Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 199 of 344
Found at i:66494583 original size:12 final size:12
Alignment explanation
Indices: 66494555--66494586 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
66494545 CAAATTAAGC
*
66494555 TAAAAATTTGTA
1 TAAAGATTTGTA
66494567 TAAAGATTTGTA
1 TAAAGATTTGTA
66494579 TAAAGATT
1 TAAAGATT
66494587 AAATTGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (12 bp):
TAAAGATTTGTA
Found at i:66503801 original size:59 final size:59
Alignment explanation
Indices: 66503732--66503850 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
66503722 AAGCAAAATA
66503732 TATCTCTTAAGGAATAGTGGTGGGATAGTAGAGATAAGCAAGCAGGGCACTAAGTCTCT
1 TATCTCTTAAGGAATAGTGGTGGGATAGTAGAGATAAGCAAGCAGGGCACTAAGTCTCT
66503791 TATCTCTTAAGGAATAGTGGTGGGATAGTAGAGATAAGCAAGCAGGGCACTAAGTCTCT
1 TATCTCTTAAGGAATAGTGGTGGGATAGTAGAGATAAGCAAGCAGGGCACTAAGTCTCT
66503850 T
1 T
66503851 TCCATTTGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (59 bp):
TATCTCTTAAGGAATAGTGGTGGGATAGTAGAGATAAGCAAGCAGGGCACTAAGTCTCT
Found at i:66505652 original size:17 final size:17
Alignment explanation
Indices: 66505611--66505652 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
66505601 CAGGTATTGA
66505611 GATCAAA-ACCACCAAT
1 GATCAAACACCACCAAT
* **
66505627 AATGGAACACCACCAAT
1 GATCAAACACCACCAAT
66505644 GATCAAACA
1 GATCAAACA
66505653 TATTTGCCCA
Statistics
Matches: 19, Mismatches: 6, Indels: 1
0.73 0.23 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.50, C:0.29, G:0.10, T:0.12
Consensus pattern (17 bp):
GATCAAACACCACCAAT
Found at i:66511164 original size:10 final size:10
Alignment explanation
Indices: 66511077--66511166 Score: 60
Period size: 11 Copynumber: 8.4 Consensus size: 10
66511067 AAAAACAAAT
66511077 AATAATAATAA
1 AATAA-AATAA
*
66511088 AAT-AAATGA
1 AATAAAATAA
66511097 AAT-AAATAAA
1 AATAAAAT-AA
*
66511107 AATAAAAGAA
1 AATAAAATAA
66511117 CAATAATTAATAA
1 -AATAA--AATAA
66511130 TAATAAACA-AA
1 -AATAAA-ATAA
66511141 GAATGAAAATAA
1 -AAT-AAAATAA
66511153 AATAAAATAA
1 AATAAAATAA
66511163 AATA
1 AATA
66511167 CACAAAAAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
9 11 0.17
10 18 0.28
11 21 0.32
12 6 0.09
13 9 0.14
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (10 bp):
AATAAAATAA
Found at i:66521523 original size:17 final size:19
Alignment explanation
Indices: 66521501--66521538 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
66521491 TTTCTGTTGA
66521501 TGACATC-TC-CAACTCTT
1 TGACATCGTCACAACTCTT
66521518 TGACATCGGTCACAACTCTT
1 TGACATC-GTCACAACTCTT
66521538 T
1 T
66521539 ACGTATGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.24, C:0.32, G:0.11, T:0.34
Consensus pattern (19 bp):
TGACATCGTCACAACTCTT
Found at i:66527393 original size:14 final size:14
Alignment explanation
Indices: 66527374--66527405 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
66527364 AATGGGCTGC
66527374 ATAGGGTGGCTTTT
1 ATAGGGTGGCTTTT
66527388 ATAGGGTGGCTTTT
1 ATAGGGTGGCTTTT
66527402 ATAG
1 ATAG
66527406 CTGAAGAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.06, G:0.34, T:0.41
Consensus pattern (14 bp):
ATAGGGTGGCTTTT
Found at i:66532990 original size:25 final size:24
Alignment explanation
Indices: 66532940--66532990 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
66532930 GTACGAGTTT
*
66532940 AAAATAAGTGTTTTTTTAACATTA
1 AAAATAAGTGTTTTTTTAACAATA
*
66532964 AAAATAAGTGTTTTTTTTAATAATA
1 AAAATAAGTG-TTTTTTTAACAATA
66532989 AA
1 AA
66532991 TTTTTAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (24 bp):
AAAATAAGTGTTTTTTTAACAATA
Found at i:66533477 original size:18 final size:17
Alignment explanation
Indices: 66533441--66533482 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
66533431 TTAAGTGTGC
66533441 ATAATAAAATTAAAATAT
1 ATAA-AAAATTAAAATAT
*
66533459 ATAAAAAATTAAGAT-T
1 ATAAAAAATTAAAATAT
66533475 ATAAAAAA
1 ATAAAAAA
66533483 ATCAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.39
17 10 0.43
18 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
ATAAAAAATTAAAATAT
Found at i:66533483 original size:17 final size:16
Alignment explanation
Indices: 66533441--66533491 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
66533431 TTAAGTGTGC
*
66533441 ATAATAAAATTAAAAT
1 ATAAAAAAATTAAAAT
*
66533457 ATATAAAAAATTAAGATT
1 ATA-AAAAAATTAA-AAT
*
66533475 ATAAAAAAATCAAAAT
1 ATAAAAAAATTAAAAT
66533491 A
1 A
66533492 AAACTTTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.21
17 18 0.62
18 5 0.17
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
ATAAAAAAATTAAAAT
Found at i:66534425 original size:15 final size:15
Alignment explanation
Indices: 66534405--66534456 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
66534395 ATTACAAAAA
66534405 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
66534420 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
66534439 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
66534454 ATT
1 ATT
66534457 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:66534520 original size:13 final size:14
Alignment explanation
Indices: 66534484--66534530 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
66534474 ATAATATGTG
*
66534484 AATAATATTATTTAA
1 AATATTATT-TTTAA
66534499 AATCATTATTTTTAA
1 AAT-ATTATTTTTAA
*
66534514 AAT-TTATTATTAA
1 AATATTATTTTTAA
66534527 AATA
1 AATA
66534531 AAACTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 12 0.43
15 11 0.39
16 5 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATTATTTTTAA
Found at i:66534522 original size:16 final size:16
Alignment explanation
Indices: 66534489--66534529 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 16
66534479 ATGTGAATAA
66534489 TATTATTTAAAATCAT
1 TATTATTTAAAATCAT
66534505 TATT-TTTAAAAT--T
1 TATTATTTAAAATCAT
66534518 TATTA-TTAAAAT
1 TATTATTTAAAAT
66534530 AAAACTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.50
15 8 0.33
16 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTATTTAAAATCAT
Found at i:66535042 original size:3 final size:3
Alignment explanation
Indices: 66535034--66535081 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
66535024 TGAATTTAAG
66535034 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66535082 ATCCCTTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:66537403 original size:30 final size:30
Alignment explanation
Indices: 66537359--66537417 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
66537349 TCCGAGCCTT
*
66537359 GGGGAAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGAAAAAGTGTAAATATGCAAAAGTTTA
* *
66537389 GGGGCAAAAA-TGTAATTTTGCAAAAGTTT
1 GGGG-AAAAAGTGTAAATATGCAAAAGTTT
66537418 GAGTTAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGAAAAAGTGTAAATATGCAAAAGTTTA
Found at i:66539565 original size:16 final size:16
Alignment explanation
Indices: 66539544--66539574 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66539534 ATAAATTTGA
66539544 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
66539560 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
66539575 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:66545819 original size:10 final size:10
Alignment explanation
Indices: 66545804--66545828 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
66545794 AAGTTTTCGA
66545804 ATATACATAT
1 ATATACATAT
66545814 ATATACATAT
1 ATATACATAT
66545824 ATATA
1 ATATA
66545829 TATACATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATACATAT
Found at i:66550304 original size:105 final size:105
Alignment explanation
Indices: 66550188--66550383 Score: 252
Period size: 105 Copynumber: 1.9 Consensus size: 105
66550178 ATTTGGCTCA
* * * * * * *
66550188 ATGCCTTGCTTTCTCATTGTGTCAACAATATTTTCAGCTTCAGA-AACCATCCC-TTCTCTGCAA
1 ATGCCTCGCTTTCTCATTATGCCAACAATATGTACAGCATCA-ACAACCATCCCATCCT-TGCAA
*
66550251 TGCGCATCAACCAATATATTATATGTGATAACATCAGGTTCG
64 TGCGCATCAACCAATATATTATACGTGATAACATCAGGTTCG
*
66550293 ATGCCTCGCTTTCTCATTATGCCAACAATATGTACAGCATCAACAATCATCCCATCCTTGCAATG
1 ATGCCTCGCTTTCTCATTATGCCAACAATATGTACAGCATCAACAACCATCCCATCCTTGCAATG
* * *
66550358 TGCATCGATCAATATATTATACGTGA
66 CGCATCAACCAATATATTATACGTGA
66550384 CGATATTAAG
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
104 1 0.01
105 73 0.95
106 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (105 bp):
ATGCCTCGCTTTCTCATTATGCCAACAATATGTACAGCATCAACAACCATCCCATCCTTGCAATG
CGCATCAACCAATATATTATACGTGATAACATCAGGTTCG
Found at i:66551775 original size:24 final size:26
Alignment explanation
Indices: 66551746--66551794 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
66551736 CTTGTTTTAA
* *
66551746 TATTTG-TTT-TTATGTTTTTAAATG
1 TATTTGATTTATTATATTTTAAAATG
66551770 TATTTGATTTATTATATTTTAAAAT
1 TATTTGATTTATTATATTTTAAAAT
66551795 TTTTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (26 bp):
TATTTGATTTATTATATTTTAAAATG
Found at i:66555810 original size:22 final size:23
Alignment explanation
Indices: 66555764--66555825 Score: 92
Period size: 22 Copynumber: 2.7 Consensus size: 23
66555754 ATTTGAAATG
66555764 TTTTATAATATATATTTTTTAAAA
1 TTTTA-AATATATATTTTTTAAAA
66555788 TTTTAAATATATATTTTTT-AAA
1 TTTTAAATATATATTTTTTAAAA
*
66555810 TATTAAATATAT-TTTT
1 TTTTAAATATATATTTT
66555826 AATAATATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 4 0.11
22 14 0.38
23 14 0.38
24 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAAATATATATTTTTTAAAA
Found at i:66555836 original size:20 final size:20
Alignment explanation
Indices: 66555773--66555833 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
66555763 GTTTTATAAT
*
66555773 ATATATTTTTTAAAATTTTAAA
1 ATATA-TTTTTAAAATATT-AA
*
66555795 TATATATTTTTTAAATATTAA
1 -ATATATTTTTAAAATATTAA
66555816 ATATATTTTTAATAATAT
1 ATATATTTTTAA-AATAT
66555834 AAAAAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.32
21 7 0.21
22 11 0.32
23 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATATTTTTAAAATATTAA
Found at i:66555920 original size:31 final size:31
Alignment explanation
Indices: 66555882--66555982 Score: 105
Period size: 31 Copynumber: 3.1 Consensus size: 31
66555872 TTATTATTAG
66555882 TTTTATAATATTTTAAATATTTTTTAATTTA
1 TTTTATAATATTTTAAATATTTTTTAATTTA
*
66555913 TTTTATAATATTTTAAATTATGATTTTTAAATTA
1 TTTTATAATATTTTAAA-TAT--TTTTTAATTTA
* * *
66555947 TTTTA-AAGATATTCAAATCTTTTTTAAATTCTA
