATTTT
*
994 TATTTAAATATTTATAC
1 TATTTAAATATTTATAA
1011 TATTT-AATATTTATTAA
1 TATTTAAATATTTA-TAA
1028 TATT
1 TATT
1032 AGATTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTTAAATATTTATAA
Found at i:3348 original size:23 final size:23
Alignment explanation
Indices: 3322--3389 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
3312 GCATGTCTTG
*
3322 TATATATTATATTTATATTATTT
1 TATATATTATATTTAAATTATTT
*
3345 TATATTTTATATTTAAATTATTT
1 TATATATTATATTTAAATTATTT
* * *
3368 TTTAATATTATATATGAATTAT
1 TAT-ATATTATATTTAAATTAT
3390 ATAATTATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
23 23 0.61
24 15 0.39
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (23 bp):
TATATATTATATTTAAATTATTT
Found at i:3404 original size:9 final size:9
Alignment explanation
Indices: 3378--3406 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3368 TTTAATATTA
3378 TATATGAAT
1 TATATGAAT
3387 TATAT-AAT
1 TATATGAAT
3395 TATATGAAT
1 TATATGAAT
3404 TAT
1 TAT
3407 CACAATACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (9 bp):
TATATGAAT
Found at i:3656 original size:79 final size:79
Alignment explanation
Indices: 3561--3799 Score: 316
Period size: 79 Copynumber: 3.0 Consensus size: 79
3551 AAAGGGAGAT
* *
3561 AATAATCTTTGGAATTTAAATAATAATTTTTTAACGCTTTCTTTTAGATTTCATTTCAGATTCAA
1 AATAATCTTTGGAATTTAAATAATAATTTTTTAACGCTTTCTTTTAGATTTCACTTCACATTCAA
3626 TTATGTAATCATAA
66 TTATGTAATCATAA
** *
3640 AATAATCTTTAAAATTTAAATAATAATTTTTTAACGCTTTTTTTTAGATTTCACTTCACATTCAA
1 AATAATCTTTGGAATTTAAATAATAATTTTTTAACGCTTTCTTTTAGATTTCACTTCACATTCAA
*
3705 TTATGTAATCATAT
66 TTATGTAATCATAA
* ** * * *
3719 AATAATCTTTGGTATTTAAATAATAATCTTGTCTTTAACATTTTCTTTTAGAATTCACTTCATAA
1 AATAATCTTTGGAATTTAAATAATAA--TT-T-TTTAACGCTTTCTTTTAGATTTCACTTCACAT
* *
3784 TCAAATACGTAATCAT
62 TCAATTATGTAATCAT
3800 GTTGTAAAAT
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
79 96 0.69
81 2 0.01
82 1 0.01
83 40 0.29
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (79 bp):
AATAATCTTTGGAATTTAAATAATAATTTTTTAACGCTTTCTTTTAGATTTCACTTCACATTCAA
TTATGTAATCATAA
Found at i:4974 original size:24 final size:23
Alignment explanation
Indices: 4946--4995 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
4936 AGAATACCAA
4946 AAAATTATAAATAAATACGATTTC
1 AAAATTATAAATAAATACGA-TTC
* *
4970 AAAATTATAAGTGAATACGATTC
1 AAAATTATAAATAAATACGATTC
4993 AAA
1 AAA
4996 TTTAACTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (23 bp):
AAAATTATAAATAAATACGATTC
Found at i:6921 original size:37 final size:38
Alignment explanation
Indices: 6877--6953 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 38
6867 AGAGTAAGAT
6877 TTTTAAATTTTCTATTTGATGAATC-ATTTTTCCTTTA
1 TTTTAAATTTTCTATTTGATGAATCAATTTTTCCTTTA
6914 TTTTAAATTTTCTATTTGATGAATCAATTTTTCCTTTA
1 TTTTAAATTTTCTATTTGATGAATCAATTTTTCCTTTA
6952 TT
1 TT
6954 AGGGGAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
37 25 0.64
38 14 0.36
ACGTcount: A:0.25, C:0.10, G:0.05, T:0.60
Consensus pattern (38 bp):
TTTTAAATTTTCTATTTGATGAATCAATTTTTCCTTTA
Found at i:6944 original size:20 final size:20
Alignment explanation
Indices: 6882--6944 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
6872 AAGATTTTTA
6882 AATTTTCTATTTGATGAATC
1 AATTTTCTATTTGATGAATC
* * ** *
6902 ATTTTTC-CTTT-AT-TTTA
1 AATTTTCTATTTGATGAATC
6919 AATTTTCTATTTGATGAATC
1 AATTTTCTATTTGATGAATC
6939 AATTTT
1 AATTTT
6945 TCCTTTATTA
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
17 7 0.23
18 5 0.17
19 5 0.17
20 13 0.43
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.57
Consensus pattern (20 bp):
AATTTTCTATTTGATGAATC
Found at i:8219 original size:90 final size:91
Alignment explanation
Indices: 8061--8236 Score: 232
Period size: 90 Copynumber: 1.9 Consensus size: 91
8051 ATAACATTAA
* * * * * * *
8061 AATGCACTAGCTAAGGTTTTCGAGGGAAGAACTAAACTTATTTTATCAAAGTCCATTTAGATATA
1 AATGCACTAGCTAAGGTTTGCGA-GAAAGAACTAAACTTATTTCACCAAAATCCATTTACATACA
8126 TGAA-TTCTTAAAAAAAATGATGTTGGC
65 TGAACTT-TTAAAAAAAATGATGTTGGC
8153 AATGCACTAGCTAAGGTTTGC-A-AATAGAACTAAACTTATTTCACCAAAATCCATTTACATACA
1 AATGCACTAGCTAAGGTTTGCGAGAA-AGAACTAAACTTATTTCACCAAAATCCATTTACATACA
*
8216 TGAACTTTTAAAAAAAGTGAT
65 TGAACTTTTAAAAAAAATGAT
8237 ATTAATATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
89 1 0.01
90 50 0.68
91 3 0.04
92 20 0.27
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (91 bp):
AATGCACTAGCTAAGGTTTGCGAGAAAGAACTAAACTTATTTCACCAAAATCCATTTACATACAT
GAACTTTTAAAAAAAATGATGTTGGC
Found at i:11482 original size:2 final size:2
Alignment explanation
Indices: 11475--11509 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
11465 GATTTTTAAA
* *
11475 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11510 AATAAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:11496 original size:14 final size:14
Alignment explanation
Indices: 11477--11509 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
11467 TTTTTAAAAT
11477 ATATATATATATAC
1 ATATATATATATAC
11491 ATATATATATATAC
1 ATATATATATATAC
11505 ATATA
1 ATATA
11510 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:12629 original size:20 final size:20
Alignment explanation
Indices: 12593--12633 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
12583 ATTTTCCTCC
12593 TCCTTTTTTTTGCTTTTTGTT
1 TCCTTTTTTTT-CTTTTTGTT
12614 TCCTTTTTTATT-TTTTTGTT
1 TCCTTTTTT-TTCTTTTTGTT
12634 GTTGGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 9 0.47
22 2 0.11
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.78
Consensus pattern (20 bp):
TCCTTTTTTTTCTTTTTGTT
Found at i:15846 original size:3 final size:3
Alignment explanation
Indices: 15838--15874 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
15828 GTTAGATAAT
15838 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15875 ATTGAATGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16507 original size:19 final size:19
Alignment explanation
Indices: 16483--16521 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16473 TCATTATTTG
16483 ATTTAT-TATGAATATATAA
1 ATTTATATATGAATA-ATAA
*
16502 ATTTATATATTAATAATAA
1 ATTTATATATGAATAATAA
16521 A
1 A
16522 AATATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATTTATATATGAATAATAA
Found at i:17377 original size:8 final size:9
Alignment explanation
Indices: 17363--17404 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 9
17353 TTTATAATTT
17363 TTATTATAA
1 TTATTATAA
17372 -TATTATAA
1 TTATTATAA
17380 TTATT-TAA
1 TTATTATAA
17388 TTAATTATAA
1 TT-ATTATAA
17398 -TATTATA
1 TTATTATA
17405 TATAATTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 19 0.63
9 8 0.27
10 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTATTATAA
Found at i:17383 original size:26 final size:26
Alignment explanation
Indices: 17344--17418 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
17334 AAAATAAATA
* *
17344 AATATTTTATTTATAATTTTTATTAT
1 AATATTATAATTATAATTTTTATTAT
*
17370 AATATTATAATTAT--TTAATTAATTAT
1 AATATTATAATTATAATT--TTTATTAT
17396 AATATTAT-A-TATAATTTGTTATT
1 AATATTATAATTATAATTT-TTATT
17419 TTAAAGTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
24 6 0.15
25 5 0.12
26 29 0.73
