Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold284
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: 702692
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
File 1 of 5
Found at i:386 original size:17 final size:17
Alignment explanation
Indices: 364--405 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
354 AAGGTTATTT
*
364 TATTATTTTTATATTAA
1 TATTATTTTTAAATTAA
*
381 TATTATATTTAAATTAA
1 TATTATTTTTAAATTAA
398 TATTATTT
1 TATTATTT
406 AATGTTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTTTAAATTAA
Found at i:842 original size:22 final size:21
Alignment explanation
Indices: 816--876 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 21
806 TTATTATTAT
816 TATTATTATTATTATATTAAAA
1 TATTATTATT-TTATATTAAAA
*
838 TATTA-T-TTTTATATTAATA
1 TATTATTATTTTATATTAAAA
857 T-TTATATATTTTATAATTAA
1 TATTAT-TATTTTAT-ATTAA
877 TTTAAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 3 0.09
19 11 0.32
20 3 0.09
21 7 0.21
22 10 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTATTATTTTATATTAAAA
Found at i:844 original size:3 final size:3
Alignment explanation
Indices: 806--834 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
796 ATTTCACGTT
806 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
835 AAATATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:877 original size:22 final size:21
Alignment explanation
Indices: 804--877 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 21
794 AAATTTCACG
*
804 TTTTATTATTATTA-TTAT-TA
1 TTTTA-TATTAATATTTATATA
* *
824 TTATTATATTAAAATAT-TAT-
1 TT-TTATATTAATATTTATATA
844 TTTTATATTAATATTTATATA
1 TTTTATATTAATATTTATATA
865 TTTTATAATTAAT
1 TTTTAT-ATTAAT
878 TTAAATAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
19 12 0.28
20 14 0.33
21 11 0.26
22 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTATATTAATATTTATATA
Found at i:2431 original size:16 final size:17
Alignment explanation
Indices: 2391--2433 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
2381 AAAATATTTC
2391 ATTTATATTTAAATTAAA
1 ATTTA-ATTTAAATTAAA
*
2409 ATGTAATTT-AATTAAA
1 ATTTAATTTAAATTAAA
*
2425 TTTTAATTT
1 ATTTAATTT
2434 TATAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 14 0.64
17 4 0.18
18 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTAATTTAAATTAAA
Found at i:2476 original size:38 final size:39
Alignment explanation
Indices: 2434--2520 Score: 96
Period size: 38 Copynumber: 2.3 Consensus size: 39
2424 ATTTTAATTT
2434 TATAATAATTAAATATATCA-TTAATAATAAAAATT-AAA
1 TATAATAATTAAATA-ATCATTTAATAATAAAAATTGAAA
*
2472 TATAATTAGA-T-AATAATTATTTAATAATAAAAATTGAAA
1 TATAA-TA-ATTAAATAATCATTTAATAATAAAAATTGAAA
2511 -ATAAT-ATTAA
1 TATAATAATTAA
2521 TAAATTAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
35 1 0.02
36 1 0.02
37 5 0.12
38 28 0.67
39 6 0.14
40 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (39 bp):
TATAATAATTAAATAATCATTTAATAATAAAAATTGAAA
Found at i:2487 original size:11 final size:11
Alignment explanation
Indices: 2435--2490 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
2425 TTTTAATTTT
2435 ATAATAATTAA
1 ATAATAATTAA
*
2446 ATATATCATTAATA
1 ATA-ATAATT-A-A
*
2460 ATAAAAATTAA
1 ATAATAATTAA
*
2471 AT-ATAATTAG
1 ATAATAATTAA
2481 ATAATAATTA
1 ATAATAATTA
2491 TTTAATAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
10 8 0.22
11 13 0.36
12 6 0.17
13 5 0.14
14 4 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (11 bp):
ATAATAATTAA
Found at i:2495 original size:25 final size:24
Alignment explanation
Indices: 2435--2487 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
2425 TTTTAATTTT
*
2435 ATAATAATTAAATATATCATTAATA
1 ATAAAAATTAAATATA-CATTAATA
2460 ATAAAAATTAAATATA-ATTAGATA
1 ATAAAAATTAAATATACATTA-ATA
2484 ATAA
1 ATAA
2488 TTATTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.15
24 7 0.27
25 15 0.58
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAAAAATTAAATATACATTAATA
Found at i:4103 original size:21 final size:23
Alignment explanation
Indices: 4078--4136 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 23
4068 ATAAATCGAT
*
4078 TAAATTATAATTTAAATTT-TTA
1 TAAATTATAATTTAAATTTAATA
* *
4100 -AAATTTTAATTTTAATTTAATA
1 TAAATTATAATTTAAATTTAATA
4122 TAAATTA-AATTTAAA
1 TAAATTATAATTTAAA
4137 ATAATTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 16 0.53
22 9 0.30
23 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATTATAATTTAAATTTAATA
Found at i:4185 original size:29 final size:30
Alignment explanation
Indices: 4131--4207 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
4121 ATAAATTAAA
* * *
4131 TTTAAAATAATTTAATAATTTATTTTTTAT
1 TTTAAAATAATTTAAAAATATATTTTATAT
4161 TTTAAAA-AATATTAAAAATAT-TTTTATAT
1 TTTAAAATAAT-TTAAAAATATATTTTATAT
*
4190 TTTATAATTAAATTTAAA
1 TTTA-AAAT-AATTTAAA
4208 TAAAATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 14 0.36
30 17 0.44
31 5 0.13
32 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTAAAATAATTTAAAAATATATTTTATAT
Found at i:5326 original size:16 final size:16
Alignment explanation
Indices: 5228--5340 Score: 72
Period size: 17 Copynumber: 7.1 Consensus size: 16
5218 GAAATAATTG
* *
5228 ATTTAAATTAATAATAT
1 ATTTAATTTATTAA-AT
5245 ATTTAATTTATTATAAT
1 ATTTAATTTATTA-AAT
* * *
5262 AGTTATTTTATTATA-
1 ATTTAATTTATTAAAT
* * *
5277 AGTTAA-TTA-GATAT
1 ATTTAATTTATTAAAT
* *
5291 ATTATAA-TGATAAAATT
1 ATT-TAATTTATTAAA-T
5308 ATTTAATTTATTAAAT
1 ATTTAATTTATTAAAT
5324 ATTTAATTTATTAAAT
1 ATTTAATTTATTAAAT
5340 A
1 A
5341 ATTGATTTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
13 3 0.04
14 5 0.06
15 10 0.13
16 24 0.31
17 34 0.44
18 1 0.01
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
ATTTAATTTATTAAAT
Found at i:5348 original size:16 final size:16
Alignment explanation
Indices: 5310--5348 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
5300 ATAAAATTAT
*
5310 TTAATTTATTAAATAT
1 TTAATTTATTAAATAA
5326 TTAATTTATTAAATAA
1 TTAATTTATTAAATAA
*
5342 TTGATTT
1 TTAATTT
5349 TTTTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTAATTTATTAAATAA
Found at i:5396 original size:59 final size:61
Alignment explanation
Indices: 5330--5472 Score: 161
Period size: 60 Copynumber: 2.4 Consensus size: 61
5320 AAATATTTAA
5330 TTTATTAAATAATTGATTTTTTTATTTTAT-A-AAATT-TTAAAATAATTATTTAATATATT
1 TTTATTAAATAATT-ATTTTTTTATTTTATAATAAATTATTAAAATAATTATTTAATATATT
* ** * *
5389 TTTATTAAATAATTA--TTTTAATTTTATAATTAAATTATTATTATAATTATTTATTTTATT
1 TTTATTAAATAATTATTTTTTTATTTTATAA-TAAATTATTAAAATAATTATTTAATATATT
* * *
5449 TTAATAAAATAATTATTTTATTAT
1 TTTATTAAATAATTATTTTTTTAT
5473 ACTTTTATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
56 11 0.16
57 1 0.01
58 1 0.01
59 19 0.28
60 32 0.46
62 5 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.59
Consensus pattern (61 bp):
TTTATTAAATAATTATTTTTTTATTTTATAATAAATTATTAAAATAATTATTTAATATATT
Found at i:5414 original size:22 final size:22
Alignment explanation
Indices: 5362--5436 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 22
5352 TATTTTATAA
5362 AATTTTA-AAATAATTATTTAAT
1 AATTTTATAAATAATTATTT-AT
5384 ATATTTTTATTAAATAATTATTT-T
1 A-A-TTTTA-TAAATAATTATTTAT
*
5408 AATTTTATAATTAAATTATTATTAT
1 AATTTTATAAAT-AATTA-T-TTAT
5433 AATT
1 AATT
5437 ATTTATTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
21 4 0.09
22 11 0.25
23 3 0.07
24 9 0.20
25 5 0.11
26 12 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AATTTTATAAATAATTATTTAT
Found at i:5417 original size:17 final size:17
Alignment explanation
Indices: 5374--5440 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
5364 TTTTAAAATA
5374 ATTATT-TAATATATTTTT
1 ATTATTATAAT-TA-TTTT
*
5392 ATTA-AATAATTATTTT
1 ATTATTATAATTATTTT
**
5408 AATT-TTATAATTAAATT
1 -ATTATTATAATTATTTT
5425 ATTATTATAATTATTT
1 ATTATTATAATTATTT
5441 ATTTTATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
16 7 0.18
17 24 0.62
18 8 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATTATAATTATTTT
Found at i:5463 original size:38 final size:37
Alignment explanation
Indices: 5421--5494 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 37
5411 TTTATAATTA
5421 AATTATTATTATAATTA-TTTATTTTATTTTAATAAAAT
1 AATTATT-TTATAA-TACTTTATTTTATTTTAATAAAAT
*
5459 AATTATTTTATTATACTTTTATTTTATTTTAATAAA
1 AATTATTTTATAATAC-TTTATTTTATTTTAATAAA
5495 TCAACCATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 2 0.06
37 5 0.15
38 26 0.79
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (37 bp):
