Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 73 of 433
Found at i:21128461 original size:27 final size:27
Alignment explanation
Indices: 21128431--21128522 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
21128421 GTAATTTCAT
**
21128431 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
21128458 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
* * * *
21128485 AATCAAGGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTTTGTA
21128512 AATCGAGGGTA
1 AATCGAGGGTA
21128523 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTTTGTA
Found at i:21139064 original size:40 final size:39
Alignment explanation
Indices: 21138946--21139071 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
21138936 TTCGAATGAT
*
21138946 ATCCGGGCTAAG-TCCCGAAGGCTTT-GTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCTTTCGTGC-AAGT-ACTAA
* * * * *
21138986 ATCCGGACTAAGATCTGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAG-TACTAA
*
21139026 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAG-TACTAA
21139066 ATCCGG
1 ATCCGG
21139072 GTTGAGTCCC
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
40 64 0.91
41 6 0.09
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (39 bp):
ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAGTACTAA
Found at i:21139124 original size:80 final size:80
Alignment explanation
Indices: 21138946--21139133 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 80
21138936 TTCGAATGAT
* * *
21138946 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCTGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
21139011 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
21139026 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
21139087 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
21139107 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
21139134 ATGTGTAGCC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 2 0.02
80 78 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:21144963 original size:40 final size:39
Alignment explanation
Indices: 21144845--21144970 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 39
21144835 TTCGAATGAT
*
21144845 ATCCGGGCTAAG-TCCCGAAGGCTTT-GTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCTTTCGTGC-AAGT-ACTAA
* * *
21144885 ATCCGGACTAAGATCC-AACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAA-GGCTTTCGTGCAAG-TACTAA
*
21144925 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAG-TACTAA
21144965 ATCCGG
1 ATCCGG
21144971 GTTGAGTCCC
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
39 2 0.03
40 62 0.86
41 8 0.11
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (39 bp):
ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAGTACTAA
Found at i:21148644 original size:29 final size:30
Alignment explanation
Indices: 21148602--21148663 Score: 117
Period size: 29 Copynumber: 2.1 Consensus size: 30
21148592 TTTTATACCG
21148602 GAATAACATTGACTACATTAAAAAATT-CT
1 GAATAACATTGACTACATTAAAAAATTGCT
21148631 GAATAACATTGACTACATTAAAAAATTGCT
1 GAATAACATTGACTACATTAAAAAATTGCT
21148661 GAA
1 GAA
21148664 ATCCAGACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 27 0.84
30 5 0.16
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (30 bp):
GAATAACATTGACTACATTAAAAAATTGCT
Found at i:21152831 original size:25 final size:25
Alignment explanation
Indices: 21152803--21152852 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
21152793 CCTTATATTA
* * *
21152803 TAAAAATGACTGTTTTGCCCCTAGG
1 TAAAAATGACCGTTATACCCCTAGG
21152828 TAAAAATGACCGTTATACCCCTAGG
1 TAAAAATGACCGTTATACCCCTAGG
21152853 GTTTACTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (25 bp):
TAAAAATGACCGTTATACCCCTAGG
Found at i:21152913 original size:20 final size:20
Alignment explanation
Indices: 21152888--21152934 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
21152878 ATTTTGATAT
21152888 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
21152908 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
21152928 ACATGAT
1 ACATGAT
21152935 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:21153101 original size:25 final size:26
Alignment explanation
Indices: 21152984--21153107 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
21152974 GAGGAAGTGC
**
21152984 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
21153010 AAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * *
21153036 AACAGGGCTTATGCCCCAATTTATCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21153062 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
21153088 -AAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21153108 ATTGAAAGAG
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 19 0.22
26 68 0.78
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:21155048 original size:7 final size:7
Alignment explanation
Indices: 21155036--21155184 Score: 65
Period size: 7 Copynumber: 21.1 Consensus size: 7
21155026 ACTAATTAAT
21155036 CTAAACC
1 CTAAACC
21155043 CTAAACC
1 CTAAACC
*
21155050 TCTTAACCC
1 -C-TAAACC
*
21155059 CT-ATCC
1 CTAAACC
*
21155065 CATAAACA
1 C-TAAACC
* *
21155073 ATAAACA
1 CTAAACC
*
21155080 CTAAACA
1 CTAAACC
*
21155087 CTAAACA
1 CTAAACC
21155094 CTAAACC
1 CTAAACC
21155101 CTAAACC
1 CTAAACC
*
21155108 CTTAACCC
1 C-TAAACC
21155116 CT-AACC
1 CTAAACC
21155122 C-AAACC
1 CTAAACC
*
21155128 CTTACACC
1 C-TAAACC
*
21155136 TTAAACTC
1 CTAAAC-C
21155144 C--AACC
1 CTAAACC
**
21155149 CTAAATA
1 CTAAACC
*
21155156 CTAAACA
1 CTAAACC
21155163 CTAAACC
1 CTAAACC
* * *
21155170 ATAATCT
1 CTAAACC
21155177 CTAAACC
1 CTAAACC
21155184 C
1 C
21155185 ATAATTCATC
Statistics
Matches: 108, Mismatches: 23, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
5 2 0.02
6 16 0.15
7 70 0.65
8 15 0.14
9 5 0.05
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:21155238 original size:25 final size:25
Alignment explanation
Indices: 21155178--21155238 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
21155168 CCATAATCTC
*
21155178 TAAACCCATAATTCATCTTAAACCTT
1 TAAACCC-TAATTAATCTTAAACCTT
* **
21155204 CAAATACTAATTAACTCTTAAA-CTT
1 TAAACCCTAATTAA-TCTTAAACCTT
21155229 TAAACCCTAA
1 TAAACCCTAA
21155239 AACCATATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAACCCTAATTAATCTTAAACCTT
Found at i:21155497 original size:41 final size:41
Alignment explanation
Indices: 21155441--21155691 Score: 285
Period size: 41 Copynumber: 6.1 Consensus size: 41
21155431 GTTATATGAC
* * * *
21155441 TTTTAACGGTGTTTTAGCAAAAGCGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
21155482 ATTTAGCGGCGTTTTA-CAGAAAGCACCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGGT
* * * *
21155523 ATTTAGCAGCGTTTTACCGAAAGCACCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* **
21155564 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCAATGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
21155605 TTTTAGCGGCGTTTTACCGAAAA-CGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTGGT
* * * *
21155645 TTTTAGCGGTGTTTTAGCAAAAAACGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTA-CCAAAAGCGCCGCTAATGCTCTGGT
21155686 TTTTAG
1 TTTTAG
21155692 AAAAACGCCA
Statistics
Matches: 187, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
40 23 0.12
41 160 0.86
42 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:21155705 original size:28 final size:28
Alignment explanation
Indices: 21155664--21155717 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