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (26 bp):
AATATTATAATTATAATTTTTATTAT
Found at i:17392 original size:20 final size:20
Alignment explanation
Indices: 17354--17392 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17344 AATATTTTAT
*
17354 TTATAATTTTTATTATAATA
1 TTATAATTTTTAATATAATA
17374 TTATAATTATTTAAT-TAAT
1 TTATAATT-TTTAATATAAT
17393 TATAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATAATTTTTAATATAATA
Found at i:17410 original size:18 final size:18
Alignment explanation
Indices: 17363--17411 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
17353 TTTATAATTT
17363 TTATTATAAT-ATTATAA
1 TTATTATAATAATTATAA
17380 TTATT-TAATTAATTATAA
1 TTATTATAA-TAATTATAA
17398 -TATTATATATAATT
1 TTATTATA-ATAATT
17412 TGTTATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.11
17 10 0.36
18 14 0.50
19 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATTATAATAATTATAA
Found at i:17486 original size:4 final size:4
Alignment explanation
Indices: 17477--17501 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17467 AAAATTGTAA
17477 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
17502 GGCGATATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:17916 original size:2 final size:2
Alignment explanation
Indices: 17903--17948 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
17893 CGTCAGCTTT
* * * *
17903 TA TA TT TA TA TA TA TA TA CA CA TA TA TA TA TA TA TT 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
17945 TA TA
1 TA TA
17949 CATCACATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18304 original size:18 final size:17
Alignment explanation
Indices: 18259--18305 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
18249 ATCTAAAATG
18259 TTTTTA-AAAA-TAATT
1 TTTTTATAAAATTAATT
*
18274 TTTTATATTAAATTAATT
1 TTTT-TATAAAATTAATT
18292 ATTTTTATAAAATT
1 -TTTTTATAAAATT
18306 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 4 0.15
16 2 0.08
17 3 0.12
18 13 0.50
19 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTTATAAAATTAATT
Found at i:18736 original size:20 final size:20
Alignment explanation
Indices: 18704--18799 Score: 63
Period size: 20 Copynumber: 4.7 Consensus size: 20
18694 TTCAAAACTT
18704 AAAT-TATTATTTATAATTAA
1 AAATATATT-TTTATAATTAA
*
18724 AAATATATTTTTATGAA-TAT
1 AAATATATTTTTAT-AATTAA
***
18744 TTTTATATTTTTATAATTAA
1 AAATATATTTTTATAATTAA
* *
18764 ATTTATATAATTTTTATTATTAA
1 A--AATAT-ATTTTTATAATTAA
18787 ATAATA-ATTTTTA
1 A-AATATATTTTTA
18800 AAAACTCAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.03
20 31 0.51
21 6 0.10
22 8 0.13
23 14 0.23
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (20 bp):
AAATATATTTTTATAATTAA
Found at i:19665 original size:24 final size:23
Alignment explanation
Indices: 19638--19692 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
19628 AGTATTTAAA
*
19638 AAATTTTAATTTAAATAAATATTT
1 AAATTTT-ATTTAAATAAATAATT
* *
19662 AAATTATTATTTTATTAAATAATT
1 AAATT-TTATTTAAATAAATAATT
*
19686 AATTTTT
1 AAATTTT
19693 TCAAGTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 22 0.85
25 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AAATTTTATTTAAATAAATAATT
Found at i:20059 original size:19 final size:20
Alignment explanation
Indices: 20035--20074 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
20025 AAATATTTTT
20035 ATTTAAAT-T-TAATTATAAA
1 ATTTAAATATATAA-TATAAA
20054 ATTTAAATATATAATATAAA
1 ATTTAAATATATAATATAAA
20074 A
1 A
20075 AATTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 8 0.42
21 3 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTAAATATATAATATAAA
Found at i:20165 original size:12 final size:11
Alignment explanation
Indices: 20124--20173 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
20114 TCGAATTGAA
*
20124 TTAAATTAAAT
1 TTAAATTTAAT
*
20135 TTTAATTT--T
1 TTAAATTTAAT
20144 TTAAATTTAAT
1 TTAAATTTAAT
20155 TTAATATTTAAT
1 TTAA-ATTTAAT
*
20167 TAAAATT
1 TTAAATT
20174 AAAATTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 8 0.25
11 14 0.44
12 10 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:20617 original size:13 final size:13
Alignment explanation
Indices: 20576--20616 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
20566 TATATTATTT
*
20576 TTTTAAAATTT-C
1 TTTTATAATTTAC
20588 TTTTATAATTTAC
1 TTTTATAATTTAC
*
20601 TTTTAT-ATTTAA
1 TTTTATAATTTAC
20613 TTTT
1 TTTT
20617 TTTTAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 19 0.73
13 7 0.27
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTATAATTTAC
Found at i:20969 original size:31 final size:30
Alignment explanation
Indices: 20934--20992 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
20924 TATATATATT
*
20934 TTTATATATGATAATTTATTATATATTTTGA
1 TTTATATATGATAATCTATTATAT-TTTTGA
* * *
20965 TTTATTTATGTTTATCTATTATATTTTT
1 TTTATATATGATAATCTATTATATTTTT
20993 ATTATTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (30 bp):
TTTATATATGATAATCTATTATATTTTTGA
Found at i:20998 original size:14 final size:14
Alignment explanation
Indices: 20923--21035 Score: 78
Period size: 14 Copynumber: 8.3 Consensus size: 14
20913 ATTTATAAAT
20923 TTATATATATTTTTA
1 TTAT-TATATTTTTA
* *
20938 TATATGATA-ATTTA
1 T-TATTATATTTTTA
*
20952 TTA-TATATTTTGA
1 TTATTATATTTTTA
*
20965 TTTATT-TATGTTTA
1 -TTATTATATTTTTA
20979 TCTATTATATTTTTA
1 T-TATTATATTTTTA
* *
20994 TTATTTTATATTTA
1 TTATTATATTTTTA
21008 --ATTAT-TTTTTA
1 TTATTATATTTTTA
*
21019 TT-TTATATTTATA
1 TTATTATATTTTTA
21032 TTAT
1 TTAT
21036 ATTTTAATTT
Statistics
Matches: 75, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
11 5 0.07
12 11 0.15
13 13 0.17
14 30 0.40
15 13 0.17
16 3 0.04
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (14 bp):
TTATTATATTTTTA
Found at i:21001 original size:29 final size:31
Alignment explanation
Indices: 20950--21058 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 31
20940 TATGATAATT
*
20950 TATTATATATTTTGATTTATTTATGTTTATC
1 TATTATATATTTTGATTTATTTATATTTATC
20981 TATTATAT-TTTT-A-TTATTTTATATTTAAT-
1 TATTATATATTTTGATTTA-TTTATATTT-ATC
* * * *
21010 TATTTTTTATTTTATATTTATATTATATTTTAATT
1 TATTATATATTTT-GATTTAT-TTATA-TTT-ATC
*
21045 TATCATATATTTTG
1 TATTATATATTTTG
21059 TATAATTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
28 3 0.05
29 15 0.24
30 10 0.16
31 8 0.13
32 2 0.03
33 8 0.13
34 6 0.10
35 10 0.16
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (31 bp):
TATTATATATTTTGATTTATTTATATTTATC
Found at i:21822 original size:18 final size:19
Alignment explanation
Indices: 21799--21843 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
21789 TAATTTATTT
21799 ATATTAAAATA-ATTTTAA
1 ATATTAAAATATATTTTAA
*
21817 ATATTAAAATATATTTTTA
1 ATATTAAAATATATTTTAA
*
21836 ATGTTAAA
1 ATATTAAA
21844 TGAGTAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATATTAAAATATATTTTAA
Found at i:22396 original size:8 final size:8
Alignment explanation
Indices: 22385--22442 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
22375 TTAAAATTTT
22385 ATATATT-
1 ATATATTA
22392 A-ATATTA
1 ATATATTA
22399 ATTATATTA
1 A-TATATTA
*
22408 TTATATTTA
1 ATATA-TTA
22417 A-ATATTA
1 ATATATTA
*
22424 ATTTATTA
1 ATATATTA
*
