Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold226
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: 1170647
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 4 of 8
Found at i:343878 original size:20 final size:19
Alignment explanation
Indices: 343818--343879 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 19
343808 ATAACTTAAT
343818 TATAAAAATATATAAATATTAA
1 TATAAAAATA-ATAAA-A-TAA
* **
343840 TATAAAAAATATTTCAATAA
1 TAT-AAAAATAATAAAATAA
343860 TATAATAAATAATAAAATAA
1 TATAA-AAATAATAAAATAA
343880 ATTTTTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
19 2 0.06
20 17 0.53
21 1 0.03
22 5 0.16
23 7 0.22
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
TATAAAAATAATAAAATAA
Found at i:343950 original size:31 final size:30
Alignment explanation
Indices: 343902--343959 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
343892 AATCCGACTT
* *
343902 TAATCTAAAAATTATAAAA-AAATATTTCAA
1 TAATATAAAAATAATAAAATAAA-ATTTCAA
343932 TAATATAATAAATAATAAAATAAAATTT
1 TAATATAA-AAATAATAAAATAAAATTT
343960 TAAACCCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.29
31 14 0.58
32 3 0.12
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (30 bp):
TAATATAAAAATAATAAAATAAAATTTCAA
Found at i:343983 original size:74 final size:75
Alignment explanation
Indices: 343838--344004 Score: 277
Period size: 75 Copynumber: 2.3 Consensus size: 75
343828 TATAAATATT
* *
343838 AATAT-AAAAAATATTTCAATAATATAATAAATAATAAAATAAATTTTTGAATCCAATCCGACTT
1 AATATAAAAAAATATTTCAATAATATAATAAATAATAAAATAAAATTTTGAAACCAATCCGACTT
343902 TAATCTAAAA
66 TAATCTAAAA
* *
343912 ATTATAAAAAAATATTTCAATAATATAATAAATAATAAAATAAAATTTT-AAACCCATCCGACTT
1 AATATAAAAAAATATTTCAATAATATAATAAATAATAAAATAAAATTTTGAAACCAATCCGACTT
343976 TAATCTAAAA
66 TAATCTAAAA
343986 AATATAAAAAAA-ATTTCAA
1 AATATAAAAAAATATTTCAA
344005 ATCAAAATTT
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
73 7 0.08
74 38 0.44
75 42 0.48
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (75 bp):
AATATAAAAAAATATTTCAATAATATAATAAATAATAAAATAAAATTTTGAAACCAATCCGACTT
TAATCTAAAA
Found at i:344263 original size:38 final size:37
Alignment explanation
Indices: 344194--344281 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
344184 ATAAATTATT
* **
344194 AATAAAT-TAAATAATATTATTTTATTAAAAATTTTAA
1 AATAAATATAAATAATATTATTTTAATAAAAATGAT-A
*
344231 AATAAATATAAATAATTTTATTCTTAAT-AAAATGATA
1 AATAAATATAAATAATATTATT-TTAATAAAAATGATA
344268 AATCAAATATAAAT
1 AAT-AAATATAAAT
344282 CTGTTATAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
37 11 0.25
38 29 0.66
39 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (37 bp):
AATAAATATAAATAATATTATTTTAATAAAAATGATA
Found at i:346213 original size:36 final size:36
Alignment explanation
Indices: 346173--346274 Score: 161
Period size: 36 Copynumber: 2.8 Consensus size: 36
346163 CAATATGATT
346173 ATTATATTTATAATTATAATAAATATAATAACATCC
1 ATTATATTTATAATTATAATAAATATAATAACATCC
* **
346209 ATTATATTTACAATTATAATAAATATAATAACATTT
1 ATTATATTTATAATTATAATAAATATAATAACATCC
346245 ATTATATTTAT-ATTCATAATAAATATAATA
1 ATTATATTTATAATT-ATAATAAATATAATA
346275 CGATTGAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 3 0.05
36 58 0.95
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (36 bp):
ATTATATTTATAATTATAATAAATATAATAACATCC
Found at i:346359 original size:6 final size:6
Alignment explanation
Indices: 346348--346378 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
346338 TCTTGCATCT
346348 TGGTCA TGGTCA TGGTCA TGGTCA TGAGTCA
1 TGGTCA TGGTCA TGGTCA TGGTCA TG-GTCA
346379 AGACTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.32
Consensus pattern (6 bp):
TGGTCA
Found at i:357228 original size:20 final size:21
Alignment explanation
Indices: 357193--357234 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 21
357183 AAATTTTAAA
357193 ATATTATTTTATATTAATATTT
1 ATATTATTTTATATTAA-ATTT
357215 ATATT-TTTTA-ATTAAATTT
1 ATATTATTTTATATTAAATTT
357234 A
1 A
357235 AATAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
21 5 0.25
22 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATTATTTTATATTAAATTT
Found at i:357904 original size:20 final size:20
Alignment explanation
Indices: 357858--357931 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 20
357848 TCATACCCTG
* * *
357858 ATGTATCGATGCATTTTTCA
1 ATGTATCGATACATGTATCA
* *
357878 ATATATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
* *
357898 ATGTATCGATATAT-TCTACA
1 ATGTATCGATACATGTAT-CA
*
357918 ATGTACCGATACAT
1 ATGTATCGATACAT
357932 TATGTCTTTT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 2 0.05
20 40 0.95
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:361984 original size:19 final size:20
Alignment explanation
Indices: 361946--361985 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
361936 GGTTTAAATT
*
361946 AAAATAATTTTAAGTGTTAA
1 AAAATAATTTTAAGTATTAA
*
361966 AAAATATTTTTAA-TATTAA
1 AAAATAATTTTAAGTATTAA
361985 A
1 A
361986 TACGTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
AAAATAATTTTAAGTATTAA
Found at i:362605 original size:2 final size:2
Alignment explanation
Indices: 362598--362626 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
362588 ATATACGGAC
362598 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
362627 TTTTTAAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:362765 original size:18 final size:18
Alignment explanation
Indices: 362731--362799 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
362721 TTGAAAGAAA
*
362731 TTTAAATAAATATATTTAG
1 TTTAAA-AAATAAATTTAG
362750 TTTAAAAAATAAATTTAAG
1 TTTAAAAAATAAATTT-AG
*
362769 --TAAAAAAAAAGATTT-G
1 TTTAAAAAATAA-ATTTAG
*
362785 TTTAAAAATTAAATT
1 TTTAAAAAATAAATT
362800 AACTTTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 1 0.02
17 12 0.29
18 21 0.50
19 8 0.19
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
TTTAAAAAATAAATTTAG
Found at i:362959 original size:28 final size:31
Alignment explanation
Indices: 362928--362990 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
362918 TATGTTAAAC
* *
362928 TATTTATATT-TT-AAAATTTAATAAAAA-A
1 TATTTAAATTATTAAAAATTAAATAAAAATA
362956 TA-TTAAATTATTAAAAATTAAATAAAAATA
1 TATTTAAATTATTAAAAATTAAATAAAAATA
362986 TATTT
1 TATTT
362991 TTTAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 6 0.21
28 4 0.14
29 14 0.48
30 3 0.10
31 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
TATTTAAATTATTAAAAATTAAATAAAAATA
Found at i:363404 original size:20 final size:19
Alignment explanation
Indices: 363376--363471 Score: 61
Period size: 20 Copynumber: 4.8 Consensus size: 19
363366 AATTTAGTTT
*
363376 AAATTATTATTTAATAATAA
1 AAATAATTATTTAAT-ATAA
* *
363396 AAATAATTATTTTATTTAAA
1 AAATAATTATTTAATAT-AA
*
363416 AAATAAATAAATATTAATATAA
1 AAAT-AAT-TAT-TTAATATAA
363438 AAATAA-TATTTTAATA-ATA
1 AAATAATTA-TTTAATATA-A
* *
363457 TAATAAATATTTAAT
1 AAATAATTATTTAAT
363472 TGATGGATCC
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
18 1 0.02
19 20 0.33
20 22 0.36
21 5 0.08
22 8 0.13
23 5 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATAATTATTTAATATAA
Found at i:363410 original size:25 final size:24
Alignment explanation
Indices: 363382--363430 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
363372 GTTTAAATTA
*
363382 TTATTTAATAATAA-AAATAATTATT
1 TTATTTAA-AA-AATAAATAAATATT
363407 TTATTTAAAAAATAAATAAATATT
1 TTATTTAAAAAATAAATAAATATT
363431 AATATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 2 0.09
24 12 0.55
25 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTATTTAAAAAATAAATAAATATT
Found at i:363430 original size:19 final size:19
Alignment explanation
Indices: 363408--363470 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
363398 ATAATTATTT
*
363408 TATTTAAAAAATAAATAAA
1 TATTTAAATAATAAATAAA
363427 TA-TTAATATAA-AAAT-AA