21155654 TGTTTTAGCA
* *
21155664 AAAAACGCCGCTATTGCTCTGTTTTTAG
1 AAAAACGCCACTATTGCTCTATTTTTAG
21155692 AAAAACGCCACTATTGCTCTATTTTT
1 AAAAACGCCACTATTGCTCTATTTTT
21155718 TACAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (28 bp):
AAAAACGCCACTATTGCTCTATTTTTAG
Found at i:21156598 original size:55 final size:53
Alignment explanation
Indices: 21156473--21156661 Score: 245
Period size: 55 Copynumber: 3.5 Consensus size: 53
21156463 ATCTTACCAT
* * *
21156473 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
21156526 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
21156581 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
21156635 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
21156662 ATATCCTTAT
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.02
53 35 0.29
54 35 0.29
55 45 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:21156703 original size:47 final size:47
Alignment explanation
Indices: 21156648--21156769 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
21156638 CATGCCTTGG
* *
21156648 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
21156695 CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
21156742 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
21156770 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:21156954 original size:44 final size:44
Alignment explanation
Indices: 21156906--21156992 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
21156896 GTATCCTTAA
* * *
21156906 CCGTCAATTCCTCTTTAAATGCCATGTTATGAA-CATGGAATTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGAATTTT
* *
21156950 CCGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGAATTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGAATTT
21156993 GAGATATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGAATTTT
Found at i:21163269 original size:53 final size:54
Alignment explanation
Indices: 21163188--21163387 Score: 215
Period size: 55 Copynumber: 3.7 Consensus size: 54
21163178 TTTCCTTTTT
* * * *
21163188 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATTCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATA
* * ** *
21163241 GAACTCACCAATGCCATGCCTTGGCATGGCCTTACATGG-AACCTTTACCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATTC-TTGCCTTATA
* * * * *
21163295 GTAACTCATCAATTCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATA
* * *
21163350 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATG
21163388 ATATCCTTAT
Statistics
Matches: 120, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.02
53 41 0.34
54 34 0.28
55 42 0.35
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATA
Found at i:21163429 original size:47 final size:47
Alignment explanation
Indices: 21163374--21163495 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
21163364 CATGCCTTGG
*
21163374 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
21163421 CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
21163468 CATGGTCTTACATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
21163496 GTGCCAATGT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:21163584 original size:47 final size:46
Alignment explanation
Indices: 21163510--21163631 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 46
21163500 CAATGTTACA
* * * * *
21163510 TCTTGATATGGTCTTACATGGAGTCCTTAATCAATGTCGATGCCATG
1 TCTTGACATGGTCTTACAGGGA-TCCTTAAGCAATATCAATGCCATG
**
21163557 TCTTGACATGGTCTTACACGGGATCCTT--GCCTTATCAATGCCATG
1 TCTTGACATGGTCTTACA-GGGATCCTTAAGCAATATCAATGCCATG
*
21163602 TCTTGACATGGTCTTACATGGTATCCTTAA
1 TCTTGACATGGTCTTACA-GGGATCCTTAA
21163632 CCGTCAATTC
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
45 38 0.60
47 22 0.35
48 3 0.05
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (46 bp):
TCTTGACATGGTCTTACAGGGATCCTTAAGCAATATCAATGCCATG
Found at i:21163713 original size:44 final size:44
Alignment explanation
Indices: 21163632--21163718 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
21163622 GTATCCTTAA
*
21163632 CCGTCAATTCCTCCTTAAATTCCATGTTATGAACATGGAATTTT
1 CCGTCAATTCCTCCTTAAATTCCATGTTATCAACATGGAATTTT
*
21163676 CCGTCAATTCTTCCTT-AATTACCATCG-TA-CAACCATGGAATTT
1 CCGTCAATTCCTCCTTAAATT-CCAT-GTTATCAA-CATGGAATTT
21163719 GAGATATCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 6 0.16
44 31 0.82
45 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATTCCATGTTATCAACATGGAATTTT
Found at i:21166829 original size:27 final size:28
Alignment explanation
Indices: 21166799--21166897 Score: 119
Period size: 29 Copynumber: 3.5 Consensus size: 28
21166789 ATAGTGAATC
*
21166799 CGCACACTTAGTGCTATA-AAATCAGCT
1 CGCACACTTAGTGCTATATAATTCAGCT
* *
21166826 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATATAA-TTCAGCT
* *
21166855 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATATAATT-CAGCT
*
21166884 TGCACACTTAGTGC
1 CGCACACTTAGTGC
21166898 CATTCTCGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
27 17 0.28
28 4 0.07
29 40 0.66
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATTCAGCT
Found at i:21167543 original size:2 final size:2
Alignment explanation
Indices: 21167531--21167562 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
21167521 TGATGGTCGA
*
21167531 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21167563 CAACTATGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21173986 original size:29 final size:28
Alignment explanation
Indices: 21173926--21173997 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 28
21173916 TTTTCAGCTT
*
21173926 GCACACATAGTGTCATATTTTCCAGCAC
1 GCACACATAGTGCCATATTTTCCAGCAC
*
21173954 GCACACGTAGTGCCATATATTTCCAGCAC
1 GCACACATAGTGCCATAT-TTTCCAGCAC
*
21173983 GCACACTTAGTGCCA
1 GCACACATAGTGCCA
21173998 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 16 0.40
29 24 0.60
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (28 bp):
GCACACATAGTGCCATATTTTCCAGCAC
Found at i:21176391 original size:173 final size:174
Alignment explanation
Indices: 21176074--21176413 Score: 475
Period size: 173 Copynumber: 2.0 Consensus size: 174
21176064 GCCCTTATAT
21176074 GTGATATTCGCGACAGGTTTTAAAAATTTATAATTAATTGTTCCTAAAACTAACAATTATCACGA
1 GTGATATTCGCGACAGGTTTTAAAAATTTATAATTAATTGTTCCTAAAACTAACAATTATCACGA
* *
21176139 TGAAGGCAAGTGTACCTATCGAATAGTAGTATAGCTTTGGCAAGACCAGATTGTCGAACCCAAAG
66 TGAAGGCAAGTGTACCTATCGAACAGTAGTATAGCTTTAGCAAGACCAGATTGTCGAACCCAAAG
* * * *
21176204 GAACCAAGAGTACTAGTAATTACTTTCCTTTTATTATTGATCAC
131 GAAACAAAAGTACTAGTAATGACTGTCCTTTTATTATTGATCAC
* * * * * * *
21176248 GTGAT-TTCGTGATAGGTTTTAAATATTTATAATTAATTGTTCTTGAAACTAACTATTATCGCGA
1 GTGATATTCGCGACAGGTTTTAAAAATTTATAATTAATTGTTCCTAAAACTAACAATTATCACGA
* * * * ** *
21176312 TGTAGGCAATTGTATCTATCGAACAGTAGTATAGTTTTAGCAAGACTGGATTGTCGAACCCAAGG
66 TGAAGGCAAGTGTACCTATCGAACAGTAGTATAGCTTTAGCAAGACCAGATTGTCGAACCCAAAG
* *
21176377 GAAATAAAAGTACTAGTAATGACTGTCTTTTTATTAT
131 GAAACAAAAGTACTAGTAATGACTGTCCTTTTATTAT
21176414 CTAGCCTAAG
Statistics
Matches: 144, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
173 139 0.97
174 5 0.03
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (174 bp):
GTGATATTCGCGACAGGTTTTAAAAATTTATAATTAATTGTTCCTAAAACTAACAATTATCACGA
TGAAGGCAAGTGTACCTATCGAACAGTAGTATAGCTTTAGCAAGACCAGATTGTCGAACCCAAAG
GAAACAAAAGTACTAGTAATGACTGTCCTTTTATTATTGATCAC
Found at i:21180805 original size:12 final size:12
Alignment explanation
Indices: 21180790--21180819 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21180780 AAATCTGCGA