1 TTTTATAATAT-TTTAAATATTTTTT-AATT-TA
66555980 TTT
1 TTT
66555983 AAAATTTAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
31 22 0.37
32 6 0.10
33 11 0.19
34 20 0.34
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (31 bp):
TTTTATAATATTTTAAATATTTTTTAATTTA
Found at i:66555952 original size:10 final size:10
Alignment explanation
Indices: 66555877--66555953 Score: 50
Period size: 10 Copynumber: 7.1 Consensus size: 10
66555867 CAAATTTATT
66555877 ATTAGTTTTATA
1 ATTA-TTTTA-A
66555889 A-TATTTTAA
1 ATTATTTTAA
*
66555898 ATATTTTTTAA
1 AT-TATTTTAA
*
66555909 TTTATTTTATA
1 ATTATTTTA-A
66555920 A-TATTTTAA
1 ATTATTTTAA
66555929 ATTATGATTTTTAA
1 A-T-T-A-TTTTAA
66555943 ATTATTTTAA
1 ATTATTTTAA
66555953 A
1 A
66555954 GATATTCAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
9 4 0.08
10 25 0.47
11 12 0.23
12 3 0.06
13 2 0.04
14 7 0.13
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (10 bp):
ATTATTTTAA
Found at i:66555959 original size:11 final size:11
Alignment explanation
Indices: 66555889--66555959 Score: 58
Period size: 10 Copynumber: 6.5 Consensus size: 11
66555879 TAGTTTTATA
66555889 ATATTTTAAAT
1 ATATTTTAAAT
*
66555900 AT-TTTTTAAT
1 ATATTTTAAAT
* *
66555910 TTATTTTATA-
1 ATATTTTAAAT
66555920 ATATTTTAAATT
1 ATATTTTAAA-T
66555932 ATGATTTTTAAAT
1 AT-A-TTTTAAAT
*
66555945 -TATTTTAAAG
1 ATATTTTAAAT
66555955 ATATT
1 ATATT
66555960 CAAATCTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
10 23 0.49
11 12 0.26
12 3 0.06
13 2 0.04
14 7 0.15
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (11 bp):
ATATTTTAAAT
Found at i:66556058 original size:14 final size:14
Alignment explanation
Indices: 66556039--66556090 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
66556029 ACTTAAAAAA
66556039 TAAAAAATATTTAT
1 TAAAAAATATTTAT
*
66556053 TAAAAATAAATTTAT
1 TAAAAA-ATATTTAT
* *
66556068 TTAAAAATATATAT
1 TAAAAAATATTTAT
66556082 TAAAAAATA
1 TAAAAAATA
66556091 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAAAAATATTTAT
Found at i:66556059 original size:13 final size:13
Alignment explanation
Indices: 66556041--66556087 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
66556031 TTAAAAAATA
66556041 AAAAATATTTATT
1 AAAAATATTTATT
66556054 AAAAATAAATTTATTT
1 AAAAAT--ATTTA-TT
*
66556070 AAAAATATATATT
1 AAAAATATTTATT
66556083 AAAAA
1 AAAAA
66556088 ATAAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 13 0.43
14 4 0.13
15 5 0.17
16 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAATATTTATT
Found at i:66556065 original size:15 final size:16
Alignment explanation
Indices: 66556047--66556076 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66556037 AATAAAAAAT
66556047 ATTTA-TTAAAAATAA
1 ATTTATTTAAAAATAA
66556062 ATTTATTTAAAAATA
1 ATTTATTTAAAAATA
66556077 TATATTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTTATTTAAAAATAA
Found at i:66556088 original size:15 final size:15
Alignment explanation
Indices: 66556040--66556088 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
66556030 CTTAAAAAAT
66556040 AAAAAATATTTATTA
1 AAAAAATATTTATTA
66556055 AAAATAA-ATTTATT-
1 AAAA-AATATTTATTA
* *
66556069 TAAAAATATATATTA
1 AAAAAATATTTATTA
66556084 AAAAA
1 AAAAA
66556089 TAAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAAATATTTATTA
Found at i:66556094 original size:20 final size:21
Alignment explanation
Indices: 66556068--66556123 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
66556058 ATAAATTTAT
66556068 TTAAAAATATATATTAAAAAA
1 TTAAAAATATATATTAAAAAA
* *
66556089 -TAAAAATTTA-AATAAAAAA
1 TTAAAAATATATATTAAAAAA
66556108 TTAAAAATATATATTA
1 TTAAAAATATATATTA
66556124 TAACTGGTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 8 0.28
20 18 0.62
21 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAAAAATATATATTAAAAAA
Found at i:66556107 original size:14 final size:15
Alignment explanation
Indices: 66556036--66556108 Score: 51
Period size: 16 Copynumber: 4.7 Consensus size: 15
66556026 ATTACTTAAA
66556036 AAATAAAAAATATTT
1 AAATAAAAAATATTT
* *
66556051 -ATTAAAAATAAATTT
1 AAATAAAAA-ATATTT
**
66556066 ATTTAAAAATATATATT
1 AAATAAAAA-ATAT-TT
*
66556083 AAA-AAATAAAAATTT
1 AAATAAA-AAATATTT
66556098 AAATAAAAAAT
1 AAATAAAAAAT
66556109 TAAAAATATA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
14 7 0.16
15 13 0.29
16 20 0.44
17 5 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATAAAAAATATTT
Found at i:66556123 original size:13 final size:13
Alignment explanation
Indices: 66556041--66556123 Score: 53
Period size: 14 Copynumber: 6.1 Consensus size: 13
66556031 TTAAAAAATA
*
66556041 AAAAATATTTATT
1 AAAAATATATATT
*
66556054 AAAAATAAATTTATTT
1 AAAAAT--ATATA-TT
66556070 AAAAATATATATT
1 AAAAATATATATT
* *
66556083 AAAAAATAAAAATTT
1 -AAAAATATATA-TT
*
66556098 AAATAA-A-AAATT
1 AAA-AATATATATT
66556110 AAAAATATATATT
1 AAAAATATATATT
66556123 A
1 A
66556124 TAACTGGTCA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
11 2 0.03
12 6 0.10
13 16 0.28
14 17 0.29
15 9 0.16
16 8 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAATATATATT
Found at i:66556604 original size:20 final size:20
Alignment explanation
Indices: 66556581--66556645 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
66556571 ATAATTTTTT
66556581 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTCATA
* ** *
66556601 AATTTATA-TATTA-ATTTTTT
1 AATTT-TAGTA-CACATTCATA
66556621 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTCATA
66556641 AATTT
1 AATTT
66556646 ATATACTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.49
Consensus pattern (20 bp):
AATTTTAGTACACATTCATA
Found at i:66556616 original size:40 final size:41
Alignment explanation
Indices: 66556572--66556656 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 41
66556562 GTGTTAGTTA
66556572 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
66556612 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
66556653 TAAT
1 TAAT
66556657 ATATATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 39 0.89
41 5 0.11
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
Found at i:66556667 original size:40 final size:40
Alignment explanation
Indices: 66556580--66556667 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
66556570 TATAATTTTT
* *
66556580 TAATTTTAGTACACATTCATAAATTTATATATTAATTTTT
1 TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
66556620 TAATTTTAGTACACATTCATAAATTTATATACTTAA-TATA
1 TAATTTTAGTACACATTCATAAATTTATATA-TTAATTATA
*
66556660 TATTTTTA
1 TAATTTTA
66556668 ATAGGTAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (40 bp):
TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
Found at i:66556930 original size:16 final size:16
Alignment explanation
Indices: 66556909--66556944 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
66556899 AAAACTTAAA
66556909 AAAATTTAAATATATT
1 AAAATTTAAATATATT
*
66556925 AAAATTTAAATATGTT
1 AAAATTTAAATATATT
66556941 AAAA
1 AAAA
66556945 GAATATGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATTTAAATATATT
Found at i:66557004 original size:79 final size:77
Alignment explanation
Indices: 66556912--66557058 Score: 201
Period size: 77 Copynumber: 1.9 Consensus size: 77
66556902 ACTTAAAAAA
* **
66556912 ATTTAAATATATTAAAA-TTT-AA-ATATGTTAAAAGAATATGTTGAGTATAACCAATTTTAATT
1 ATTTAAATATATTAAAATTTTGAACATAT-TT-AAA-AA-AT-TTAAGTATAACCAATTTTAAAA
66556974 TTTTAATAGTTGAATAT
61 TTTTAATAGTTGAATAT
66556991 ATTTAAATATATTAAAATTTTGAACATATTTAAAAAATTTAAGTATAACCAATTTTAAAATTTTA
1 ATTTAAATATATTAAAATTTTGAACATATTTAAAAAATTTAAGTATAACCAATTTTAAAATTTTA
66557056 ATA
66 ATA
66557059 TTTTTTTTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
77 27 0.44
78 2 0.03
79 19 0.31
80 6 0.10
81 4 0.06
82 4 0.06
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (77 bp):
ATTTAAATATATTAAAATTTTGAACATATTTAAAAAATTTAAGTATAACCAATTTTAAAATTTTA
ATAGTTGAATAT
Found at i:66558925 original size:30 final size:30
Alignment explanation
Indices: 66558889--66558960 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
66558879 GTCGCAGAGC
* * *
66558889 AGTTCATATCACTCAGACATTGGCGGTTCA
1 AGTTCATATCACACAGACATGGGCGATTCA
*
66558919 AGTTCATATCACACAGACATGGGCGATTCG
1 AGTTCATATCACACAGACATGGGCGATTCA
66558949 AGTTCATATCAC
1 AGTTCATATCAC
66558961 CCGAATATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACACAGACATGGGCGATTCA
Found at i:66562506 original size:24 final size:24
Alignment explanation
Indices: 66562465--66562520 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
66562455 AGGTCATATC
*
66562465 TTTAAAAATAAAATATTTTAAATAA
1 TTTAAAAATAAAATATTTAAAAT-A
* *
66562490 TTTAAAAATCATA-ATTTAAAATA
1 TTTAAAAATAAAATATTTAAAATA
66562513 TTATAAAA
1 TT-TAAAA
66562521 CAAATTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 13 0.48
25 11 0.41
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTTAAAAATAAAATATTTAAAATA
Found at i:66562650 original size:18 final size:17
Alignment explanation
Indices: 66562604--66562650 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
66562594 ATATCTTTAA
66562604 AATATTT-AAATATTTT
1 AATATTTAAAATATTTT
*
66562620 ATATTATTAAAAATATATTT
1 A-A-TATTTAAAATAT-TTT
66562640 AATATTTAAAA
1 AATATTTAAAA
66562651 ATAATTCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.04
17 1 0.04
18 12 0.48
19 7 0.28
20 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATATTTAAAATATTTT
Found at i:66562797 original size:34 final size:34
Alignment explanation
Indices: 66562759--66562823 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
66562749 AATAAGGATA
*
66562759 AAGACAAAACTTAAAAAAGAAAA-AAATAAAGAAT
1 AAGACAAAACTTAAAAAA-AAAACAAAGAAAGAAT
*
66562793 AAGACAAAAGTTAAAAAAAAAACAAAGAAAG
1 AAGACAAAACTTAAAAAAAAAACAAAGAAAG
66562824 TAACATGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (34 bp):
AAGACAAAACTTAAAAAAAAAACAAAGAAAGAAT
Found at i:66568478 original size:3 final size:3
Alignment explanation
Indices: 66568454--66568533 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
66568444 TATTTATTTT
* *
66568454 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A
66568499 TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
66568534 ATATGCCATC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:66568821 original size:39 final size:40
Alignment explanation
Indices: 66568778--66568919 Score: 96