AATTATTTTATAATACTTTATTTTATTTTAATAAAAT
Found at i:6486 original size:28 final size:28
Alignment explanation
Indices: 6455--6509 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
6445 TTATATAATT
* *
6455 ATTTATTTGATTTAGTAATTAAATTATC
1 ATTTATGTGAATTAGTAATTAAATTATC
*
6483 ATTTATGTGAATTAGTAATTGAATTAT
1 ATTTATGTGAATTAGTAATTAAATTAT
6510 TTATTTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (28 bp):
ATTTATGTGAATTAGTAATTAAATTATC
Found at i:6518 original size:25 final size:25
Alignment explanation
Indices: 6451--6518 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 25
6441 CAGATTATAT
*
6451 AATTATTTATTTGATTTAGTAATTA
1 AATTATTTATTTGAATTAGTAATTA
* *
6476 AATTATCATTTATGTGAATTAGTAATTG
1 AA-T-T-ATTTATTTGAATTAGTAATTA
6504 AATTATTTATTTGAA
1 AATTATTTATTTGAA
6519 AGAGGTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 12 0.33
26 2 0.06
27 2 0.06
28 20 0.56
ACGTcount: A:0.37, C:0.01, G:0.10, T:0.51
Consensus pattern (25 bp):
AATTATTTATTTGAATTAGTAATTA
Found at i:9164 original size:30 final size:29
Alignment explanation
Indices: 9130--9201 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
9120 ATTTTAAAAA
9130 TAAATTTTAAA-ATTTATTTAAATTTATTTT
1 TAAATTTTAAATATTTATTTAAA--TATTTT
* *
9160 TAAA-TTTAATATTTTTATTTAAATCTTTT
1 TAAATTTTAA-ATATTTATTTAAATATTTT
*
9189 TAAATATTAAATA
1 TAAATTTTAAATA
9202 AATTTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
29 16 0.46
30 9 0.26
31 10 0.29
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (29 bp):
TAAATTTTAAATATTTATTTAAATATTTT
Found at i:10074 original size:28 final size:28
Alignment explanation
Indices: 10028--10143 Score: 95
Period size: 28 Copynumber: 4.4 Consensus size: 28
10018 TTTTACTTTT
10028 AATTATATTT-TATATATAATATAAATAA
1 AATTATATTTATATA-ATAATATAAATAA
*
10056 AATTATATTTATATAATAAT-T--TTAA
1 AATTATATTTATATAATAATATAAATAA
* * * *
10081 AA-TATA-TAATATAAT-ATATTATTTA
1 AATTATATTTATATAATAATATAAATAA
*
10106 TATTATATGTTATATAATAATATAAAT-A
1 AATTATAT-TTATATAATAATATAAATAA
*
10134 ATTTATATTT
1 AATTATATTT
10144 CTAAATCTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
22 2 0.03
23 9 0.13
24 4 0.06
25 9 0.13
26 4 0.06
27 3 0.04
28 30 0.42
29 10 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
AATTATATTTATATAATAATATAAATAA
Found at i:10108 original size:23 final size:23
Alignment explanation
Indices: 10036--10108 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 23
10026 TTAATTATAT
*
10036 TTTATATATAATATAA-ATA-AA
1 TTTATATATAATATAATATATTA
* *
10057 ATTATAT-TTATATAATA-ATT-
1 TTTATATATAATATAATATATTA
*
10077 TTAAAATATATAATATAATATATTA
1 TT--TATATATAATATAATATATTA
10102 TTTATAT
1 TTTATAT
10109 TATATGTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
20 9 0.24
21 7 0.18
22 4 0.11
23 13 0.34
24 3 0.08
25 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTATATATAATATAATATATTA
Found at i:10135 original size:45 final size:42
Alignment explanation
Indices: 10025--10135 Score: 103
Period size: 39 Copynumber: 2.8 Consensus size: 42
10015 CTATTTTACT
*
10025 TTTA-ATTATATTTTATAT-ATAATATAAAT-A-AAATTATA
1 TTTATATTATATATTATATAATAATATAAATAATAAATTATA
* * * *
10063 TTTATATAATA-ATTTTAAAAT-ATATAATATAATATA-T-TA
1 TTTATATTATATATTATATAATAATATAA-ATAATAAATTATA
*
10102 TTTATATTATATGTTATATAATAATATAAATAAT
1 TTTATATTATATATTATATAATAATATAAATAAT
10136 TTATATTTCT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
38 14 0.25
39 21 0.37
40 14 0.25
41 8 0.14
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.50
Consensus pattern (42 bp):
TTTATATTATATATTATATAATAATATAAATAATAAATTATA
Found at i:16524 original size:19 final size:21
Alignment explanation
Indices: 16486--16558 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 21
16476 CATATTTATT
16486 ATTAATTTTAACCTTATTATAAT-
1 ATTAATTTT-A-C-TATTATAATA
16509 ATTAA-TTTACTATTATAATA
1 ATTAATTTTACTATTATAATA
* *
16529 ATTAATTTTACTA-AATAATC
1 ATTAATTTTACTATTATAATA
*
16549 ATTCATTTTA
1 ATTAATTTTA
16559 ATCTTATCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
19 9 0.20
20 20 0.44
21 8 0.18
22 3 0.07
23 5 0.11
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTAATTTTACTATTATAATA
Found at i:21592 original size:20 final size:20
Alignment explanation
Indices: 21548--21599 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
21538 TATTTAATAA
*
21548 TTATTTACTATTAAAATTAT
1 TTATTTAATATTAAAATTAT
* * *
21568 ATATTTAATATTTAAATTTT
1 TTATTTAATATTAAAATTAT
21588 TTATTTTAATAT
1 TTA-TTTAATAT
21600 AATTAATGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTTAATATTAAAATTAT
Found at i:21983 original size:2 final size:2
Alignment explanation
Indices: 21976--22015 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
21966 AGATGACTTC
*
21976 AT AT AT AT ACT -T AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22016 GTTAGTGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:21994 original size:14 final size:14
Alignment explanation
Indices: 21971--22012 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
21961 GAAACAGATG
21971 ACTT-CATATATAT
1 ACTTACATATATAT
21984 ACTTACATATATAT
1 ACTTACATATATAT
*
21998 A-TATATATATATAT
1 ACT-TACATATATAT
22012 A
1 A
22013 TATGTTAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (14 bp):
ACTTACATATATAT
Found at i:23849 original size:20 final size:20
Alignment explanation
Indices: 23812--23851 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23802 AATATTTATT
23812 TAAATTTAATTATAAAAATA
1 TAAATTTAATTATAAAAATA
*
23832 TAAATATTAA-TATGAAAATA
1 TAAAT-TTAATTATAAAAATA
23852 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
TAAATTTAATTATAAAAATA
Found at i:31519 original size:23 final size:21
Alignment explanation
Indices: 31493--31554 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
31483 TTTGACTTGA
31493 TTTATTTTTAATTATATATTAAT
1 TTTATTTTT-ATTATATATT-AT
* *
31516 TTTATATTTATATAAATATTAT
1 TTTATTTTTAT-TATATATTAT
* *
31538 GTAATTTTTATTATATA
1 TTTATTTTTATTATATA
31555 AATAATAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
23 15 0.47
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTATTTTTATTATATATTAT
Found at i:31573 original size:18 final size:18
Alignment explanation
Indices: 31552--31586 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31542 TTTTTATTAT
*
31552 ATAAATAATAAATATATC
1 ATAAAGAATAAATATATC
31570 ATAAAGAATAAATATAT
1 ATAAAGAATAAATATAT
31587 AATATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAAAGAATAAATATATC
Found at i:32169 original size:39 final size:38
Alignment explanation
Indices: 32124--32265 Score: 101
Period size: 34 Copynumber: 3.9 Consensus size: 38
32114 AATTATTTTT
32124 TAAAATTTTATAATTATTTAATTATAATATAAAATTATA
1 TAAAATTTTATAATTATTTAA-TATAATATAAAATTATA
* *
32163 TAAAA--TT-TAATTATTTAA-A-AATATAAATTTTACA
1 TAAAATTTTATAATTATTTAATATAATATAAA-ATTATA
* * *
32197 TAATATTTTTATAA--ATTTTATATAATTTAAAATTATA
1 TAA-AATTTTATAATTATTTAATATAATATAAAATTATA
* *
32234 -ATTAA--TTAT-ATTATTTAATAT-ATTTAAAATTA
1 TA-AAATTTTATAATTATTTAATATAATATAAAATTA
32266 AAATCTTAAC
Statistics
Matches: 83, Mismatches: 10, Indels: 25
0.70 0.08 0.21
Matches are distributed among these distances:
33 9 0.11
34 23 0.28
35 9 0.11
36 18 0.22
37 9 0.11
38 10 0.12
39 5 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (38 bp):
TAAAATTTTATAATTATTTAATATAATATAAAATTATA
Found at i:32224 original size:10 final size:11
Alignment explanation
Indices: 32183--32221 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
32173 TTATTTAAAA
32183 ATATAAATTTT
1 ATATAAATTTT
*
32194 ACATAATATTTT
1 ATATAA-ATTTT
32206 -TATAAATTTT
1 ATATAAATTTT
32216 ATATAA
1 ATATAA
32222 TTTAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 5 0.21
11 14 0.58
12 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
ATATAAATTTT
Found at i:32446 original size:20 final size:20
Alignment explanation
Indices: 32421--32470 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
32411 CTACCTTGCG
32421 TGTAACTAAAATTGTATAAA
1 TGTAACTAAAATTGTATAAA
32441 TGTAACTAAAATTGTATAAA
1 TGTAACTAAAATTGTATAAA
32461 TGTAACTAAA
1 TGTAACTAAA
32471 CCCTTCCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (20 bp):
TGTAACTAAAATTGTATAAA
Found at i:32908 original size:15 final size:15
Alignment explanation
Indices: 32888--32942 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 15
32878 TTAATAAAAT
32888 TATATAAATATAATA
1 TATATAAATATAATA
32903 TATATAAATACTTAATA
1 TATATAAATA--TAATA
* *
32920 TACAAAAAATATGAATA
1 TA-TATAAATAT-AATA