*
21180790 AAAAATAAAAAT
1 AAAAAGAAAAAT
21180802 AAAAAGAAAAAT
1 AAAAAGAAAAAT
21180814 AAAAAG
1 AAAAAG
21180820 TAGTTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAAAGAAAAAT
Found at i:21187227 original size:15 final size:14
Alignment explanation
Indices: 21187188--21187231 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
21187178 TTAAAAACTT
*
21187188 AATAAAAGAAATATA
1 AATAAAATAAATA-A
21187203 AATAAAATAAGATAA
1 AATAAAATAA-ATAA
*
21187218 AATAAGATAAATAA
1 AATAAAATAAATAA
21187232 TCAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 4 0.15
15 19 0.73
16 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:21187231 original size:9 final size:10
Alignment explanation
Indices: 21187200--21187228 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
21187190 TAAAAGAAAT
21187200 ATAA-ATAAA
1 ATAAGATAAA
21187209 ATAAGATAAA
1 ATAAGATAAA
21187219 ATAAGATAAA
1 ATAAGATAAA
21187229 TAATCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (10 bp):
ATAAGATAAA
Found at i:21191681 original size:13 final size:13
Alignment explanation
Indices: 21191663--21191713 Score: 102
Period size: 13 Copynumber: 3.9 Consensus size: 13
21191653 CTCAGTAAGG
21191663 ACACGCCCGTGTA
1 ACACGCCCGTGTA
21191676 ACACGCCCGTGTA
1 ACACGCCCGTGTA
21191689 ACACGCCCGTGTA
1 ACACGCCCGTGTA
21191702 ACACGCCCGTGT
1 ACACGCCCGTGT
21191714 GCGATTACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.22, C:0.39, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:21194658 original size:46 final size:48
Alignment explanation
Indices: 21194601--21194827 Score: 251
Period size: 47 Copynumber: 4.9 Consensus size: 48
21194591 GGGATATTTG
21194601 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
* * * *
21194648 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
* * *
21194694 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
21194741 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACG-A
* *
21194789 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21194828 GCGGGTTACA
Statistics
Matches: 162, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
43 4 0.02
45 2 0.01
46 68 0.42
47 79 0.49
48 5 0.03
50 4 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (48 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
Found at i:21194701 original size:27 final size:27
Alignment explanation
Indices: 21194671--21194749 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
21194661 TTGAGTTGAG
21194671 TCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGTTCGTGAGATGTAACTAGGCA
** *
21194698 TCCGAACTCGT-TGA-GT---T--G-A
1 TCCGAGTTCGTGAGATGTAACTAGGCA
21194717 GTCCGAGTTCGTGAGATGTAACTAGGCA
1 -TCCGAGTTCGTGAGATGTAACTAGGCA
21194745 TCCGA
1 TCCGA
21194750 ACTCGTTGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 18
0.61 0.10 0.30
Matches are distributed among these distances:
19 1 0.03
20 10 0.27
21 2 0.05
22 3 0.08
25 3 0.08
26 2 0.05
27 15 0.41
28 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (27 bp):
TCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:21194720 original size:47 final size:47
Alignment explanation
Indices: 21194601--21194773 Score: 255
Period size: 47 Copynumber: 3.7 Consensus size: 47
21194591 GGGATATTTG
* * *
21194601 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
*
21194648 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
21194694 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
21194741 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
21194774 ACTTATGGAT
Statistics
Matches: 117, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 33 0.28
47 78 0.67
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:21197419 original size:2 final size:2
Alignment explanation
Indices: 21197384--21197408 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21197374 TTTGATGAAC
21197384 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21197409 TCGGCTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21198206 original size:40 final size:40
Alignment explanation
Indices: 21198169--21198266 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
21198159 TGAGGAATTG
*
21198169 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGC
* * *
21198209 TATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGC
*
21198249 TATCCGGGC-TAGAGACCC
1 TATCCGGGCTTAAAGACCC
21198267 ATAGGCTACG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 8 0.15
40 45 0.85
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGC
Found at i:21198282 original size:39 final size:40
Alignment explanation
Indices: 21198169--21198282 Score: 115
Period size: 40 Copynumber: 2.9 Consensus size: 40
21198159 TGAGGAATTG
* * * *
21198169 TATCCGGGCTTAAAGACCCGCAGGCTA-TATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCACAGGCTACGA-GCTAGAATGC
* ** *
21198209 TATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCACAGGCTACGAGCTAGAATGC
* *
21198249 TATCCGGGC-TAGAGACCCATAGGCTACGAGCTAG
1 TATCCGGGCTTAAAGACCCACAGGCTACGAGCTAG
21198283 TATTATACCG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 19 0.31
40 43 0.69
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCACAGGCTACGAGCTAGAATGC
Found at i:21204998 original size:40 final size:40
Alignment explanation
Indices: 21204953--21205119 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
21204943 CGGAATATAA
*
21204953 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
21204993 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
21205033 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
21205073 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
21205112 CCGGATAT
1 CCGGATAT
21205120 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21209074 original size:40 final size:41
Alignment explanation
Indices: 21209030--21209131 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 41
21209020 GTATTGTATT
* * *
21209030 CGGGCTTAAAGACCAGCAGGCTAT-ATGCTGGAATGTTATC
1 CGGGCTTAAAGACCCGCAGGCTATCATGCTAGAATGCTATC
* *
21209070 CGGGCTTAAGGACCCGCAGGCT-TCGTGCTAGAATGCTATC
1 CGGGCTTAAAGACCCGCAGGCTATCATGCTAGAATGCTATC
*
21209110 CGGGC-TAGAGACCCGCAGGCTA
1 CGGGCTTAAAGACCCGCAGGCTA
21209132 CGAGCTGGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.28
40 38 0.72
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.21
Consensus pattern (41 bp):
CGGGCTTAAAGACCCGCAGGCTATCATGCTAGAATGCTATC
Found at i:21216807 original size:45 final size:46
Alignment explanation
Indices: 21216753--21216861 Score: 150
Period size: 47 Copynumber: 2.3 Consensus size: 46
21216743 TGCACACTTT
* *
21216753 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
*
21216799 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
21216846 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
21216862 ATCTTAAGCT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 25 0.44
46 5 0.09
47 27 0.47
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:21219786 original size:37 final size:37
Alignment explanation
Indices: 21219736--21219821 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
21219726 TTATTACGAA
* *
21219736 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
21219773 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
21219810 GTCTCACCCGGA
1 GTCTTACCCGGA
21219822 ATATATTTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.21
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:21219937 original size:48 final size:48
Alignment explanation