Period size: 39 Copynumber: 3.4 Consensus size: 40
66568768 ATATATATAT
*
66568778 ATATTTATATATAGTA-TTGTTTTTTATTACTTTAATTTA
1 ATATTTATATATAGTAGTTGTTTTTTATTACTATAATTTA
* * *
66568817 ATATTTTTAT-TA-TATTTGCTTTTTGTATTTCTAT-ATTTA
1 ATATTTATATATAGTAGTTG-TTTTT-TATTACTATAATTTA
* *
66568856 TTATTATTATTATATAGTAGTGTGTATTTCTATTA-TATACATATATA
1 ATA-T-TTA-TATATAGTAGT-TGT-TTTTTATTACTATA-AT-T-TA
66568903 TATATTTATATATAGTA
1 -ATATTTATATATAGTA
66568920 TTATTATTTA
Statistics
Matches: 79, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
37 2 0.03
38 5 0.06
39 21 0.27
40 8 0.10
41 2 0.03
42 3 0.04
43 5 0.06
44 8 0.10
45 16 0.20
46 4 0.05
47 3 0.04
48 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (40 bp):
ATATTTATATATAGTAGTTGTTTTTTATTACTATAATTTA
Found at i:66579860 original size:87 final size:87
Alignment explanation
Indices: 66579714--66580146 Score: 548
Period size: 87 Copynumber: 5.0 Consensus size: 87
66579704 CAGATTGAAG
* *
66579714 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGAGTCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATGAGTCTTAAACCCCT
66579779 AAGCAGTAGGGTAACAGGCTAA
66 AAGCAGTAGGGTAACAGGCTAA
* *
66579801 ATTTACAGA-CTTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAAACCC
1 ATTTACAGATCTT-AACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATGAGTCTTAAACCCC
*
66579865 TAAGCAGTAGGGTAACAGACTAA
65 TAAGCAGTAGGGTAACAGGCTAA
* ** *
66579888 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAGCCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATGAGTCTTAAACCCCT
* * *
66579953 AAGCAATAGGGTAACAGGTTGA
66 AAGCAGTAGGGTAACAGGCTAA
* * * ** * *
66579975 TTTTACAAGATCTTAAACCCCTAAGCAGTAGGGAAACAGA-TCAATGATGACAAGTTTTAACCCC
1 ATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAA-GATGATGAGTCTTAAACCC
* *
66580039 CTAAGCAGTAGGGTAACAGGTTGA
64 CTAAGCAGTAGGGTAACAGGCTAA
* * * ** * *
66580063 TTTTACAAGATCTTAAACCCCTAAGCAGTAGGGAAACAGA-TCAATGATGACAAGCCTTAACCCC
1 ATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAA-GATGATGAGTCTTAAACCC
66580127 CTAAGCAGTAGGGTAACAGG
64 CTAAGCAGTAGGGTAACAGG
66580147 TTGAAAATCA
Statistics
Matches: 313, Mismatches: 29, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
86 2 0.01
87 159 0.51
88 152 0.49
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (87 bp):
ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATGAGTCTTAAACCCCT
AAGCAGTAGGGTAACAGGCTAA
Found at i:66579990 original size:44 final size:44
Alignment explanation
Indices: 66579715--66580150 Score: 282
Period size: 44 Copynumber: 10.0 Consensus size: 44
66579705 AGATTGAAGA
* * * * *
66579715 TTTAC-AGATCTCAACCCCCTAAGCAGTAGGGAAATAGATTGAA
1 TTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGATTGAT
** * * ** * *
66579758 GAT-GATGAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAA
1 TTTACAAGA-TCTTAAACCCCTAAGCAGTAGGGTAACAGATTGAT
* *
66579802 TTTAC-AGA-CTTCAACCCCCTAAGCAGTAGGG-AAGCAGATTGAA
1 TTTACAAGATCTT-AAACCCCTAAGCAGTAGGGTAA-CAGATTGAT
** * * * * * *
66579845 GAT-GATGAGTCTTAAAACCCTAAGCAGTAGGGTAACAGACTAAA
1 TTTACAAGA-TCTTAAACCCCTAAGCAGTAGGGTAACAGATTGAT
* * *
66579889 TTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGA-
1 TTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGATTGAT
*** * * * *
66579931 -AGGCGATGAGCCTTAAACCCCTAAGCAATAGGGTAACAGGTTGAT
1 TTTAC-AAGA-TCTTAAACCCCTAAGCAGTAGGGTAACAGATTGAT
* **
66579976 TTTACAAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATCAAT
1 TTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGATTGAT
* * * * *
66580020 GATGACAAG-TTTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAT
1 -TTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGATTGAT
* **
66580064 TTTACAAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATCAAT
1 TTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGATTGAT
* * * * *
66580108 GATGACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGA
1 -TTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGATTGA
66580151 AAATCAAATA
Statistics
Matches: 294, Mismatches: 81, Indels: 35
0.72 0.20 0.09
Matches are distributed among these distances:
41 1 0.00
42 5 0.02
43 66 0.22
44 201 0.68
45 20 0.07
46 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (44 bp):
TTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGATTGAT
Found at i:66580040 original size:88 final size:86
Alignment explanation
Indices: 66579714--66580151 Score: 554
Period size: 88 Copynumber: 5.0 Consensus size: 86
66579704 CAGATTGAAG
* * *
66579714 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGAGTCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA-TCAAGATGATGAGTCTTAAACCCCT
* *
66579779 AAGCAGTAGGGTAACAGGCTAA
65 AAGCAGTAGGGTAACAGGTTGA
* * *
66579801 ATTTACAGA-CTTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAAACCC
1 ATTTACAGATCTT-AACCCCCTAAGCAGTAGGGAAACAGA-TCAAGATGATGAGTCTTAAACCCC
** *
66579865 TAAGCAGTAGGGTAACAGACTAA
64 TAAGCAGTAGGGTAACAGGTTGA
** *
66579888 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAGCCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-AAGATGATGAGTCTTAAACCCCT
*
66579953 AAGCAATAGGGTAACAGGTTGA
65 AAGCAGTAGGGTAACAGGTTGA
* * ** * *
66579975 TTTTACAAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATCAATGATGACAAGTTTTAACCCCC
1 ATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAA-GATGATGAGTCTTAAACCCC
66580040 TAAGCAGTAGGGTAACAGGTTGA
64 TAAGCAGTAGGGTAACAGGTTGA
* * ** * *
66580063 TTTTACAAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATCAATGATGACAAGCCTTAACCCCC
1 ATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAA-GATGATGAGTCTTAAACCCC
66580128 TAAGCAGTAGGGTAACAGGTTGA
64 TAAGCAGTAGGGTAACAGGTTGA
66580151 A
1 A
66580152 AATCAAATAT
Statistics
Matches: 318, Mismatches: 28, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
86 3 0.01
87 157 0.49
88 158 0.50
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (86 bp):
ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAGATGATGAGTCTTAAACCCCTA
AGCAGTAGGGTAACAGGTTGA
Found at i:66580246 original size:68 final size:68
Alignment explanation
Indices: 66580161--66580431 Score: 425
Period size: 68 Copynumber: 4.0 Consensus size: 68
66580151 AAATCAAATA
* *
66580161 TCTTCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTTAGTGG
1 TCTTCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
66580226 ATC
66 ATC
* *
66580229 TCTTTTCCCTAAAATGGCGTTAGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
66580294 ATC
66 ATC
* * * *
66580297 TCTTCTCCCTGATATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
66580362 ATC
66 ATC
* * * * *
66580365 TCTTCTCCCCGAAATGGTGTTGGAGCAGCTAAAAGCCACAGCAGATTTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
66580430 AT
66 AT
66580432 TAATCAAAGC
Statistics
Matches: 186, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 186 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (68 bp):
TCTTCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
ATC
Found at i:66581316 original size:3 final size:3
Alignment explanation
Indices: 66581281--66581371 Score: 59
Period size: 3 Copynumber: 30.3 Consensus size: 3
66581271 GAGCTTCGTT
* * *
66581281 TTA TTT TTA TT- TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
66581324 TTA TTA TT- TCTCA TGTA TATA TTA TTA TGTA -TA TTA TTA TTA -TA
1 TTA TTA TTA T-T-A T-TA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA
66581368 TTA T
1 TTA T
66581372 ATATGCCCTC
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
2 10 0.14
3 50 0.71
4 8 0.11
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:66583640 original size:104 final size:104
Alignment explanation
Indices: 66583483--66583675 Score: 230
Period size: 104 Copynumber: 1.9 Consensus size: 104
66583473 AACATCAGGA
* * **
66583483 TCAATGCCTTGCATTCTCATTGTGCAATAATATATTCAGCTTCAGACACCATCCTTTCCTTGCAA
1 TCAATGCCTTGCATTCTCATTGTGCAATAATATATACAGCGTCAGACACCATCCCATCCTTGCAA
*
66583548 TGCGCATCAACCAATATATTTTATGTCACAACATTAGAC
66 TGCGCATCAACCAATATATATTATGTCACAACATTAGAC
* * *
66583587 TCAATGCCTT-CTTTCTCATTGTGCCAACT-ATATGTACAGCGTCAG-CAATCATCCCATCCTTG
1 TCAATGCCTTGCATTCTCATTGTG-CAA-TAATATATACAGCGTCAGAC-ACCATCCCATCCTTG
* * * *
66583649 CGATGTGCATCGATCAATATATATTAT
63 CAATGCGCATCAACCAATATATATTAT
66583676 ACATGGCAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
103 13 0.18
104 60 0.81
105 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (104 bp):
TCAATGCCTTGCATTCTCATTGTGCAATAATATATACAGCGTCAGACACCATCCCATCCTTGCAA
TGCGCATCAACCAATATATATTATGTCACAACATTAGAC
Found at i:66586970 original size:25 final size:28
Alignment explanation
Indices: 66586927--66586978 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
66586917 AGTTTTGACA
*
66586927 TATAAATAGAAATTTATATTA-TATTTT
1 TATAAATAGAAATTGATATTAGTATTTT
66586954 TATAAA-A-AAATTGATATTAGTATTT
1 TATAAATAGAAATTGATATTAGTATTT
66586979 ATATTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 6 0.26
27 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (28 bp):
TATAAATAGAAATTGATATTAGTATTTT
Found at i:66587059 original size:24 final size:24
Alignment explanation
Indices: 66587027--66587074 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
66587017 AAATGATGGA
66587027 ATACAATTCTAATTAATATAGTTT
1 ATACAATTCTAATTAATATAGTTT
66587051 ATACAATTCTAATTAATATAGTTT
1 ATACAATTCTAATTAATATAGTTT
66587075 TTCTTTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (24 bp):
ATACAATTCTAATTAATATAGTTT
Found at i:66588196 original size:11 final size:11
Alignment explanation
Indices: 66588180--66588209 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
66588170 GTAATGGTAG
66588180 TTTTTAGTATT
1 TTTTTAGTATT
*
66588191 TTTTTAGTGTT
1 TTTTTAGTATT
66588202 TTTTTAGT
1 TTTTTAGT
66588210 TTTGCTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (11 bp):
TTTTTAGTATT
Found at i:66588589 original size:23 final size:23
Alignment explanation
Indices: 66588562--66588605 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
66588552 GCAGAGAAAT
* * *
66588562 AACAGTAGCAAAGTTAAGTCATG
1 AACAGTAACAAAATCAAGTCATG
66588585 AACAGTAACAAAATCAAGTCA
1 AACAGTAACAAAATCAAGTCA
66588606 AGTGTAACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (23 bp):
AACAGTAACAAAATCAAGTCATG
Found at i:66589599 original size:12 final size:11
Alignment explanation
Indices: 66589526--66589606 Score: 67