32937 TATATA
1 TATATA
32943 TTAAAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 10 0.31
16 3 0.09
17 13 0.41
18 6 0.19
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (15 bp):
TATATAAATATAATA
Found at i:33638 original size:19 final size:20
Alignment explanation
Indices: 33589--33638 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
33579 ATAATTTATA
*
33589 TAAAACATAAGTTACTATTT
1 TAAAAAATAAGTTACTATTT
* *
33609 AAAATAAATAA-TTATTATTT
1 TAAA-AAATAAGTTACTATTT
33629 TAAAAAATAA
1 TAAAAAATAA
33639 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 6 0.24
20 14 0.56
21 5 0.20
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAAAATAAGTTACTATTT
Found at i:33712 original size:54 final size:53
Alignment explanation
Indices: 33618--34012 Score: 365
Period size: 54 Copynumber: 7.5 Consensus size: 53
33608 TAAAATAAAT
33618 AATTATTATTTTAAAAAAT-A-AAAAA--TAAAAATATTTTATATTAAATCTTG
1 AATTATTA-TTTAAAAAATAATAAAAATTTAAAAATATTTTATATTAAATCTTG
*
33668 AATTATTATTTAAAAAATAATAAAAATTTTAAAAATATTTTATATTAAATCCTG
1 AATTATTATTTAAAAAATAATAAAAA-TTTAAAAATATTTTATATTAAATCTTG
* **
33722 AATTCA-TATTT-AAAAATAATAACAAATTTTATAAATATTTTATATTAAATCTAA
1 AATT-ATTATTTAAAAAATAATAA-AAA-TTTAAAAATATTTTATATTAAATCTTG
* * ** *
33776 AATTATTATTT-TAAAATAATAAAAATTAAAAAATATTTTATAACAAATCCTG
1 AATTATTATTTAAAAAATAATAAAAATTTAAAAATATTTTATATTAAATCTTG
*
33828 -ATT-TT-TTT-AAAAATAATAAAAAATTAAAAATATTTTATATTAAAT-TTAG
1 AATTATTATTTAAAAAATAATAAAAATTTAAAAATATTTTATATTAAATCTT-G
*** * **
33877 AATTGCCATTTAAAAAATAATAAAAATTT-AAAATATTTTATATTAAAGCCCG
1 AATTATTATTTAAAAAATAATAAAAATTTAAAAATATTTTATATTAAATCTTG
* * **
33929 AATTACTT-TTTTAAAAA-AAT-AAAATGTATAAAAAATATTTTACATTAAAT-TCAA
1 AATTA-TTATTTAAAAAATAATAAAAAT-T-T-AAAAATATTTTATATTAAATCT-TG
**
33983 AATTACCATTTAAAAAAATAATAAAAATTT
1 AATTATTATTT-AAAAAATAATAAAAATTT
34013 TATATATGTA
Statistics
Matches: 284, Mismatches: 37, Indels: 43
0.78 0.10 0.12
Matches are distributed among these distances:
48 1 0.00
49 46 0.16
50 19 0.07
51 12 0.04
52 55 0.19
53 31 0.11
54 104 0.37
55 7 0.02
56 4 0.01
57 5 0.02
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (53 bp):
AATTATTATTTAAAAAATAATAAAAATTTAAAAATATTTTATATTAAATCTTG
Found at i:33866 original size:209 final size:205
Alignment explanation
Indices: 33626--34011 Score: 514
Period size: 207 Copynumber: 1.9 Consensus size: 205
33616 ATAATTATTA
**
33626 TTTTAAAAAATAAAAAATAAAAATATTTTATATTAAATCTT-GAATTATTATTTAAAAAATAATA
1 TTTTAAAAAATAAAAAATAAAAATATTTTATATTAAAT-TTAGAATTACCATTTAAAAAATAATA
* * *
33690 AAAATTTTAAAAATATTTTATATTAAATCCTGAATT-CATATTTAAAAATAATAACAAAT-T-TT
65 AAAA-TTT-AAAATATTTTATATTAAAGCCCGAATTACATATTTAAAAA-AAT-A-AAATGTATA
* * ** *
33752 ATAAATATTTTATATTAAA-TCTAAAATTATTATTT-TAAAATAATAAAAATTAAAAAATATTTT
125 AAAAATATTTTACATTAAATTC-AAAATTACCATTTAAAAAATAATAAAAATTAAAAAATATTTT
33815 ATAACAAATCCTGATTT
189 ATAACAAATCCTGATTT
*
33832 TTTTAAAAATAATAAAAAATTAAAAATATTTTATATTAAATTTAGAATTGCCATTTAAAAAATAA
1 TTTT-AAAA-AATAAAAAA-TAAAAATATTTTATATTAAATTTAGAATTACCATTTAAAAAATAA
* *
33897 TAAAAATTTAAAATATTTTATATTAAAGCCCGAATTACTTTTTTAAAAAAATAAAATGTATAAAA
63 TAAAAATTTAAAATATTTTATATTAAAGCCCGAATTACATATTTAAAAAAATAAAATGTATAAAA
33962 AATATTTTACATTAAATTCAAAATTACCATTTAAAAAAATAATAAAAATT
128 AATATTTTACATTAAATTCAAAATTACCATTT-AAAAAATAATAAAAATT
34012 TTATATATGT
Statistics
Matches: 157, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
205 4 0.03
206 6 0.04
207 61 0.39
208 26 0.17
209 60 0.38
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (205 bp):
TTTTAAAAAATAAAAAATAAAAATATTTTATATTAAATTTAGAATTACCATTTAAAAAATAATAA
AAATTTAAAATATTTTATATTAAAGCCCGAATTACATATTTAAAAAAATAAAATGTATAAAAAAT
ATTTTACATTAAATTCAAAATTACCATTTAAAAAATAATAAAAATTAAAAAATATTTTATAACAA
ATCCTGATTT
Found at i:33880 original size:155 final size:156
Alignment explanation
Indices: 33618--33970 Score: 436
Period size: 155 Copynumber: 2.2 Consensus size: 156
33608 TAAAATAAAT
* ** *
33618 AATTATTATTTTAAAAAATAAAAAAT-AAAAATATTTTATATTAAATCTTGAATTATTATTTAAA
1 AATTATTATTTTAAAAAATAAAAATTAAAAAATATTTTATAACAAATCCTGAATTATTATTTAAA
* *
33682 AAATAATAAAAATTTTAAAAATATTTTATATTAAATCCTGAATT-CATATTTAAAAATAATAACA
66 AAATAATAAAAATATTAAAAATATTTTATATTAAATCCTGAATTCCAT-TTAAAAAATAATAA-A
* *
33746 AATTTTATAAATATTTTATATTAAATCTAA
129 AA-TTTA-AAATATTTTATATTAAAGCCAA
33776 AATTATTATTTTAAAATAATAAAAATTAAAAAATATTTTATAACAAATCCTG-ATT-TT-TTT-A
1 AATTATTATTTTAAAA-AATAAAAATTAAAAAATATTTTATAACAAATCCTGAATTATTATTTAA
*
33837 AAAATAATAAAAA-ATTAAAAATATTTTATATTAAAT-TTAGAATTGCCATTTAAAAAATAATAA
65 AAAATAATAAAAATATTAAAAATATTTTATATTAAATCCT-GAATT-CCATTTAAAAAATAATAA
**
33900 AAATTTAAAATATTTTATATTAAAGCCCG
128 AAATTTAAAATATTTTATATTAAAGCCAA
*
33929 AATTACTT-TTTTAAAAAAATAAAATGTATAAAAAATATTTTA
1 AATTA-TTATTTT-AAAAAATAAAA-AT-TAAAAAATATTTTA
33971 CATTAAATTC
Statistics
Matches: 174, Mismatches: 12, Indels: 21
0.84 0.06 0.10
Matches are distributed among these distances:
153 34 0.20
154 12 0.07
155 44 0.25
156 27 0.16
157 6 0.03
158 18 0.10
159 12 0.07
160 21 0.12
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (156 bp):
AATTATTATTTTAAAAAATAAAAATTAAAAAATATTTTATAACAAATCCTGAATTATTATTTAAA
AAATAATAAAAATATTAAAAATATTTTATATTAAATCCTGAATTCCATTTAAAAAATAATAAAAA
TTTAAAATATTTTATATTAAAGCCAA
Found at i:33976 original size:106 final size:105
Alignment explanation
Indices: 33643--34012 Score: 414
Period size: 106 Copynumber: 3.5 Consensus size: 105
33633 AAATAAAAAA
* **
33643 TAAAAATATTTTATATTAAATCTT-GAATTATTATTTAAAAAATAATAAAAATTTTAAAAATATT
1 TAAAAATATTTTATATTAAAT-TTAAAATTACCATTTAAAAAATAATAAAAA-TTT-AAAATATT
* *
33707 TTATATTAAATCCTGAATTCATATTTAAAAATAATAACAAATT-T
63 TTATATTAAATCCTGAATTCTTTTTTAAAAATAAT-A-AAATTAT
* * ** * *
33751 TATAAATATTTTATATTAAATCTAAAATTATTATTT-TAAAATAATAAAAATTAAAAAATATTTT
1 TAAAAATATTTTATATTAAATTTAAAATTACCATTTAAAAAATAATAAAAATT-TAAAATATTTT
** *
33815 ATAACAAATCCTG-A-T-TTTTTTAAAAATAATAAAA-AAT
65 ATATTAAATCCTGAATTCTTTTTTAAAAATAATAAAATTAT
* *
33852 TAAAAATATTTTATATTAAATTTAGAATTGCCATTTAAAAAATAATAAAAATTTAAAATATTTTA
1 TAAAAATATTTTATATTAAATTTAAAATTACCATTTAAAAAATAATAAAAATTTAAAATATTTTA
* *
33917 TATTAAAGCCCGAATTACTTTTTTAAAAA-AATAAAATGTAT
66 TATTAAATCCTGAATT-CTTTTTTAAAAATAATAAAAT-TAT
* * *
33958 AAAAAATATTTTACATTAAATTCAAAATTACCATTTAAAAAAATAATAAAAATTT
1 TAAAAATATTTTATATTAAATTTAAAATTACCATTT-AAAAAATAATAAAAATTT
34013 TATATATGTA
Statistics
Matches: 223, Mismatches: 28, Indels: 23
0.81 0.10 0.08
Matches are distributed among these distances:
101 53 0.24
102 17 0.08
103 14 0.06
104 8 0.04
105 12 0.05
106 56 0.25
107 32 0.14
108 31 0.14
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (105 bp):
TAAAAATATTTTATATTAAATTTAAAATTACCATTTAAAAAATAATAAAAATTTAAAATATTTTA
TATTAAATCCTGAATTCTTTTTTAAAAATAATAAAATTAT
Found at i:34094 original size:20 final size:20
Alignment explanation
Indices: 34069--34131 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
34059 GAAGATATGG
*
34069 TTCAATTAAAGTTATATATA
1 TTCAATTATAGTTATATATA
* *
34089 TTCAATTATAGTTATTACATT
1 TTCAATTATAGTTA-TATATA
*
34110 TTCAGTTATAGTATATATATA
1 TTCAATTATAGT-TATATATA
34131 T
1 T
34132 ATATATATAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 13 0.37
21 20 0.57
22 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (20 bp):
TTCAATTATAGTTATATATA
Found at i:34577 original size:22 final size:22
Alignment explanation
Indices: 34546--34620 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
34536 AGTTTTAATC
34546 ATATACATATAT-AATTAAAGTT
1 ATATACATAT-TCAATTAAAGTT
* *
34568 ATATATATATTCAATTATAGTT
1 ATATACATATTCAATTAAAGTT
* * * *
34590 AT-TACATTTTCAGTTATAGTC
1 ATATACATATTCAATTAAAGTT
*
34611 ATATATATAT
1 ATATACATAT
34621 ATATATATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 18 0.42
22 25 0.58
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (22 bp):
ATATACATATTCAATTAAAGTT
Found at i:34618 original size:2 final size:2
Alignment explanation
Indices: 34611--34635 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34601 AGTTATAGTC
34611 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
34636 CTTCAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35057 original size:499 final size:486
Alignment explanation
Indices: 34072--35057 Score: 1613
Period size: 499 Copynumber: 2.0 Consensus size: 486
34062 GATATGGTTC
34072 AATTAAAGTTATATATATTCAATTATAGTTATTACATTTTCAGTTATAGTATATATATATATATA
1 AATTAAAGTTATATATATTCAATTATAGTTATTACATTTTCAGTTATAGTATATATATATATATA
*
34137 TATACTTCAATTTTATTCAAGGAATAAACATTACATGAAAAGTACCGACTCACAAAAAATATTAA