22432 AAATATTA
1 ATATATTA
22440 ATA
1 ATA
22443 ATACAAATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
6 5 0.12
7 6 0.15
8 20 0.50
9 9 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATATATTA
Found at i:22411 original size:25 final size:26
Alignment explanation
Indices: 22333--22426 Score: 79
Period size: 25 Copynumber: 3.7 Consensus size: 26
22323 ATATATAAAA
* * *
22333 ATATATTATTATTAATTGATAATATAT
1 ATATATTAATATTAATTAATATTAT-T
* * *
22360 AAATATTAA-ATCAATTTAAAATT-TT
1 ATATATTAATATTAA-TTAATATTATT
22385 ATATATTAATATTAATT-ATATTATT
1 ATATATTAATATTAATTAATATTATT
22410 ATAT-TTAAATATTAATT
1 ATATATT-AATATTAATT
22427 TATTAAAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
24 6 0.11
25 27 0.50
26 9 0.17
27 12 0.22
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (26 bp):
ATATATTAATATTAATTAATATTATT
Found at i:22440 original size:16 final size:17
Alignment explanation
Indices: 22402--22441 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
22392 AATATTAATT
*
22402 ATATT-ATTATATTTAA
1 ATATTAATTATATTAAA
22418 ATATTAATT-TATTAAA
1 ATATTAATTATATTAAA
22434 ATATTAAT
1 ATATTAAT
22442 AATACAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTAATTATATTAAA
Found at i:22773 original size:19 final size:20
Alignment explanation
Indices: 22741--22780 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
22731 ATAAAGAAAT
22741 TATATTTAATATATAATTAA
1 TATATTTAATATATAATTAA
*
22761 TATATTT-ATATATTATTAA
1 TATATTTAATATATAATTAA
22780 T
1 T
22781 GGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATTTAATATATAATTAA
Found at i:23332 original size:19 final size:19
Alignment explanation
Indices: 23310--23376 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
23300 AAATTTTAAA
23310 ATATTTATATATTTATATT
1 ATATTTATATATTTATATT
23329 ATA-TTATAT-TTTA-ATT
1 ATATTTATATATTTATATT
* * *
23345 ATTTTTTTATA-TTATAATC
1 ATATTTATATATTTAT-ATT
*
23364 ATATTCATATATT
1 ATATTTATATATT
23377 CGAATGTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.14
17 12 0.32
18 6 0.16
19 13 0.35
20 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTTATATATTTATATT
Found at i:24027 original size:41 final size:41
Alignment explanation
Indices: 23976--24053 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
23966 ATATTAATTC
*
23976 AATTTAAATTAT-TAT-TTAATTTATAAAAATAATTTTTATTTA
1 AATTTAAATTATAAATATTAA--TATAAAAAT-ATTTTTATTTA
24018 AATTT-AATTATAAATATTAATATAAAAATATTTTTA
1 AATTTAAATTATAAATATTAATATAAAAATATTTTTA
24054 AAATTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
40 7 0.21
41 15 0.45
42 7 0.21
43 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (41 bp):
AATTTAAATTATAAATATTAATATAAAAATATTTTTATTTA
Found at i:27489 original size:19 final size:20
Alignment explanation
Indices: 27465--27516 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
27455 GTTCATCTTA
27465 ATATTATAATTAT-TATTTG
1 ATATTATAATTATATATTTG
* *
27484 ATATTAATATTTATATATTTT
1 ATATT-ATAATTATATATTTG
27505 ATAATTA-AATTA
1 AT-ATTATAATTA
27517 AAATAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 5 0.19
20 11 0.41
21 8 0.30
22 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATTATAATTATATATTTG
Found at i:29334 original size:14 final size:15
Alignment explanation
Indices: 29317--29345 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29307 TGAATTTTGT
29317 TTTTTTTAT-TTTTA
1 TTTTTTTATCTTTTA
29331 TTTTTTTATCTTTTA
1 TTTTTTTATCTTTTA
29346 AATTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTATCTTTTA
Found at i:29526 original size:20 final size:22
Alignment explanation
Indices: 29488--29532 Score: 76
Period size: 20 Copynumber: 2.1 Consensus size: 22
29478 TAAATTTTTT
29488 ATTATTTTTAAACATAATAATA
1 ATTATTTTTAAACATAATAATA
29510 ATTA-TTTTAAA-ATAATAATA
1 ATTATTTTTAAACATAATAATA
29530 ATT
1 ATT
29533 TATTAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.52
21 7 0.30
22 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTATTTTTAAACATAATAATA
Found at i:30389 original size:5 final size:6
Alignment explanation
Indices: 30374--30429 Score: 51
Period size: 6 Copynumber: 8.7 Consensus size: 6
30364 ATATAAAAAC
*
30374 TTTTTA TTTTTA TTTTTA -TTTTA TTTTACATA TTTTAA TTTTTTAA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT---TA TTTTTA -TTTTT-A TTTTTA
30426 TTTT
1 TTTT
30430 AAGCTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
5 5 0.12
6 21 0.50
7 9 0.21
8 1 0.02
9 6 0.14
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:30737 original size:50 final size:50
Alignment explanation
Indices: 30674--30883 Score: 203
Period size: 50 Copynumber: 4.2 Consensus size: 50
30664 AAAGTGATCG
30674 TAATTGTTGACTATTCTTCA-CTAACTTTTGATAATCAAAAAAGGTGACCA
1 TAATTGTTGACTATTCTTCATC-AACTTTTGATAATCAAAAAAGGTGACCA
* * * * * * * * **
30724 TAATTATTAACTATTTTTTA-CTAACTTTTGACAATCGAGAAAGGTGGCTG
1 TAATTGTTGACTATTCTTCATC-AACTTTTGATAATCAAAAAAGGTGACCA
* * ** * *
30774 TAATTGTTGACGATTATTCATCAACTTTTGATAATTTAAACAGGTGATCA
1 TAATTGTTGACTATTCTTCATCAACTTTTGATAATCAAAAAAGGTGACCA
* **
30824 TAATTGTTGACTATTCTTCATCAACTTTTGATAAT-AGAAAA-GTGACTG
1 TAATTGTTGACTATTCTTCATCAACTTTTGATAATCAAAAAAGGTGACCA
30872 TAATTGTTGACT
1 TAATTGTTGACT
30884 CTAAGCAACT
Statistics
Matches: 127, Mismatches: 32, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
48 16 0.13
49 3 0.02
50 107 0.84
51 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (50 bp):
TAATTGTTGACTATTCTTCATCAACTTTTGATAATCAAAAAAGGTGACCA
Found at i:30819 original size:100 final size:100
Alignment explanation
Indices: 30654--30882 Score: 270
Period size: 100 Copynumber: 2.3 Consensus size: 100
30644 TCAATATTTA
* * *
30654 ACAATCGAGAAAAGT-GATCGTAATTGTTGACTATTCTTCACTAACTTTTGATAATCAAAAAAGG
1 ACAATCGAGAAAAGTGGCT-GTAATTGTTGACGATTATTCACTAACTTTTGATAATCAAAAAAGG
* *
30718 TGACCATAATTATTAACTATTTTTTA-CTAACTTTTG
65 TGACCATAATTATTAACTATTCTTCATC-AACTTTTG
* ** *
30754 ACAATCGAGAAAGGTGGCTGTAATTGTTGACGATTATTCA-TCAACTTTTGATAATTTAAACAGG
1 ACAATCGAGAAAAGTGGCTGTAATTGTTGACGATTATTCACT-AACTTTTGATAATCAAAAAAGG
* * *
30818 TGATCATAATTGTTGACTATTCTTCATCAACTTTTG
65 TGACCATAATTATTAACTATTCTTCATCAACTTTTG
* *
30854 ATAAT--AGAAAAGTGACTGTAATTGTTGAC
1 ACAATCGAGAAAAGTGGCTGTAATTGTTGAC
30883 TCTAAGCAAC
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
98 22 0.20
99 1 0.01
100 85 0.77
101 3 0.03
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (100 bp):
ACAATCGAGAAAAGTGGCTGTAATTGTTGACGATTATTCACTAACTTTTGATAATCAAAAAAGGT
GACCATAATTATTAACTATTCTTCATCAACTTTTG
Found at i:31059 original size:20 final size:20
Alignment explanation
Indices: 31019--31071 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
31009 CGTAATTTTA
*
31019 TATTTTTTATTATGTATATT
1 TATTTTTTATTATGTAAATT
* *
31039 TATTTTTTATTTTTTAAATT
1 TATTTTTTATTATGTAAATT
* *
31059 TAATTTTAATTAT
1 TATTTTTTATTAT
31072 AATTTTACTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TATTTTTTATTATGTAAATT
Found at i:31114 original size:2 final size:2
Alignment explanation
Indices: 31107--31140 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
31097 TAACATGTAT
31107 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
31141 ATTGAGCTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31499 original size:17 final size:19