Indices: 21219866--21221353 Score: 2406
Period size: 48 Copynumber: 31.1 Consensus size: 48
21219856 TGTTACAACA
* *
21219866 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
21219914 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
21219962 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
21220010 TTCACATTAGTCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
21220058 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
21220106 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
21220154 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
21220202 TTCACATTCGCCATTC-GCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
21220249 TTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
21220297 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
21220345 TTCACATTCGCAATTCGGCTTTACCACATCTACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
21220393 TTCACATTCGCCATTCAGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
21220441 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
21220489 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
21220537 TTCACATTAGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
21220585 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * *
21220633 TTCACATTCGCAATTCGTCTTTACCACATCTACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
21220681 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
21220729 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATACAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
21220777 TTCACATTAGCCATTCAGCTTTACCACATATACATATCTTATATATTT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
21220825 TTCACATTAGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
21220873 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * * *
21220921 TTCACATTCGCAATTCAGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
21220969 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
21221017 TTCACATTCG-CATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
21221064 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
21221112 TTCACATTCG-CATTCGGCTTTACCACATCTACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
21221159 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
21221207 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
21221255 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
21221303 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
21221351 TTC
1 TTC
21221354 TCTTGGACAT
Statistics
Matches: 1327, Mismatches: 110, Indels: 6
0.92 0.08 0.00
Matches are distributed among these distances:
47 129 0.10
48 1198 0.90
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:21224187 original size:22 final size:20
Alignment explanation
Indices: 21224147--21224187 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
21224137 AGTCCTATTA
*
21224147 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
21224167 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
21224188 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:21232709 original size:79 final size:80
Alignment explanation
Indices: 21232600--21232861 Score: 363
Period size: 79 Copynumber: 3.3 Consensus size: 80
21232590 TACTCGTTCA
* * **
21232600 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
21232663 ATTTAGTAACTCGCACC
64 ATTTAGTAACTCGCACC
*
21232680 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCCTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
*
21232744 TTAGTAACTCACACC
66 TTAGTAACTCGCACC
*
21232759 AATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
* * *
21232823 ATAGTCACTTAGCA-C
66 TTAGTAAC-TCGCACC
*
21232838 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
21232862 CATCATTCGA
Statistics
Matches: 164, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
78 3 0.02
79 135 0.82
80 26 0.16
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
TTAGTAACTCGCACC
Found at i:21232855 original size:119 final size:120
Alignment explanation
Indices: 21232598--21232861 Score: 333
Period size: 119 Copynumber: 2.2 Consensus size: 120
21232588 GCTACTCGTT
* * *
21232598 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCA
* * *
21232662 GATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTAGCA
* * * *
21232717 CAAATGCCCTC-GGATCTTAGTCCGGATT-TAGTAACTCACACCAATGCCTTCGGG-CTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCC
* * *
21232779 AGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG-ATATAGTCACTTAGCA
65 AGAATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TAGCA
21232837 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21232862 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
118 39 0.31
119 72 0.58
120 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCA
GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTAGCA
Found at i:21232861 original size:40 final size:40
Alignment explanation
Indices: 21232579--21232861 Score: 312
Period size: 40 Copynumber: 7.1 Consensus size: 40
21232569 CGGAATTTAA
** *
21232579 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21232619 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21232659 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21232698 CCGGA-ATTAGTAACTCGCACAAATGCCCTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21232738 CCGGATTTAGTAACTCACACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21232777 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
21232817 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21232857 CCGGA
1 CCGGA
21232862 CATCATTCGA
Statistics
Matches: 204, Mismatches: 27, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
38 4 0.02
39 62 0.30
40 124 0.61
41 14 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21236407 original size:40 final size:40
Alignment explanation
Indices: 21236350--21236513 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
21236340 TGAATGATAC
* * * *
21236350 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
21236390 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
21236430 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
21236470 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
21236510 CCGG
1 CCGG
21236514 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:21244522 original size:40 final size:40
Alignment explanation
Indices: 21244465--21244628 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
21244455 TGAATGATAC
* * * *
21244465 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
21244505 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
21244545 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
21244585 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
21244625 CCGG
1 CCGG
21244629 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:21249054 original size:12 final size:12
Alignment explanation
Indices: 21249037--21249062 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21249027 GATTTCCTAG
21249037 TCCAATAATTAA
1 TCCAATAATTAA
21249049 TCCAATAATTAA
1 TCCAATAATTAA
21249061 TC
1 TC
21249063 AGACATGTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (12 bp):
TCCAATAATTAA
Found at i:21251412 original size:2 final size:2
Alignment explanation
Indices: 21251405--21251438 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
21251395 AATAAAAGCA
* *
21251405 AC AC AC AC AT AC GC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
21251439 CAAAACTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.47, G:0.03, T:0.03