66 TATACTTCAATTTTATTCAAAGAATAAACATTACATGAAAAGTACCGACTCACAAAAAATATTAA
34202 TTTTAATCATATGTATATTTAGTTAAAATCACATTTACATTTAATTATATTCATATATACATTAA
131 TTTTAATCATATGTATATTTAGTTAAAATCACATTTACATTTAATTATATTCATATATACATTAA
* * *
34267 ATTTTATTCAAAATGTCGACATTTCATGAAAAAATCGATTCCTTAGGCAAAAATATATATAAATT
196 ATTTTATTCAAAATGTCGACATTTCATAAAAAAATCAATTCCTTAAGCAAAAATATATATAAATT
* *
34332 AAGAAAAAAATGACCATTTTCATGAAATGAACTAACTCTTTAAACTAAAAATATCATTTTTAATT
261 AAGAAAAAAATAACCATTTTCATGAAATAAACTAACTCTTTAAACTAAAAATATCATTTTTAATT
* * * *
34397 ACTTGTACATTTAGTTGAAGTTATATGTATATTCAATTATAATTATATGTACATTTAATTTTATT
326 ACATATACATTTAGTTGAAGTTATATATATATTCAATTATAATTATATATACATTTAATTTTATT
34462 AAAAAATGAATCGACCTCTCCATCAAAAGAATCGACTTTTAAGTCAAAATATTATTTTTATTATA
391 AAAAAATGAATCGACCTCTCCATCAAAAGAATCGACTTTTAAGTCAAAATATTATTTTTATTATA
34527 TCTACATTCAGTTTTAATCATATACATATAT
456 TCTACATTCAGTTTTAATCATATACATATAT
34558 AATTAAAGTTATATATATATTCAATTATAGTTATTACATTTTCAGTTATAGTCATATATATATAT
1 AATTAAAG-T-TATATATATTCAATTATAGTTATTACATTTTCAGTTATAG-------TATATAT
34623 ATATATATATATACTTCAATTTTATTCGAAAGAATAAACATTACATGAAAAGTACCGACTCTTTA
57 ATATATATATATACTTCAATTTTATTC-AAAGAATAAACATTACATGAAAAGTACCGACTC----
34688 GACAAAAAATATTAATTTTAATCATATGTATATTTAGTTAAAATCACATTTACATTTAATTATAT
117 -ACAAAAAATATTAATTTTAATCATATGTATATTTAGTTAAAATCACATTTACATTTAATTATAT
* *
34753 TCATATATACATTAAATTTTATTCAAAATGTCGACATTT-A-AAAAAAATTAATTCTTTAAGCAA
181 TCATATATACATTAAATTTTATTCAAAATGTCGACATTTCATAAAAAAATCAATTCCTTAAGCAA
*
34816 AAA-A-ATATAAATTAAGAAAAAAATAACCATTTTCATGAAATAAACTAATTCTTTAAACTAAAA
246 AAATATATATAAATTAAGAAAAAAATAACCATTTTCATGAAATAAACTAACTCTTTAAACTAAAA
*
34879 ATATTATTTTTAATTACATATACATTTAGTTGAAGTTATATATATATATTCAATTATAATTATAT
311 ATATCATTTTTAATTACATATACATTTAGTTGAAG-T-TATATATATATTCAATTATAATTATAT
* *
34944 ATACATTTAATTTTATTCAAAAATGAATCTACCTGC-CCATCAAAAGAATCGACTTTTAAGTCAA
374 ATACATTTAATTTTATTAAAAAATGAATCGACCT-CTCCATCAAAAGAATCGACTTTTAAGTCAA
* *
35008 AATATTATTTTTATTTTATCTATATTCAGTTTTAATCATATACATATAT
438 AATATTATTTTTATTATATCTACATTCAGTTTTAATCATATACATATAT
35057 A
1 A
35058 GTTTAAGTGT
Statistics
Matches: 464, Mismatches: 18, Indels: 23
0.92 0.04 0.05
Matches are distributed among these distances:
486 8 0.02
487 1 0.00
488 40 0.09
495 34 0.07
496 32 0.07
497 88 0.19
498 2 0.00
499 154 0.33
500 2 0.00
501 103 0.22
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.41
Consensus pattern (486 bp):
AATTAAAGTTATATATATTCAATTATAGTTATTACATTTTCAGTTATAGTATATATATATATATA
TATACTTCAATTTTATTCAAAGAATAAACATTACATGAAAAGTACCGACTCACAAAAAATATTAA
TTTTAATCATATGTATATTTAGTTAAAATCACATTTACATTTAATTATATTCATATATACATTAA
ATTTTATTCAAAATGTCGACATTTCATAAAAAAATCAATTCCTTAAGCAAAAATATATATAAATT
AAGAAAAAAATAACCATTTTCATGAAATAAACTAACTCTTTAAACTAAAAATATCATTTTTAATT
ACATATACATTTAGTTGAAGTTATATATATATTCAATTATAATTATATATACATTTAATTTTATT
AAAAAATGAATCGACCTCTCCATCAAAAGAATCGACTTTTAAGTCAAAATATTATTTTTATTATA
TCTACATTCAGTTTTAATCATATACATATAT
Found at i:35183 original size:21 final size:21
Alignment explanation
Indices: 35159--35199 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35149 ATTTATTATT
*
35159 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TAAAAAATATA
35180 TAAATATTAATAAAAAATAT
1 TAAATATTAATAAAAAATAT
35200 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAATATTAATAAAAAATATA
Found at i:41094 original size:22 final size:22
Alignment explanation
Indices: 41066--41108 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
41056 AATATTAAAA
41066 ATATTTTTAT-ATTAATATTTAT
1 ATATTTTTATAATTAA-ATTTAT
41088 ATATTTTTATAATTAAATTTA
1 ATATTTTTATAATTAAATTTA
41109 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTAT
Found at i:41929 original size:11 final size:10
Alignment explanation
Indices: 41915--42089 Score: 55
Period size: 9 Copynumber: 18.8 Consensus size: 10
41905 TTAAATAAAA
41915 TTTATATTAT
1 TTTATATTAT
41925 TTT-TA-TAT
1 TTTATATTAT
*
41933 ATTATAATTAT
1 TTTAT-ATTAT
*
41944 ATTTAAATTAT
1 -TTTATATTAT
41955 TTTATA-T-T
1 TTTATATTAT
* *
41963 TATATA-AAT
1 TTTATATTAT
41972 TTTGATA-TAT
1 TTT-ATATTAT
* *
41982 TATATA-AAT
1 TTTATATTAT
* *
41991 TTTAAAATA-
1 TTTATATTAT
42000 TTTATA-TAT
1 TTTATATTAT
*
42009 TTATAGATTA-
1 TT-TATATTAT
*
42019 TTCATATTA-
1 TTTATATTAT
42028 TTTA-ATT-T
1 TTTATATTAT
42036 TTTATCA-TA-
1 TTTAT-ATTAT
*
42045 ATTATATTAT
1 TTTATATTAT
42055 ATTTA-ATT-T
1 -TTTATATTAT
42064 TTTATATTA-
1 TTTATATTAT
*
42073 TATA-ATTAT
1 TTTATATTAT
42082 TTTATATT
1 TTTATATT
42090 TAAAATTATT
Statistics
Matches: 122, Mismatches: 22, Indels: 42
0.66 0.12 0.23
Matches are distributed among these distances:
8 29 0.24
9 48 0.39
10 29 0.24
11 13 0.11
12 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (10 bp):
TTTATATTAT
Found at i:41965 original size:35 final size:35
Alignment explanation
Indices: 41926--42108 Score: 126
Period size: 35 Copynumber: 5.1 Consensus size: 35
41916 TTATATTATT
*
41926 TTTATAT-ATTATAATTATATTTAAATTATTTTATA
1 TTTATATAATTAT-ATTATATTTAAATTATTTAATA
* * *
41961 TTTATATAAATTTTGATATATTATATAAATT-TTAAAATA
1 TTTATAT-AATTAT-AT-TA-TATTTAAATTATT-TAATA
* * * * *
42000 TTTATATATTTATA-GATTATTCATATTATTTAATTT
1 TTTATATAATTATATTA-TATTTAAATTATTTAA-TA
*
42036 TTTATCATAATTATATTATATTT-AATT-TTTTATA
1 TTTAT-ATAATTATATTATATTTAAATTATTTAATA
* *
42070 -TTATATAATTATTTTATATTTAAAATTATTAAATA
1 TTTATATAATTATATTATATTT-AAATTATTTAATA
42105 TTTA
1 TTTA
42109 CTTGATCTTA
Statistics
Matches: 113, Mismatches: 22, Indels: 25
0.71 0.14 0.16
Matches are distributed among these distances:
32 16 0.14
33 4 0.04
34 5 0.04
35 27 0.24
36 14 0.12
37 19 0.17
38 9 0.08
39 19 0.17
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (35 bp):
TTTATATAATTATATTATATTTAAATTATTTAATA
Found at i:41966 original size:6 final size:6
Alignment explanation
Indices: 41914--41967 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
41904 TTTAAATAAA
* * *
41914 ATTTAT A-TTAT TTTTAT ATATTAT AATTAT ATTTA- AATTAT -TTTAT
1 ATTTAT ATTTAT ATTTAT AT-TTAT ATTTAT ATTTAT ATTTAT ATTTAT
41960 ATTTAT AT
1 ATTTAT AT
41968 AAATTTTGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
5 12 0.32
6 21 0.55
7 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
ATTTAT
Found at i:41970 original size:20 final size:20
Alignment explanation
Indices: 41947--41993 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
41937 TAATTATATT
*
41947 TAAATTATTTTATAT-TTATA
1 TAAATT-TTTGATATATTATA
41967 TAAA-TTTTGATATATTATA
1 TAAATTTTTGATATATTATA
41986 TAAATTTT
1 TAAATTTT
41994 AAAATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 7 0.29
19 10 0.42
20 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TAAATTTTTGATATATTATA
Found at i:41980 original size:47 final size:46
Alignment explanation
Indices: 41914--42013 Score: 123
Period size: 47 Copynumber: 2.2 Consensus size: 46
41904 TTTAAATAAA
* * * *
41914 ATTTATATTATTTTTATATATTATA-ATTATATTTAAATTATTT-TAT
1 ATTTATATAATTTTGATATATTATATA-AAT-TTTAAAATATTTATAT
41960 ATTTATATAAATTTTGATATATTATATAAATTTTAAAATATTTATAT
1 ATTTATAT-AATTTTGATATATTATATAAATTTTAAAATATTTATAT
42007 ATTTATA
1 ATTTATA
42014 GATTATTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
46 19 0.40
47 27 0.57
48 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (46 bp):
ATTTATATAATTTTGATATATTATATAAATTTTAAAATATTTATAT
Found at i:41986 original size:19 final size:18
Alignment explanation
Indices: 41953--41994 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
41943 TATTTAAATT
41953 ATTTTATAT-TTATATAA
1 ATTTTATATATTATATAA
41970 ATTTTGATATATTATATAA
1 ATTTT-ATATATTATATAA
41989 ATTTTA
1 ATTTTA
41995 AAATATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 5 0.22
19 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTTTATATATTATATAA
Found at i:42000 original size:19 final size:20
Alignment explanation
Indices: 41958--42007 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
41948 AAATTATTTT
* *
41958 ATATTTATATAAATTTTGAT
1 ATATTTATATAAATTTTAAA
41978 ATA-TTATATAAATTTTAAA
1 ATATTTATATAAATTTTAAA
41997 ATATTTATATA
1 ATATTTATATA
42008 TTTATAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTTATATAAATTTTAAA
Found at i:42039 original size:28 final size:29
Alignment explanation
Indices: 42026--42092 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 29
42016 TTATTCATAT
42026 TATTTAATTTTTTAT-CATAATTATATTA
1 TATTTAATTTTTTATACATAATTATATTA
* *
42054 TATTTAATTTTTTATATTATATAATTATTTTA
1 TATTTAA-TTTTT-TA-TACATAATTATATTA
42086 TATTTAA