Alignment explanation
Indices: 31469--31505 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
31459 TTTAAATTTA
*
31469 ATAAAATAATATTTTAAAT
1 ATAAAATAATATTTAAAAT
31488 ATAAAA-AA-ATTTAAAAT
1 ATAAAATAATATTTAAAAT
31505 A
1 A
31506 ATTTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAAATAATATTTAAAAT
Found at i:33637 original size:22 final size:22
Alignment explanation
Indices: 33611--33653 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33601 TATTTTTATT
*
33611 TAAAT-TTAATTATTAAAATATA
1 TAAATATTAA-TATAAAAATATA
33633 TAAATATTAATATAAAAATAT
1 TAAATATTAATATAAAAATAT
33654 TATTTGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:34634 original size:16 final size:18
Alignment explanation
Indices: 34613--34654 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
34603 ACTGCCACCC
*
34613 TCTCTTTCCC-TTCT-CT
1 TCTCTTTCCCTTTCTCCG
34629 TCTCTTTCCCTTTCTCCG
1 TCTCTTTCCCTTTCTCCG
34647 TCTCTTTC
1 TCTCTTTC
34655 ACTGTATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 4 0.17
18 9 0.39
ACGTcount: A:0.00, C:0.43, G:0.02, T:0.55
Consensus pattern (18 bp):
TCTCTTTCCCTTTCTCCG
Found at i:36735 original size:59 final size:59
Alignment explanation
Indices: 36670--36787 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
36660 TTTCAAAAGT
36670 AAGTCTTTCATTGATTATTTTTAAAATTCAGGGGGGATGAAATGTGGCATAAGAACAAA
1 AAGTCTTTCATTGATTATTTTTAAAATTCAGGGGGGATGAAATGTGGCATAAGAACAAA
36729 AAGTCTTTCATTGATTATTTTTAAAATTCAGGGGGGATGAAATGTGGCATAAGAACAAA
1 AAGTCTTTCATTGATTATTTTTAAAATTCAGGGGGGATGAAATGTGGCATAAGAACAAA
36788 TTTGTGAGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.32
Consensus pattern (59 bp):
AAGTCTTTCATTGATTATTTTTAAAATTCAGGGGGGATGAAATGTGGCATAAGAACAAA
Found at i:38717 original size:13 final size:13
Alignment explanation
Indices: 38699--38723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38689 TTTTTTTTTT
38699 AAATATTTATATC
1 AAATATTTATATC
38712 AAATATTTATAT
1 AAATATTTATAT
38724 TATTTAAATA
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTATATC
Found at i:39773 original size:28 final size:28
Alignment explanation
Indices: 39736--39793 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
39726 ATTGAATATT
* *
39736 TACATTATATATAATATATGAGTTCGAA
1 TACAATATATATAATATATGAATTCGAA
*
39764 TACAATATATATAATATATGAATTTGAA
1 TACAATATATATAATATATGAATTCGAA
39792 TA
1 TA
39794 TGTATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (28 bp):
TACAATATATATAATATATGAATTCGAA
Found at i:40311 original size:11 final size:11
Alignment explanation
Indices: 40216--40318 Score: 51
Period size: 11 Copynumber: 9.6 Consensus size: 11
40206 TTACATCCAG
40216 AAATATTAATA-
1 AAATA-TAATAT
40227 AAAT-T-ATAT
1 AAATATAATAT
* *
40236 AACTTTAATAT
1 AAATATAATAT
40247 AAATA-AA-AT
1 AAATATAATAT
* *
40256 AATTAAAATAT
1 AAATATAATAT
40267 -AATAT-ATCAT
1 AAATATAAT-AT
*
40277 AAATATATATTTT
1 AAATATA-A-TAT
*
40290 AAA-ATTTATAT
1 AAATA-TAATAT
40301 AAATATAATAT
1 AAATATAATAT
40312 AAATATA
1 AAATATA
40319 TAAATTATTA
Statistics
Matches: 70, Mismatches: 10, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
8 3 0.04
9 12 0.17
10 10 0.14
11 35 0.50
12 3 0.04
13 6 0.09
14 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATATAATAT
Found at i:44397 original size:23 final size:23
Alignment explanation
Indices: 44366--44415 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
44356 AATTTATGTA
*
44366 TTTGTATCATGTTTATA-TTATTT
1 TTTGCATCATGTTT-TACTTATTT
44389 TTTGCATCATGTTTTACTTATTT
1 TTTGCATCATGTTTTACTTATTT
44412 TTTG
1 TTTG
44416 TATATTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.64
Consensus pattern (23 bp):
TTTGCATCATGTTTTACTTATTT
Found at i:46641 original size:20 final size:20
Alignment explanation
Indices: 46600--46647 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
46590 ATTAATAAAA
* *
46600 TATTTTATATTTAATATATT
1 TATTTTAAATTTAAAATATT
46620 TATTTTAAATTTTAAAAT-TT
1 TATTTTAAA-TTTAAAATATT
*
46640 TAATTTAA
1 TATTTTAA
46648 CTAAACTCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTAAATTTAAAATATT
Found at i:46879 original size:16 final size:19
Alignment explanation
Indices: 46846--46883 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
46836 TCTTTATTTA
46846 TTTGATTTTTTAATTAATT
1 TTTGATTTTTTAATTAATT
46865 TTTG-TTTTTT-A-TAATT
1 TTTGATTTTTTAATTAATT
46881 TTT
1 TTT
46884 ATAATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 6 0.32
19 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTGATTTTTTAATTAATT
Found at i:47838 original size:24 final size:22
Alignment explanation
Indices: 47807--47853 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
47797 TTTCAAAACC
*
47807 TTTTCTTTGGCTCCATTGAATTT
1 TTTTCTTTAGCTCC-TTGAATTT
*
47830 TTTTACTTTAGCTGCTTGAATTT
1 TTTT-CTTTAGCTCCTTGAATTT
47853 T
1 T
47854 GCTTCCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.57
Consensus pattern (22 bp):
TTTTCTTTAGCTCCTTGAATTT
Found at i:52503 original size:24 final size:24
Alignment explanation
Indices: 52450--52505 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
52440 CCATTTAACT
52450 TTATA-TTTTATATATAATATACA
1 TTATATTTTTATATATAATATACA
*
52473 ATA-ATTTTTATATTATAATATA-A
1 TTATATTTTTATA-TATAATATACA
52496 TTATATTTTT
1 TTATATTTTT
52506 TAAAATAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.04
23 12 0.43
24 15 0.54
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATATTTTTATATATAATATACA
Found at i:55798 original size:36 final size:36
Alignment explanation
Indices: 55741--55811 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
55731 ATAGGTATTG
55741 AATTAAATTTAAATAAATATTT-TAATAATTAAAATTA
1 AATTAAATTTAAATAAATATTTAT-ATAA-TAAAATTA
* *
55778 AATT-AATTTAAATTATTATTTATATAATAAAATT
1 AATTAAATTTAAATAAATATTTATATAATAAAATT
55812 TATTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 7 0.23
36 19 0.61
37 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (36 bp):
AATTAAATTTAAATAAATATTTATATAATAAAATTA
Found at i:55805 original size:21 final size:19
Alignment explanation
Indices: 55779--55829 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 19
55769 TTAAAATTAA
55779 ATTAATTTAAA-TTATTATTT
1 ATTAA-TTAAATTTATT-TTT
*
55799 ATATAATAAAATTTATTTTT
1 AT-TAATTAAATTTATTTTT
55819 ATTAAATTAAA
1 ATT-AATTAAA
55830 AATTTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 1 0.04
20 17 0.65
21 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTAATTAAATTTATTTTT
Found at i:56052 original size:18 final size:18
Alignment explanation
Indices: 56029--56063 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56019 ATTTAAATTA
56029 TTATTTATATAATAAAAT
1 TTATTTATATAATAAAAT
* *
56047 TTATTTTTATATTAAAA
1 TTATTTATATAATAAAA
56064 ATTTTAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTTATATAATAAAAT
Found at i:56069 original size:20 final size:21
Alignment explanation
Indices: 56026--56067 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
56016 ATAATTTAAA
56026 TTATTATTTATATAATAAAAT
1 TTATTATTTATATAATAAAAT
*
56047 TTATT-TTTATATTA-AAAAT
1 TTATTATTTATATAATAAAAT
56066 TT
1 TT
56068 TAATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 8 0.40