1 TATTTAA-ATAATAAATAAA
*
363444 TATTTTAATAATATAATAAA
1 TATTTAAATAATA-AATAAA
363464 TATTTAA
1 TATTTAA
363471 TTGATGGATC
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
17 8 0.22
18 12 0.33
19 8 0.22
20 8 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTTAAATAATAAATAAA
Found at i:363471 original size:19 final size:19
Alignment explanation
Indices: 363408--363471 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
363398 ATAATTATTT
*
363408 TATTTAA-AAAATAAATAAA
1 TATTTAATAATAT-AATAAA
*
363427 TA-TTAAT-ATA-AAAATAA
1 TATTTAATAATATAATA-AA
363444 TATTTTAATAATATAATAAA
1 TA-TTTAATAATATAATAAA
363464 TATTTAAT
1 TATTTAAT
363472 TGATGGATCC
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
16 3 0.08
17 4 0.11
18 6 0.17
19 13 0.36
20 7 0.19
21 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TATTTAATAATATAATAAA
Found at i:365050 original size:16 final size:15
Alignment explanation
Indices: 365013--365059 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
365003 TAAATAGTAA
365013 AATAAATTTT-TTAT
1 AATAAATTTTATTAT
365027 AATTTAAATTTTATATAT
1 AA--TAAATTTTAT-TAT
*
365045 AATAAATATTATTAT
1 AATAAATTTTATTAT
365060 TATCAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 2 0.07
15 3 0.11
16 17 0.61
17 1 0.04
18 5 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATAAATTTTATTAT
Found at i:365101 original size:13 final size:13
Alignment explanation
Indices: 365071--365109 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
365061 ATCAATTATG
*
365071 ATAAATATAAATT
1 ATAAATATAAATA
*
365084 GTAAATATAAATA
1 ATAAATATAAATA
365097 ATAAATA-AAATA
1 ATAAATATAAATA
365109 A
1 A
365110 GAACTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
ATAAATATAAATA
Found at i:366858 original size:25 final size:25
Alignment explanation
Indices: 366813--366860 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
366803 AAATTTACTA
*
366813 TTAATTTTATATAAATCATAAATAT
1 TTAATTTTATATAAATAATAAATAT
*
366838 TTAATTTTAT-TACATTAATAAAT
1 TTAATTTTATATA-AATAATAAAT
366861 TAAATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAATTTTATATAAATAATAAATAT
Found at i:367063 original size:22 final size:23
Alignment explanation
Indices: 367028--367072 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
367018 ACTTATGTTA
367028 TTTAATTTATTAA-TAATAAAAA
1 TTTAATTTATTAATTAATAAAAA
367050 TTTAA-TTATATAATTTAATAAAA
1 TTTAATTTAT-TAA-TTAATAAAA
367073 TTAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 8 0.40
24 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTAATTTATTAATTAATAAAAA
Found at i:367064 original size:30 final size:30
Alignment explanation
Indices: 367025--367083 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
367015 TTAACTTATG
* *
367025 TTATTTAATTTATTAATAA-TAAAAATTTAA
1 TTATATAATTTAATAA-AATTAAAAATTTAA
367055 TTATATAATTTAATAAAATTAAAAATTTA
1 TTATATAATTTAATAAAATTAAAAATTTA
367084 TGATTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TTATATAATTTAATAAAATTAAAAATTTAA
Found at i:367089 original size:24 final size:26
Alignment explanation
Indices: 367053--367101 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
367043 ATAAAAATTT
367053 AATTATATAATTTA-ATAAAATTAAA
1 AATTATATAATTTATATAAAATTAAA
*
367078 AATT-TATGATTTATATAAAATTAA
1 AATTATATAATTTATATAAAATTAA
367102 TATTAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
AATTATATAATTTATATAAAATTAAA
Found at i:367474 original size:20 final size:20
Alignment explanation
Indices: 367451--367490 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
367441 TATAAAATAT
367451 TATTTTAT-ATTAATATTTAA
1 TATTTTATAATTAA-ATTTAA
367471 TATTTTATAATTAAATTTAA
1 TATTTTATAATTAAATTTAA
367491 AATAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTTATAATTAAATTTAA
Found at i:367579 original size:2 final size:2
Alignment explanation
Indices: 367572--367627 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
367562 TATAATGCTC
* * *
367572 TA TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA AA TA CA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
367612 TA T- TG TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
367628 TATTTATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:373800 original size:18 final size:18
Alignment explanation
Indices: 373779--373834 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
373769 AATTTTAAGA
373779 TATATATTAATATTTTAT
1 TATATATTAATATTTTAT
*
373797 TATATTTTAATAATTTTA-
1 TATATATTAAT-ATTTTAT
*
373815 TAAATA-TAATATTTATAT
1 TATATATTAATATTT-TAT
373833 TA
1 TA
373835 ATTAAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.12
17 6 0.19
18 16 0.50
19 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATATTAATATTTTAT
Found at i:380526 original size:27 final size:27
Alignment explanation
Indices: 380496--380574 Score: 79
Period size: 32 Copynumber: 2.7 Consensus size: 27
380486 AATAATCATG
380496 TTTAAGATATTATATATTTATATAAAT
1 TTTAAGATATTATATATTTATATAAAT
*
380523 TTTAATATATTAATAATTTATATTATATAAAT
1 TTTAAGATATT-AT-A--TAT-TTATATAAAT
380555 TTTGACAGAT-TTATATATTT
1 TTT-A-AGATATTATATATTT
380575 TTATTGTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
27 10 0.23
28 4 0.09
29 4 0.09
31 4 0.09
32 15 0.35
33 3 0.07
34 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (27 bp):
TTTAAGATATTATATATTTATATAAAT
Found at i:380622 original size:17 final size:18
Alignment explanation
Indices: 380584--380622 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
380574 TTTATTGTAT
*
380584 TTATTTTATTTTATATTA
1 TTATTATATTTTATATTA
380602 -TATTATATTTTA-ATTA
1 TTATTATATTTTATATTA
380618 TTATT
1 TTATT
380623 TTACGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTATATTTTATATTA
Found at i:381048 original size:25 final size:24
Alignment explanation
Indices: 380991--381051 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
380981 AACAGATTTT
380991 TATTTAAAT-TTAATTATAAAAAA
1 TATTTAAATATTAATTATAAAAAA
*
381014 TATATAAATATTAA-TATAAAAATAA
1 TATTTAAATATTAATTAT-AAAA-AA
*
381039 TATTTTAATATTA
1 TATTTAAATATTA
381052 TTTTAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 11 0.34
24 8 0.25
25 13 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TATTTAAATATTAATTATAAAAAA
Found at i:382144 original size:19 final size:18
Alignment explanation
Indices: 382122--382220 Score: 58
Period size: 17 Copynumber: 5.1 Consensus size: 18
382112 TAATAATATT
382122 ATATTATATAAATATATAA
1 ATATTAT-TAAATATATAA
*
382141 ATATT-TTAAATTTATATA
1 ATATTATTAAATATATA-A
382159 ATATCGTATTAAAATTAATATAAA
1 ATAT--TATT-AAA-T-ATAT-AA
* * *
382183 ATATCATAAAAAATAT-A
1 ATATTATTAAATATATAA
*
382200 ATATAATTTAAATATATAA
1 ATATTA-TTAAATATATAA
382219 AT
1 AT
382221 TACAAGATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
17 15 0.24
18 14 0.23
19 12 0.19
20 1 0.02
21 5 0.08
22 5 0.08
23 1 0.02
24 8 0.13
25 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (18 bp):
ATATTATTAAATATATAA
Found at i:383047 original size:34 final size:33
Alignment explanation
Indices: 383009--383072 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
382999 TTAATTTTAC
*
383009 TTAATTAAATT-TATATAAAAATAATTATTTAAAT
1 TTAATTAAATTAAATA-AAAAATAATT-TTTAAAT
*
383043 TTAATTTAATTAAATAAAAAATAATTTTTA
1 TTAATTAAATTAAATAAAAAATAATTTTTA
383073 TTTTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 4 0.15
34 20 0.74
35 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (33 bp):
TTAATTAAATTAAATAAAAAATAATTTTTAAAT
Found at i:383151 original size:3 final size:3
Alignment explanation
Indices: 383143--383184 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
383133 TTGCTCTCTC
383143 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
383185 ATTCTCCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:383490 original size:15 final size:15
Alignment explanation