1 TATTTAA
42093 AATTATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 7 0.21
29 5 0.15
30 2 0.06
31 1 0.03
32 18 0.55
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (29 bp):
TATTTAATTTTTTATACATAATTATATTA
Found at i:42070 original size:19 final size:18
Alignment explanation
Indices: 42046--42099 Score: 67
Period size: 17 Copynumber: 3.0 Consensus size: 18
42036 TTTATCATAA
42046 TTATATTATATTTAATT-TT
1 TTATATTATA--TAATTATT
42065 TTATATTATATAATTATT
1 TTATATTATATAATTATT
*
42083 TTATATT-TAAAATTATT
1 TTATATTATATAATTATT
42100 AAATATTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 14 0.42
18 9 0.27
19 10 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATATTATATAATTATT
Found at i:42096 original size:17 final size:16
Alignment explanation
Indices: 41940--42099 Score: 65
Period size: 17 Copynumber: 10.0 Consensus size: 16
41930 TATATTATAA
41940 TTATATTTAAATTATT
1 TTATATTTAAATTATT
* *
41956 TTATATTTATATAAATT
1 TTATATTTAAAT-TATT
41973 TTGATA--T--ATTA-T
1 TT-ATATTTAAATTATT
* * *
41985 ATAAATTTTAAAATATT
1 TTATA-TTTAAATTATT
42002 TATATATTTATAGATTATT
1 T-TATATTTA-A-ATTATT
*
42021 CATATTATTT-AATT-TT
1 -TTA-TATTTAAATTATT
*
42037 TTATCA--T-AATTATA
1 TTAT-ATTTAAATTATT
42051 TTATATTT-AATT-TT
1 TTATATTTAAATTATT
42065 TTATATTATATAATTATT
1 TTATATT-TA-AATTATT
42083 TTATATTTAAAATTATT
1 TTATATTT-AAATTATT
42100 AAATATTTAC
Statistics
Matches: 109, Mismatches: 13, Indels: 43
0.66 0.08 0.26
Matches are distributed among these distances:
11 2 0.02
12 2 0.02
13 7 0.06
14 17 0.16
15 9 0.08
16 17 0.16
17 25 0.23
18 18 0.17
19 7 0.06
20 5 0.05
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (16 bp):
TTATATTTAAATTATT
Found at i:42471 original size:25 final size:27
Alignment explanation
Indices: 42421--42475 Score: 87
Period size: 25 Copynumber: 2.1 Consensus size: 27
42411 TATTTTATAT
42421 TTATTATAATTATAAATATAATAAATA
1 TTATTATAATTATAAATATAATAAATA
*
42448 TTATTATAA-T-TAATTATAATAAATA
1 TTATTATAATTATAAATATAATAAATA
42473 TTA
1 TTA
42476 ATTAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 17 0.63
26 1 0.04
27 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TTATTATAATTATAAATATAATAAATA
Found at i:42875 original size:15 final size:17
Alignment explanation
Indices: 42850--42888 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
42840 TTTGTCATGA
42850 ATTTCTTTCTTTT-TTTT
1 ATTT-TTTCTTTTATTTT
42867 -TTTTTTCTTTTATTTT
1 ATTTTTTCTTTTATTTT
42883 ATTTTT
1 ATTTTT
42889 GAAAGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.40
16 7 0.35
17 5 0.25
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (17 bp):
ATTTTTTCTTTTATTTT
Found at i:42882 original size:19 final size:20
Alignment explanation
Indices: 42851--42888 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
42841 TTGTCATGAA
42851 TTTCTTTCTTTTT-TTTTTT
1 TTTCTTTCTTTTTATTTTTT
42870 TTTCTTT-TATTTTATTTTT
1 TTTCTTTCT-TTTTATTTTT
42889 GAAAGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.06
19 11 0.65
20 5 0.29
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTCTTTCTTTTTATTTTTT
Found at i:43693 original size:17 final size:19
Alignment explanation
Indices: 43661--43695 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
43651 AAATATAACA
43661 TAAAATTATATAAATATGT
1 TAAAATTATATAAATATGT
43680 TAAAATT-T-TAAATATG
1 TAAAATTATATAAATATG
43696 AATATGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (19 bp):
TAAAATTATATAAATATGT
Found at i:44312 original size:8 final size:8
Alignment explanation
Indices: 44313--44397 Score: 55
Period size: 8 Copynumber: 10.0 Consensus size: 8
44303 TATTTATATA
44313 ATATTTAT
1 ATATTTAT
*
44321 ATATTTTT
1 ATATTTAT
*
44329 ATTATTTTT
1 A-TATTTAT
44338 ATATTTAT
1 ATATTTAT
44346 ATAAATTTTAAT
1 AT--A-TTT-AT
*
44358 ATATTAAT
1 ATATTTAT
44366 A-ATTTAT
1 ATATTTAT
* *
44373 ATTATATAA
1 A-TATTTAT
*
44382 ATTTTTAT
1 ATATTTAT
44390 ATATTTAT
1 ATATTTAT
44398 GTTATATATT
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
7 6 0.10
8 30 0.50
9 15 0.25
10 2 0.03
11 3 0.05
12 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTTAT
Found at i:44334 original size:17 final size:17
Alignment explanation
Indices: 44301--44420 Score: 77
Period size: 17 Copynumber: 6.9 Consensus size: 17
44291 CAGATATTCG
44301 TATATTTATATAATATTTA
1 TATATTTATAT--TATTTA
* *
44320 TATATTTTTATTATTTT
1 TATATTTATATTATTTA
*
44337 TATATTTATATAAATTT-
1 TATATTTATAT-TATTTA
*
44354 TAATATATTA-ATAATTTA
1 T-ATAT-TTATATTATTTA
* *
44372 TATTATATAAATT-TTTA
1 TA-TATTTATATTATTTA
* *
44389 TATATTTATGTTATATA
1 TATATTTATATTATTTA
*
44406 T-TATTTTTATTATTT
1 TATATTTATATTATTT
44421 TTTTAATATT
Statistics
Matches: 81, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
16 18 0.22
17 34 0.42
18 16 0.20
19 13 0.16
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATTTA
Found at i:44395 original size:25 final size:25
Alignment explanation
Indices: 44367--44420 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
44357 TATATTAATA
44367 ATTTATATTATATA-AATTTTTATAT
1 ATTTATATTATATATAATTTTTAT-T
* *
44392 ATTTATGTTATATATTATTTTTATT
1 ATTTATATTATATATAATTTTTATT
44417 ATTT
1 ATTT
44421 TTTTAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 18 0.69
26 8 0.31
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTATATTATATATAATTTTTATT
Found at i:44406 original size:32 final size:31
Alignment explanation
Indices: 44301--44409 Score: 106
Period size: 32 Copynumber: 3.6 Consensus size: 31
44291 CAGATATTCG
* *
44301 TATATTTATATA-ATATT-TATATATTTTTA
1 TATATTTATTTATATATTATATAAATTTTTA
*
44330 T-TA-TT-TTTATAT-TTATATAAATTTTAA
1 TATATTTATTTATATATTATATAAATTTTTA
*
44357 TATATTAATAATT-TATATTATATAAATTTTTA
1 TATATT--TATTTATATATTATATAAATTTTTA
44389 TATATTTATGTTATATATTAT
1 TATATTTAT-TTATATATTAT
44410 TTTTATTATT
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
26 5 0.08
27 15 0.23
28 4 0.06
29 2 0.03
30 2 0.03
31 6 0.09
32 30 0.47
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.61
Consensus pattern (31 bp):
TATATTTATTTATATATTATATAAATTTTTA
Found at i:44423 original size:11 final size:12
Alignment explanation
Indices: 44383--44430 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 12
44373 ATTATATAAA
44383 TTTTTATATATT
1 TTTTTATATATT
*
44395 TATGTTATATATT
1 T-TTTTATATATT
44408 ATTTTTAT-TATT
1 -TTTTTATATATT
44420 TTTTTA-ATATT
1 TTTTTATATATT
44431 ATATTTTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 10 0.32
12 5 0.16
13 15 0.48
14 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (12 bp):
TTTTTATATATT
Found at i:44429 original size:25 final size:26
Alignment explanation
Indices: 44367--44437 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
44357 TATATTAATA
* *
44367 ATTTATATTATA-TAAATTTTTATAT
1 ATTTATGTTATATTATATTTTTATAT
44392 ATTTATGTTATA-TATTATTTTTAT-T
1 ATTTATGTTATATTA-TATTTTTATAT
*
44417 ATTT-TTTTAATATTATATTTT
1 ATTTATGTT-ATATTATATTTT
44438 GTGTTATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 3 0.08
25 27 0.68
26 10 0.25
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (26 bp):
ATTTATGTTATATTATATTTTTATAT
Found at i:44901 original size:2 final size:2
Alignment explanation
Indices: 44894--44925 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
44884 TAAAATTATC
44894 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
44926 CTAAGAACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45050 original size:2 final size:2
Alignment explanation
Indices: 45043--45070 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45033 ACTAAACAAA
45043 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
45071 TAAAATCACG
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:45269 original size:27 final size:26
Alignment explanation
Indices: 45239--45289 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
45229 TTATTTAAAA
**
45239 TTTAAATATTTTTATTAAATAAATTAT
1 TTTAAATATTTAAATTAAA-AAATTAT
45266 TTTAAATATTTAAATTAAAAAATT
1 TTTAAATATTTAAATTAAAAAATT
45290 TTAATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTAAATATTTAAATTAAAAAATTAT
Found at i:45279 original size:18 final size:18
Alignment explanation
Indices: 45232--45282 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
45222 ATCATTTTTA
45232 TTTAAA-ATTTAAA-TAT
1 TTTAAATATTTAAATTAT
* * **
45248 TTTTATTAAATAAATTAT
1 TTTAAATATTTAAATTAT
45266 TTTAAATATTTAAATTA
1 TTTAAATATTTAAATTA
45283 AAAAATTTTA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
16 4 0.16
17 5 0.20