Consensus pattern (2 bp):
AC
Found at i:21253731 original size:80 final size:80
Alignment explanation
Indices: 21253631--21253792 Score: 270
Period size: 80 Copynumber: 2.0 Consensus size: 80
21253621 CAAGACAATA
* * * *
21253631 TAAGGATCACGTGGAGATTAGAGTAATTGATTGCTAGTCTTTCTAACATGTCTTGTCTTAAGATG
1 TAAGGATCACGTGGAGATTAGAGTAATTGATTGCTAGTCGTCCTAACATGCCTTATCTTAAGATG
21253696 TCACATCACCATCAC
66 TCACATCACCATCAC
*
21253711 TAAGGATCACGTGGAGATTAGAGTAATTGATTGCTAGTCGTCCTAACATGCCTTATCTTAGGATG
1 TAAGGATCACGTGGAGATTAGAGTAATTGATTGCTAGTCGTCCTAACATGCCTTATCTTAAGATG
*
21253776 TCGCATCACCATCAC
66 TCACATCACCATCAC
21253791 TA
1 TA
21253793 CAAGAGGATC
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (80 bp):
TAAGGATCACGTGGAGATTAGAGTAATTGATTGCTAGTCGTCCTAACATGCCTTATCTTAAGATG
TCACATCACCATCAC
Found at i:21258452 original size:40 final size:39
Alignment explanation
Indices: 21258408--21258629 Score: 266
Period size: 40 Copynumber: 5.6 Consensus size: 39
21258398 GCCACTAGCT
*
21258408 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
21258448 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* * *
21258487 CAAATGCCTTTGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
21258527 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * * ** * *
21258567 CGAATGCCTTCGGTACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
21258607 CAAATG-CTCTCGGGACTTAGCCC
1 CAAATGCCT-TCGGGACTTAGCCC
21258630 AGTTATCATC
Statistics
Matches: 161, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 39 0.24
40 122 0.76
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:21258506 original size:79 final size:80
Alignment explanation
Indices: 21258408--21258592 Score: 273
Period size: 79 Copynumber: 2.3 Consensus size: 80
21258398 GCCACTAGCT
* * * *
21258408 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
21258473 -TATAATAACTCGCA
66 ATATAATAACTCGCA
* *
21258487 CAAATGCCTTTGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* *
21258552 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
* *
21258567 CGAATGCCTTCGGTACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21258593 ATTAGCCACT
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 59 0.63
80 35 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:21261757 original size:48 final size:48
Alignment explanation
Indices: 21261647--21261918 Score: 265
Period size: 48 Copynumber: 5.8 Consensus size: 48
21261637 GTGCCAAAGT
* *
21261647 CATGTCCCAGACATGGTCTTACA-TGGATC-C--A-C-ATGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGATCACATATCAACGCCGATGC
* * * * * * * ** *
21261689 CATATCCCGGATATGGTCTTATAC-GAAATCTCATGTCAGTGCCGATGT
1 CATGTCCCAGACATGGTCTTACACTG-GATCACATATCAACGCCGATGC
* * *
21261737 CATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAGCGCTGATGC
1 CATGTCCCAGACATGGTCTTACACT-GGATCACATATCAACGCCGATGC
* * *
21261785 CATGTCCTAGACATGGTCTTACACTGGCTCACATATCAACGCCGATTC
1 CATGTCCCAGACATGGTCTTACACTGGATCACATATCAACGCCGATGC
* * *
21261833 CATGTCCCAAACATGGTCTTACACTGGCTCACATATCAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGATCACATATCAACGCCGATGC
21261881 CATGTCCCAGACATGGTCTTACACT-GATTCACATATCA
1 CATGTCCCAGACATGGTCTTACACTGGA-TCACATATCA
21261919 TGTAATATCC
Statistics
Matches: 188, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
42 20 0.11
43 3 0.02
44 1 0.01
47 3 0.02
48 159 0.85
49 1 0.01
50 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGATCACATATCAACGCCGATGC
Found at i:21263258 original size:46 final size:46
Alignment explanation
Indices: 21263208--21263383 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
21263198 TGGTTGAGCA
21263208 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21263254 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
21263299 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21263347 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21263384 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21263364 original size:93 final size:93
Alignment explanation
Indices: 21263205--21263376 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
21263195 GGATGGTTGA
* *
21263205 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21263270 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21263298 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21263363 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21263377 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21270837 original size:46 final size:46
Alignment explanation
Indices: 21270787--21270962 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
21270777 TGGTTGAGCA
21270787 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21270833 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
21270878 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21270926 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21270963 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21270943 original size:93 final size:93
Alignment explanation
Indices: 21270784--21270955 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
21270774 GGATGGTTGA
* *
21270784 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21270849 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21270877 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21270942 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21270956 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21275785 original size:46 final size:46
Alignment explanation
Indices: 21275641--21275808 Score: 148
Period size: 46 Copynumber: 3.6 Consensus size: 46
21275631 TGTGTGAGCT
* * **
21275641 AGTGTAAGACATGTCTGGGACATGCATTGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAT-A-AGCC
* * * * * *
21275687 AGTATAAGACCATGTTTGGGACATGGCATCGACATTGAGACGAGT--GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAC-A-TAAGCC
21275735 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAAGCC
21275781 AGTGTAAGACATG-CTTGGGACATGCATC
1 AGTGTAAGACATGTC-TGGGACATGCATC
21275809 AACTACAATA
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 49 0.51
47 26 0.27
48 16 0.16
49 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAAGCC
Found at i:21280919 original size:13 final size:13
Alignment explanation
Indices: 21280901--21280925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21280891 AGGCCATGTG
21280901 AGGGACACGGGCT
1 AGGGACACGGGCT
21280914 AGGGACACGGGC
1 AGGGACACGGGC
21280926 GTGCGCTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.48, T:0.04
Consensus pattern (13 bp):
AGGGACACGGGCT
Found at i:21286155 original size:23 final size:22
Alignment explanation
Indices: 21286129--21286179 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
21286119 AAAACTTTCA
*
21286129 AAATATTATTTTTATCAAA-AAAT
1 AAATATCATTTTTA--AAATAAAT
*
21286152 AAATAACATTTTTAAAATAAAT
1 AAATATCATTTTTAAAATAAAT
21286174 AAATAT
1 AAATAT
21286180 GAATTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 9 0.38
23 12 0.50
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATATCATTTTTAAAATAAAT
Found at i:21290838 original size:21 final size:21
Alignment explanation
Indices: 21290813--21290877 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
21290803 TAGCCTCCGG
21290813 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* *
21290834 GCTTCAG-TTAGC-CTT-TGG
1 GCTTCCGTTTAGCACTTATGT
* *
21290852 GCTGCCATTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
21290873 GCTTC