Indices: 383470--383522 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
383460 ACATAATTTT
383470 ATTTATTAAATTAAA
1 ATTTATTAAATTAAA
383485 ATTTA-TAATATT--A
1 ATTTATTAA-ATTAAA
*
383498 ATATATTAAA-TATAA
1 ATTTATTAAATTA-AA
383513 ATTTATTAAA
1 ATTTATTAAA
383523 AAAACATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
12 1 0.03
13 6 0.19
14 6 0.19
15 18 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTATTAAATTAAA
Found at i:384360 original size:13 final size:14
Alignment explanation
Indices: 384342--384391 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
384332 ATGAAATAAA
*
384342 ATAAATATATTTAT
1 ATAAATATATTAAT
*
384356 A-AAATTTATATAAT
1 ATAAATATAT-TAAT
384370 ATAAAT-TATTAAT
1 ATAAATATATTAAT
384383 ATAAATATA
1 ATAAATATA
384392 AAATATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 17 0.55
14 10 0.32
15 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAAATATATTAAT
Found at i:384373 original size:5 final size:5
Alignment explanation
Indices: 384363--384441 Score: 58
Period size: 5 Copynumber: 16.0 Consensus size: 5
384353 TATAAAATTT
* * * *
384363 ATATA ATATA A-ATT AT-TA ATATAA ATATA AAATA TTTTAA ATATA ATTATA
1 ATATA ATATA ATATA ATATA ATAT-A ATATA ATATA ATAT-A ATATA A-TATA
*
384414 ATATA ATAAA ATAT- ATA-A ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA
384442 TATGTATAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
4 12 0.21
5 32 0.56
6 13 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:384374 original size:16 final size:16
Alignment explanation
Indices: 384353--384408 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
384343 TAAATATATT
384353 TATAAAATTTATATAA
1 TATAAAATTTATATAA
*
384369 TATAAATTATTAATATAAA
1 TATAAA--ATTTATAT-AA
*
384388 TATAAAATATTTTA-AA
1 TATAAAAT-TTATATAA
384404 TATAA
1 TATAA
384409 TTATAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
16 13 0.39
17 2 0.06
18 10 0.30
19 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAAAATTTATATAA
Found at i:384392 original size:35 final size:33
Alignment explanation
Indices: 384353--384443 Score: 102
Period size: 35 Copynumber: 2.8 Consensus size: 33
384343 TAAATATATT
384353 TATAAAAT-TTATATAATATAAATTATTAATATAAA
1 TATAAAATATTATA-AATAT-AATTA-TAATATAAA
*
384388 TATAAAATATTTTAAATATAATTATAATAT--A
1 TATAAAATATTATAAATATAATTATAATATAAA
384419 -ATAAAATA-TATAAATATAATATATA
1 TATAAAATATTATAAATATAAT-TATA
384444 TGTATAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
29 11 0.21
30 12 0.23
31 1 0.02
33 6 0.12
34 5 0.10
35 13 0.25
36 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
TATAAAATATTATAAATATAATTATAATATAAA
Found at i:384396 original size:13 final size:13
Alignment explanation
Indices: 384362--384480 Score: 55
Period size: 13 Copynumber: 8.6 Consensus size: 13
384352 TTATAAAATT
*
384362 TATATAATATAAA
1 TATAAAATATAAA
*
384375 T-TATTAATATAAA
1 TATA-AAATATAAA
384388 TATAAAATATTTTAAA
1 TATAAAATA---TAAA
*
384404 TAT-AATTATAATA
1 TATAAAATATAA-A
384417 TAATAAAATATATAAA
1 T-AT-AAA-ATATAAA
* **
384433 TATAATATATATG
1 TATAAAATATAAA
*
384446 TATAAAATTTAAA
1 TATAAAATATAAA
*
384459 TCTACAAAT-TAAA
1 TATA-AAATATAAA
384472 TAATAAAAT
1 T-ATAAAAT
384481 TATTTTGTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 24
0.69 0.10 0.20
Matches are distributed among these distances:
12 5 0.06
13 43 0.52
14 12 0.15
15 6 0.07
16 11 0.13
17 5 0.06
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (13 bp):
TATAAAATATAAA
Found at i:384432 original size:29 final size:31
Alignment explanation
Indices: 384301--384443 Score: 100
Period size: 30 Copynumber: 4.5 Consensus size: 31
384291 ATACGATTAC
* *
384301 ATAAATATAA-TATGCATAAAATTATAAAA-AT
1 ATAAATATAATTAT-AATATAA-TATAAAATAT
* * *
384332 ATGAAATA-AAATA-AATATATTTATAAAATTT
1 AT-AAATATAATTATAATATA-ATATAAAATAT
384363 ATATAATATAAATTATTAATATAAATATAAAATATT
1 ATA-AATAT-AATTA-TAATAT-AATATAAAATA-T
*
384399 TTAAATATAATTATAATAT-A-ATAAAATAT
1 ATAAATATAATTATAATATAATATAAAATAT
384428 ATAAATATAATATATA
1 ATAAATATAAT-TATA
384444 TGTATAAAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
29 11 0.12
30 24 0.26
31 12 0.13
32 7 0.08
33 10 0.11
34 5 0.05
35 18 0.20
36 4 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (31 bp):
ATAAATATAATTATAATATAATATAAAATAT
Found at i:384970 original size:19 final size:20
Alignment explanation
Indices: 384948--384986 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
384938 TATTAATTGA
384948 ATAA-AAAAATATAATTTTT
1 ATAATAAAAATATAATTTTT
*
384967 ATAATTAAAATTATAATTTT
1 ATAA-TAAAAATATAATTTT
384987 GTAATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
21 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAATAAAAATATAATTTTT
Found at i:386868 original size:22 final size:22
Alignment explanation
Indices: 386843--386884 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
386833 GATTCCACAT
*
386843 GCCCCATGCTACTCGGGTCAGA
1 GCCCAATGCTACTCGGGTCAGA
386865 GCCCAATGCTACTCGGGTCA
1 GCCCAATGCTACTCGGGTCA
386885 AAGCGTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.36, G:0.26, T:0.19
Consensus pattern (22 bp):
GCCCAATGCTACTCGGGTCAGA
Found at i:387050 original size:38 final size:39
Alignment explanation
Indices: 387001--387177 Score: 134
Period size: 40 Copynumber: 4.5 Consensus size: 39
386991 ATATATAAAG
387001 ATATAATAATATTAAATATAATATGATTATATGAAAAATA
1 ATATAA-AATATTAAATATAATATGATTATATGAAAAATA
* * * * *
387041 AT-TAAAATATGATATAAAATATAATATAATATTTAAAAATA
1 ATATAAAATATTAAATATAATATGAT-T-ATA-TGAAAAATA
* * *
387082 ATAT-AAATATAAAATA-AATAT-ATGATATGTTAAAAT-
1 ATATAAAATATTAAATATAATATGATTATATG-AAAAATA
* *
387118 TTATAAAATAATTAAAATATAATATGA-TAT-TTAAAAATA
1 ATATAAAAT-ATT-AAATATAATATGATTATATGAAAAATA
387157 ATATAAAAATAATTAAATATA
1 ATAT-AAAAT-ATTAAATATA
387178 TAATATATCA
Statistics
Matches: 109, Mismatches: 16, Indels: 25
0.73 0.11 0.17
Matches are distributed among these distances:
36 4 0.04
37 12 0.11
38 23 0.21
39 22 0.20
40 26 0.24
41 21 0.19
42 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (39 bp):
ATATAAAATATTAAATATAATATGATTATATGAAAAATA
Found at i:387077 original size:31 final size:29
Alignment explanation
Indices: 386993--387098 Score: 90
Period size: 30 Copynumber: 3.6 Consensus size: 29
386983 TTTTTTTTAT
* * *
386993 ATATAAAGATATAATAAT-ATTAAATATA
1 ATATAAATATAAAATAATAATTAAAAATA
* * *
387021 ATATGATTATATGAAA-AATAATTAAAATATG
1 ATAT-A-AATATAAAATAATAATTAAAA-ATA
* *
387052 ATATAAAATATAATATAATATTTAAAAATA
1 ATAT-AAATATAAAATAATAATTAAAAATA
387082 ATATAAATATAAAATAA
1 ATATAAATATAAAATAA
387099 ATATATGATA
Statistics
Matches: 60, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
28 4 0.07
29 16 0.27
30 23 0.38
31 17 0.28
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (29 bp):
ATATAAATATAAAATAATAATTAAAAATA
Found at i:387087 original size:30 final size:31
Alignment explanation
Indices: 386993--387098 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 31
386983 TTTTTTTTAT
386993 ATATAAAGATAT-A-ATAATA-TT-AAATATA
1 ATATAAA-ATATAATATAATATTTAAAATATA
** * *
387021 ATATGATTATATGAA-A-AATAATTAAAATATG
1 ATAT-AAAATAT-AATATAATATTTAAAATATA
387052 ATATAAAATATAATATAATATTTAAAA-ATA
1 ATATAAAATATAATATAATATTTAAAATATA
*
387082 ATAT-AAATATAAAATAA
1 ATATAAAATATAATATAA
387099 ATATATGATA
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
28 8 0.13
29 19 0.30
30 16 0.25
31 20 0.32
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (31 bp):
ATATAAAATATAATATAATATTTAAAATATA
Found at i:387148 original size:75 final size:74
Alignment explanation
Indices: 387055--387201 Score: 222
Period size: 75 Copynumber: 2.0 Consensus size: 74
387045 AAATATGATA
* * * *
387055 TAAAATATAATATAATATTTAAAAATAATATAAATATAAAATAAATATATGATATGTTAAAATTT
1 TAAAATATAATATAATATTTAAAAATAATATAAAAAT-AAATAAATATATAATATATCAAAATTT
387120 ATAAAATAAT
65 ATAAAATAAT
* *