21 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATTATTTATATAATAAAAT
Found at i:57104 original size:14 final size:15
Alignment explanation
Indices: 57085--57127 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
57075 ATTAATTCAT
57085 ATTAATATTTTAAAA
1 ATTAATATTTTAAAA
57100 A-TAATATTTAATAAAA
1 ATTAATATTT--TAAAA
57116 ATTAA-ATTTTAA
1 ATTAATATTTTAA
57128 TTTTAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 11 0.44
15 1 0.04
16 10 0.40
17 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAATATTTTAAAA
Found at i:57147 original size:22 final size:20
Alignment explanation
Indices: 57114--57163 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
57104 TATTTAATAA
57114 AAATTA-AA-TTTTAATTTT
1 AAATTATAATTTTTAATTTT
*
57132 AATATTTATAATTTTTATTTTT
1 AA-A-TTATAATTTTTAATTTT
57154 AAATTATAAT
1 AAATTATAAT
57164 GTTATTTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.07
19 1 0.04
20 10 0.37
21 3 0.11
22 11 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATTATAATTTTTAATTTT
Found at i:61556 original size:23 final size:22
Alignment explanation
Indices: 61523--61593 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 22
61513 TCCAAAGAAG
*
61523 ATTTTTTTAATTATAGAATTTAT
1 ATTTTTATAATTATAGAA-TTAT
61546 ATTTTTATAA-T-TA-AATTAT
1 ATTTTTATAATTATAGAATTAT
*
61565 ATATTTTATAATAATAG--TTAT
1 AT-TTTTATAATTATAGAATTAT
*
61586 AATTTTAT
1 ATTTTTAT
61594 TTATTAATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
19 6 0.15
20 16 0.39
21 7 0.17
22 3 0.07
23 9 0.22
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (22 bp):
ATTTTTATAATTATAGAATTAT
Found at i:61604 original size:19 final size:21
Alignment explanation
Indices: 61542--61593 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
61532 ATTATAGAAT
*
61542 TTATAT-TTTTATAATTA-AA
1 TTATATATTTTATAATAATAA
*
61561 TTATATATTTTATAATAATAG
1 TTATATATTTTATAATAATAA
61582 TTATA-ATTTTAT
1 TTATATATTTTAT
61594 TTATTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 17 0.59
21 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATATATTTTATAATAATAA
Found at i:61701 original size:20 final size:20
Alignment explanation
Indices: 61650--61709 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
61640 TACATTTTTA
61650 AAAAAATATTAAAAATATATTT
1 AAAAAATA--AAAAATATATTT
* ** *
61672 CATTATTAAAAAATATATTT
1 AAAAAATAAAAAATATATTT
61692 AAAAAATAAAAAATATAT
1 AAAAAATAAAAAATATAT
61710 ATAATATAAG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 26 0.87
22 4 0.13
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATAAAAAATATATTT
Found at i:62097 original size:7 final size:7
Alignment explanation
Indices: 62085--62109 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
62075 AAAATTATAT
62085 TTTTAAA
1 TTTTAAA
62092 TTTTAAA
1 TTTTAAA
62099 TTTTAAA
1 TTTTAAA
62106 TTTT
1 TTTT
62110 TATAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:62110 original size:15 final size:16
Alignment explanation
Indices: 62079--62121 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
62069 TAAGTTAAAA
*
62079 TTATATTTTTAAA-TT
1 TTATAATTTTAAATTT
62094 TTA-AATTTTAAATTT
1 TTATAATTTTAAATTT
62109 TTATAA-TTTAAAT
1 TTATAATTTTAAAT
62122 AAGTATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 8 0.32
15 15 0.60
16 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATAATTTTAAATTT
Found at i:62191 original size:20 final size:21
Alignment explanation
Indices: 62136--62193 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
62126 ATAATTATTT
*
62136 AAATATATTTAAATATAAGTAA
1 AAATATATTTATA-ATAAGTAA
62158 AAATATATTTATAATAAGTAA
1 AAATATATTTATAATAAGTAA
62179 AAA-A-ATTTAATAATA
1 AAATATATTT-ATAATA
62194 TAAAACTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.12
20 7 0.21
21 11 0.32
22 12 0.35
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
AAATATATTTATAATAAGTAA
Found at i:62825 original size:20 final size:20
Alignment explanation
Indices: 62802--62839 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62792 AACAAAAAAT
62802 AATAATTTTTAAA-AAAATTA
1 AATAA-TTTTAAAGAAAATTA
62822 AATAATTTTAAAGAAAAT
1 AATAATTTTAAAGAAAAT
62840 CACATATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
AATAATTTTAAAGAAAATTA
Found at i:62874 original size:3 final size:3
Alignment explanation
Indices: 62866--62896 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
62856 AGTTTACCTA
62866 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
62897 TCACTCATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:63251 original size:15 final size:15
Alignment explanation
Indices: 63219--63320 Score: 50
Period size: 17 Copynumber: 6.6 Consensus size: 15
63209 ATAATGATTT
*
63219 TTATATTATATT-TA
1 TTATATTTTATTATA
63233 -TATATTTTATTATA
1 TTATATTTTATTATA
*
63247 TTATAATTATATT-TA
1 TTAT-ATTTTATTATA
** *
63262 AAATATTTTATATTTA
1 TTATATTTTAT-TATA
* *
63278 TATAAATTTTTTATATA
1 T-TATATTTTAT-TATA
63295 TTAATAATTTATATTATA
1 TT-AT-ATTT-TATTATA
63313 -TATATTTT
1 TTATATTTT
63321 TAAAATATTT
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
13 10 0.15
14 9 0.13
15 12 0.18
16 12 0.18
17 14 0.21
18 8 0.12
19 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATATTTTATTATA
Found at i:63257 original size:21 final size:22
Alignment explanation
Indices: 63207--63313 Score: 66
Period size: 21 Copynumber: 5.0 Consensus size: 22
63197 CACGATAATT
* *
63207 TTATAATGATTTTTATATTATA
1 TTATAATTATATTTATATTATA
63229 TT-T-A-TATATTT-TATTATA
1 TTATAATTATATTTATATTATA
* * *
63247 TTATAATTATATTTAAAATATT
1 TTATAATTATATTTATATTATA
* * *
63269 TTAT-ATT-TATATAAATT-TT
1 TTATAATTATATTTATATTATA
63288 TTATATATTAATAATTTATATTATA
1 TTATA-ATT-AT-ATTTATATTATA
63313 T
1 T
63314 ATATTTTTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
18 9 0.14
19 12 0.18
20 10 0.15
21 14 0.22
22 10 0.15
23 1 0.02
24 7 0.11
25 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (22 bp):
TTATAATTATATTTATATTATA
Found at i:63313 original size:5 final size:5
Alignment explanation
Indices: 63219--63259 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
63209 ATAATGATTT
*
63219 TTATA TTATA TT-TA -TATA TTTTA TTATA TTATAA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTAT-A TTATA TT
63260 TAAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
3 1 0.03
4 4 0.13
5 21 0.68
6 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:63329 original size:33 final size:34
Alignment explanation
Indices: 63263--63329 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
63253 TTATATTTAA
* * *
63263 AATATTTTATATTTATATAAATTTTTTATATATT
1 AATAATTTATATTTATATAAATTTTTAAAATATT
*
63297 AATAATTTATA-TTATATATATTTTTAAAATATT
1 AATAATTTATATTTATATAAATTTTTAAAATATT
63330 TACATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (34 bp):
AATAATTTATATTTATATAAATTTTTAAAATATT
Found at i:63336 original size:17 final size:19
Alignment explanation
Indices: 63316--63357 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
63306 TATTATATAT
63316 ATTTTTA-A-AATATTTAC
1 ATTTTTATATAATATTTAC
*
63333 ATTTTTATATAATATTTAT
1 ATTTTTATATAATATTTAC
63352 ATTTTT
1 ATTTTT
63358 TTTATTGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 1 0.05