1 GCTTC
21290878 AGCTAGATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 8 0.24
21 12 0.35
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:21290841 original size:39 final size:39
Alignment explanation
Indices: 21290795--21290879 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
21290785 GCTCTGATGA
* *
21290795 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTGCCATTTAGCACTTATGT
**
21290834 GCTTCAGTTAGCCTTTGGGCTGCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTGCCATTTAGCACTTATGT
21290873 GCTTCAG
1 GCTTCAG
21290880 CTAGATTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.14, C:0.26, G:0.24, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTGCCATTTAGCACTTATGT
Found at i:21295560 original size:31 final size:34
Alignment explanation
Indices: 21295498--21295569 Score: 105
Period size: 31 Copynumber: 2.2 Consensus size: 34
21295488 AATAGTTGTA
*
21295498 TTATAAAGATATAATTTTTACTCGTAAAATTATC
1 TTATAAAGATATAATTTTTACTCATAAAATTATC
*
21295532 TTATAAAGATATAA-TTTTA-T-ATAAAATTATT
1 TTATAAAGATATAATTTTTACTCATAAAATTATC
21295563 TTATAAA
1 TTATAAA
21295570 ACATTATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 16 0.44
32 1 0.03
33 5 0.14
34 14 0.39
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (34 bp):
TTATAAAGATATAATTTTTACTCATAAAATTATC
Found at i:21295565 original size:15 final size:15
Alignment explanation
Indices: 21295526--21295576 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
21295516 TACTCGTAAA
* *
21295526 ATTATCTTATAAAGAT
1 ATTATTTTATAAA-AC
*
21295542 ATAATTTTATATAAA-
1 ATTATTTTATA-AAAC
21295557 ATTATTTTATAAAAC
1 ATTATTTTATAAAAC
21295572 ATTAT
1 ATTAT
21295577 AATCATATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 3 0.10
15 15 0.50
16 10 0.33
17 2 0.07
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (15 bp):
ATTATTTTATAAAAC
Found at i:21299833 original size:14 final size:14
Alignment explanation
Indices: 21299814--21299851 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
21299804 AAAACATAAT
21299814 AAATTAAAAATCC-C
1 AAATTAAAAA-CCAC
*
21299828 AAATTAAAAACCAG
1 AAATTAAAAACCAC
21299842 AAATTAAAAA
1 AAATTAAAAA
21299852 AGGCCTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.66, C:0.13, G:0.03, T:0.18
Consensus pattern (14 bp):
AAATTAAAAACCAC
Found at i:21300574 original size:27 final size:27
Alignment explanation
Indices: 21300506--21300607 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
21300496 CAGCGACGCT
* * * **
21300506 AATATAATCGGCATACAGCCACGGGTA
1 AATATGATCGGCACAGAGCCACAAGTA
* *
21300533 AATATGATCGACACAGAGTCATCAA-TA
1 AATATGATCGGCACAGAGCCA-CAAGTA
* *
21300560 AATATGATAGGCACATAGCCACAAGTA
1 AATATGATCGGCACAGAGCCACAAGTA
* *
21300587 AATACGATCGGCACAAAGCCA
1 AATATGATCGGCACAGAGCCA
21300608 TAATCAAGAT
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 3 0.05
27 55 0.93
28 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.18
Consensus pattern (27 bp):
AATATGATCGGCACAGAGCCACAAGTA
Found at i:21300628 original size:22 final size:22
Alignment explanation
Indices: 21300597--21300654 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
21300587 AATACGATCG
*
21300597 GCACAAAGCCATAATCAAGATA
1 GCACAGAGCCATAATCAAGATA
* * * *
21300619 GCACAGAGCCATATTTAAGTTG
1 GCACAGAGCCATAATCAAGATA
*
21300641 GCACAGAGCAATAA
1 GCACAGAGCCATAA
21300655 ACAGATTACA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (22 bp):
GCACAGAGCCATAATCAAGATA
Found at i:21300867 original size:13 final size:14
Alignment explanation
Indices: 21300849--21300881 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
21300839 AAAAGCATAT
21300849 CAGTCATACGA-CA
1 CAGTCATACGATCA
21300862 CAGTCATACGATCA
1 CAGTCATACGATCA
21300876 CAGTCA
1 CAGTCA
21300882 AATCAGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.36, C:0.30, G:0.15, T:0.18
Consensus pattern (14 bp):
CAGTCATACGATCA
Found at i:21300992 original size:27 final size:27
Alignment explanation
Indices: 21300952--21301137 Score: 205
Period size: 27 Copynumber: 6.9 Consensus size: 27
21300942 GGCCTACAGG
* *
21300952 GGGTATTTCAGTAATTTTACACTGCAA
1 GGGTATTTCGGTAATTTTACACTACAA
*
21300979 GGGTATTTTGGTAATTTTACACTACAA
1 GGGTATTTCGGTAATTTTACACTACAA
*
21301006 -GGTATTTCGGTAATTTTAAACTACAA
1 GGGTATTTCGGTAATTTTACACTACAA
** * *
21301032 GGGTATTTCGACAATTGTACACTATAA
1 GGGTATTTCGGTAATTTTACACTACAA
* * *
21301059 GGATATTTCGATAATTATACACTACAA
1 GGGTATTTCGGTAATTTTACACTACAA
* * * *
21301086 GGGTATTTTGGTAATTTCACA-AACTAG
1 GGGTATTTCGGTAATTTTACACTAC-AA
*
21301113 GGGTATTTCGGTAATTATACACTAC
1 GGGTATTTCGGTAATTTTACACTAC
21301138 TGTCGCCTCG
Statistics
Matches: 131, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
26 26 0.20
27 103 0.79
28 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACACTACAA
Found at i:21302906 original size:35 final size:35
Alignment explanation
Indices: 21302860--21302930 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
21302850 GCAAAAGAGT
21302860 AAAATAAATACTCCTTTGAGCAGGGAGTGACTCGA
1 AAAATAAATACTCCTTTGAGCAGGGAGTGACTCGA
21302895 AAAATAAATACTCCTTTGAGCAGGGAGTGACTCGA
1 AAAATAAATACTCCTTTGAGCAGGGAGTGACTCGA
21302930 A
1 A
21302931 CTCAGGATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (35 bp):
AAAATAAATACTCCTTTGAGCAGGGAGTGACTCGA
Found at i:21303818 original size:14 final size:15
Alignment explanation
Indices: 21303791--21303819 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21303781 AATTGAATGC
21303791 CATTTCACTTTGTTA
1 CATTTCACTTTGTTA
21303806 CATTTCA-TTTGTTA
1 CATTTCACTTTGTTA
21303820 AAAATTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (15 bp):
CATTTCACTTTGTTA
Found at i:21306444 original size:22 final size:22
Alignment explanation
Indices: 21306419--21306463 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
21306409 GATGCATTTC
*
21306419 ATGC-ATTTTCATGCCATTAATA
1 ATGCAATTATCATG-CATTAATA
*
21306441 ATGCAATTATCATGCATTTATA
1 ATGCAATTATCATGCATTAATA
21306463 A
1 A
21306464 ATCATACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (22 bp):
ATGCAATTATCATGCATTAATA
Found at i:21310051 original size:52 final size:52
Alignment explanation
Indices: 21309973--21310075 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
21309963 TCATGATCAA
*
21309973 ATAGTAAGAAAATGTATTTTCATCCAATTAGTACATGAATCTAATTCCTTAT
1 ATAGTAAGAAAATGGATTTTCATCCAATTAGTACATGAATCTAATTCCTTAT
*
21310025 ATAGTAAGAAAATGGATTTTCATCCAATTAGTACATGAGTCTAATTCCTTA
1 ATAGTAAGAAAATGGATTTTCATCCAATTAGTACATGAATCTAATTCCTTA
21310076 GGCATTCATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (52 bp):
ATAGTAAGAAAATGGATTTTCATCCAATTAGTACATGAATCTAATTCCTTAT
Found at i:21313424 original size:29 final size:29
Alignment explanation
Indices: 21313358--21313448 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
21313348 AAGTCTACAT
* *
21313358 ACATGCATATTGCCCATTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCGAATC
*
21313386 TCATTCATATGGCCCATTAGGCCCGAATC
1 ACATTCATATGGCCCATTAGGCCCGAATC
**
21313415 ACATTCATATGGCCCATCCGGCCCGAATC
1 ACATTCATATGGCCCATTAGGCCCGAATC
21313444 A-ATTC
1 ACATTC
21313449 CAAGCCATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 25 0.45
29 31 0.55
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCGAATC
Found at i:21313674 original size:8 final size:8
Alignment explanation
Indices: 21313661--21313706 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
21313651 ATAGCCAAAC
21313661 TTTCGGCT
1 TTTCGGCT
*
21313669 TTTCGGCA
1 TTTCGGCT
*
21313677 TTTCAGCT
1 TTTCGGCT