387130 TAAAATATAATATGATATTTAAAAATAATATAAAAATAATTAAATATATAATATATCAAAATTTA
1 TAAAATATAATATAATATTTAAAAATAATATAAAAATAAATAAATATATAATATATCAAAATTTA
*
387195 TATAATA
66 TAAAATA
387202 TAAATTATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
74 30 0.46
75 35 0.54
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (74 bp):
TAAAATATAATATAATATTTAAAAATAATATAAAAATAAATAAATATATAATATATCAAAATTTA
TAAAATAAT
Found at i:387176 original size:29 final size:30
Alignment explanation
Indices: 387111--387176 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
387101 ATATGATATG
387111 TTAAA-ATTTATAAAATAATTAAAATATAA
1 TTAAATATTTATAAAATAATTAAAATATAA
*
387140 -TATGATATTTA-AAAATAATATAAAA-ATAA
1 TTA-AATATTTATAAAATAAT-TAAAATATAA
387169 TTAAATAT
1 TTAAATAT
387177 ATAATATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
28 2 0.06
29 17 0.55
30 12 0.39
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
TTAAATATTTATAAAATAATTAAAATATAA
Found at i:387232 original size:19 final size:19
Alignment explanation
Indices: 387106--387237 Score: 52
Period size: 19 Copynumber: 7.3 Consensus size: 19
387096 TAAATATATG
*
387106 ATATGTTAAAATTT-ATAA
1 ATATATTAAAATTTAATAA
* *
387124 A-ATAATTAAAATATAATATG
1 ATAT-ATTAAAATTTAATA-A
* *
387144 ATAT-TTAAAAATAATATAA
1 ATATATTAAAATTTA-ATAA
* *
387163 AAATAATT-AAATAT-AT-A
1 ATAT-ATTAAAATTTAATAA
* *
387180 ATATATCAAAATTT-ATAT
1 ATATATTAAAATTTAATAA
*
387198 A-ATA-T-AAA-TTATTAA
1 ATATATTAAAATTTAATAA
387213 ATATATTAAAATTTAATAA
1 ATATATTAAAATTTAATAA
*
387232 AAATAT
1 ATATAT
387238 ATAATTTTTT
Statistics
Matches: 80, Mismatches: 20, Indels: 27
0.63 0.16 0.21
Matches are distributed among these distances:
14 2 0.03
15 6 0.08
16 5 0.06
17 17 0.21
18 15 0.19
19 24 0.30
20 7 0.09
21 4 0.05
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (19 bp):
ATATATTAAAATTTAATAA
Found at i:394318 original size:33 final size:33
Alignment explanation
Indices: 394281--394348 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
394271 AAGCTGATAT
394281 TTTTGTACTCATGTCTGAAAACGTAAGTTTTGA
1 TTTTGTACTCATGTCTGAAAACGTAAGTTTTGA
*
394314 TTTTGTACTCATGTCTGAAAACGTAGGTTTTGA
1 TTTTGTACTCATGTCTGAAAACGTAAGTTTTGA
394347 TT
1 TT
394349 ATTTATCTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (33 bp):
TTTTGTACTCATGTCTGAAAACGTAAGTTTTGA
Found at i:394772 original size:2 final size:2
Alignment explanation
Indices: 394765--394795 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
394755 TCATCATCAT
394765 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 T
394796 CCGTCCCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:398633 original size:22 final size:22
Alignment explanation
Indices: 398608--398718 Score: 52
Period size: 22 Copynumber: 5.0 Consensus size: 22
398598 GTATTTACAC
398608 AAATTTTTATTAATTTAAAAAT
1 AAATTTTTATTAATTTAAAAAT
* * *
398630 AAA-TATTATTTATATTATAAAT
1 AAATTTTTATTAAT-TTAAAAAT
**
398652 --ATTTAAAATTAA-TTAAAAAT
1 AAATTT-TTATTAATTTAAAAAT
* * *
398672 AAAATTTAATTCAATTCAAATAATT
1 AAATTTTTATT-AATTTAAA-AA-T
*
398697 ATAATTTTT-TTAATTTATAAAT
1 A-AATTTTTATTAATTTAAAAAT
398719 TAAAAATAAA
Statistics
Matches: 64, Mismatches: 15, Indels: 20
0.65 0.15 0.20
Matches are distributed among these distances:
20 8 0.12
21 13 0.20
22 20 0.31
23 6 0.09
24 8 0.12
25 4 0.06
26 5 0.08
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATTTTTATTAATTTAAAAAT
Found at i:402025 original size:16 final size:16
Alignment explanation
Indices: 402004--402035 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
401994 CATATGTTAC
402004 TTTTAAATTTAAATTA
1 TTTTAAATTTAAATTA
402020 TTTTAAATTTAAATTA
1 TTTTAAATTTAAATTA
402036 CCAAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTAAATTTAAATTA
Found at i:402560 original size:21 final size:22
Alignment explanation
Indices: 402510--402560 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
402500 GTTAAATCAA
402510 TAATTAAATTTAAATATAAAATT
1 TAATT-AATTTAAATATAAAATT
* **
402533 TTA-TAATTTAAAT-TATTATT
1 TAATTAATTTAAATATAAAATT
402553 TAATTAAT
1 TAATTAAT
402561 AAAAAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
20 7 0.30
21 13 0.57
22 1 0.04
23 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATTAATTTAAATATAAAATT
Found at i:403655 original size:22 final size:23
Alignment explanation
Indices: 403630--403681 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
403620 CTTGTTTCAA
403630 TATTATCCTTTCATTTTT-CTTT
1 TATTATCCTTTCATTTTTCCTTT
* **
403652 TATTTAT-TTTTGTTTTTTCCTTT
1 TA-TTATCCTTTCATTTTTCCTTT
403675 TATTATC
1 TATTATC
403682 TTTAGTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.71
Consensus pattern (23 bp):
TATTATCCTTTCATTTTTCCTTT
Found at i:404486 original size:2 final size:2
Alignment explanation
Indices: 404479--404507 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
404469 TTAAAGATAA
404479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
404508 AACAAAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:407200 original size:15 final size:16
Alignment explanation
Indices: 407180--407209 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
407170 ACCTTATAAG
407180 TTTTTATTTT-TTAAT
1 TTTTTATTTTATTAAT
407195 TTTTTATTTTATTAA
1 TTTTTATTTTATTAA
407210 AAAGTAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTATTTTATTAAT
Found at i:407417 original size:2 final size:2
Alignment explanation
Indices: 407410--407441 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
407400 CTTAGTCTTT
*
407410 TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
407442 AATTATCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:408361 original size:20 final size:21
Alignment explanation
Indices: 408338--408398 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
408328 ATGAATAATT
408338 TATATTAATAAAAAATAAAATA
1 TATATTAATAAAAAAT-AAATA
**
408360 TAATCATTAA-ATTAAATAAATA
1 T-AT-ATTAATAAAAAATAAATA
*
408382 TAAATTATATAAAAAAT
1 TATATTA-ATAAAAAAT
408399 TATCAAAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
20 4 0.13
21 2 0.07
22 12 0.40
23 7 0.23
24 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
TATATTAATAAAAAATAAATA
Found at i:408501 original size:115 final size:116
Alignment explanation
Indices: 408297--408516 Score: 311
Period size: 115 Copynumber: 1.9 Consensus size: 116
408287 AAACAAGGAG
* * * *
408297 TTAAATATTTTTAATTTATTTAAAATTCGATATGAATAATTTATATTAATAAAAAATAAAATATA
1 TTAAATATTTTTAATTAACTTAAAATTCGAAATGAATAATTTATATAAATAAAAAATAAAATATA
* *
408362 ATCATTAAATTAAATAAATATAAATTATATAAAAAATTATCAAAGAAATAA
66 ATAATTAAACTAAATAAATATAAATTATATAAAAAATTATCAAAGAAATAA
* * * *
408413 TTAAATATTTTTAATTAACTTAAAA-TCTGAAATGTATGATTTA-ATAAATAAAATATAAGATGA
1 TTAAATATTTTTAATTAACTTAAAATTC-GAAATGAATAATTTATATAAATAAAAAATAAAAT-A
408476 T-ATAATTAAACTAAATAAATATAAATTATATAAAAAATTAT
64 TAATAATTAAACTAAATAAATATAAATTATATAAAAAATTAT
408517 AAAAATATAT
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
115 55 0.60
116 37 0.40
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.39
Consensus pattern (116 bp):
TTAAATATTTTTAATTAACTTAAAATTCGAAATGAATAATTTATATAAATAAAAAATAAAATATA
ATAATTAAACTAAATAAATATAAATTATATAAAAAATTATCAAAGAAATAA
Found at i:409317 original size:33 final size:33
Alignment explanation
Indices: 409274--409363 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 33
409264 CATTTCACTT
* *
409274 TTTAAA-AAATAATTTAAAATTTTTAAAATT-AT
1 TTTAAATAAAT-ATTTAATATTTTTAAAATTAAA
* *
409306 TTTATATAAATATTTATATATTTTTATAATTAAA
1 TTTAAATAAATATTTA-ATATTTTTAAAATTAAA
409340 TTTAAATAAATATTT-ATATTTTTA
1 TTTAAATAAATATTTAATATTTTTA
409364 TTAATAAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
32 19 0.38
33 16 0.32
34 15 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
TTTAAATAAATATTTAATATTTTTAAAATTAAA
Found at i:409354 original size:34 final size:33
Alignment explanation
Indices: 409274--409362 Score: 103