19 14 0.64
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTATATAATATTTAC
Found at i:63340 original size:34 final size:33
Alignment explanation
Indices: 63263--63357 Score: 93
Period size: 34 Copynumber: 2.8 Consensus size: 33
63253 TTATATTTAA
* * *
63263 AATATTTTATATTTATATAAATTTTTTATATATT
1 AATATTTTATA-TTATATATATTTTTAAAATATT
*
63297 AATAATTTATATTATATATATTTTTAAAATATTT
1 AATATTTTATATTATATATATTTTTAAAATA-TT
*
63331 ACAT-TTTTATATAATATTTATATTTTT
1 A-ATATTTTATAT--TATATATATTTTT
63358 TTTATTGTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
33 17 0.33
34 20 0.39
35 2 0.04
36 12 0.24
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (33 bp):
AATATTTTATATTATATATATTTTTAAAATATT
Found at i:63470 original size:48 final size:52
Alignment explanation
Indices: 63418--63520 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 52
63408 GTCTCACAAA
* **
63418 AATAAATAAATTAT-TATTTATATAAT-AAA-AAA-TTATTTTTTAA-AATTT
1 AATAAATAAAATATATAAATAT-TAATAAAATAAATTTATTTTTTAATAATTT
*
63466 AAT-AATAAAATATATAAATATTAATAAAATAAATTTATTTTTTAATATTTT
1 AATAAATAAAATATATAAATATTAATAAAATAAATTTATTTTTTAATAATTT
63517 AATA
1 AATA
63521 TTATTTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
47 13 0.29
48 11 0.24
49 3 0.07
50 11 0.24
51 7 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (52 bp):
AATAAATAAAATATATAAATATTAATAAAATAAATTTATTTTTTAATAATTT
Found at i:64061 original size:23 final size:23
Alignment explanation
Indices: 64022--64068 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
64012 TTTTTCCTAA
64022 TAAGAAAATTAATAAAAAAAACT
1 TAAGAAAATTAATAAAAAAAACT
64045 TAAGAAATATT--TAAAAACAAACT
1 TAAGAAA-ATTAATAAAAA-AAACT
64068 T
1 T
64069 TGGAATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 13 0.59
24 3 0.14
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAGAAAATTAATAAAAAAAACT
Found at i:64732 original size:29 final size:30
Alignment explanation
Indices: 64695--64816 Score: 98
Period size: 29 Copynumber: 4.2 Consensus size: 30
64685 AAAAGATTTA
*
64695 ATTACTTAATAAATTTTAA-ATTTAAAAAT
1 ATTATTTAATAAATTTTAATATTTAAAAAT
* * *
64724 ATTATTTAATAAAATTTAATTATTTATAAGT
1 ATTATTTAATAAATTTTAA-TATTTAAAAAT
* *
64755 TTTACTT-AT-AA--TTAATTATTT-AAAAT
1 ATTATTTAATAAATTTTAA-TATTTAAAAAT
*
64781 ATTATTTAA-AATATTTTAATAATTAAAAA-
1 ATTATTTAATAA-ATTTTAATATTTAAAAAT
64810 ATTATTT
1 ATTATTT
64817 TATTGAAATA
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
26 8 0.11
27 12 0.16
28 1 0.01
29 30 0.41
30 10 0.14
31 13 0.18
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.50
Consensus pattern (30 bp):
ATTATTTAATAAATTTTAATATTTAAAAAT
Found at i:64758 original size:17 final size:18
Alignment explanation
Indices: 64690--64749 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
64680 GACGTAAAAG
*
64690 ATTTAATTACTTAATAAA
1 ATTTAATTATTTAATAAA
*
64708 TTTTAA--ATTT-A-AAA
1 ATTTAATTATTTAATAAA
64722 A--T-ATTATTTAATAAA
1 ATTTAATTATTTAATAAA
64737 ATTTAATTATTTA
1 ATTTAATTATTTA
64750 TAAGTTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 14
0.65 0.06 0.29
Matches are distributed among these distances:
11 1 0.03
12 1 0.03
13 4 0.12
14 4 0.12
15 5 0.16
16 3 0.09
17 1 0.03
18 13 0.41
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTAATTATTTAATAAA
Found at i:64786 original size:12 final size:12
Alignment explanation
Indices: 64769--64795 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
64759 CTTATAATTA
64769 ATTATTTAAAAT
1 ATTATTTAAAAT
64781 ATTATTTAAAAT
1 ATTATTTAAAAT
64793 ATT
1 ATT
64796 TTAATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATTTAAAAT
Found at i:66384 original size:27 final size:26
Alignment explanation
Indices: 66324--66394 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
66314 TTTTAAATTT
* * *
66324 ATATAATATAAAT-TATTAATATATCA
1 ATATGATATAAATATA-AAATATATAA
66350 ATAGTGATATAAATATAAAATATATAAA
1 ATA-TGATATAAATATAAAATATAT-AA
66378 ATATGAT-TATAATATAA
1 ATATGATATA-AATATAA
66395 TACACGAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 5 0.13
27 27 0.71
28 6 0.16
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (26 bp):
ATATGATATAAATATAAAATATATAA
Found at i:66638 original size:21 final size:22
Alignment explanation
Indices: 66613--66717 Score: 71
Period size: 20 Copynumber: 5.0 Consensus size: 22
66603 TAAACTTAAG
66613 TTTAAATTAAAATTATTTAATA
1 TTTAAATTAAAATTATTTAATA
* ** *
66635 -TT-AATTAAAAATA-AAAAAA
1 TTTAAATTAAAATTATTTAATA
* *
66654 TTT-AATTATAATTA-TAAATTA
1 TTTAAATTAAAATTATTTAA-TA
66675 TTTAAATTAA-A-TATTTAAATA
1 TTTAAATTAAAATTATTT-AATA
* *
66696 TTTAAATTTAATTTATTTAATA
1 TTTAAATTAAAATTATTTAATA
66718 ACTTATGATA
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
19 3 0.05
20 26 0.41
21 19 0.30
22 11 0.17
23 5 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAAATTAAAATTATTTAATA
Found at i:66920 original size:3 final size:3
Alignment explanation
Indices: 66912--66937 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
66902 AACAAAAAAT
66912 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
66938 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:70478 original size:13 final size:13
Alignment explanation
Indices: 70460--70509 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
70450 TTAATTGTAC
70460 TTTATATAATATA
1 TTTATATAATATA
70473 TTTATATAATA-A
1 TTTATATAATATA
70485 TTTA-A-AATTATA
1 TTTATATAA-TATA
**
70497 TAAATATAATATA
1 TTTATATAATATA
70510 ACATATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 2 0.06
11 3 0.10
12 8 0.26
13 16 0.52
14 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTATATAATATA
Found at i:76729 original size:18 final size:20
Alignment explanation
Indices: 76697--76737 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
76687 AAAGAATATC
76697 ATATATTATATTTTTAAATT
1 ATATATTATATTTTTAAATT
*
76717 ATATA-TATATTTTTAATTT
1 ATATATTATATTTTTAAATT
76736 AT
1 AT
76738 CTAGTCGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATATTATATTTTTAAATT
Found at i:77081 original size:2 final size:2
Alignment explanation
Indices: 77074--77132 Score: 88
Period size: 2 Copynumber: 30.5 Consensus size: 2
77064 ACTAATACTA
77074 AT AT AT AT AT AT AT AT AT AT AT ACT A- AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
77115 A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
77133 ATGGCATATT
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.06
2 48 0.91
3 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:77141 original size:18 final size:16
Alignment explanation
Indices: 77063--77128 Score: 91
Period size: 16 Copynumber: 4.1 Consensus size: 16
77053 AACCAAAGTT
77063 TACTAATACTA-ATATA
1 TACTAATA-TATATATA
77079 TA-TATATATATATATA
1 TACTA-ATATATATATA
77095 TACTAATATATATATA
1 TACTAATATATATATA
*
77111 TATTAATATATATATA
1 TACTAATATATATATA
77127 TA
1 TA
77129 TATAATGGCA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
15 4 0.09
16 40 0.87
17 2 0.04
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
TACTAATATATATATA
Found at i:78299 original size:132 final size:131
Alignment explanation
Indices: 77787--78361 Score: 757
Period size: 132 Copynumber: 4.4 Consensus size: 131