Period size: 9 Copynumber: 8.2 Consensus size: 11
66589516 TTTATTTGTG
66589526 TCTATATTATTA
1 TCTAT-TTATTA
66589538 T-TA-TTATTA
1 TCTATTTATTA
66589547 T-TA-TTATTA
1 TCTATTTATTA
66589556 T-TA-TTATTA
1 TCTATTTATTA
66589565 T-TA-TTATTA
1 TCTATTTATTA
66589574 T-TA-TTATTA
1 TCTATTTATTA
66589583 T-TATTTATCTA
1 TCTATTTAT-TA
66589594 TCTATTTATTA
1 TCTATTTATTA
66589605 TC
1 TC
66589607 CTTTATATAT
Statistics
Matches: 66, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
9 45 0.68
10 4 0.06
11 9 0.14
12 8 0.12
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (11 bp):
TCTATTTATTA
Found at i:66589605 original size:3 final size:3
Alignment explanation
Indices: 66589530--66589587 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
66589520 TTTGTGTCTA
66589530 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66589578 TAT TAT TAT T
1 TAT TAT TAT T
66589588 TATCTATCTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:66589678 original size:3 final size:3
Alignment explanation
Indices: 66589665--66589714 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
66589655 TTACTACATA
* * * *
66589665 TAT TGT TAT TAT TAT TAT TAT TAC TAT TAT TAT TCAT TGT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
66589711 TAT T
1 TAT T
66589715 TATGTACTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:66589797 original size:20 final size:20
Alignment explanation
Indices: 66589772--66589819 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
66589762 TTTGGTCCTT
*
66589772 TTATTTTTGATATTCCTTAA
1 TTATTTTCGATATTCCTTAA
66589792 TTATTTTCGATATTCCTTAA
1 TTATTTTCGATATTCCTTAA
66589812 TTATTTTC
1 TTATTTTC
66589820 CTTAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.12, G:0.04, T:0.60
Consensus pattern (20 bp):
TTATTTTCGATATTCCTTAA
Found at i:66589878 original size:3 final size:3
Alignment explanation
Indices: 66589870--66589900 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
66589860 TCACACACTT
66589870 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
66589901 ATTCTATCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:66594833 original size:3 final size:3
Alignment explanation
Indices: 66594825--66594859 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
66594815 GTTCTTAAAA
* *
66594825 AAG AAG AAG AAG AAG AAG AAA AAG AAA AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
66594860 ATCATATATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:66594860 original size:9 final size:9
Alignment explanation
Indices: 66594822--66594860 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
66594812 CAGGTTCTTA
66594822 AAAAAGAAG
1 AAAAAGAAG
*
66594831 AAGAAGAAG
1 AAAAAGAAG
66594840 AAGAAA-AAG
1 AA-AAAGAAG
66594849 AAAAAGAAG
1 AAAAAGAAG
66594858 AAA
1 AAA
66594861 TCATATATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 3 0.12
9 21 0.81
10 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:66595017 original size:8 final size:8
Alignment explanation
Indices: 66595000--66595036 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
66594990 GTAAAAAAAG
66595000 AAAATA-A
1 AAAATATA
66595007 AAAATATA
1 AAAATATA
*
66595015 AAAAAATA
1 AAAATATA
66595023 AAAA-ATA
1 AAAATATA
66595030 AAAATAT
1 AAAATAT
66595037 CGTGGGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
AAAATATA
Found at i:66595022 original size:17 final size:16
Alignment explanation
Indices: 66594995--66595033 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
66594985 GTGCAGTAAA
66594995 AAAAGAAAATAAAAAAT
1 AAAA-AAAATAAAAAAT
66595012 ATAAAAAAATAAAAAAT
1 A-AAAAAAATAAAAAAT
66595029 AAAAA
1 AAAAA
66595034 TATCGTGGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.19
17 14 0.67
18 3 0.14
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAAAATAAAAAAT
Found at i:66595034 original size:23 final size:22
Alignment explanation
Indices: 66594991--66595036 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
66594981 AAAAGTGCAG
*
66594991 TAAAAAAAGAAAATAAAAAATA
1 TAAAAAAAGAAAAAAAAAAATA
*
66595013 TAAAAAAATAAAAAATAAAAATA
1 TAAAAAAAGAAAAAA-AAAAATA
66595036 T
1 T
66595037 CGTGGGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (22 bp):
TAAAAAAAGAAAAAAAAAAATA
Found at i:66595579 original size:5 final size:5
Alignment explanation
Indices: 66595560--66595638 Score: 67
Period size: 5 Copynumber: 15.8 Consensus size: 5
66595550 CTTCACTAAA
* *
66595560 AAAAG -AAAT AAAAG AAAAG AAAA- AAGAA- AAACA- AAAAG AAAAG TAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAA-AG AAAAG AAAAG AAAAG
*
66595608 AAAAG AAAAG AAAAAGG AAAAG AAAGG AAAA
1 AAAAG AAAAG -AAAA-G AAAAG AAAAG AAAA
66595639 AGGAGAAGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
4 7 0.11
5 46 0.74
6 8 0.13
7 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:66595584 original size:12 final size:12
Alignment explanation
Indices: 66595569--66595632 Score: 76
Period size: 12 Copynumber: 5.1 Consensus size: 12
66595559 AAAAAGAAAT
66595569 AAAAGAAAAGAA
1 AAAAGAAAAGAA
66595581 AAAAGAAAA-ACA
1 AAAAGAAAAGA-A
66595593 AAAAGAAAAGTAAA
1 AAAAGAAAAG--AA
66595607 GAAAAGAAAAGAA
1 -AAAAGAAAAGAA
*
66595620 AAAGGAAAAGAA
1 AAAAGAAAAGAA
66595632 A
1 A
66595633 GGAAAAAGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
11 1 0.02
12 31 0.67
13 2 0.04
14 1 0.02
15 11 0.24
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:66595640 original size:17 final size:17
Alignment explanation
Indices: 66595581--66595642 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
66595571 AAGAAAAGAA
**
66595581 AAAAGAAAAACAAAAAG
1 AAAAGAAAAAGGAAAAG
*
66595598 AAAAG-TAAA-GAAAAG
1 AAAAGAAAAAGGAAAAG
66595613 AAAAGAAAAAGGAAAAG
1 AAAAGAAAAAGGAAAAG
*
66595630 AAAGGAAAAAGGA
1 AAAAGAAAAAGGA
66595643 GAAGCCAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
15 10 0.26
16 6 0.15
17 23 0.59
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.02
Consensus pattern (17 bp):
AAAAGAAAAAGGAAAAG
Found at i:66596596 original size:44 final size:44
Alignment explanation
Indices: 66596530--66597324 Score: 759
Period size: 44 Copynumber: 17.9 Consensus size: 44
66596520 TACCATGGCG
*
66596530 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * * *
66596574 AACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAAATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGTTACA
* *
66596619 AATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * ***
66596663 GATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGCCGAAGTTAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * *
66596708 AACCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACA
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * ** *
66596752 AGTCTTATCTCCTTAAAGTTGCAGTGGAGCAGACTAAAATTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGTTACA
* * * * *
66596797 AACCTTATCTCCCTGAAGTTGTAGTGGGGTAGGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
*
66596841 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGTTACA
* *
66596886 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGTTACA
* * *
66596931 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GTTACA
* *
66596976 AATCTTATCTCCCTGAAGTTGC-GTGGAGTAGACTGAAGGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GTTACA
* * * ** *
66597020 AATCTTATCTCCTTAAAGTTGCAGTGGAGCAAATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * ** * *
66597064 AGTCTTATCTCCCTGAAGTTACAGTGGAGTGGA-TCAAATATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TA-CA
* * * * * *
66597109 AATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * ** *
66597153 AACCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * *** ** *
66597197 AGTCTTATCTTCCTGAAGTTACAGTGGAATGGATCAAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * * * * *
66597242 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * *
66597286 AACCTTATCTCTCTGAAGTTGCAGTGGAGTAGATCGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
66597325 CATTAATTCC
Statistics
Matches: 618, Mismatches: 121, Indels: 24
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.00
44 317 0.51
45 295 0.48
46 3 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
Found at i:66596639 original size:89 final size:89
Alignment explanation
Indices: 66596530--66597314 Score: 719
Period size: 89 Copynumber: 8.8 Consensus size: 89
66596520 TACCATGGCG
* * *
66596530 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAACCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTG
** *
66596595 CAGTGGAGCAGGTTAAAAATAACA
66 CAGTGGAGCAGACTAAAAGTAACA
* * *
66596619 AATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAGATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTG
* * ** *
66596684 CAGTGGAGTAGGC-CGAAGTTAGCA
66 CAGTGGAGCAGACTAAAAG-TAACA
* * * * * *
66596708 AACCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTC-CTTAAAGT
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCTC-TGAAGT
* *
66596771 TGCAGTGGAGCAGACTAAAATTTACA
64 TGCAGTGGAGCAGACTAAAAGTAACA
* * * * *
66596797 AACCTTATCTCCCTGAAGTTGTAGTGGGGTAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTG
* *
66596862 CAGTGGAGCAGACTGAAAGTTACA
66 CAGTGGAGCAGACTAAAAGTAACA
* * * *
66596886 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACAAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG-AAGTTACAAATCTTATCTCTCTGAAGTT
* * * * *
66596951 GTAGTGGAGTAGACTGAAGGTTACA
65 GCAGTGGAGCAGACTAAAAGTAACA
* *
66596976 AATCTTATCTCCCTGAAGTTGC-GTGGAGTAGACTGAAGGTTACAAATCTTATCTC-CTTAAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-GTTACAAATCTTATCTCTC-TGAAGT
* ** ** *
66597039 TGCAGTGGAGCA-AATTGAAGCCACT
64 TGCAGTGGAGCAGACTAAAAGTAACA
* * * * *
66597064 AGTCTTATCTCCCTGAAGTTACAGTGGAGTGGA-TCAAATATAGCAAATCTTATCTCTCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGT-TA-CAAATCTTATCTCTCTGAAGT
* * * *
66597128 TACAGTAGAGCAGA-TTAAAGCT-ATA
64 TGCAGTGGAGCAGACTAAAAG-TAACA
* * * * ** * *
66597153 AACCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCCACTAGTCTTATCT-TCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCT-CTGAAGTT
* *** * *
66597217 ACAGTGGAATGGA-TCAAAGATAGCA
65 GCAGTGGAGCAGACTAAAAG-TAACA
* * * * * *
66597242 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTG
66597307 CAGTGGAG
66 CAGTGGAG
66597315 TAGATCGAAG
Statistics
Matches: 579, Mismatches: 98, Indels: 38
0.81 0.14 0.05