Period size: 33 Copynumber: 2.7 Consensus size: 33
409264 CATTTCACTT
* *
409274 TTTAAA-AAATAATTTA-AAATTTTTAAAATTAT
1 TTTAAATAAAT-ATTTATATATTTTTAAAATTAA
* *
409306 TTTATATAAATATTTATATATTTTTATAATTAAA
1 TTTAAATAAATATTTATATATTTTTAAAATT-AA
409340 TTTAAATAAATATTTATAT-TTTT
1 TTTAAATAAATATTTATATATTTT
409363 ATTAATAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
32 10 0.20
33 20 0.41
34 19 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
TTTAAATAAATATTTATATATTTTTAAAATTAA
Found at i:409364 original size:32 final size:32
Alignment explanation
Indices: 409274--409372 Score: 96
Period size: 33 Copynumber: 3.0 Consensus size: 32
409264 CATTTCACTT
* * *
409274 TTTAAA-AAATAATTTAAAATTTTTAAAATT-AT
1 TTTAAATAAAT-ATTT-ATATTTTTATAATTAAA
*
409306 TTTATATAAATATTTATATATTTTTATAATTAAA
1 TTTAAATAAATA-TT-TATATTTTTATAATTAAA
409340 TTTAAATAAATATTTATATTTTTATTAA-TAAA
1 TTTAAATAAATATTTATATTTTTA-TAATTAAA
409372 T
1 T
409373 AATAATTTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
32 21 0.37
33 23 0.40
34 13 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TTTAAATAAATATTTATATTTTTATAATTAAA
Found at i:409393 original size:15 final size:16
Alignment explanation
Indices: 409375--409404 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
409365 TAATAAATAA
409375 TAATTTAAA-TCATAT
1 TAATTTAAATTCATAT
409390 TAATTTAAATTCATA
1 TAATTTAAATTCATA
409405 AAAACTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTTAAATTCATAT
Found at i:409642 original size:4 final size:5
Alignment explanation
Indices: 409609--409655 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
409599 ATAAAAAAAA
* **
409609 TTAAT TAAAT TTAAT TTAA- TCGAT TTAA- TTAAT TTAAT TTAAT TTAA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAA
409656 ATTTTAGTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 6 0.18
5 28 0.82
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (5 bp):
TTAAT
Found at i:409894 original size:21 final size:20
Alignment explanation
Indices: 409853--409920 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 20
409843 ATTTATATCA
* *
409853 ATTAATTCAATCAATTATAAT
1 ATTAATTCAATTAAAT-TAAT
409874 ATTAATATCAATTAAATTAATT
1 ATTAAT-TCAATTAAATTAA-T
* * *
409896 TTTAATTTAAATAAATTAA-
1 ATTAATTCAATTAAATTAAT
409915 ATTAAT
1 ATTAAT
409921 CCAACTGATC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.13
21 20 0.51
22 14 0.36
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAATTCAATTAAATTAAT
Found at i:410758 original size:28 final size:29
Alignment explanation
Indices: 410726--410782 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
410716 AAGATCGAAA
410726 TTCTGACAACTTCAAATA-TAAAAAAAAT
1 TTCTGACAACTTCAAATAGTAAAAAAAAT
*
410754 TTCTGACAACTTTAAATATGTAAAAAAAA
1 TTCTGACAACTTCAAATA-GTAAAAAAAA
410783 AAAAAAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.65
30 9 0.35
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (29 bp):
TTCTGACAACTTCAAATAGTAAAAAAAAT
Found at i:411865 original size:2 final size:2
Alignment explanation
Indices: 411858--411883 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
411848 GTTCCATTAC
411858 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
411884 GAGTGTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:412189 original size:2 final size:2
Alignment explanation
Indices: 412182--412221 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
412172 GGGAAGAATA
412182 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
412222 GAGCATTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:412646 original size:2 final size:2
Alignment explanation
Indices: 412639--412664 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
412629 GAAGATAAAG
412639 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
412665 GTAAGCTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:413866 original size:5 final size:5
Alignment explanation
Indices: 413858--413939 Score: 60
Period size: 5 Copynumber: 15.2 Consensus size: 5
413848 GATACGATAT
**
413858 TTATA TTATA TTAATA TTATTA TTATA TTATAA TTATA TT-TA AAATA
1 TTATA TTATA TT-ATA TTA-TA TTATA TTAT-A TTATA TTATA TTATA
413905 -TATA TTATA TAATATA TTGATA TAGTATA TTATA T
1 TTATA TTATA T--TATA TT-ATA T--TATA TTATA T
413940 AAATTTTAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
4 5 0.08
5 30 0.47
6 19 0.30
7 9 0.14
8 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (5 bp):
TTATA
Found at i:413874 original size:11 final size:11
Alignment explanation
Indices: 413854--413927 Score: 50
Period size: 11 Copynumber: 6.9 Consensus size: 11
413844 TCTAGATACG
*
413854 ATATTTATATT
1 ATATTAATATT
413865 ATATTAATATT
1 ATATTAATATT
413876 ATTATT-ATATT
1 A-TATTAATATT
413887 ATAATT-ATATT
1 AT-ATTAATATT
*
413898 -TA-AAATA-T
1 ATATTAATATT
*
413906 ATATTATATAAT
1 ATATTA-ATATT
*
413918 ATATTGATAT
1 ATATTAATAT
413928 AGTATATTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
8 1 0.02
9 6 0.12
10 3 0.06
11 31 0.61
12 10 0.20
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (11 bp):
ATATTAATATT
Found at i:413883 original size:22 final size:22
Alignment explanation
Indices: 413858--413959 Score: 68
Period size: 22 Copynumber: 4.5 Consensus size: 22
413848 GATACGATAT
413858 TTATATTATATTAATATTATTA
1 TTATATTATATTAATATTATTA
**
413880 TTATATTATAATT-ATATTTAAAA
1 TTATATTAT-ATTAATA-TTATTA
*
413903 TATATATTATATAATATATTGATATA
1 T-TATATTATATTA-ATATT-AT-TA
*
413929 GTATATTATA-TAA-ATT-TTA
1 TTATATTATATTAATATTATTA
*
413948 ATATATTTATAT
1 TTATA-TTATAT
413960 ATTTATTTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
19 6 0.10
20 6 0.10
22 15 0.24
23 11 0.17
24 11 0.17
25 13 0.21
26 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTATATTATATTAATATTATTA
Found at i:413950 original size:32 final size:31
Alignment explanation
Indices: 413914--413973 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
413904 ATATATTATA
413914 TAATATATTGATATAGTATATTATATAAATTT
1 TAATATATTGATATA-TATATTATATAAATTT
* * *
413946 TAATATATTTATATATTTATTTTATAAA
1 TAATATATTGATATATATATTATATAAA
413974 ATATTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 11 0.44
32 14 0.56
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TAATATATTGATATATATATTATATAAATTT
Found at i:413957 original size:20 final size:23
Alignment explanation
Indices: 413859--413960 Score: 74
Period size: 25 Copynumber: 4.5 Consensus size: 23
413849 ATACGATATT
413859 TATATTATATTAATATTATT--AT-
1 TATATTATA-TAATA-TATTGAATA
* *
413881 TATATTATA-ATTATATTTAAAATA
1 TATATTATATAATATA-TT-GAATA
413905 TATATTATATAATATATTGATATA
1 TATATTATATAATATATTGA-ATA
*
413929 GTATATTATATAA-AT-TTTAATA
1 -TATATTATATAATATATTGAATA
413951 TAT-TTATATA
1 TATATTATATA
413961 TTTATTTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
19 2 0.03
20 12 0.18
21 3 0.04
22 12 0.18
23 6 0.09
24 16 0.24
25 17 0.25
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTATATAATATATTGAATA
Found at i:415360 original size:3 final size:3
Alignment explanation
Indices: 415352--415382 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
415342 TTCAAGAAAG
*
415352 ACA ACA ACA ACA ACA GCA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
415383 AAGCAACCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.32, G:0.03, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:415847 original size:6 final size:6
Alignment explanation
Indices: 415832--415870 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
415822 TTAATGATAG
* * *
415832 TAACAA TAATAA TAATAA TAACAA CAACAA TAACAA TAA
1 TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA TAA
415871 TGATAGTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.21
Consensus pattern (6 bp):
TAACAA
Found at i:422234 original size:21 final size:22
Alignment explanation