77777 GTCAGTTAGT
* * * * *
77787 TTGTTTCCTACACCAGGACTTGGACCAGAATCCTTAATGCCTTCAAGATTGAAGCTATCTGTTAG
1 TTGTTTCCTACA-CAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAG
* * ** *
77852 CTCGTTTCCGGTACCATTGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGT-T
65 CCCGTTTCCCGTACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTATCTGTAT
77916 ATC
130 A-C
**
77919 CCGTTTCCCGTAC-CAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTA
1 TTGTTT-CC-TACACAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTA
*
77983 GCCCGTTTCCCGTACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGT-
64 GCCCGTTTCCCGTACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTATCTGTA
78047 TAGC
129 TA-C
**
78051 CCGTTTCCCGTAC-CAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTA
1 TTGTTT-CC-TACACAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTA
*
78115 GCCCGTTTCCCGTACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGT-TGAT
64 GCCCGTTTCCCGTACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTATCTG-T
78179 ATAC
128 ATAC
*
78183 TTGTTTCCTACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCGGTTAG
1 TTGTTTCCTACAC-AGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAG
* * * * * * * * *
78248 CCTGTTTCCCGTACCAGGGCTCGGGCCGGAATCCTTAATGCCACCACGAGTGGAGCTGTCGGTAA
65 CCCGTTTCCCGTACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTATCTGTAT
78313 AC
130 AC
* *
78315 TTGTTTCCTACACTAGGGCTC-GAGCCAGAGTTCTTAATGCCTCCAAG
1 TTGTTTCCTACAC-AGGGCTCGGA-CCGGAGTCCTTAATGCCTCCAAG
78362 GGTTTGACTA
Statistics
Matches: 408, Mismatches: 27, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
130 3 0.01
131 7 0.02
132 390 0.96
133 5 0.01
134 3 0.01
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (131 bp):
TTGTTTCCTACACAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGC
CCGTTTCCCGTACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTATCTGTATA
C
Found at i:78310 original size:66 final size:66
Alignment explanation
Indices: 77798--78289 Score: 758
Period size: 66 Copynumber: 7.5 Consensus size: 66
77788 TGTTTCCTAC
* * * * * * *
77798 ACCAGGACTTGGACCAGAATCCTTAATGCCTTCAAGATTGAAGCTATCTGTTAGCTCGTTTCCGG
1 ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGTTTCCCG
77863 T
66 T
** *
77864 ACCATTGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTATCCCGTTTCCCG
1 ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGTTTCCCG
77929 T
66 T
77930 ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGTTTCCCG
1 ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGTTTCCCG
77995 T
66 T
77996 ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGTTTCCCG
1 ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGTTTCCCG
78061 T
66 T
78062 ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGTTTCCCG
1 ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGTTTCCCG
78127 T
66 T
* * **
78128 ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGT-TGATATA-CTTGTTT-C
1 ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTG-T-TAGCCCGTTTCC
78190 C-T
64 CGT
* *
78192 ACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCGGTTAGCCTGTTTCC
1 AC-C-AGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGTTTCC
78257 CGT
64 CGT
* *
78260 ACCAGGGCTCGGGCCGGAATCCTTAATGCC
1 ACCAGGGCTCGGACCGGAGTCCTTAATGCC
78290 ACCACGAGTG
Statistics
Matches: 395, Mismatches: 23, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
64 3 0.01
65 7 0.02
66 376 0.95
67 6 0.02
68 3 0.01
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (66 bp):
ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGTTTCCCG
T
Found at i:78333 original size:66 final size:66
Alignment explanation
Indices: 77787--78361 Score: 429
Period size: 66 Copynumber: 8.7 Consensus size: 66
77777 GTCAGTTAGT
* * * * * * * * * * *
77787 TTGTTTCCTACACCAGGACTTGGACCAGAATCCTTAATGCCTTCAAGATTGAAGCTATCTGTTAG
1 TTGTTTCCTACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGTCGGTAAA
77852 C
66 C
* ** * * * *
77853 TCGTTTCCGGTAC-C-ATTGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTT
1 TTGTTTCC--TACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGTCGGTA
*
77916 ATC
64 AAC
** * * * *
77919 CCGTTTCCCGTAC-C-AGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTT
1 TTGTTT-CC-TACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGTCGGTA
*
77982 AGC
64 AAC
** * * * *
77985 CCGTTTCCCGTAC-C-AGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTT
1 TTGTTT-CC-TACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGTCGGTA
*
78048 AGC
64 AAC
** * * * *
78051 CCGTTTCCCGTAC-C-AGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTT
1 TTGTTT-CC-TACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGTCGGTA
*
78114 AGC
64 AAC
** * *
78117 CCGTTTCCCGTAC-C-AGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGTTGATA
1 TTGTTT-CC-TACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGTCGGTA
*
78180 TAC
64 AAC
* * * *
78183 TTGTTTCCTACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCGGTTAG
1 TTGTTTCCTACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGTCGGTAAA
78248 C
66 C
* * * * * *
78249 CTGTTTCCCGTAC-C-AGGGCTCGGGCCGGAATCCTTAATGCCACCACGAGTGGAGCTGTCGGTA
1 TTGTTT-CC-TACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGTCGGTA
78312 AAC
64 AAC
* *
78315 TTGTTTCCTACACTAGGGCTC-GAGCCAGAGTTCTTAATGCCTCCAAG
1 TTGTTTCCTACACTAGGGCTCGGA-CCGGAGTCCTTAATGCCTCCAAG
78362 GGTTTGACTA
Statistics
Matches: 452, Mismatches: 47, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
64 6 0.01
65 7 0.02
66 427 0.94
67 6 0.01
68 6 0.01
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (66 bp):
TTGTTTCCTACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGTCGGTAAA
C
Found at i:78401 original size:198 final size:198
Alignment explanation
Indices: 77793--78421 Score: 661
Period size: 198 Copynumber: 3.2 Consensus size: 198
77783 TAGTTTGTTT
* * * * * * *
77793 CCTACACCAGGACTTGGACCAGAATCCTTAATGCCTTCAAGATTGAAGCTATCTGTTAGCTCGTT
1 CCTACACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCGGTTAGCCCGTT
* ** * * * * * *
77858 TCCGGTACCATTGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTATCCCGT
66 TCCCGTACCAGGGCTCGGACCGGAATCCTTAATGCCACCAAGAGTGAAGCTATCGGTAAACCCGT
* * **
77923 TTCCCGTACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGT-TAGCCC
131 TTCCCGTACCAGGGCTCGGACCAGAGTCCTTAATGCCTCCAAGAGTGAAGCTATCAATATA---C
77987 GTT-TCC
193 -TTGTCC
* *
77993 CGT--ACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGTT
1 CCTACACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCGGTTAGCCCGTT
* * * * * *
78056 TCCCGTACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCTGTTAGCCCGT
66 TCCCGTACCAGGGCTCGGACCGGAATCCTTAATGCCACCAAGAGTGAAGCTATCGGTAAACCCGT
* * **
78121 TTCCCGTACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGAGTGAAGCTGTTGATATACTTG
131 TTCCCGTACCAGGGCTCGGACCAGAGTCCTTAATGCCTCCAAGAGTGAAGCTATCAATATACTTG
**
78186 TTT
196 TCC
* *
78189 CCTACACTAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCGGTTAGCCTGTT
1 CCTACACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCGGTTAGCCCGTT
* * * * **