Matches are distributed among these distances:
87 2 0.00
88 70 0.12
89 426 0.74
90 81 0.14
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTG
CAGTGGAGCAGACTAAAAGTAACA
Found at i:66596758 original size:133 final size:132
Alignment explanation
Indices: 66596531--66597324 Score: 785
Period size: 133 Copynumber: 6.0 Consensus size: 132
66596521 ACCATGGCGA
* * * * * *
66596531 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAACCTTATCTCTCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTCGAAGTTACAAATCTTATCTCCCTGAAGTTGC
* * * * * *
66596596 AGTGGAGCAGGTTAAAAATAACAAATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA
66 AGTGGAGCAGATT-AAAGTTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
66596661 CAG
130 CAG
* *
66596664 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGCCGAAGTTAGCAAACCTTAT-TCCCCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTCGAAGTTA-CAAATCTTATCT-CCCTGAAGTT
* * * ** * * ** *
66596728 GCAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTCCTTAAAGTTGCAGTGGAGCAGACTAAAATT
64 GCAGTGGAGCAGATTAAAGTTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGT
*
66596793 TACAA
128 TACAG
* * * *
66596798 ACCTTATCTCCCTGAAGTTGTAGTGGGGTAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTCGAAGTTACAAATCTTATCTCCCTGAAGTTGC
* *
66596863 AGTGGAGCAGACTGAAAGTTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTT
66 AGTGGAGCAGA-TTAAAGTTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGTT
*
66596928 ACAA
129 ACAG
* *
66596932 ATCTTATCTCCCTGAAGTTGTAGTGGAGTA-GACTGAAGGTTACAAATCTTATCTCCCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTC-GAA-GTTACAAATCTTATCTCCCTGAAGTT
* * * * * * * *
66596996 GC-GTGGAGTAGACTGAAGGTTACAAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAATTGAAGC
64 GCAGTGGAGCAGA-TTAAAGTTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT
*
66597060 CACTAG
128 TAC-AG
* * *
66597066 -TCTTATCTCCCTGAAGTTACAGTGGAGT-GGATC-AAATATAGCAAATCTTATCTCTCTGAAGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGG-TCGAAGT-TA-CAAATCTTATCTCCCTGAAGT
* * * * * * *
66597128 TACAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGC
63 TGCAGTGGAGCAGATTAAAGTTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT
*
66597193 CACTAG
128 TAC-AG
* * * * * *
66597199 -TCTTATCTTCCTGAAGTTACAGTGGAAT-GGATCAAAGATAGCAAATCTTATCTCTCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGG-TCGAAGTTA-CAAATCTTATCTCCCTGAAGTT
* * * * * * *
66597262 GCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCTCTGAAGTTGCAGTGGAGTAGATCGAAG
64 GCAGTGGAGCAGATTAAAGTTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
66597325 CATTAATTCC
Statistics
Matches: 568, Mismatches: 78, Indels: 30
0.84 0.12 0.04
Matches are distributed among these distances:
131 1 0.00
132 4 0.01
133 317 0.56
134 218 0.38
135 28 0.05
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (132 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTCGAAGTTACAAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATTAAAGTTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
AG
Found at i:66599031 original size:3 final size:3
Alignment explanation
Indices: 66599023--66599073 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
66599013 CACACACTTC
66599023 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66599071 TAT
1 TAT
66599074 GTTCTATCTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:66601017 original size:104 final size:104
Alignment explanation
Indices: 66600860--66601056 Score: 376
Period size: 104 Copynumber: 1.9 Consensus size: 104
66600850 TTACAATAAT
**
66600860 CTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAAC
1 CTGGGCCAGAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAAC
66600925 ATCAATAACATATGCAAGCCCATTTGGGTAACAGTGGTA
66 ATCAATAACATATGCAAGCCCATTTGGGTAACAGTGGTA
66600964 CTGGGCCAGAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAAC
1 CTGGGCCAGAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAAC
66601029 ATCAATAACATATGCAAGCCCATTTGGG
66 ATCAATAACATATGCAAGCCCATTTGGG
66601057 GAGACTACTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 91 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (104 bp):
CTGGGCCAGAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAAC
ATCAATAACATATGCAAGCCCATTTGGGTAACAGTGGTA
Found at i:66602873 original size:26 final size:26
Alignment explanation
Indices: 66602843--66602924 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
66602833 CGAAATTCCC
66602843 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
66602869 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
66602895 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
66602921 ATCA
1 ATCA
66602925 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:66605886 original size:29 final size:29
Alignment explanation
Indices: 66605852--66605907 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
66605842 TTTGATTCTT
66605852 TTTAATAATACAAGGACTAAATTGATCCA
1 TTTAATAATACAAGGACTAAATTGATCCA
* * * *
66605881 TTTAATAGTATAGGGACTAATTTGATC
1 TTTAATAATACAAGGACTAAATTGATC
66605908 AGGTCCCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (29 bp):
TTTAATAATACAAGGACTAAATTGATCCA
Found at i:66614789 original size:9 final size:9
Alignment explanation
Indices: 66614749--66614790 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
66614739 ATTCGAGTTG
66614749 ACTCGAATA
1 ACTCGAATA
* *
66614758 ACTTGATTA
1 ACTCGAATA
*
66614767 ACTCAAATA
1 ACTCGAATA
66614776 ACTCGAATA
1 ACTCGAATA
66614785 ACTCGA
1 ACTCGA
66614791 TTCGTTTAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (9 bp):
ACTCGAATA
Found at i:66615040 original size:29 final size:30
Alignment explanation
Indices: 66614986--66615046 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
66614976 ATCTCAAAAT
* *
66614986 TATACATGAACTTTGATTTAATGTGCAATTA
1 TATACATGAACTTTAATTT-AGGTGCAATTA
66615017 TATACATGAACTTTAATTT-GGTGCAATTA
1 TATACATGAACTTTAATTTAGGTGCAATTA
66615046 T
1 T
66615047 CTCCCTGCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 10 0.36
31 18 0.64
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAGGTGCAATTA
Found at i:66620496 original size:42 final size:42
Alignment explanation
Indices: 66620449--66620549 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
66620439 ATATGGCTAG
* * * *
66620449 GGACATTAGCTTGTGTCTAGGCAGTGTGAGCCATACGGGTAA
1 GGACATGAGCGTGTGTCTAGGCAGTGTGAGCCACACGGGCAA
* *
66620491 GGACATGGGCGTGTGTCTAGGCCGTGTGAGCCACACGGGCAA
1 GGACATGAGCGTGTGTCTAGGCAGTGTGAGCCACACGGGCAA
*
66620533 GGATATGAGCGTGTGTC
1 GGACATGAGCGTGTGTC
66620550 CAAGTCGTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.23
Consensus pattern (42 bp):
GGACATGAGCGTGTGTCTAGGCAGTGTGAGCCACACGGGCAA
Found at i:66620652 original size:146 final size:146
Alignment explanation
Indices: 66620349--66620652 Score: 340
Period size: 146 Copynumber: 2.1 Consensus size: 146
66620339 GGCTAGGGAT
* * * *
66620349 ATGGGTGTGTGTCCAGGCCGTGTTAGCCACATGGGCAAGGACACGAGTGTGTGTCTAGGCTATGT
1 ATGGGTGTGTGTCCAGGCCGTGTGAGCCACACGGGCAAGGACACGAGCGTGTGTCAAGGCTATGT
* * * * * * * * * * * *
66620414 AACTCATTGTTTACGCTTTAGTACCATATGGCTAGGGACATTAGCTTGTGTCTAGGCAGTGTGAG
66 AACTCACTGTTTACGATTTAGAACCACACGACTAGGGACATGAGCATGTGCCCAGGCAGTATAAG
*
66620479 CCATACGGGTAAGGAC
131 CCATACAGGTAAGGAC
* * * * * *
66620495 ATGGGCGTGTGTCTAGGCCGTGTGAGCCACACGGGCAAGGATATGAGCGTGTGTCCAAGTC-GTG
1 ATGGGTGTGTGTCCAGGCCGTGTGAGCCACACGGGCAAGGACACGAGCGTGTGT-CAAGGCTATG
* * * *
66620559 TATCTCACTGTTTATGATTTAGAACCACACGACTAGGGACATGGGCATGTGCCCAGGCCGTATAA
65 TAACTCACTGTTTACGATTTAGAACCACACGACTAGGGACATGAGCATGTGCCCAGGCAGTATAA
66620624 GCCATACAGGTAAGGAC
130 GCCATACAGGTAAGGAC
*
66620641 ATGGGTTTGTGT
1 ATGGGTGTGTGT
66620653 ACTGGCTGTG
Statistics
Matches: 128, Mismatches: 29, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
146 124 0.97
147 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (146 bp):
ATGGGTGTGTGTCCAGGCCGTGTGAGCCACACGGGCAAGGACACGAGCGTGTGTCAAGGCTATGT
AACTCACTGTTTACGATTTAGAACCACACGACTAGGGACATGAGCATGTGCCCAGGCAGTATAAG
CCATACAGGTAAGGAC
Found at i:66630815 original size:40 final size:39
Alignment explanation
Indices: 66630739--66630833 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 39
66630729 CCATCTCCGA
* * *
66630739 CCAACCCAACACACC-ATGTGGGGACAGAATCGACCCA-
1 CCAACCCTACACACCAATATGGGGACAGAATCAACCCAT
* *
66630776 CTCAACCCTACACACCAAGTATGGGGATATAATCAACCCAT
1 C-CAACCCTACACACCAA-TATGGGGACAGAATCAACCCAT
66630817 CCAACCCTACACACCAA
1 CCAACCCTACACACCAA
66630834 AAGGTACTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
37 1 0.02
38 13 0.27
39 1 0.02
40 33 0.67
41 1 0.02
ACGTcount: A:0.37, C:0.38, G:0.13, T:0.13
Consensus pattern (39 bp):
CCAACCCTACACACCAATATGGGGACAGAATCAACCCAT
Found at i:66631214 original size:17 final size:18
Alignment explanation
Indices: 66631172--66631216 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
66631162 TCAAACAAAT
* *
66631172 TGGGCTCACACGCCCGTG
1 TGGGCCCACACGCCCGCG
66631190 TGGGCCCACACGCCCGCG
1 TGGGCCCACACGCCCGCG
66631208 T-GGCCCACA
1 TGGGCCCACA
66631217 TGGCCCAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.13, C:0.44, G:0.31, T:0.11
Consensus pattern (18 bp):
TGGGCCCACACGCCCGCG
Found at i:66638373 original size:33 final size:33
Alignment explanation
Indices: 66638331--66638398 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
66638321 GGGTCTACAC
66638331 GCCCGTGTGGCCCACACGACTCAACTTAGCTTT
1 GCCCGTGTGGCCCACACGACTCAACTTAGCTTT
*
66638364 GCCCGTGTGGCCCACATGACTCAACTTAGCTTT
1 GCCCGTGTGGCCCACACGACTCAACTTAGCTTT
66638397 GC
1 GC
66638399 TCGTATGGAT
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:0.18, C:0.35, G:0.22, T:0.25
Consensus pattern (33 bp):
GCCCGTGTGGCCCACACGACTCAACTTAGCTTT
Found at i:66639066 original size:5 final size:5
Alignment explanation
Indices: 66639051--66639080 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
66639041 AGAAAAACGG
66639051 AGAAGA AGAAA AGAAA AGAAA AGAAA AGAA
1 AGAA-A AGAAA AGAAA AGAAA AGAAA AGAA
66639081 TTTTGATAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:66643671 original size:45 final size:44
Alignment explanation
Indices: 66643619--66643704 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
66643609 TATGTAATCT
* *
66643619 GAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACATTC
1 GAACTCATTGAGCTATGGTCTAAGTTCATGAT-TATGTGACATTC
* *
66643664 GAACTCATTGAGCTATGGTCTGAGTTCGTGATTATGTGACA
1 GAACTCATTGAGCTATGGTCTAAGTTCATGATTATGTGACA
66643705 CATGTTTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 9 0.24
45 28 0.76
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (44 bp):
GAACTCATTGAGCTATGGTCTAAGTTCATGATTATGTGACATTC
Found at i:66648196 original size:16 final size:16
Alignment explanation
Indices: 66648175--66648206 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
66648165 AATGTGACCC
66648175 AAAAATCATATTTTTG
1 AAAAATCATATTTTTG
*
66648191 AAAAATTATATTTTTG
1 AAAAATCATATTTTTG
66648207 CCCCTAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (16 bp):
AAAAATCATATTTTTG
Found at i:66649457 original size:22 final size:21
Alignment explanation
Indices: 66649429--66649478 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
66649419 ATAGAAACTG
66649429 ATAGAATTCTAATTCCCAAAAA
1 ATAGAATTCT-ATTCCCAAAAA
**
66649451 ATAGAATT-TATTCTTAAAAA
1 ATAGAATTCTATTCCCAAAAA
66649471 ATA-AATTC
1 ATAGAATTC
66649479 GCACTACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 1 0.04
22 8 0.32
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.34
Consensus pattern (21 bp):
ATAGAATTCTATTCCCAAAAA
Found at i:66651785 original size:34 final size:33
Alignment explanation
Indices: 66651736--66651829 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 33
66651726 GGTAGTAAGG
*
66651736 AAATATAGTAA-AATATAGTATAATTTACAAATAA
1 AAATAT-GTAATAATATA-TATAATATACAAATAA
* * **
66651770 AAATATGTAATAATATAAATCATATAGTAATAA
1 AAATATGTAATAATATATATAATATACAAATAA
*
66651803 AATATATGTAATAAAATATATAATATA
1 AA-ATATGTAATAATATATATAATATA
66651830 ATATAAGAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
33 17 0.34
34 33 0.66
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (33 bp):
AAATATGTAATAATATATATAATATACAAATAA
Found at i:66651815 original size:14 final size:15
Alignment explanation
Indices: 66651769--66651824 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 15
66651759 TTTACAAATA
* *
66651769 AAAATATGTAATAAT
1 AAAATATATAGTAAT
66651784 ATAAATCATATAGTAAT
1 A-AAAT-ATATAGTAAT
66651801 AAAATATAT-GTAAT
1 AAAATATATAGTAAT
66651815 AAAATATATA
1 AAAATATATA
66651825 ATATAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 14 0.39
15 5 0.14
16 8 0.22
17 9 0.25
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (15 bp):
AAAATATATAGTAAT
Found at i:66651826 original size:12 final size:13
Alignment explanation
Indices: 66651791--66651834 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 13
66651781 AATATAAATC
66651791 ATATAGTAATAAA
1 ATATAGTAATAAA
66651804 ATATATGTAATAAA
1 ATATA-GTAATAAA
*
66651818 ATATA-TAATATA
1 ATATAGTAATAAA
66651830 ATATA
1 ATATA
66651835 AGAAGAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 11 0.38
13 5 0.17
14 13 0.45
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (13 bp):
ATATAGTAATAAA
Found at i:66651974 original size:7 final size:7
Alignment explanation
Indices: 66651934--66652106 Score: 82
Period size: 7 Copynumber: 25.6 Consensus size: 7
66651924 TTACTAACTT
66651934 TATAA-A
1 TATAATA
66651940 TA-AATA
1 TATAATA
66651946 TATAATAA
1 TATAAT-A
66651954 TATGAATAA
1 TAT-AAT-A
66651963 TATAATA
1 TATAATA
66651970 TATAATA
1 TATAATA
66651977 TATAATA
1 TATAATA
66651984 TATAA-A
1 TATAATA
*
66651990 AATAATA
1 TATAATA
* *
66651997 TGTACTA
1 TATAATA
*
66652004 -A-AACA
1 TATAATA
66652009 TATAATA
1 TATAATA
*
66652016 TA-GATA
1 TATAATA
66652022 TA-AATA
1 TATAATA
66652028 -ATATATA
1 TATA-ATA
*
66652035 TAAAATA
1 TATAATA
*
66652042 TATGATA
1 TATAATA
*
66652049 -AAAAT-
1 TATAATA
*
66652054 TAAAAATA
1 T-ATAATA
*
66652062 GATAATAA
1 TATAAT-A
66652070 TATAATA
1 TATAATA
* *
66652077 GATAAAA
1 TATAATA
*
66652084 TATAGTA
1 TATAATA
66652091 -A-AATA
1 TATAATA
*
66652096 AATAATA
1 TATAATA
66652103 TATA
1 TATA
66652107 TAATGAAAAT
Statistics
Matches: 126, Mismatches: 25, Indels: 31
0.69 0.14 0.17
Matches are distributed among these distances:
5 8 0.06
6 25 0.20
7 70 0.56
8 15 0.12
9 8 0.06
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (7 bp):
TATAATA
Found at i:66652027 original size:34 final size:31
Alignment explanation
Indices: 66651945--66652044 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 31
66651935 ATAAATAAAT
** * *
66651945 ATATAATA-ATATGAATAATATAATATATAAT
1 ATATAATATATAAAAATAATAT-ATATAAAAC
*
66651976 ATATAATATATAAAAATAATATGTACTAAAAC
1 ATATAATATATAAAAATAATATATA-TAAAAC
* *
66652008 ATATAATATAGATATAAATAATATATATAAAAT
1 ATATAATAT--ATAAAAATAATATATATAAAAC
66652041 ATAT
1 ATAT
66652045 GATAAAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
31 10 0.18
32 24 0.42
33 9 0.16
34 14 0.25
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (31 bp):
ATATAATATATAAAAATAATATATATAAAAC
Found at i:66652061 original size:34 final size:34
Alignment explanation
Indices: 66651985--66652061 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
66651975 TATATAATAT
* * *
66651985 ATAAAAATAATATGTACTAAAACATATAATATAG
1 ATAAAAATAATATATACTAAAACATATAATAAAA
* * *
66652019 ATATAAATAATATATA-TAAAATATATGATAAAA
1 ATAAAAATAATATATACTAAAACATATAATAAAA
66652052 ATTAAAAATA
1 A-TAAAAATA
66652062 GATAATAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
33 14 0.40
34 21 0.60
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (34 bp):
ATAAAAATAATATATACTAAAACATATAATAAAA
Found at i:66652082 original size:44 final size:47
Alignment explanation
Indices: 66651966--66652087 Score: 123
Period size: 44 Copynumber: 2.6 Consensus size: 47
66651956 TGAATAATAT
*
66651966 AATATATAAT-ATATAATATATAAAAATAATATGTACTAAAACATATAA
1 AATAGATAATAATATAATATAT-AAAAT-ATATGTACTAAAACATATAA
*
66652014 TATAGAT-ATAA-ATAATATATATAAAATATATG-A-TAAAA-AT-TAAA
1 AATAGATAATAATAT-A-ATATATAAAATATATGTACTAAAACATAT-AA
*
66652058 AATAGATAATAATATAATAGATAAAATATA
1 AATAGATAATAATATAATATATAAAATATA
66652088 GTAAAATAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
43 1 0.02
44 23 0.36
45 10 0.16
46 3 0.05
47 9 0.14
48 12 0.19
49 6 0.09
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (47 bp):
AATAGATAATAATATAATATATAAAATATATGTACTAAAACATATAA
Found at i:66652100 original size:19 final size:19
Alignment explanation
Indices: 66652073--66652137 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 19
66652063 ATAATAATAT
*
66652073 AATAGATAAAATATAGTAA
1 AATAAATAAAATATAGTAA
*
66652092 AATAAATAATATATATAATGAA
1 AATAAATAA-A-ATATAGT-AA
*
66652114 AATACATATAACATATAGTAA
1 AATA-A-ATAAAATATAGTAA
66652135 AAT
1 AAT
66652138 GCAAATATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 8 0.22
20 1 0.03
21 11 0.30
22 12 0.32
23 1 0.03
24 4 0.11
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (19 bp):
AATAAATAAAATATAGTAA
Found at i:66652103 original size:87 final size:88
Alignment explanation
Indices: 66651934--66652130 Score: 192
Period size: 87 Copynumber: 2.3 Consensus size: 88
66651924 TTACTAACTT
* * * *
66651934 TATAAATAA-ATATATAATA-ATATGAATAATATAATATATAATATATAATATATAAAAATAATA
1 TATAAATAATATATATAAAATATATGAATAATATAATATAAAATAGATAATATATAAAAATAAAA
* *
66651997 TGTACTAAAACATATAATATAGA
66 TATACTAAAACAAATAATATAGA
*
66652020 TATAAATAATATATATAAAATATATG-ATAA-A-AAT-TAAAAATAGATAATAATATAATAGATA
1 TATAAATAATATATATAAAATATATGAATAATATAATAT-AAAATAGATAAT-ATATAA-AAATA
* * *
66652081 AAATATAGTAAAATAAATAATATATA
63 AAATATACTAAAACAAATAATATAGA
* * *
66652107 TAATGAA-AATACATATAACATATA
1 T-ATAAATAATATATATAAAATATA
66652131 GTAAAATGCA
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
84 1 0.01
85 13 0.14
86 16 0.17
87 53 0.58
88 9 0.10
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (88 bp):
TATAAATAATATATATAAAATATATGAATAATATAATATAAAATAGATAATATATAAAAATAAAA
TATACTAAAACAAATAATATAGA
Found at i:66654320 original size:288 final size:289
Alignment explanation
Indices: 66653802--66654456 Score: 1089
Period size: 288 Copynumber: 2.3 Consensus size: 289
66653792 TCTGCTTTCC
** * * *
66653802 GACAATACAGAGATTTCAAATCATCTTAGATTTGCTTCAACGTAAACACCTGAAAGCCAAATCAG
1 GACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAG
**
66653867 CTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTGAGAAC
66 CTATGTCTTCGATTTGTTCCTTGTAAACACAAAAATACCAAATCATCTTGGATTTGTTTGAGAAC
* *
66653932 ATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCGTGTAAACACAAGAATGCCAAATCATC
131 ATCTGAGAGTCAAATCTGCTACGTCCTCAATTTGTTCCGTGTAAACACAAGAATGCCAAATCATC
* * *
66653997 TTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGAT-TTCTATGTGTCTGCCCTCTGTCGAATA
196 TTAGATCTGCTTCAGCATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
66654061 TGGAGACGCCAAACTTCAATTTGTTCTCT
261 TGGAGACGCCAAACTTCAATTTGTTCTCT
* * * *
66654090 GGCAATACAGAAATGCCAAATCATCTTAGACTTGCTTCATTGTAAGCACGTGAAAGCCAAATCAG
1 GACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAG
66654155 CTATGGT-TTCGATTTGTTCCTTGTAAACACAAAAATACCAAATCATCTTGGATTTGTTTGAGAA
66 CTAT-GTCTTCGATTTGTTCCTTGTAAACACAAAAATACCAAATCATCTTGGATTTGTTTGAGAA
*
66654219 CATCTGAGAGTCAAATCTGCTACGTCCTCAATTTGTTCCTTGTAAACACAAGAATGCCAAATCAT
130 CATCTGAGAGTCAAATCTGCTACGTCCTCAATTTGTTCCGTGTAAACACAAGAATGCCAAATCAT
*
66654284 CTTGGATCTGCTTCAGCATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAAT
195 CTTAGATCTGCTTCAGCATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAAT
*
66654349 ATGGAGACGCCAAACTTCGATTTGTTCTCT
260 ATGGAGACGCCAAACTTCAATTTGTTCTCT
* * *
66654379 GAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGTACGTGAAAGCCAAATCAG
1 GACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAG
66654444 CTATGTCTTCGAT
66 CTATGTCTTCGAT
66654457 CTGCTCTCCG
Statistics
Matches: 338, Mismatches: 26, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
288 215 0.64
289 123 0.36
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (289 bp):
GACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAG
CTATGTCTTCGATTTGTTCCTTGTAAACACAAAAATACCAAATCATCTTGGATTTGTTTGAGAAC
ATCTGAGAGTCAAATCTGCTACGTCCTCAATTTGTTCCGTGTAAACACAAGAATGCCAAATCATC
TTAGATCTGCTTCAGCATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
TGGAGACGCCAAACTTCAATTTGTTCTCT
Found at i:66654578 original size:131 final size:118
Alignment explanation
Indices: 66654272--66654578 Score: 344
Period size: 131 Copynumber: 2.5 Consensus size: 118
66654262 AAACACAAGA
* **
66654272 ATGCCAAATCATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGC
1 ATGCCAAATCATCTTGGATCTGCTTCAGCAT-AACACCTGAAGGCCAGATCTGCTATGTGTCTGC
*
66654337 CCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGAAAATACAGAG
65 CCTCCGTCGAATATGGAAACGCCAAACTTCGATTTGTTCTCTGAAAATACAGAG
* * * * * * * *
66654391 ATGCCAAATCATCTTAGATTTGCTTCATCATAAGTACGTGAAAGCCAAATCAGCTATGTCTTCGA
1 ATGCCAAATCATCTTGGATCTGCTTCAGCATAA-CACCTGAAGGCCAGATCTGCTATG---T-G-
* * *
66654456 TCTGCTCTCCGTCGAATATGGAAATGCCAAATCTGTTTCCTCGATTTGTTCTCTGACAATACAGA
60 TCTGCCCTCCGTCGAATATGGAAACGCCAAA-C----T--TCGATTTGTTCTCTGAAAATACAGA
66654521 G
118 G
66654522 ATGCCAAATCATCTTGGATCTGCTTCAGCATGAACACCTGAAGGCCAGATCTGCTAT
1 ATGCCAAATCATCTTGGATCTGCTTCAGCAT-AACACCTGAAGGCCAGATCTGCTAT
66654579 ACTTTAACCT
Statistics
Matches: 151, Mismatches: 23, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
118 2 0.01
119 44 0.29
122 1 0.01
123 1 0.01
124 28 0.19
125 1 0.01
129 1 0.01
131 71 0.47
132 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (118 bp):
ATGCCAAATCATCTTGGATCTGCTTCAGCATAACACCTGAAGGCCAGATCTGCTATGTGTCTGCC
CTCCGTCGAATATGGAAACGCCAAACTTCGATTTGTTCTCTGAAAATACAGAG
Found at i:66654699 original size:43 final size:43
Alignment explanation
Indices: 66654580--66654784 Score: 115
Period size: 43 Copynumber: 4.8 Consensus size: 43
66654570 ATCTGCTATA
* *
66654580 CTTTAACCTGTTACCCTACTGCTTAAGGGG-TTAAG-GCGC-AT
1 CTTTGACCTGTTACCCTACTGCTT-AGGGGATTAAGACCGCAAT
* * * *
66654621 CTTCGATCTGCT-CCACTACTGTTTAGGGAGA-TAAGATCCGCAAT
1 CTTTGACCTGTTACC-CTACTGCTTAGGG-GATTAAGA-CCGCAAT
* ***
66654665 -TTTGACCTGTTACCCTACTGCTTAGGGGATTAAGACGAGTTGT
1 CTTTGACCTGTTACCCTACTGCTTAGGGGATTAAGAC-CGCAAT
* * * * *
66654708 CGTTGATCTGTT-CCACTACTACTTAGGGAGA-TAAGATCTGTAAT
1 CTTTGACCTGTTACC-CTACTGCTTAGGG-GATTAAGA-CCGCAAT
*
66654752 -TTT-AGCCTGTTACCCTACTGCTTAGGGAATTAA
1 CTTTGA-CCTGTTACCCTACTGCTTAGGGGATTAA
66654785 AGCGAGTCTT
Statistics
Matches: 124, Mismatches: 24, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
40 6 0.05
41 21 0.17
42 5 0.04
43 54 0.44
44 35 0.28
45 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (43 bp):
CTTTGACCTGTTACCCTACTGCTTAGGGGATTAAGACCGCAAT
Found at i:66654739 original size:87 final size:83
Alignment explanation
Indices: 66654585--66654784 Score: 244
Period size: 87 Copynumber: 2.3 Consensus size: 83
66654575 CTATACTTTA
* **
66654585 ACCTGTTACCCTACTGCTTAAGGGG-TTAAGGCGCATCTTCGATCTGCTCCACTACTGTTTAGGG
1 ACCTGTTACCCTACTGCTT-AGGGGATTAAGACGCATCTTCGATCTGCTCCACTACTACTTAGGG
66654649 AGATAAGATCCGCAATTTT
65 AGATAAGATCCGCAATTTT
*
66654668 GACCTGTTACCCTACTGCTTAGGGGATTAAGACG-AGT-TGTCGTTGATCTGTTCCACTACTACT
1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGACGCA-TCT-TC---GATCTGCTCCACTACTACT
* *
66654731 TAGGGAGATAAGATCTGTAATTTT
60 TAGGGAGATAAGATCCGCAATTTT
*
66654755 AGCCTGTTACCCTACTGCTTAGGGAATTAA
1 A-CCTGTTACCCTACTGCTTAGGGGATTAA
66654785 AGCGAGTCTT
Statistics
Matches: 102, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
83 7 0.07
84 29 0.28
86 1 0.01
87 65 0.64
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (83 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGACGCATCTTCGATCTGCTCCACTACTACTTAGGGA
GATAAGATCCGCAATTTT
Found at i:66654791 original size:87 final size:87
Alignment explanation
Indices: 66654625--66654784 Score: 250
Period size: 87 Copynumber: 1.8 Consensus size: 87
66654615 GCGCATCTTC
**
66654625 GATCTGCTCCACTACTGTTTAGGGAGATAAGATCCGCAATTTTGACCTGTTACCCTACTGCTTAG
1 GATCTGCTCCACTACTACTTAGGGAGATAAGATCCGCAATTTTGACCTGTTACCCTACTGCTTAG
*
66654690 GGGATTAAGACGAGTTGTCGTT
66 GGAATTAAGACGAGTTGTCGTT
* * *
66654712 GATCTGTTCCACTACTACTTAGGGAGATAAGATCTGTAATTTT-AGCCTGTTACCCTACTGCTTA
1 GATCTGCTCCACTACTACTTAGGGAGATAAGATCCGCAATTTTGA-CCTGTTACCCTACTGCTTA
66654776 GGGAATTAA
65 GGGAATTAA
66654785 AGCGAGTCTT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
86 1 0.02
87 65 0.98
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (87 bp):
GATCTGCTCCACTACTACTTAGGGAGATAAGATCCGCAATTTTGACCTGTTACCCTACTGCTTAG
GGAATTAAGACGAGTTGTCGTT
Found at i:66666740 original size:34 final size:34
Alignment explanation
Indices: 66666691--66666784 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 34
66666681 GGTAGTAAGG
*
66666691 AAATATAGTAA-AATATAATATAATTTACAAATAA
1 AAATAT-GTAATAATATAATATAATATACAAATAA
* **
66666725 AAATATGTAATAATATAA-ATCATATAGTAATAA
1 AAATATGTAATAATATAATATAATATACAAATAA
*
66666758 AATATATGTAATAAAAT-ATATAATATA
1 AA-ATATGTAATAATATAATATAATATA
66666785 ATATAAGAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
33 18 0.35
34 33 0.65
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (34 bp):
AAATATGTAATAATATAATATAATATACAAATAA
Found at i:66666770 original size:14 final size:15
Alignment explanation
Indices: 66666724--66666779 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 15
66666714 TTTACAAATA
* *
66666724 AAAATATGTAATAAT
1 AAAATATATAGTAAT
66666739 ATAAATCATATAGTAAT
1 A-AAAT-ATATAGTAAT
66666756 AAAATATAT-GTAAT
1 AAAATATATAGTAAT
66666770 AAAATATATA
1 AAAATATATA
66666780 ATATAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 14 0.39
15 5 0.14
16 8 0.22
17 9 0.25
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (15 bp):
AAAATATATAGTAAT
Found at i:66666781 original size:12 final size:13
Alignment explanation
Indices: 66666746--66666789 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 13
66666736 AATATAAATC
66666746 ATATAGTAATAAA
1 ATATAGTAATAAA
66666759 ATATATGTAATAAA
1 ATATA-GTAATAAA
*
66666773 ATATA-TAATATA
1 ATATAGTAATAAA
66666785 ATATA
1 ATATA
66666790 AGAAGAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 11 0.38
13 5 0.17
14 13 0.45
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (13 bp):
ATATAGTAATAAA
Found at i:66666929 original size:7 final size:7
Alignment explanation
Indices: 66666889--66667063 Score: 100
Period size: 7 Copynumber: 25.6 Consensus size: 7
66666879 TTACTAACTT
66666889 TATAA-A
1 TATAATA
66666895 TA-AATA
1 TATAATA
66666901 TATAATAA
1 TATAAT-A
66666909 TATGAATAA
1 TAT-AAT-A
66666918 TATAATA
1 TATAATA
66666925 TATAATA
1 TATAATA
66666932 TATAATA
1 TATAATA
66666939 TATAA-A
1 TATAATA
*
66666945 AATAATA
1 TATAATA
* *
66666952 TGTACTA
1 TATAATA
*
66666959 -A-AACA
1 TATAATA
66666964 TATAATA
1 TATAATA
*
66666971 TAGATATA
1 TATA-ATA
*
66666979 AATAATA
1 TATAATA
66666986 TAT-ATA
1 TATAATA
*
66666992 TAAAATA
1 TATAATA
*
66666999 TATGATA
1 TATAATA
*
66667006 -AAAAT-
1 TATAATA
*
66667011 TAAAAATA
1 T-ATAATA
66667019 TATAATAA
1 TATAAT-A
66667027 TATAATA
1 TATAATA
* *
66667034 GATAAAA
1 TATAATA
*
66667041 TATAGTA
1 TATAATA
66667048 -A-AATA
1 TATAATA
*
66667053 AATAATA
1 TATAATA
66667060 TATA
1 TATA
66667064 TAATGAAAAT
Statistics
Matches: 129, Mismatches: 25, Indels: 29
0.70 0.14 0.16
Matches are distributed among these distances:
5 7 0.05
6 21 0.16
7 73 0.57
8 20 0.16
9 8 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (7 bp):
TATAATA
Found at i:66666967 original size:63 final size:58
Alignment explanation
Indices: 66666900--66667063 Score: 149
Period size: 61 Copynumber: 2.7 Consensus size: 58
66666890 ATAAATAAAT
66666900 ATATAATAATATGAATAATATAATATATAATATATAATATATAAAAATAATATGTACTAAAAC
1 ATATAATAATATGAATAATATAATATATAATATATAATATATAAAAA-AA-AT-TA--AAAAC
* * * *
66666963 ATATAAT-ATA-GATATAA-ATAATATAT-ATATAAAATATATGATAAAAATTAAAAAT
1 ATATAATAATATGA-ATAATATAATATATAATATATAATATATAAAAAAAATTAAAAAC
* *
66667018 ATATAATAATAT-AATAGATAAAATATAGTAAAATAAATAATATATA
1 ATATAATAATATGAATA-ATATAATATA-T--AATATATAATATATA
66667064 TAATGAAAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
55 14 0.17
56 5 0.06
57 9 0.11
58 3 0.04
59 2 0.02
60 15 0.18
61 22 0.26
62 7 0.08
63 7 0.08
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (58 bp):
ATATAATAATATGAATAATATAATATATAATATATAATATATAAAAAAAATTAAAAAC
Found at i:66667087 original size:87 final size:86
Alignment explanation
Indices: 66666928--66667087 Score: 189
Period size: 87 Copynumber: 1.8 Consensus size: 86
66666918 TATAATATAT
* * * * *
66666928 AATATATAATATATAAAAATAATATGTACTAAAACATATAATATAGATATAAATAATATATATAT
1 AATATATAATATATAAAAATAAAATATACTAAAACAAATAATATA-ATATAAATAAAATACATAT
66666993 AAAATATATGATAAAAATTAAA
65 AAAATATATGATAAAAATTAAA
* * *
66667015 AATATATAATAATATAATAGATAAAATATAGTAAAATAAATAATAT-ATAT-AATGAAAATACAT
1 AATATATAAT-ATATAA-AAATAAAATATACTAAAACAAATAATATAATATAAAT-AAAATACAT
*
66667078 ATAACATATA
63 ATAAAATATA
66667088 GTAAAATGCA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
86 3 0.05
87 30 0.49
88 6 0.10
89 22 0.36
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (86 bp):
AATATATAATATATAAAAATAAAATATACTAAAACAAATAATATAATATAAATAAAATACATATA
AAATATATGATAAAAATTAAA
Found at i:66667113 original size:27 final size:26
Alignment explanation
Indices: 66667052--66667119 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
66667042 ATAGTAAAAT
* *
66667052 AAATAATATATATAATGAAAATACATA
1 AAAT-ATATATAAAATGAAAATACAAA
* * *
66667079 TAACATATAGTAAAATGCAAATACAAA
1 AAATATATA-TAAAATGAAAATACAAA
66667106 AAATATATGATAAA
1 AAATATAT-ATAAA
66667120 CAAATCCTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
26 5 0.16
27 26 0.81
28 1 0.03
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (26 bp):
AAATATATATAAAATGAAAATACAAA
Found at i:66671722 original size:42 final size:43
Alignment explanation
Indices: 66671602--66671754 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 43
66671592 TAGGATTTCT
* * *
66671602 GATATTTAATTTCGTGTAAGACCACATCT-GGATC-GTTGACATC
1 GATATTTGATTTCGTGTAAGACCATATCTAGGA-CAG-TGGCATC
* * * * * *
66671645 GAT-TTGAGATTTACGTGGAAGACCATGTCTAGGACATTGGTATT
1 GATATT-TGATTT-CGTGTAAGACCATATCTAGGACAGTGGCATC
* *
66671689 G-TATTTGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATC
1 GATATTTGATTTCGTGTAAGACCATATCTAGGACAGTGGCATC
* *
66671731 GATATTTGATTACATGTAAGACCA
1 GATATTTGATTTCGTGTAAGACCA
66671755 CGTTTGGGAC
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
42 27 0.32
43 32 0.38
44 22 0.26
45 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (43 bp):
GATATTTGATTTCGTGTAAGACCATATCTAGGACAGTGGCATC
Found at i:66671763 original size:43 final size:43
Alignment explanation
Indices: 66671690--66671772 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 43
66671680 ATTGGTATTG
* *
66671690 TATTTGATTTCGTGTAAGACCCTATCTGGGACAG-TGGCATCGA
1 TATTTGATTACATGTAAGACCCTATCTGGGAC-GTTGGCATCGA