Indices: 422195--422241 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 22
422185 ATAAATTTAA
422195 AAAATAAATTTTATTAAATAAAT
1 AAAATAAATTTTA-TAAATAAAT
422218 AAAATAAATTTTA-AAATAAAT
1 AAAATAAATTTTATAAATAAAT
422239 AAA
1 AAA
422242 TTATTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 11 0.46
23 13 0.54
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATAAATTTTATAAATAAAT
Found at i:422255 original size:21 final size:20
Alignment explanation
Indices: 422189--422256 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
422179 AAAGTAATAA
422189 ATTTAAA-AAATAAATT-TT
1 ATTTAAATAAATAAATTATT
*
422207 A-TTAAATAAATAAAATAAATT
1 ATTTAAATAAAT-AAAT-TATT
*
422228 -TTAAAATAAATAAATTATT
1 ATTTAAATAAATAAATTATT
422247 GATTTAAATA
1 -ATTTAAATA
422257 TTTAAATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
17 5 0.13
18 5 0.13
19 7 0.18
20 4 0.10
21 18 0.46
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
ATTTAAATAAATAAATTATT
Found at i:422507 original size:21 final size:21
Alignment explanation
Indices: 422462--422512 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
422452 TTATATTTTT
* *
422462 TTATT-TTTT-TAAATTTTAA
1 TTATTATTTTATAAAATATAA
422481 TT-TTATTTTATAAAATATAA
1 TTATTATTTTATAAAATATAA
*
422501 TTATTATGTTAT
1 TTATTATTTTAT
422513 TTATATTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 6 0.23
20 10 0.38
21 8 0.31
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTATTTTATAAAATATAA
Found at i:422562 original size:28 final size:28
Alignment explanation
Indices: 422523--422586 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
422513 TTATATTTCA
** *
422523 AAATTTAATAAAAATATTAAATTAAAAAT
1 AAATTT-ATAAAAATAAAAAAATAAAAAT
*
422552 ATATTTATAAAAATAAAAAAATAAAAAT
1 AAATTTATAAAAATAAAAAAATAAAAAT
422580 AAATTTA
1 AAATTTA
422587 AATTATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
AAATTTATAAAAATAAAAAAATAAAAAT
Found at i:422612 original size:32 final size:31
Alignment explanation
Indices: 422570--422656 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 31
422560 AAAAATAAAA
* *
422570 AAATAAAAATAAATTTAAATTATTTTATTTTT
1 AAATATAAATAAATTTAAA-TATTTTATTTAT
422602 AAATATAAAT--A--TAAATA-TTTATTTAT
1 AAATATAAATAAATTTAAATATTTTATTTAT
422628 AAATATAAATAAATTTTAAAATATTTTAT
1 AAATATAAATAAA-TTT-AAATATTTTAT
422657 AAATTTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
26 18 0.39
27 2 0.04
28 5 0.11
30 1 0.02
31 1 0.02
32 14 0.30
33 5 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
AAATATAAATAAATTTAAATATTTTATTTAT
Found at i:423654 original size:2 final size:2
Alignment explanation
Indices: 423647--423679 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
423637 CACTTGACCA
423647 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
423680 ATCCGGACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:431544 original size:20 final size:21
Alignment explanation
Indices: 431521--431564 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
431511 TATAAAGAAA
431521 AAATTATTAATTT-ATTATTT
1 AAATTATTAATTTAATTATTT
* *
431541 AAATTTTTATTTTAATTATTT
1 AAATTATTAATTTAATTATTT
431562 AAA
1 AAA
431565 ATAATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
AAATTATTAATTTAATTATTT
Found at i:431710 original size:14 final size:15
Alignment explanation
Indices: 431684--431722 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
431674 TTTTTAAAAC
*
431684 TTTTAATTATAT-AT
1 TTTTAATTTTATAAT
*
431698 TTTTTATTTTATAAT
1 TTTTAATTTTATAAT
431713 TTTTAATTTT
1 TTTTAATTTT
431723 TAAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTAATTTTATAAT
Found at i:431723 original size:16 final size:16
Alignment explanation
Indices: 431673--431739 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 16
431663 AATTAAAAAT
*
431673 ATTTTTAAAACTTTTA
1 ATTTTTAAAATTTTTA
* * *
431689 A-TTAT-ATATTTTTT
1 ATTTTTAAAATTTTTA
*
431703 A-TTTTATAATTTTTA
1 ATTTTTAAAATTTTTA
*
431718 ATTTTTAAAAATTTT-
1 ATTTTTAAAATTTTTA
431733 ATTTTTA
1 ATTTTTA
431740 CGATGATATG
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
14 10 0.26
15 17 0.44
16 12 0.31
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTTAAAATTTTTA
Found at i:431885 original size:12 final size:13
Alignment explanation
Indices: 431863--431892 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
431853 TTAATAATTT
431863 TTAAAATATTAAA
1 TTAAAATATTAAA
431876 TTAAAA-ATTAAA
1 TTAAAATATTAAA
431888 TTAAA
1 TTAAA
431893 TACATGCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TTAAAATATTAAA
Found at i:432864 original size:20 final size:20
Alignment explanation
Indices: 432841--432878 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
432831 ATGTGAATAG
*
432841 ATTTTTTTAAAGAAAAGTTA
1 ATTTTTTTAAAAAAAAGTTA
432861 ATTTTTTTAAAAAAAAGT
1 ATTTTTTTAAAAAAAAGT
432879 AAATAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (20 bp):
ATTTTTTTAAAAAAAAGTTA
Found at i:436854 original size:20 final size:20
Alignment explanation
Indices: 436829--436908 Score: 69
Period size: 20 Copynumber: 4.1 Consensus size: 20
436819 AAACGAAATG
436829 TAATTTTAAATATAAAATTA
1 TAATTTTAAATATAAAATTA
** **
436849 TAATTTT-TTTGAT-TTATT-
1 TAATTTTAAAT-ATAAAATTA
*
436867 TAA-TTTAAATTATTAAATTA
1 TAATTTTAAA-TATAAAATTA
436887 TAATTTTAAATATAAAATTA
1 TAATTTTAAATATAAAATTA
436907 TA
1 TA
436909 TATATTTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
17 3 0.07
18 5 0.11
19 8 0.18
20 23 0.51
21 6 0.13
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (20 bp):
TAATTTTAAATATAAAATTA
Found at i:437062 original size:12 final size:12
Alignment explanation
Indices: 437040--437069 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
437030 AAAATAAAAA
437040 AATTAATTTAAAT
1 AATT-ATTTAAAT
437053 AATTATTTAAAT
1 AATTATTTAAAT
437065 AATTA
1 AATTA
437070 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTATTTAAAT
Found at i:437795 original size:14 final size:15
Alignment explanation
Indices: 437749--437797 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 15
437739 GTATTTATTA
* *
437749 AATTTAATCATTTTG
1 AATTTAATTATTTCG
*
437764 AATTCAAATTATTTCG
1 AATT-TAATTATTTCG
437780 AATTTAATTA-TTCG
1 AATTTAATTATTTCG
437794 AATT
1 AATT
437798 ATATTTGAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 8 0.28
15 9 0.31
16 12 0.41
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (15 bp):
AATTTAATTATTTCG
Found at i:438114 original size:2 final size:2
Alignment explanation
Indices: 438107--438133 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
438097 ACAAAGATTA
438107 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
438134 ATTCCTTGAA
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:438681 original size:20 final size:19
Alignment explanation
Indices: 438628--438693 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
438618 AAGCTATACA
* *
438628 ATTTAACTAAATATAT-AT
1 ATTTAATTAAATATTTAAT
438646 ATATTAATTAAATATTTAAT
1 AT-TTAATTAAATATTTAAT
*
438666 ATTTAATTAATTTATTTAAT
1 ATTTAATTAA-ATATTTAAT
438686 ATTTAATT
1 ATTTAATT
438694 TTTTAATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
18 2 0.05
19 20 0.48
20 20 0.48
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTAATTAAATATTTAAT
Found at i:439025 original size:14 final size:14
Alignment explanation
Indices: 438997--439042 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
438987 TCGTATGATA
438997 TTATAATTATT-ATT
1 TTATAATT-TTAATT
439011 TTATAATTTTAATT
1 TTATAATTTTAATT
* *
439025 TT-TTATTTTAAAT
1 TTATAATTTTAATT
439038 TTATA
1 TTATA
439043 TTTATTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATAATTTTAATT
Found at i:439799 original size:15 final size:15
Alignment explanation
Indices: 439729--439798 Score: 63
Period size: 15 Copynumber: 4.5 Consensus size: 15
439719 AAATGTATTG
439729 AATTCAAAATAACTTA
1 AATT-AAAATAACTTA
* *
439745 AATTTGAAATGATA-TGA