18 16 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATATTTAAATTAT
Found at i:45788 original size:16 final size:15
Alignment explanation
Indices: 45755--45820 Score: 51
Period size: 16 Copynumber: 4.2 Consensus size: 15
45745 AAATTAATAT
* * *
45755 TTTTAGTTTGGATCA
1 TTTTAATTTAGATTA
45770 TTTTAATTTCAGATTA
1 TTTTAATTT-AGATTA
* *
45786 TTTTGATTTTGAATTA
1 TTTTAATTTAG-ATTA
*
45802 TTTTGAGTTTAGATTA
1 TTTT-AATTTAGATTA
45818 TTT
1 TTT
45821 GGGTTTCGGT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
15 9 0.22
16 27 0.68
17 4 0.10
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTTAATTTAGATTA
Found at i:47208 original size:2 final size:2
Alignment explanation
Indices: 47201--47232 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47191 TAGCTAGGGT
47201 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
47233 CCCTTGCTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:47929 original size:2 final size:2
Alignment explanation
Indices: 47922--47961 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
47912 TCATAAACAA
* * *
47922 AT AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47962 GAAAAAACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:48122 original size:2 final size:2
Alignment explanation
Indices: 48115--48148 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
48105 TTAGCTAGAA
48115 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
48149 CCACCTCTTC
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):
AT
Found at i:50760 original size:2 final size:2
Alignment explanation
Indices: 50753--50791 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
50743 ACCAGATTAC
50753 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50792 CAGCCATGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:52381 original size:2 final size:2
Alignment explanation
Indices: 52374--52417 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
52364 GTTTTTGACA
*
52374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52416 AT
1 AT
52418 GTTTTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59480 original size:2 final size:2
Alignment explanation
Indices: 59473--59506 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
59463 CGTTTCACCC
59473 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
59507 TACTTCTGAA
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):
AT
Found at i:60146 original size:14 final size:14
Alignment explanation
Indices: 60129--60158 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60119 TAAATTACAT
60129 TAGATGGTATAGTA
1 TAGATGGTATAGTA
*
60143 TAGATGGTATGGTA
1 TAGATGGTATAGTA
60157 TA
1 TA
60159 AGAGATTTAA
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:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (14 bp):
TAGATGGTATAGTA
Found at i:63567 original size:11 final size:12
Alignment explanation
Indices: 63543--63570 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
63533 TTAAATATAT
63543 AAAAACTTTAAA
1 AAAAACTTTAAA
63555 AAAAACTTTAAA
1 AAAAACTTTAAA
63567 AAAA
1 AAAA
63571 TCAGTACATA
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:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAACTTTAAA
Found at i:64625 original size:15 final size:15
Alignment explanation
Indices: 64583--64643 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
64573 CATACGTTTG
*
64583 AATTAAGTTAAATTTA
1 AATTAA-TTTAATTTA
*
64599 AATT-TTTATAATTTA
1 AATTAATT-TAATTTA
64614 AATTAATTTAATTTA
1 AATTAATTTAATTTA
*
64629 CATTATTATTTAATT
1 AATTA--ATTTAATT
64644 AATAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
14 2 0.05
15 21 0.57
16 6 0.16
17 8 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
AATTAATTTAATTTA
Found at i:64656 original size:30 final size:29
Alignment explanation
Indices: 64622--64682 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
64612 TAAATTAATT
*
64622 TAATTTACA-TTATTATTTAATTAATAAAAA
1 TAATTTACATTTA-AATTTAATT-ATAAAAA
**
64652 TAATTTTTATTTAAATTTAATTATAAAAA
1 TAATTTACATTTAAATTTAATTATAAAAA
64681 TA
1 TA
64683 TATATTAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 9 0.33
30 15 0.56
31 3 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
TAATTTACATTTAAATTTAATTATAAAAA
Found at i:64697 original size:30 final size:30
Alignment explanation
Indices: 64636--64699 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
64626 TTACATTATT
* * **
64636 ATTTAATTAATAAAAATAATTTTTATTTAA
1 ATTTAATTAATAAAAATAATATTAACATAA
64666 ATTTAATT-ATAAAAATATATATTAACATAA
1 ATTTAATTAATAAAAATA-ATATTAACATAA
64696 ATTT
1 ATTT
64700 GTTATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTTAATTAATAAAAATAATATTAACATAA
Found at i:68953 original size:19 final size:19
Alignment explanation
Indices: 68921--68963 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
68911 TATTTAGTTT
68921 TAAATCTTTCAAATATTAAA
1 TAAATCTTTCAAAT-TTAAA
* *
68941 TAAA-CTTTTAAATTTGAA
1 TAAATCTTTCAAATTTAAA
68959 TAAAT
1 TAAAT
68964 AACTTGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAATCTTTCAAATTTAAA
Found at i:70262 original size:22 final size:22
Alignment explanation
Indices: 70186--70262 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
70176 AAAATATTAA
**
70186 ATATAAATTTTTTAAAAATAAT
1 ATATAAAAATTTTAAAAATAAT
* * *
70208 AAATAAATAATCTTTATATA-AAT
1 ATATAAA-AAT-TTTAAAAATAAT
* *
70231 CTTTAAAAATTTTAAAAATAAT
1 ATATAAAAATTTTAAAAATAAT
70253 ATATAAAAAT
1 ATATAAAAAT
70263 AAACTTAAAT
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
21 6 0.15
22 20 0.50
23 8 0.20
24 6 0.15
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATAAAAATTTTAAAAATAAT
Found at i:71044 original size:21 final size:21
Alignment explanation
Indices: 71002--71044 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
70992 TTTTTATTTC
* *
71002 ATTATTTTTTTTAATATACAT
1 ATTATTATTATTAATATACAT
* *
71023 ATTATTATTATTATTATTCAT
1 ATTATTATTATTAATATACAT
71044 A
1 A
71045 CATGCAGAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATTATTATTAATATACAT
Found at i:71391 original size:2 final size:2
Alignment explanation
Indices: 71384--71410 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71374 AATGAATCTA
71384 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
71411 ATAATAATTA
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:72269 original size:2 final size:2
Alignment explanation
Indices: 72262--72303 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
72252 AGTGTACGAA
72262 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
72304 GGTCTTATAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72605 original size:13 final size:13
Alignment explanation
Indices: 72574--72608 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
72564 TAAAATTTTT
72574 ATAATTTAA-AAA
1 ATAATTTAATAAA
*
72586 TTAATTTAATAAA
1 ATAATTTAATAAA
72599 ATAATTTAAT
1 ATAATTTAAT
72609 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATTTAATAAA
Found at i:76946 original size:29 final size:29
Alignment explanation
Indices: 76906--77099 Score: 81
Period size: 29 Copynumber: 6.7 Consensus size: 29
76896 AAAAATAATA
*
76906 ATATTAAAATTATATATTTAATAATTTAT
1 ATATTAATATTATATATTTAATAATTTAT
*
76935 ATATTAATATTAT-TTTTTACATTATATTTAT
1 ATATTAATATTATATATTTA-A-TA-ATTTAT
*
76966 -T-TTAAAATATTAT-TATTTATAAAAATTTTAAT
1 ATATT--AATATTATATA-TT-TAATAA-TTT-AT
* * *
76998 AAATTAATAATT-TATATTTGATAAATTAT
1 ATATTAAT-ATTATATATTTAATAATTTAT
* *
77027 A-A-TACATA-TATTATATTT-ATATTTTTT
1 ATATTA-ATATTA-TATATTTAATAATTTAT
* *
77054 ATATTATATATCATAT-TTTATTTAATTT-T
1 ATATTA-ATATTATATATTTA-ATAATTTAT
77083 ATA-TAATATT-TATATTT
1 ATATTAATATTATATATTT
77100 TTTAATTATG
Statistics
Matches: 127, Mismatches: 16, Indels: 46
0.67 0.08 0.24
Matches are distributed among these distances:
26 4 0.03
27 17 0.13
28 21 0.17
29 30 0.24
30 12 0.09
31 23 0.18
32 11 0.09
33 7 0.06
34 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.56
Consensus pattern (29 bp):
ATATTAATATTATATATTTAATAATTTAT
Found at i:76981 original size:16 final size:16
Alignment explanation
Indices: 76940--76989 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
76930 TTTATATATT
*
76940 AATATTATT-TTTTAC
1 AATATTATTATTTTAA
*
76955 ATTA-TATTTATTTTAA
1 AATATTA-TTATTTTAA
76971 AATATTATTATTTATAA
1 AATATTATTATTT-TAA
76988 AA
1 AA
76990 ATTTTAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 2 0.07
15 5 0.18
16 14 0.50
17 7 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATTATTATTTTAA
Found at i:77024 original size:32 final size:34
Alignment explanation
Indices: 76988--77050 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
76978 TTATTTATAA
*
76988 AAATTTTAATAAAT-TAATA-ATTTATATTTGAT
1 AAATTATAATAAATATAATATATTTATATTTGAT
* *
77020 AAATTATAATACATATATTATATTTATATTT
1 AAATTATAATAAATATAATATATTTATATTT
77051 TTTATATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 12 0.46
33 4 0.15
34 10 0.38
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (34 bp):
AAATTATAATAAATATAATATATTTATATTTGAT
Found at i:77056 original size:20 final size:21
Alignment explanation
Indices: 77033--77072 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
77023 TTATAATACA
*
77033 TATATTATAT-TTATATTTTT
1 TATATTATATATCATATTTTT
77053 TATATTATATATCATATTTT
1 TATATTATATATCATATTTT
77073 ATTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TATATTATATATCATATTTTT
Found at i:77060 original size:34 final size:32
Alignment explanation
Indices: 77007--77087 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 32
76997 TAAATTAATA
* *
77007 ATTTATATTTGATAAATTATA-ATACATATATTAT
1 ATTTATATTTTATATATTATATAT-CATAT-TT-T
*
77041 ATTTATATTTTTTATATTATATATCATATTTT
1 ATTTATATTTTATATATTATATATCATATTTT
77073 ATTTA-ATTTTATATA
1 ATTTATATTTTATATA
77088 ATATTTATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 9 0.21
32 6 0.14
33 2 0.05
34 23 0.55
35 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (32 bp):
ATTTATATTTTATATATTATATATCATATTTT
Found at i:77063 original size:22 final size:22
Alignment explanation
Indices: 77038--77108 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 22
77028 ATACATATAT
77038 TATATTTATATTTTTTATATTA
1 TATATTTATATTTTTTATATTA
* *
77060 TATA-TCATATTTTATTTAATTTTATA
1 TATATTTATA-TTT-TTT-A-TAT-TA
77086 TAATATTTATATTTTTTA-ATTA
1 T-ATATTTATATTTTTTATATTA
77108 T
1 T
77109 GTATCATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
21 4 0.11
22 10 0.26
23 4 0.11
24 1 0.03
25 3 0.08
26 6 0.16
27 6 0.16
28 4 0.11
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (22 bp):
TATATTTATATTTTTTATATTA
Found at i:77086 original size:17 final size:18
Alignment explanation
Indices: 77033--77100 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 18
77023 TTATAATACA
*
77033 TATATTATATTTATATTT
1 TATATAATATTTATATTT
*
77051 T-T-T-ATA-TTATATAT
1 TATATAATATTTATATTT
* **
77065 CATATTTTATTTA-ATTT
1 TATATAATATTTATATTT
77082 TATATAATATTTATATTT
1 TATATAATATTTATATTT
77100 T
1 T
77101 TTAATTATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
14 7 0.18
15 4 0.11
16 2 0.05
17 16 0.42
18 9 0.24
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATAATATTTATATTT
Found at i:77103 original size:26 final size:26
Alignment explanation
Indices: 77032--77120 Score: 105
Period size: 26 Copynumber: 3.5 Consensus size: 26
77022 ATTATAATAC
*
77032 ATATATTATATTTATATTTTTTATATT
1 ATATATCATATTTATATTTTTTA-ATT
77059 ATATATCATATTT-TA---TTTAATT
1 ATATATCATATTTATATTTTTTAATT
* *
77081 TTATATAATATTTATATTTTTTAATT
1 ATATATCATATTTATATTTTTTAATT
*
77107 ATGTATCATATTTA
1 ATATATCATATTTA
77121 AAATTATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
22 14 0.27
23 6 0.12
26 20 0.38
27 12 0.23
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (26 bp):
ATATATCATATTTATATTTTTTAATT
Found at i:77784 original size:20 final size:21
Alignment explanation
Indices: 77759--77810 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
77749 TAAATAAAAT
*
77759 AAATAATATTATTT-TATTTA
1 AAATAAAATTATTTATATTTA
77779 AAATAAAATTATTTATATTTA
1 AAATAAAATTATTTATATTTA
**
77800 AGTTAAAATTA
1 AAATAAAATTA
77811 ATATAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATAAAATTATTTATATTTA
Found at i:77825 original size:93 final size:93
Alignment explanation
Indices: 77715--77902 Score: 227
Period size: 93 Copynumber: 2.0 Consensus size: 93
77705 TAATATAGAG
* ** *
77715 TTAATATAAAATTTATTTATATTTGATGTGGTGATAAATAAAATAAATAATATTAT-TTTATTTA
1 TTAATATAAAATTTATTTATATTTAATGAAGTGATAAATAAAATAAATAATATTATCTTT-TTAA
77779 AAATAAAATTATTTATATTTAAGTTAAAA
65 AAATAAAATTATTTATATTTAAGTTAAAA
* * * * *
77808 TTAATAT-AAATTGTATTTATATTTAATGAATTGATAAGTGAAATAAATGATGTTATCTTTTTAA
1 TTAATATAAAATT-TATTTATATTTAATGAAGTGATAAATAAAATAAATAATATTATCTTTTTAA
* * * *
77872 AAATAAATTTATTTTTATTTAATTTTAAA
65 AAATAAAATTATTTATATTTAAGTTAAAA
77901 TT
1 TT
77903 TTTTTGATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
92 5 0.06
93 72 0.90
94 3 0.04
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (93 bp):
TTAATATAAAATTTATTTATATTTAATGAAGTGATAAATAAAATAAATAATATTATCTTTTTAAA
AATAAAATTATTTATATTTAAGTTAAAA
Found at i:78408 original size:33 final size:31
Alignment explanation
Indices: 78343--78417 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 31
78333 TTATATATCA
* *
78343 CATATATATATAAATTTTGATTTATTAATATT
1 CATAT-TATATAAATTTTAATATATTAATATT
*
78375 CATATTATATAAATTTTAATATATTTATGTATT
1 CATATTATATAAATTTTAATATA-TTA-ATATT
*
78408 CGTATTATAT
1 CATATTATAT
78418 TAGTATTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 16 0.43
32 8 0.22
33 13 0.35
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (31 bp):
CATATTATATAAATTTTAATATATTAATATT
Found at i:78432 original size:17 final size:17
Alignment explanation
Indices: 78412--78447 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
78402 TGTATTCGTA
78412 TTATATTAGTATTAT-TT
1 TTATATTA-TATTATATT
78429 TTATATTATATTATATT
1 TTATATTATATTATATT
78446 TT
1 TT
78448 TTTATTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATATTATATTATATT
Found at i:78445 original size:27 final size:27
Alignment explanation
Indices: 78410--78464 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
78400 TATGTATTCG
78410 TATTATATTAGTATTATTTTT-ATATTA
1 TATTATATT-GTATTATTTTTCATATTA
* *
78437 TATTATATTTTTTTATTTTTCATATTA
1 TATTATATTGTATTATTTTTCATATTA
78464 T
1 T
78465 GTCTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
TATTATATTGTATTATTTTTCATATTA
Found at i:78464 original size:22 final size:21
Alignment explanation
Indices: 78410--78452 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
78400 TATGTATTCG
78410 TATTATATTAGTATTATTTTTA
1 TATTATATTA-TATTATTTTTA
78432 TATTATATTATATT-TTTTTA
1 TATTATATTATATTATTTTTA
78452 T
1 T
78453 TTTTCATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.33
21 4 0.19
22 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTATATTATATTATTTTTA
Found at i:78749 original size:6 final size:6
Alignment explanation
Indices: 78738--78790 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
78728 TGCATTCGTG
78738 TTATAT TTATA- TTA-AT TTATAT TTATA- TTATATT TTATAT TTATA-
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATA-T TTATAT TTATAT
78783 TTATAT TT
1 TTATAT TT
78791 TAAAATTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
4 1 0.02
5 16 0.38
6 20 0.48
7 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATAT
Found at i:78776 original size:12 final size:12
Alignment explanation
Indices: 78738--78820 Score: 59
Period size: 12 Copynumber: 7.1 Consensus size: 12
78728 TGCATTCGTG
78738 TTATA-TTTATA
1 TTATATTTTATA
78749 TTA-A-TTTATA
1 TTATATTTTATA
*
78759 TT-TATATTATA
1 TTATATTTTATA
*
78770 TTTTATATTTATA
1 TTATAT-TTTATA
*
78783 TTATATTTTAAAA
1 TTATATTTT-ATA
*
78796 TT-TATTTTAAAA
1 TTATATTTT-ATA
*
78808 TAATATTTTATA
1 TTATATTTTATA
78820 T
1 T
78821 AATTTATCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
10 10 0.17
11 10 0.17
12 20 0.33
13 20 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATATTTTATA
Found at i:78776 original size:18 final size:18
Alignment explanation
Indices: 78738--78792 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
78728 TGCATTCGTG
78738 TTATATTTATATTA-A-T
1 TTATATTTATATTATATT
78754 TTATATTTATATTATATT
1 TTATATTTATATTATATT
78772 TTATATTTATATTATATT
1 TTATATTTATATTATATT
78790 TTA
1 TTA
78793 AAATTTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.38
17 1 0.03
18 22 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATATTTATATTATATT
Found at i:79473 original size:31 final size:30
Alignment explanation
Indices: 79436--79493 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
79426 AGATATCTAA
*
79436 TGATATTGATTGA-GTAATATTATTAATTAAT
1 TGATATTAATTGATG-AA-ATTATTAATTAAT
79467 TGATATTAATTGATGAAATTATTAATT
1 TGATATTAATTGATGAAATTATTAATT
79494 TTTTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 10 0.40
31 14 0.56
32 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (30 bp):