66671733 TATTTGATTACATGTAAGACCACGT-T-TGGGACGTTGGCAT
1 TATTTGATTACATGTAAGACC-C-TATCTGGGACGTTGGCAT
66671773 TGTACGAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
42 1 0.03
43 31 0.89
44 2 0.06
45 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
TATTTGATTACATGTAAGACCCTATCTGGGACGTTGGCATCGA
Found at i:66677597 original size:46 final size:47
Alignment explanation
Indices: 66677453--66677711 Score: 257
Period size: 46 Copynumber: 5.5 Consensus size: 47
66677443 TTTGTGTGCT
* * * *
66677453 AGTGTAAGACATGTCTAGGACACGCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAGAGCC
* * * *
66677499 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGAGCC
66677547 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
* *
66677593 AGTGTAAGACATGTCTGGTACATGCATCGG-CTACGAGATGT---GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAGAGCC
* * *
66677637 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGATGT-AGAGCC
66677687 AGTGTAAGACTATGTCTGGGACATG
1 AGTGTAAGAC-ATGTCTGGGACATG
66677712 ACGTTAGCCT
Statistics
Matches: 180, Mismatches: 19, Indels: 25
0.80 0.08 0.11
Matches are distributed among these distances:
44 11 0.06
45 15 0.08
46 76 0.42
47 27 0.15
48 25 0.14
49 3 0.02
50 23 0.13
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
Found at i:66677691 original size:94 final size:92
Alignment explanation
Indices: 66677453--66677769 Score: 290
Period size: 94 Copynumber: 3.4 Consensus size: 92
66677443 TTTGTGTGCT
* * *
66677453 AGTGTAAGACATGTCTAGGACA-CGCATCGGCCAC-AT-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CACGATATGTGAGAGCCAGTGTAAGA-CATGTC
* * *
66677515 TGGGACATGGCATCGGC-ATTGAGACGAGAGC
64 TGGGACAT-GCATCGGCTA-TGAGATGTG-TC
* *
66677546 TAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATGT-A-AGCCAGTGTAAGACATGTC
1 -AGTGTAAGACATGTCTGGGACATGGCATCGG-CACGATATGTGAGAGCCAGTGTAAGACATGTC
* *
66677608 TGGTACATGCATCGGCTACGAGATGTGTC
64 TGGGACATGCATCGGCTATGAGATGTGTC
*
66677637 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGCTAGTGTAAGACTATGT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCAC-GATATGTGAGAGCCAGTGTAAGAC-ATGT
* * * **
66677702 CTGGGACATGACGTTAGCCT-TGATTTTGATAGTC
63 CTGGGACATG-C-ATCGGCTATGA-GATG-T-GTC
66677736 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
66677770 TTATACACTA
Statistics
Matches: 189, Mismatches: 19, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
90 9 0.05
91 17 0.09
92 27 0.14
93 15 0.08
94 57 0.30
95 15 0.08
96 5 0.03
97 6 0.03
98 1 0.01
99 37 0.20
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCACGATATGTGAGAGCCAGTGTAAGACATGTCTG
GGACATGCATCGGCTATGAGATGTGTC
Found at i:66677751 original size:49 final size:50
Alignment explanation
Indices: 66677491--66677765 Score: 172
Period size: 46 Copynumber: 5.8 Consensus size: 50
66677481 GGCCACATTA
* * * ** *
66677491 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--
1 TGAGAGTCAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGATATG
* * * *
66677539 CGAGAG-CTAGTGTAAGA-CATGTCTGGGACATG-CATCGGC-CTCGAGATG
1 TGAGAGTC-AGTGTAAGACCATGTCTGGGACATGACATCAGCAC-GGATATG
* * * *
66677587 T-A-AGCCAGTGTAAGA-CATGTCTGGTACATG-CATCGGCTAC-GAGATG
1 TGAGAGTCAGTGTAAGACCATGTCTGGGACATGACATCAGC-ACGGATATG
* *
66677633 T----GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATG
1 TGAGAGTCAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGATATG
* * * * *
66677679 TGAGAG-CTAGTGTAAGACTATGTCTGGGACATGACGTTAGC-CTTGAT-TT
1 TGAGAGTC-AGTGTAAGACCATGTCTGGGACATGACATCAGCAC-GGATATG
* *
66677728 TGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 TGAGAGTCAGTGTAAGACCATGTCTGGGACATGACATC
66677766 GGCATTATAC
Statistics
Matches: 190, Mismatches: 20, Indels: 33
0.78 0.08 0.14
Matches are distributed among these distances:
44 11 0.06
45 16 0.08
46 63 0.33
47 18 0.09
48 15 0.08
49 34 0.18
50 33 0.17
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (50 bp):
TGAGAGTCAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGATATG
Found at i:66685114 original size:46 final size:46
Alignment explanation
Indices: 66685061--66685151 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
66685051 AGTTAACCCA
66685061 CCATTTACTTAAGATTGATGATGATATCATGATAAATAATTGTACG
1 CCATTTACTTAAGATTGATGATGATATCATGATAAATAATTGTACG
66685107 CCATTTACTTAAGATTGATGATGATATCATGATAAATAATTGTAC
1 CCATTTACTTAAGATTGATGATGATATCATGATAAATAATTGTAC
66685152 TCATAAAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (46 bp):
CCATTTACTTAAGATTGATGATGATATCATGATAAATAATTGTACG
Found at i:66686898 original size:19 final size:20
Alignment explanation
Indices: 66686874--66686920 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
66686864 TAGTCTAAGT
66686874 ATTAAAATAGATAAA-AAAA
1 ATTAAAATAGATAAATAAAA
*
66686893 ATTAAAA-GGATAAATAAAA
1 ATTAAAATAGATAAATAAAA
66686912 ATTATAAAT
1 ATTA-AAAT
66686921 GAATTTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 15 0.62
20 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (20 bp):
ATTAAAATAGATAAATAAAA
Found at i:66687249 original size:19 final size:19
Alignment explanation
Indices: 66687208--66687250 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
66687198 TATATTAACT
**
66687208 AAAATTTATGTATAATTTT
1 AAAATTTATGTATAATTAA
66687227 AAAATTTATGT-TGAATTAA
1 AAAATTTATGTAT-AATTAA
66687246 AAAAT
1 AAAAT
66687251 GAGATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (19 bp):
AAAATTTATGTATAATTAA
Found at i:66687473 original size:8 final size:8
Alignment explanation
Indices: 66687462--66687497 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
66687452 TTCATACACT
66687462 TACACATA
1 TACACATA
66687470 TACACATA
1 TACACATA
66687478 TACACATA
1 TACACATA
66687486 TACACATA
1 TACACATA
66687494 TACA
1 TACA
66687498 TACACTCACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (8 bp):
TACACATA
Found at i:66688450 original size:15 final size:15
Alignment explanation
Indices: 66688430--66688460 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66688420 TGTAGATAGG
66688430 TAGTTTGGTGAATTT
1 TAGTTTGGTGAATTT
66688445 TAGTTTGGTGAATTT
1 TAGTTTGGTGAATTT
66688460 T
1 T
66688461 CAGATGCTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
TAGTTTGGTGAATTT
Found at i:66692652 original size:17 final size:17
Alignment explanation
Indices: 66692623--66692655 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
66692613 ATTATATTAT
66692623 AAAAATATAATTTTAAA
1 AAAAATATAATTTTAAA
66692640 AAAAACTAT-ATTTTAA
1 AAAAA-TATAATTTTAA
66692656 GTTTAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATATAATTTTAAA
Found at i:66692804 original size:16 final size:17
Alignment explanation
Indices: 66692771--66692804 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
66692761 TATTTAACAT
*
66692771 ATAAATTTTTAAAGAAA
1 ATAAATTTTTAAAAAAA
66692788 ATAAA-TTTTAAAAAAA
1 ATAAATTTTTAAAAAAA
66692804 A
1 A
66692805 AGACATGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATAAATTTTTAAAAAAA
Found at i:66692805 original size:17 final size:17
Alignment explanation
Indices: 66692771--66692805 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
66692761 TATTTAACAT
* *
66692771 ATAAATTTTTAAAGAAA
1 ATAAATTTTAAAAAAAA
66692788 ATAAATTTTAAAAAAAA
1 ATAAATTTTAAAAAAAA
66692805 A
1 A
66692806 GACATGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAAATTTTAAAAAAAA
Found at i:66693213 original size:14 final size:14
Alignment explanation
Indices: 66693194--66693224 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
66693184 TATCTAAACT
66693194 ATTGGATTAGCGGC
1 ATTGGATTAGCGGC
*
66693208 ATTGGATTAGTGGC
1 ATTGGATTAGCGGC
66693222 ATT
1 ATT
66693225 ATAATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (14 bp):
ATTGGATTAGCGGC
Found at i:66700501 original size:56 final size:56
Alignment explanation
Indices: 66700433--66700562 Score: 260
Period size: 56 Copynumber: 2.3 Consensus size: 56
66700423 AAATTAAAAA
66700433 AAAAGAACCACCTTTTTTTTATATTTTTTATATTTACTTAAAAAAATAAAGGATAT
1 AAAAGAACCACCTTTTTTTTATATTTTTTATATTTACTTAAAAAAATAAAGGATAT
66700489 AAAAGAACCACCTTTTTTTTATATTTTTTATATTTACTTAAAAAAATAAAGGATAT
1 AAAAGAACCACCTTTTTTTTATATTTTTTATATTTACTTAAAAAAATAAAGGATAT
66700545 AAAAGAACCACCTTTTTT
1 AAAAGAACCACCTTTTTT
66700563 CAAGAACATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (56 bp):
AAAAGAACCACCTTTTTTTTATATTTTTTATATTTACTTAAAAAAATAAAGGATAT
Found at i:66701670 original size:37 final size:37
Alignment explanation
Indices: 66701620--66701695 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
66701610 AAGTCTAAAC
66701620 TAGTGAATGTTAAAGCTTGAGTTCACTTATTATATGA
1 TAGTGAATGTTAAAGCTTGAGTTCACTTATTATATGA
* *
66701657 TAGTGAATGTTAAAGCTTGAGTTCACTTGTTGTATGA
1 TAGTGAATGTTAAAGCTTGAGTTCACTTATTATATGA
66701694 TA
1 TA
66701696 AGTTGAGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (37 bp):
TAGTGAATGTTAAAGCTTGAGTTCACTTATTATATGA
Found at i:66705027 original size:149 final size:137
Alignment explanation
Indices: 66704737--66705079 Score: 425
Period size: 149 Copynumber: 2.4 Consensus size: 137
66704727 TCTCACGTTC
*
66704737 GATTCCTCTCCTACTCACATTTGTATTTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTA
1 GATTCCTCTCCTACTCATATTTGTA-TTTTTTATTTCATGTTGCTTCAAG-TTTTTAAATTTTTA
* *
66704802 ATTAATTTTTTAACATATTAGTTCTTTGATCAGATGGTTAGATAGTTGCAACTATATCTTTAAGT
64 ATTAATTTTTTAACATATTAGTTCTTTGATCAGATAGTTAGATAGTTGCAACTACATCTTTAAGT
*
66704867 CTTGAGTTT
129 CTCGAGTTT
* * *
66704876 GATTTCTCTCCTACTCATATTTGTATTTTTTATTTCACGTTGCTTAAAGTTTTTAAATTTTTTAA
1 GATTCCTCTCCTACTCATATTTGTATTTTTTATTTCATGTTGCTTCAAGTTTTTAAA-TTTTTAA
* * * * *
66704941 TTAATGTTTTTTTAACATTTTTGTTCTTTCATAAGATGATTAGATAGTTAGATAGTTGTAATTAC
65 TTAA---TTTTTTAACATATTAGTTC--T--T----TGATCAGATAGTTAGATAGTTGCAACTAC
66705006 ATCTTTAAGTCTCGAGTTT
119 ATCTTTAAGTCTCGAGTTT
* *
66705025 GATTCCTCTACTACTCATATTTGTAATTTTTTATTTAATGTTGCTTCAAGTTTTT
1 GATTCCTCTCCTACTCATATTTGT-ATTTTTTATTTCATGTTGCTTCAAGTTTTT
66705080 TTTAATTAAT
Statistics
Matches: 174, Mismatches: 17, Indels: 15
0.84 0.08 0.07
Matches are distributed among these distances:
137 8 0.05
138 33 0.19
139 23 0.13
141 17 0.10
143 1 0.01
145 1 0.01
149 64 0.37
150 27 0.16
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.52
Consensus pattern (137 bp):
GATTCCTCTCCTACTCATATTTGTATTTTTTATTTCATGTTGCTTCAAGTTTTTAAATTTTTAAT
TAATTTTTTAACATATTAGTTCTTTGATCAGATAGTTAGATAGTTGCAACTACATCTTTAAGTCT
CGAGTTT
Done.