1 AA-TTAAAAT-A-ACTTA
439762 AATTAAAATAACTTA
1 AATTAAAATAACTTA
439777 AATTAAAATAA-TTA
1 AATTAAAATAACTTA
*
439791 AAATAAAA
1 AATTAAAA
439799 AATTATCTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
14 11 0.24
15 14 0.31
16 12 0.27
17 7 0.16
18 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (15 bp):
AATTAAAATAACTTA
Found at i:439816 original size:17 final size:17
Alignment explanation
Indices: 439781--439859 Score: 83
Period size: 17 Copynumber: 4.7 Consensus size: 17
439771 AACTTAAATT
* *
439781 AAAATAAT-TAAAATAA
1 AAAATAATCTAAATTTA
*
439797 AAAATTATCTAAATTTA
1 AAAATAATCTAAATTTA
439814 AAAATAATCTGAAATTTAA
1 AAAATAATCT-AAATTT-A
439833 AAAATAAT-TAAATTT-
1 AAAATAATCTAAATTTA
*
439848 AAATTAATCTAA
1 AAAATAATCTAA
439860 TCTAAAATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
15 7 0.13
16 10 0.19
17 21 0.39
18 7 0.13
19 9 0.17
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (17 bp):
AAAATAATCTAAATTTA
Found at i:439817 original size:18 final size:18
Alignment explanation
Indices: 439781--439850 Score: 85
Period size: 17 Copynumber: 4.1 Consensus size: 18
439771 AACTTAAATT
*
439781 AAAATAAT-TAAA-ATAA
1 AAAATAATCTAAATTTAA
*
439797 AAAATTATCTAAATTT-A
1 AAAATAATCTAAATTTAA
439814 AAAATAATCTGAAATTTAA
1 AAAATAATCT-AAATTTAA
439833 AAAATAAT-TAAATTTAA
1 AAAATAATCTAAATTTAA
439850 A
1 A
439851 TTAATCTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
16 7 0.15
17 23 0.49
18 8 0.17
19 9 0.19
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (18 bp):
AAAATAATCTAAATTTAA
Found at i:439862 original size:39 final size:36
Alignment explanation
Indices: 439781--439850 Score: 60
Period size: 35 Copynumber: 2.0 Consensus size: 36
439771 AACTTAAATT
* * *
439781 AAAATAAT-TAAAATAAAAAATTATCT-AAATTT-A
1 AAAATAATCTAAATTTAAAAATAATCTAAAATTTAA
439814 AAAATAATCTGAAATTTAAAAAATAAT-T-AAATTTAA
1 AAAATAATCT-AAATTT-AAAAATAATCTAAAATTTAA
439850 A
1 A
439851 TTAATCTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
33 8 0.27
34 1 0.03
35 11 0.37
36 10 0.33
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (36 bp):
AAAATAATCTAAATTTAAAAATAATCTAAAATTTAA
Found at i:440083 original size:2 final size:2
Alignment explanation
Indices: 440076--440103 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
440066 AGTATGGTTA
440076 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
440104 TGCTTAGTTA
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:446839 original size:11 final size:11
Alignment explanation
Indices: 446699--446840 Score: 59
Period size: 11 Copynumber: 13.0 Consensus size: 11
446689 TTTTATTACG
446699 TATATTTATAT
1 TATATTTATAT
* *
446710 TATAATTACAAAT
1 TAT-ATT-TATAT
446723 T-T-TTTATAT
1 TATATTTATAT
*
446732 TATAGTTATAT
1 TATATTTATAT
* *
446743 TAATATTAATAG
1 T-ATATTTATAT
446755 TA-A--TATAT
1 TATATTTATAT
446763 TAATAATTTATAT
1 T-AT-ATTTATAT
** *
446776 TATATAAATTT
1 TATATTTATAT
446787 TA-ATTTA-A-
1 TATATTTATAT
446795 -ATATTTATAT
1 TATATTTATAT
446805 TATATTATAATAAT
1 TATATT-T-AT-AT
* *
446819 TTTATATATAT
1 TATATTTATAT
446830 TATATTTATAT
1 TATATTTATAT
446841 AATTATATTT
Statistics
Matches: 94, Mismatches: 20, Indels: 34
0.64 0.14 0.23
Matches are distributed among these distances:
7 1 0.01
8 9 0.10
9 6 0.06
10 7 0.07
11 35 0.37
12 17 0.18
13 13 0.14
14 6 0.06
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TATATTTATAT
Found at i:446846 original size:23 final size:24
Alignment explanation
Indices: 446727--446848 Score: 69
Period size: 25 Copynumber: 5.0 Consensus size: 24
446717 ACAAATTTTT
*
446727 TATATTATAGTTATATTAATATTA-A
1 TATATTATA-TTATAATAAT-TTATA
*
446752 TAGTAATATA-T-TAATAATTTATA
1 TA-TATTATATTATAATAATTTATA
* * * *
446775 T-TATATAAATTTTAATTTAA-ATATT
1 TATAT-TATATTATAA--TAATTTATA
446800 TATATTATATTATAATAATTTTATA
1 TATATTATATTATAATAA-TTTATA
446825 TATATTATATT-TATATAA-TTATA
1 TATATTATATTATA-ATAATTTATA
446848 T
1 T
446849 TTAAAATTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
21 2 0.03
22 6 0.08
23 18 0.24
24 6 0.08
25 32 0.42
26 12 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TATATTATATTATAATAATTTATA
Found at i:446858 original size:12 final size:14
Alignment explanation
Indices: 446745--446851 Score: 71
Period size: 14 Copynumber: 7.5 Consensus size: 14
446735 AGTTATATTA
*
446745 ATATTAATAGTAA-T
1 ATATTTATA-TAATT
446759 ATA-TTA-ATAATT
1 ATATTTATATAATT
446771 -TATATTATATAAATT
1 ATAT-TTATAT-AATT
* * *
446786 TTAATTTAAATATTT
1 AT-ATTTATATAATT
*
446801 ATATTATATTATAATA
1 ATATT-TA-TATAATT
446817 AT-TTTATATATATT
1 ATATTTATATA-ATT
446831 ATATTTATATAATT
1 ATATTTATATAATT
446845 ATATTTA
1 ATATTTA
446852 AAATTATTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
11 5 0.07
12 2 0.03
13 9 0.12
14 24 0.32
15 20 0.27
16 12 0.16
17 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (14 bp):
ATATTTATATAATT
Found at i:447657 original size:2 final size:2
Alignment explanation
Indices: 447650--447686 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
447640 AAATAAATGT
447650 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
447687 TGGCTTTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:447830 original size:22 final size:23
Alignment explanation
Indices: 447804--447854 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
447794 TCGTTATTTA
*
447804 AATTTTTATTTA-AATTT-AAATT
1 AATTTTT-TTTATAATTTAAAAAT
*
447826 AATTTATTTTATAATTTAAAAAT
1 AATTTTTTTTATAATTTAAAAAT
447849 AATTTT
1 AATTTT
447855 AAATATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 11 0.46
23 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTTTTTTTATAATTTAAAAAT
Found at i:448193 original size:20 final size:20
Alignment explanation
Indices: 448164--448222 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
448154 TAAATTTGAT
448164 TTATTTAAAAATTTATTTTA
1 TTATTTAAAAATTTATTTTA
* *
448184 TTA-TTAAAAATATATTTAA
1 TTATTTAAAAATTTATTTTA
*
448203 ATATTTAAAAA-TTATTTTA
1 TTATTTAAAAATTTATTTTA
448222 T
1 T
448223 ATTAATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 22 0.69
20 10 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATTTAAAAATTTATTTTA
Found at i:448245 original size:22 final size:22
Alignment explanation
Indices: 448217--448262 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
448207 TTAAAAATTA
*
448217 TTTTAT-ATTAATATTTATATAT
1 TTTTATAATTAA-ATTTAAATAT
448239 TTTTATAATTAAATTTAAATAT
1 TTTTATAATTAAATTTAAATAT
448261 TT
1 TT
448263 AATAATAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTATAATTAAATTTAAATAT
Found at i:451578 original size:21 final size:20
Alignment explanation
Indices: 451554--451614 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
451544 TAATTTGATA
451554 ATTTATTTTATTATTTATAAT
1 ATTTATTTTATT-TTTATAAT
**
451575 ATTTAAAATTATTTTTATAAT
1 ATTT-ATTTTATTTTTATAAT
*
451596 ATTT-TTATATTTTTATAAT
1 ATTTATTTTATTTTTATAAT
451615 TAAATTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
19 12 0.35
21 16 0.47
22 6 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTATTTTATTTTTATAAT
Found at i:451595 original size:40 final size:39
Alignment explanation
Indices: 451531--451614 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 39
451521 AATTTTTTAA
*
451531 ATAAAATTTAAATTAATTTGATAAT-TTATTT-TATTATTT
1 ATAATATTTAAATTAATTTGATAATATT-TTTATATT-TTT
* *
451570 ATAATATTTAAAATTATTTTTATAATATTTTTATATTTTT
1 ATAATATTT-AAATTAATTTGATAATATTTTTATATTTTT
451610 ATAAT
1 ATAAT
451615 TAAATTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
39 8 0.21
40 25 0.64
41 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (39 bp):
ATAATATTTAAATTAATTTGATAATATTTTTATATTTTT
Found at i:451849 original size:21 final size:20
Alignment explanation
Indices: 451814--451858 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
451804 AAATAAAAAA
*
451814 TTTATATTTATTTTAAATTT