78254 TCCCGTACCAGGGCTCGGGCCGGAATCCTTAATGCCACCACGAGTGGAGCTGTCGGTAAACTTGT
66 TCCCGTACCAGGGCTCGGACCGGAATCCTTAATGCCACCAAGAGTGAAGCTATCGGTAAACCCGT
* *
78319 TT-CC-TACACTAGGGCTC-GAGCCAGAGTTCTTAATGCCTCCAAGGGTTTG-A-CTATCAATGA
131 TTCCCGTAC-C-AGGGCTCGGA-CCAGAGTCCTTAATGCCTCCAAGAG--TGAAGCTATCAAT-A
78379 -ACTTGTGCC
190 TACTTGT-CC
*
78388 CCT-CACCAGGGCTC-GACCCGGAGTTCTTAATGCC
1 CCTACACCAGGGCTCGGA-CCGGAGTCCTTAATGCC
78422 CCCGAGGGTG
Statistics
Matches: 373, Mismatches: 44, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
195 2 0.01
196 7 0.02
197 7 0.02
198 346 0.93
199 7 0.02
200 4 0.01
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (198 bp):
CCTACACCAGGGCTCGGACCGGAGTCCTTAATGCCTCCAAGATTGAAGCTATCGGTTAGCCCGTT
TCCCGTACCAGGGCTCGGACCGGAATCCTTAATGCCACCAAGAGTGAAGCTATCGGTAAACCCGT
TTCCCGTACCAGGGCTCGGACCAGAGTCCTTAATGCCTCCAAGAGTGAAGCTATCAATATACTTG
TCC
Found at i:79121 original size:22 final size:24
Alignment explanation
Indices: 79094--79148 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
79084 ATCATTTAAA
79094 TAATATTTAAAATA-TTTTAT-AT
1 TAATATTTAAAATATTTTTATAAT
**
79116 TAATATTT-TTATATTTTTATAAT
1 TAATATTTAAAATATTTTTATAAT
79139 TAA-ATTTAAA
1 TAATATTTAAA
79149 TAAAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 3 0.12
22 18 0.69
23 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TAATATTTAAAATATTTTTATAAT
Found at i:79753 original size:18 final size:19
Alignment explanation
Indices: 79718--79754 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
79708 TTAAATTGAT
79718 ATAATTTGAATTAATATTTA
1 ATAATTTGAA-TAATATTTA
79738 ATAATTTGAA-AATATTT
1 ATAATTTGAATAATATTT
79755 TTATTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
ATAATTTGAATAATATTTA
Found at i:79789 original size:22 final size:22
Alignment explanation
Indices: 79759--79825 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 22
79749 ATATTTTTAT
79759 TAAAT-TTAATTATAAAATATAA
1 TAAATATTAATTATAAAA-ATAA
79781 -AAATATTAA-TATAAAAATAA
1 TAAATATTAATTATAAAAATAA
* *
79801 TTTATTATTAATTATAAATAATAA
1 -TAAATATTAATTATAAA-AATAA
79825 T
1 T
79826 TACAAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 4 0.11
21 11 0.29
22 11 0.29
23 7 0.18
24 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAATATTAATTATAAAAATAA
Found at i:79967 original size:29 final size:28
Alignment explanation
Indices: 79935--80008 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
79925 AAGAATGATT
79935 ATATAAATATAATATAAAAAATACTTAAA
1 ATATAAATATAATATAAAAAATA-TTAAA
*
79964 ATATAAA-ATAAATATATAAATATATTAAA
1 ATATAAATAT-AATATA-AAAAATATTAAA
*
79993 AT-T-TATATAATATAAA
1 ATATAAATATAATATAAA
80009 TTATTAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 2 0.05
27 7 0.17
28 5 0.12
29 20 0.50
30 6 0.15
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATAAATATAATATAAAAAATATTAAA
Found at i:79999 original size:18 final size:18
Alignment explanation
Indices: 79973--80031 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
79963 AATATAAAAT
*
79973 AAATATATAAATATATTA
1 AAATTTATAAATATATTA
*
79991 AAATTTATATA-ATA-T-
1 AAATTTATAAATATATTA
*
80006 AAA-TTATTAATATATTA
1 AAATTTATAAATATATTA
80023 AAATTTATA
1 AAATTTATA
80032 TTTATATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
14 5 0.16
15 6 0.19
16 2 0.06
17 6 0.19
18 13 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTATAAATATATTA
Found at i:80005 original size:17 final size:16
Alignment explanation
Indices: 79983--80032 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
79973 AAATATATAA
79983 ATATATTAAAATTTAT
1 ATATATTAAAATTTAT
*
79999 ATA-ATATAAATTATTA-
1 ATATAT-TAAAAT-TTAT
80015 ATATATTAAAATTTAT
1 ATATATTAAAATTTAT
80031 AT
1 AT
80033 TTATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 5 0.18
16 18 0.64
17 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATATTAAAATTTAT
Found at i:80023 original size:32 final size:33
Alignment explanation
Indices: 79964--80032 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
79954 AATACTTAAA
79964 ATATAAAATAAATATATAAATATATTAAAATTT
1 ATATAAAATAAATATATAAATATATTAAAATTT
* *
79997 ATATAATATAAAT-TATTAATATATTAAAATTT
1 ATATAAAATAAATATATAAATATATTAAAATTT
80029 ATAT
1 ATAT
80033 TTATATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 22 0.65
33 12 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
ATATAAAATAAATATATAAATATATTAAAATTT
Found at i:80033 original size:20 final size:20
Alignment explanation
Indices: 79976--80045 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 20
79966 ATAAAATAAA
*
79976 TATATAAATATATTAAAATT
1 TATATTAATATATTAAAATT
79996 TATA-T-A-ATA-T-AAA--
1 TATATTAATATATTAAAATT
80009 T-TATTAATATATTAAAATT
1 TATATTAATATATTAAAATT
*
80028 TATATTTATATATATAAA
1 TATATTAATATAT-TAAA
80046 TATAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 17
0.67 0.03 0.29
Matches are distributed among these distances:
12 2 0.05
13 2 0.05
14 1 0.03
15 6 0.15
16 2 0.05
17 6 0.15
18 1 0.03
19 1 0.03
20 14 0.36
21 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATTAATATATTAAAATT
Found at i:80405 original size:3 final size:3
Alignment explanation
Indices: 80397--80423 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
80387 TTAATGAATT
80397 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
80424 AATTAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:81001 original size:16 final size:16
Alignment explanation
Indices: 80968--81063 Score: 74
Period size: 16 Copynumber: 6.2 Consensus size: 16
80958 AATTTAATAG
*
80968 TTAAATTT--AATTAC
1 TTAAATTTAAAATAAC
*
80982 TTAAAATTAAAATAAC
1 TTAAATTTAAAATAAC
* *
80998 TTAAACTTAAAATAAT
1 TTAAATTTAAAATAAC
* *
81014 TTTAATTTAAAA-AAA
1 TTAAATTTAAAATAAC
*
81029 TTAAATTTAAATTAA-
1 TTAAATTTAAAATAAC
* *
81044 TTTAATGTAAAATTAAC
1 TTAAATTTAAAA-TAAC
81061 TTA
1 TTA
81064 TCTAATTGAA
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
14 7 0.11
15 21 0.33
16 34 0.53
17 2 0.03
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (16 bp):
TTAAATTTAAAATAAC
Found at i:81045 original size:15 final size:15
Alignment explanation
Indices: 80963--81056 Score: 73
Period size: 15 Copynumber: 6.2 Consensus size: 15
80953 TGATTAATTT
*
80963 AATAGTTAAATTT-A
1 AATAATTAAATTTAA
* * *
80977 ATTACTTAAAATTAA
1 AATAATTAAATTTAA
*
80992 AATAACTTAAACTTAA
1 AATAA-TTAAATTTAA
*
81008 AATAATTTTAATTTAA
1 AATAA-TTAAATTTAA
*
81024 AAAAATTAAATTTAA
1 AATAATTAAATTTAA
* * *
81039 ATTAATTTAATGTAA
1 AATAATTAAATTTAA
81054 AAT
1 AAT
81057 TAACTTATCT
Statistics
Matches: 62, Mismatches: 16, Indels: 3
0.77 0.20 0.04
Matches are distributed among these distances:
14 10 0.16
15 26 0.42
16 26 0.42
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (15 bp):
AATAATTAAATTTAA
Found at i:81961 original size:11 final size:12
Alignment explanation
Indices: 81929--81972 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
81919 TAATTATTCT
81929 TATTTTTATTTCA
1 TATTTTTATTT-A
*
81942 TAATTTTATTTA
1 TATTTTTATTTA
81954 -ATTTTTA-TTA
1 TATTTTTATTTA
81964 TATTTTTAT
1 TATTTTTAT
81973 CAATTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.11
11 13 0.48
12 1 0.04
13 10 0.37
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTTTTATTTA
Done.