TGATATTAATTGATGAAATTATTAATTAAT
Found at i:80952 original size:23 final size:23
Alignment explanation
Indices: 80912--80955 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
80902 ATATAAAAAA
80912 ATAATTTTTAAATCTAAAATTAC
1 ATAATTTTTAAATCTAAAATTAC
*
80935 ATAATTTATTAGAT-TAAAATT
1 ATAATTT-TTAAATCTAAAATT
80956 TAGACTCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (23 bp):
ATAATTTTTAAATCTAAAATTAC
Found at i:81495 original size:3 final size:3
Alignment explanation
Indices: 81487--81521 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
81477 CTTCTTTTAT
81487 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
81522 TAGTCAGGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:82534 original size:2 final size:2
Alignment explanation
Indices: 82523--82551 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
82513 AATATTGCTC
82523 AT AT -T 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
82552 CATAAAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:86329 original size:27 final size:27
Alignment explanation
Indices: 86299--86359 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
86289 TTGATTTGGC
* *
86299 ATGAAGACAGA-GACTCTGATGAAGAAG
1 ATGAAGAC-GACGACTATGAGGAAGAAG
86326 ATGACA-ACGACGACTATGAGGAAGAAG
1 ATGA-AGACGACGACTATGAGGAAGAAG
*
86353 AGGAAGA
1 ATGAAGA
86360 GGAAGAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 3 0.11
27 24 0.86
28 1 0.04
ACGTcount: A:0.46, C:0.11, G:0.31, T:0.11
Consensus pattern (27 bp):
ATGAAGACGACGACTATGAGGAAGAAG
Found at i:87189 original size:23 final size:24
Alignment explanation
Indices: 87155--87201 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
87145 TAATTATGTA
87155 ATTTTTATATTTTATTT-ATATCAT
1 ATTTTTATA-TTTATTTGATATCAT
87179 ATTTTTA-ATTTATTTGATATCAT
1 ATTTTTATATTTATTTGATATCAT
87202 CAGTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.32
23 8 0.36
24 7 0.32
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (24 bp):
ATTTTTATATTTATTTGATATCAT
Found at i:88070 original size:33 final size:33
Alignment explanation
Indices: 88028--88096 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
88018 ACTAAAACTG
*
88028 TGTCTTGGTGCTTAACAATCTGGAGCCAGAATA
1 TGTCTTGGTGCTTAACAATCTGGAGCCAGAAAA
88061 TGTCTTGGTGCTTAACAATCTGGAGCCAGAAAA
1 TGTCTTGGTGCTTAACAATCTGGAGCCAGAAAA
88094 TGT
1 TGT
88097 GTGAAATTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (33 bp):
TGTCTTGGTGCTTAACAATCTGGAGCCAGAAAA
Found at i:90061 original size:18 final size:18
Alignment explanation
Indices: 90034--90070 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
90024 TATATTATAT
*
90034 AAAATTAAAAATTAATTA
1 AAAATAAAAAATTAATTA
*
90052 AAAATAAAAAATTATTTA
1 AAAATAAAAAATTAATTA
90070 A
1 A
90071 TTTGGCTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATAAAAAATTAATTA
Found at i:91150 original size:14 final size:14
Alignment explanation
Indices: 91131--91157 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91121 TTTTTCCTTA
91131 AAAGAGACTTTTTG
1 AAAGAGACTTTTTG
91145 AAAGAGACTTTTT
1 AAAGAGACTTTTT
91158 TTTGGTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (14 bp):
AAAGAGACTTTTTG
Found at i:95925 original size:26 final size:25
Alignment explanation
Indices: 95884--95953 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
95874 GATCTTGTTC
*
95884 ATTTTATAATTATATAATATATAT-TA
1 ATTTTATATTTATAT-ATAT-TATGTA
*
95910 ATTTTATATTTTTATATATTATGTA
1 ATTTTATATTTATATATATTATGTA
* *
95935 ATTTT-TATATAAATATATT
1 ATTTTATATTTATATATATT
95954 TAATATTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
24 14 0.37
25 11 0.29
26 13 0.34
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (25 bp):
ATTTTATATTTATATATATTATGTA
Found at i:100817 original size:28 final size:28
Alignment explanation
Indices: 100786--100840 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
100776 TCTACTTTAG
* *
100786 ATATTTTCTTATTAAGATAAGCTTATCT
1 ATATTGTCTTATTAAGATAAACTTATCT
100814 ATATTGTCTTATTAAGATAAACTTATC
1 ATATTGTCTTATTAAGATAAACTTATC
100841 CATAGTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (28 bp):
ATATTGTCTTATTAAGATAAACTTATCT
Found at i:101416 original size:22 final size:22
Alignment explanation
Indices: 101382--101425 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
101372 ATCGGTGAAA
*
101382 TCTTTTAGAAATCCCTAACTTC
1 TCTTTTACAAATCCCTAACTTC
* **
101404 TCTTTTACTAATCTTTAACTTC
1 TCTTTTACAAATCCCTAACTTC
101426 CCTGCTATAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.02, T:0.48
Consensus pattern (22 bp):
TCTTTTACAAATCCCTAACTTC
Found at i:104848 original size:218 final size:218
Alignment explanation
Indices: 104457--104888 Score: 693
Period size: 218 Copynumber: 2.0 Consensus size: 218
104447 ATAGACAAGA
* * * *
104457 AAAAGGTAATTAATGTGTTGTTTTTAGTCACATATGTAATTCAATACTGATTTTTTTAAGTCACT
1 AAAAGATAATTAATGTGTTGTCTTTAGTCACATATGTAATTAAATACTAATTTTTTTAAGTCACT
* * * *
104522 TTTATTTGTTAGTTTATTTTTTTCTAGGGATTATGTGAAACATTAAAGGATGTATTTCCTAATGC
66 TTTAGTTGTTAGTTTATCTTTTTCTAGGGATTATGTGAAACACTAAAGGATATATTTCCTAATGC
* * * *
104587 TATGTATAGAGGATGTGCAAGACATTTGTATACTAATTTCAAAGGTGAATCCTGGACTTCAACTA
131 TACGCATAGAGGATGTGCAAGACATTTGTATACTAACTTCAAAGGTGAATCCTAGACTTCAACTA
104652 AGGTTTGAGTTCTAGAAAGCAAC
196 AGGTTTGAGTTCTAGAAAGCAAC
104675 AAAAGATAATTAATGTGTTGTCTTTAGTCACATATGTAATTAAATACTAATTTTTTTAAGTCACT
1 AAAAGATAATTAATGTGTTGTCTTTAGTCACATATGTAATTAAATACTAATTTTTTTAAGTCACT
* *
104740 TTTAGTTGTTGGTTTATCTTTTTCTAGGGATTGTGTGAAACACTAAAGGATATATTTCCTAATGC
66 TTTAGTTGTTAGTTTATCTTTTTCTAGGGATTATGTGAAACACTAAAGGATATATTTCCTAATGC
* * *
104805 TACGCATAGAGGATGTGTAAGATATTTGTATGCTAACTTCAAAGGTGAATCCTAGACTTCAACTA
131 TACGCATAGAGGATGTGCAAGACATTTGTATACTAACTTCAAAGGTGAATCCTAGACTTCAACTA
* *
104870 AGTTTTGAGTTTTAGAAAG
196 AGGTTTGAGTTCTAGAAAG
104889 TAGCAAAGAC
Statistics
Matches: 195, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
218 195 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (218 bp):
AAAAGATAATTAATGTGTTGTCTTTAGTCACATATGTAATTAAATACTAATTTTTTTAAGTCACT
TTTAGTTGTTAGTTTATCTTTTTCTAGGGATTATGTGAAACACTAAAGGATATATTTCCTAATGC
TACGCATAGAGGATGTGCAAGACATTTGTATACTAACTTCAAAGGTGAATCCTAGACTTCAACTA
AGGTTTGAGTTCTAGAAAGCAAC
Found at i:107038 original size:21 final size:21
Alignment explanation
Indices: 106992--107054 Score: 56
Period size: 23 Copynumber: 2.9 Consensus size: 21
106982 TAATTATCTG
* *
106992 ATTTT-TTATATAAAAACTACTC
1 ATTTTCTTATTTAAAAA--ACTA
107014 ATTTTCTTATTTAAAAAACTA
1 ATTTTCTTATTTAAAAAACTA
*
107035 ATTTTTCATTTTTTAAAAAA
1 A-TTTTC-TTATTTAAAAAA
107055 ACTATCAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 4 0.11
22 10 0.29
23 21 0.60
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTCTTATTTAAAAAACTA
Found at i:107053 original size:24 final size:25
Alignment explanation
Indices: 106992--107058 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
106982 TAATTATCTG
*
106992 ATTTTTTATATAAAAACTACTCATTTTC
1 ATTTTTTA-A-AAAAACTAAT-ATTTTC
*
107020 -TTATTT-AAAAAACTAAT-TTTTC
1 ATTTTTTAAAAAAACTAATATTTTC
107042 ATTTTTTAAAAAAACTA
1 ATTTTTTAAAAAAACTA
107059 TCAATCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 5 0.15
23 5 0.15
24 18 0.53
25 1 0.03
27 5 0.15
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTTTTTAAAAAAACTAATATTTTC
Found at i:107856 original size:22 final size:20
Alignment explanation
Indices: 107820--107889 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 20
107810 TACTCTCTCC
107820 TTTTTTTCATGTTTTTTCCTTCT
1 TTTTTTTC-T-TTTTTT-CTTCT
*
107843 TTTTTTTCGTTTTTCTTTTTC-
1 TTTTTTTC-TTTTT-TTCTTCT
* *
107864 TTTGTTTCTTTCTTTCTTCT
1 TTTTTTTCTTTTTTTCTTCT
107884 TTTTTT
1 TTTTTT
107890 GTTTCTCTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
19 5 0.13
20 9 0.23
21 7 0.18
22 7 0.18
23 11 0.28
ACGTcount: A:0.01, C:0.16, G:0.04, T:0.79
Consensus pattern (20 bp):
TTTTTTTCTTTTTTTCTTCT
Found at i:107861 original size:25 final size:25
Alignment explanation
Indices: 107833--107900 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
107823 TTTTCATGTT
*
107833 TTTTCCTTCT-TTTTTTTCGTTT-TTC
1 TTTTCCTT-TGTTTCTTTC-TTTCTTC
*
107858 TTTTTCTTTGTTTCTTTCTTTCTTC
1 TTTTCCTTTGTTTCTTTCTTTCTTC
107883 TTTT--TTTGTTTCTCTTCT
1 TTTTCCTTTGTTTCT-TTCT
107901 ACTTTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 9 0.24
24 8 0.21
25 21 0.55
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.76
Consensus pattern (25 bp):
TTTTCCTTTGTTTCTTTCTTTCTTC
Done.