1 TTTATATTTATTTTAAAATT
*
451834 TTTATTTTTAATTTTAAAATT
1 TTTATATTT-ATTTTAAAATT
451855 TTTA
1 TTTA
451859 ATAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATATTTATTTTAAAATT
Found at i:451982 original size:31 final size:31
Alignment explanation
Indices: 451931--452105 Score: 137
Period size: 32 Copynumber: 5.6 Consensus size: 31
451921 TATTGATACG
451931 ATATAATATGTAT-ATATATTAAAATTTA-AAA
1 ATATAA-AT-TATAATATATTAAAATTTATAAA
* *
451962 ATATTAATTATTAATATATTAAAATTTATATA
1 ATATAAATTA-TAATATATTAAAATTTATAAA
** *
451994 ATAT-AATGTATAAGTA-A-T-AAATAAATATA
1 ATATAAAT-TATAA-TATATTAAAATTTATAAA
* * *
452023 ATATAAAATAAATATATATTTAAATTTATAAA
1 ATATAAATTATA-ATATATTAAAATTTATAAA
*
452055 ATATAAATTATTAATATTTTAAAATTTATATAA
1 ATATAAATTA-TAATATATTAAAATTTATA-AA
* *
452088 ATATAAAATATAAAATAT
1 ATATAAATTATAATATAT
452106 AATTATGATA
Statistics
Matches: 116, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
29 20 0.17
30 8 0.07
31 28 0.24
32 48 0.41
33 12 0.10
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (31 bp):
ATATAAATTATAATATATTAAAATTTATAAA
Found at i:452061 original size:7 final size:7
Alignment explanation
Indices: 452049--452131 Score: 51
Period size: 7 Copynumber: 10.9 Consensus size: 7
452039 TATTTAAATT
452049 TATAAAA
1 TATAAAA
*
452056 TATAAAT
1 TATAAAA
*
452063 TATTAATAT
1 TA-TAA-AA
*
452072 TTTAAAA
1 TATAAAA
452079 TTTATATAAA
1 --TATA-AAA
452089 TATAAAA
1 TATAAAA
452096 TATAAAA
1 TATAAAA
*
452103 TATAATTA
1 TATAA-AA
452111 TGATAAAA
1 T-ATAAAA
452119 TA-AAATA
1 TATAAA-A
452126 TATAAA
1 TATAAA
452132 TTTAATATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
6 3 0.05
7 28 0.46
8 17 0.28
9 10 0.16
10 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (7 bp):
TATAAAA
Found at i:452062 original size:6 final size:6
Alignment explanation
Indices: 452014--452146 Score: 53
Period size: 6 Copynumber: 21.5 Consensus size: 6
452004 TAAGTAATAA
* *
452014 ATAAAT AT-AAT ATAAA- ATAAAT ATATAT TTAAATTT ATAAAAT ATAAATT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAA--T AT-AAAT ATAAA-T
* ** * *
452064 ATTAATATT TTAAA- ATTTAT ATAAAT ATAAAAT ATAAAAT ATAATT AT-GAT
1 A-TAA-A-T ATAAAT ATAAAT ATAAAT AT-AAAT AT-AAAT ATAAAT ATAAAT
* *
452115 A-AAAT AAAATAT ATAAAT -TTAAT ATAAAT ATA
1 ATAAAT ATAA-AT ATAAAT ATAAAT ATAAAT ATA
452147 CCAATAGTAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
5 21 0.22
6 37 0.39
7 24 0.25
8 8 0.08
9 6 0.06
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (6 bp):
ATAAAT
Found at i:452122 original size:28 final size:29
Alignment explanation
Indices: 452080--452137 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
452070 ATTTTAAAAT
452080 TTATATAAATATAAAATATA-AAATATAA
1 TTATATAAATATAAAATATATAAATATAA
*
452108 TTATGATAAA-ATAAAATATATAAATTTAA
1 TTAT-ATAAATATAAAATATATAAATATAA
452137 T
1 T
452138 ATAAATATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
TTATATAAATATAAAATATATAAATATAA
Found at i:452122 original size:93 final size:91
Alignment explanation
Indices: 451942--452125 Score: 246
Period size: 93 Copynumber: 2.0 Consensus size: 91
451932 TATAATATGT
* **
451942 ATATATATTAAAATTTAAAAATATTAATTATTAATATATTAAAATTTATATAATATAATGTATAA
1 ATATATATTAAAATTTAAAAATATAAATTATTAATATATTAAAATTTATATAATATAAAATATAA
*
452007 GTAATAAATAAATATAATATAAAATAA
66 G-AATAAATAAATATAAAATAAAATAA
* *
452034 ATATATATTTAAATTTATAAAATATAAATTATTAATATTTTAAAATTTATATAAATATAAAATAT
1 ATATATATTAAAATTTA-AAAATATAAATTATTAATATATTAAAATTTATAT-AATATAAAATAT
*
452099 AA-AATATAAT-TATGATAAAATAAAATA
64 AAGAATA-AATAAAT-ATAAAATAAAATA
452126 TATAAATTTA
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
92 22 0.27
93 47 0.58
94 12 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (91 bp):
ATATATATTAAAATTTAAAAATATAAATTATTAATATATTAAAATTTATATAATATAAAATATAA
GAATAAATAAATATAAAATAAAATAA
Found at i:460219 original size:18 final size:19
Alignment explanation
Indices: 460196--460231 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
460186 TGCTGCAGCA
*
460196 TTTGTG-AACCAGCTGCTG
1 TTTGTGAAACCAACTGCTG
460214 TTTGTGAAACCAACTGCT
1 TTTGTGAAACCAACTGCT
460232 CGGAACTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (19 bp):
TTTGTGAAACCAACTGCTG
Found at i:466458 original size:10 final size:10
Alignment explanation
Indices: 466445--466477 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
466435 GATTATATGA
466445 ATATAAATAT
1 ATATAAATAT
466455 ATATAAATATT
1 ATATAAATA-T
466466 ATATAAATAT
1 ATATAAATAT
466476 AT
1 AT
466478 TTTTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATAAATAT
Found at i:466470 original size:11 final size:11
Alignment explanation
Indices: 466445--466475 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
466435 GATTATATGA
466445 ATATAAATA-T
1 ATATAAATATT
466455 ATATAAATATT
1 ATATAAATATT
466466 ATATAAATAT
1 ATATAAATAT
466476 ATTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATAAATATT
Found at i:466484 original size:23 final size:21
Alignment explanation
Indices: 466445--466494 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
466435 GATTATATGA
466445 ATATAAATATATAT-AAATATT
1 ATATAAATATATATAAAAT-TT
*
466466 ATATAAATATATTTTTAAAATTT
1 ATATAAATATA--TATAAAATTT
466489 ATATAA
1 ATATAA
466495 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 11 0.44
23 10 0.40
24 4 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATAAATATATATAAAATTT
Found at i:466500 original size:15 final size:15
Alignment explanation
Indices: 466482--466546 Score: 51
Period size: 17 Copynumber: 4.0 Consensus size: 15
466472 ATATATTTTT
466482 AAAATTTATATAATA
1 AAAATTTATATAATA
466497 AAAA-TTATTAATATATA
1 AAAATTTA-T-ATA-ATA
*
466514 AAATTTTATATAATCA
1 AAAATTTATATAAT-A
*
466530 TAAAATATAATATAATA
1 -AAAAT-TTATATAATA
466547 TTAAAAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.08
15 7 0.17
16 7 0.17
17 12 0.30
18 11 0.28
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATTTATATAATA
Found at i:466532 original size:18 final size:17
Alignment explanation
Indices: 466481--466552 Score: 71
Period size: 18 Copynumber: 4.3 Consensus size: 17
466471 AATATATTTT
466481 TAAAA-TTTATATAATA
1 TAAAATTTTATATAATA
466497 -AAAATTATTA-AT-ATA
1 TAAAATT-TTATATAATA
466512 TAAAATTTTATATAATCA
1 TAAAATTTTATATAAT-A
* *
466530 TAAAATATAATATAATA
1 TAAAATTTTATATAATA
466547 TTAAAA
1 -TAAAA
466553 ATTAAAATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
15 10 0.21
16 11 0.23
17 6 0.13
18 20 0.43
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAATTTTATATAATA
Found at i:466623 original size:23 final size:24
Alignment explanation
Indices: 466581--466629 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
466571 TAATGTAATA
*
466581 TAAATGATTATATATGTTAAAATT
1 TAAATGATTATATATATTAAAATT
*
466605 TAAATTATTA-ATATATTAAAATT
1 TAAATGATTATATATATTAAAATT
466628 TA
1 TA
466630 TATAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
TAAATGATTATATATATTAAAATT
Found at i:466944 original size:29 final size:27
Alignment explanation
Indices: 466885--466963 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 27
466875 GTTAGAAAGT
*
466885 TATTTTTATATTAATATTAATAATATA
1 TATTTTTATATTAATATTAATAATAAA
*
466912 TATTTTTATAATTAAATTTTAAATAA-AAA
1 TATTTTTAT-ATT-AATATT-AATAATAAA
466941 TATTTTT-TATTAATA--AATAATAA
1 TATTTTTATATTAATATTAATAATAA
466964 CTCAAACTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
23 5 0.11
24 2 0.04
26 3 0.07
27 12 0.27
28 4 0.09
29 14 0.31
30 5 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTTTTATATTAATATTAATAATAAA
Found at i:473831 original size:2 final size:2
Alignment explanation
Indices: 473819--473848 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
473809 TATAATTAAG
473819 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
473849 AAGTATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Done.