21313685 TTTCGGCT
1 TTTCGGCT
* *
21313693 TTTCAGCA
1 TTTCGGCT
21313701 TTTCGG
1 TTTCGG
21313707 GATTTGCCGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.46
Consensus pattern (8 bp):
TTTCGGCT
Found at i:21313685 original size:16 final size:16
Alignment explanation
Indices: 21313661--21313711 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
21313651 ATAGCCAAAC
*
21313661 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
21313677 TTTCAGCTTTTCGGCT
1 TTTCAGCTTTTCGGCA
* *
21313693 TTTCAGCATTTCGGGA
1 TTTCAGCTTTTCGGCA
21313709 TTT
1 TTT
21313712 GCCGATCTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.47
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:21323161 original size:27 final size:26
Alignment explanation
Indices: 21323113--21323172 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
21323103 GCAAGGCTGC
*
21323113 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * * *
21323140 CAGATATTGTGGCTAGGCCACCCGAA
1 CAGATATTGTGACGAAGCCACCAGAA
21323166 CAGATAT
1 CAGATAT
21323173 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:21323176 original size:2 final size:2
Alignment explanation
Indices: 21323169--21323218 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
21323159 ACCCGAACAG
21323169 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21323211 AT AT AT AT
1 AT AT AT AT
21323219 GTAGCGAAGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21324058 original size:27 final size:27
Alignment explanation
Indices: 21323954--21324088 Score: 96
Period size: 27 Copynumber: 5.0 Consensus size: 27
21323944 GGGGCAAAAT
* * *
21323954 AGTAATTTTATCCCACAAGGGTATCTT-
1 AGTAATTCTATCCTACAGGGGTAT-TTC
*
21323981 GGTAATTCTA-CCTTAC-GAGGGTATTTC
1 AGTAATTCTATCC-TACAG-GGGTATTTC
* * * ***
21324008 AGTATTTTTACCCTACAACTGTATTTC
1 AGTAATTCTATCCTACAGGGGTATTTC
*
21324035 AGTAATTCTATCCTACAGGGGTATTTT
1 AGTAATTCTATCCTACAGGGGTATTTC
* * *
21324062 GGTAATTCTATCTTACGGGGGTATTTC
1 AGTAATTCTATCCTACAGGGGTATTTC
21324089 GATAATTGTA
Statistics
Matches: 82, Mismatches: 21, Indels: 10
0.73 0.19 0.09
Matches are distributed among these distances:
26 4 0.05
27 76 0.93
28 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (27 bp):
AGTAATTCTATCCTACAGGGGTATTTC
Found at i:21324094 original size:27 final size:27
Alignment explanation
Indices: 21324028--21324095 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
21324018 CCCTACAACT
21324028 GTATTTC-AGTAATTCTATCCTACAGGG
1 GTATTTCGA-TAATTCTATCCTACAGGG
* * * *
21324055 GTATTTTGGTAATTCTATCTTACGGGG
1 GTATTTCGATAATTCTATCCTACAGGG
21324082 GTATTTCGATAATT
1 GTATTTCGATAATT
21324096 GTACAACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.43
Consensus pattern (27 bp):
GTATTTCGATAATTCTATCCTACAGGG
Found at i:21330598 original size:39 final size:39
Alignment explanation
Indices: 21330531--21330785 Score: 381
Period size: 39 Copynumber: 6.5 Consensus size: 39
21330521 ACAAAGCATG
* * *
21330531 CGGGACTTTGAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
21330571 CGGGAATTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGG-ACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
21330611 TGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
**
21330650 CGGGACTTAGTTCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
21330689 C--GACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
21330726 CGGGACATAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
21330765 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
21330786 TTCTCCATTA
Statistics
Matches: 196, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
37 34 0.17
39 146 0.74
40 15 0.08
41 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:21330718 original size:76 final size:76
Alignment explanation
Indices: 21330541--21330786 Score: 368
Period size: 76 Copynumber: 3.2 Consensus size: 76
21330531 CGGGACTTTG
* * *
21330541 AGCCCGGATATAATACCAGCAC-AAAGCCTGCGGGAATTTAGCCCGGATATAACACCAGCACGAA
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGG-ACTTAGCCCGGATATAACACCAGCACGAA
*
21330605 TGCCTTTGGGACTT
65 TGCC-TT-CGACTT
* **
21330619 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGTTCGGATATAACACCAGCACGAAT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
21330684 GCCTTCGACTT
66 GCCTTCGACTT
*
21330695 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAAT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
21330760 GCCTTCGGGACTT
66 GCCTTC--GACTT
21330773 AGCCCGGATATAAT
1 AGCCCGGATATAAT
21330787 TCTCCATTAT
Statistics
Matches: 154, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
76 72 0.47
77 2 0.01
78 70 0.45
79 10 0.06
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (76 bp):
AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
GCCTTCGACTT
Found at i:21330719 original size:115 final size:115
Alignment explanation
Indices: 21330531--21330785 Score: 377
Period size: 115 Copynumber: 2.2 Consensus size: 115
21330521 ACAAAGCATG
* * * *
21330531 CGGGACTTTGAGCCCGGATATAATACCAGCAC-AAAGCCTGCGGGAATTTAGCCCGGATATAACA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTTC--G-ACTTAGCCCGGATATAACA
* *
21330595 CCAGCACGAATGCCTTTGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
61 CCAGCACGAATGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAATGCCTT
** *
21330650 CGGGACTTAGTTCGGATATAACACCAGCACGAATGCCTTCGACTTAGCCCGGATATAATACCAGC
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGACTTAGCCCGGATATAACACCAGC
21330715 ACGAATGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAATGCCTT
66 ACGAATGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAATGCCTT
21330765 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
21330786 TTCTCCATTA
Statistics
Matches: 124, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
115 89 0.72
116 1 0.01
117 19 0.15
118 9 0.07
119 6 0.05
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (115 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGACTTAGCCCGGATATAACACCAGC
ACGAATGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:21333360 original size:2 final size:2
Alignment explanation
Indices: 21333353--21333390 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21333343 GGCCACCGGA
21333353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21333391 GTAGTGAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21333471 original size:27 final size:26
Alignment explanation
Indices: 21333423--21333474 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
21333413 GCGAGGCTGC
*
21333423 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
21333449 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
21333475 TTACGCCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:21334741 original size:20 final size:20
Alignment explanation
Indices: 21334716--21334765 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
21334706 AGTTGAAGGG
21334716 CATGGGCGTGCCCTAGGATA
1 CATGGGCGTGCCCTAGGATA
21334736 CATGGGCGTGCCCTAGGATA
1 CATGGGCGTGCCCTAGGATA
21334756 CATGGGCGTG
1 CATGGGCGTG
21334766 TTAGTCCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.24, G:0.38, T:0.20
Consensus pattern (20 bp):
CATGGGCGTGCCCTAGGATA
Found at i:21347435 original size:43 final size:43
Alignment explanation
Indices: 21347342--21347457 Score: 157
Period size: 43 Copynumber: 2.7 Consensus size: 43
21347332 TCGGTGCCAC
* * *
21347342 TGTCCCAGACAGGGTCTTACACGAAATCA-AATACGATGCTAA
1 TGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCTAA
21347384 T-TCCCCAGACATGGTCTTACACGTAATCACAATACAATGCCT-A
1 TGT-CCCAGACATGGTCTTACACGTAATCACAATACAATG-CTAA
*
21347427 TGTCCCAGACATGGTCTTACATGTAATCACA
1 TGTCCCAGACATGGTCTTACACGTAATCACA
21347458 TCTCGGTAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
41 1 0.02
42 25 0.38
43 37 0.56
44 3 0.05
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCTAA
Found at i:21354523 original size:43 final size:43
Alignment explanation
Indices: 21354428--21354543 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
21354418 TCGATGATAC
* * * * *
21354428 TGTCCCAGAAAGGGTCTTACACGAAATCA-AATACGATGCCAA
1 TGTCCCAGACATGGTCTTACAAGTAATCACAATACAATGCCAA
* *
21354470 TGTCCCAGACATGGTCTTTCATGTAATCACAATACAATGCCAA
1 TGTCCCAGACATGGTCTTACAAGTAATCACAATACAATGCCAA
*
21354513 TGTCCTAGACATGGTCTTACAAGTAATCACA
1 TGTCCCAGACATGGTCTTACAAGTAATCACA
21354544 TCTCAGTAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
42 24 0.38
43 40 0.62
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACAAGTAATCACAATACAATGCCAA
Found at i:21360689 original size:22 final size:22
Alignment explanation
Indices: 21360664--21360705 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21360654 TGATAGATGT
21360664 TATTGAGTTA-AAATATGTATTG
1 TATT-AGTTAGAAATATGTATTG
*
21360686 TATTAGTTAGTAATATGTAT
1 TATTAGTTAGAAATATGTAT
21360706 GCCATATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (22 bp):
TATTAGTTAGAAATATGTATTG
Found at i:21362620 original size:25 final size:25
Alignment explanation
Indices: 21362590--21362641 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
21362580 ATTATATGAT
21362590 CGAGCCTATTTTAAATGTGGATCGA
1 CGAGCCTATTTTAAATGTGGATCGA
*
21362615 CGAGCCTATTTTAAATGTGGATTGA
1 CGAGCCTATTTTAAATGTGGATCGA
21362640 CG
1 CG
21362642 GATCATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (25 bp):
CGAGCCTATTTTAAATGTGGATCGA
Found at i:21367046 original size:37 final size:37
Alignment explanation
Indices: 21366983--21367126 Score: 225
Period size: 37 Copynumber: 3.9 Consensus size: 37
21366973 AGCTCAGACG
* * *
21366983 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
21367020 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
21367057 CAATCTCCACACGTAGTCATCGGGTCTTACCAGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
21367094 TAATCTCCACACGTAGTCATTGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
21367127 AAATATATTT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:21367401 original size:48 final size:48
Alignment explanation
Indices: 21367274--21367458 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
21367264 GCACATCGCC
*
21367274 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* ** *
21367324 TATATATTTCACATT-GACCATTCAACTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
21367372 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
21367420 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
21367459 TGCATGTTCA
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
48 81 0.66
49 2 0.02
50 40 0.33
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:21367463 original size:98 final size:97
Alignment explanation
Indices: 21367274--21367457 Score: 291
Period size: 98 Copynumber: 1.9 Consensus size: 97
21367264 GCACATCGCC
*
21367274 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
21367339 GACCATTCAACTTTACCACATATGCATATCTCA
65 GACCATTCAACTTTACCACATATGCATATCTCA
* *
21367372 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
**
21367435 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCAACTTTACCACATAT
21367458 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 34 0.43
98 45 0.56
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCAACTTTACCACATATGCATATCTCA
Found at i:21367507 original size:47 final size:47
Alignment explanation
Indices: 21367428--21367621 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
21367418 CATACATATT
* * * *
21367428 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
21367475 GCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
21367522 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
21367569 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
21367616 TCACAT
1 TCACAT
21367622 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:21367548 original size:22 final size:22
Alignment explanation
Indices: 21367521--21367592 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
21367511 GCTCACATTC
21367521 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
21367543 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
21367567 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
21367590 ATC
1 ATC
21367593 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:21371248 original size:14 final size:14
Alignment explanation
Indices: 21371211--21371253 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
21371201 TGTGTGAGTT
21371211 TATATGCTGAAATTA
1 TATATG-TGAAATTA
21371226 -AGTTATGTGAAATTA
1 TA--TATGTGAAATTA
21371241 TATATGTGAAATT
1 TATATGTGAAATT
21371254 CGAATGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.48
15 8 0.32
16 5 0.20
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (14 bp):
TATATGTGAAATTA
Found at i:21371499 original size:41 final size:42
Alignment explanation
Indices: 21371389--21371546 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
21371379 TGTGTTCTCA
** *
21371389 TGTAAGACCATGTCTAAGAC-GTTGGCATCG-ATCTCTGATTACG
1 TGTAAGACCATGTCTGGGACAG-TGGCATTGTAT-T-TGATTACG
* *
21371432 TGTAAGACCATGTCTGGGGCATTGGCATTGTATTTGATT-CG
1 TGTAAGACCATGTCTGGGACAGTGGCATTGTATTTGATTACG
* * * * *
21371473 TGTAAGACCTTGTCTGGGATAGTGGCATTG-ATATGAGATAGCA
1 TGTAAGACCATGTCTGGGACAGTGGCATTGTATTTGA-TTA-CG
* * *
21371516 TGGAAGACCATGTTTGGGACATTGGCATTGT
1 TGTAAGACCATGTCTGGGACAGTGGCATTGT
21371547 TTGATATATA
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
40 5 0.05
41 29 0.32
42 5 0.05
43 51 0.55
44 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATTGTATTTGATTACG
Found at i:21375376 original size:60 final size:59
Alignment explanation
Indices: 21375309--21375447 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 59
21375299 CCAACTGTGT
21375309 TGATATGGGCAAGGCCCAATATA-TCGTGACT-TATAATAGGGCTACGGCCCAGATTAATAC
1 TGATATGGGCAAGGCCCAATATACTC-TGA-TATATAA-AGGGCTACGGCCCAGATTAATAC
* * * * * *
21375369 TGATATGGGCTAGGCCTAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCAAGGCCCAATATACTCTGATA-TATAAAGGGCTACGGCCCAGATTAATAC
21375429 TGATATGGGCTAAGGCCCA
1 TGATATGGGC-AAGGCCCA
21375448 GTTAACACTA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
59 1 0.01
60 54 0.81
61 12 0.18
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (59 bp):
TGATATGGGCAAGGCCCAATATACTCTGATATATAAAGGGCTACGGCCCAGATTAATAC
Found at i:21381323 original size:6 final size:5
Alignment explanation
Indices: 21381294--21381370 Score: 70
Period size: 6 Copynumber: 14.8 Consensus size: 5
21381284 TATGTCTTTC
*
21381294 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAT CAAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT -AAAAT
21381342 AAAAAT AAAAT -AAAT AAAAT AAAAT AAAA
1 -AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
21381371 ATATGAATAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
3 3 0.05
4 4 0.06
5 26 0.42
6 29 0.47
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:21381381 original size:17 final size:16
Alignment explanation
Indices: 21381344--21381392 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
21381334 ATCAAAATAA
*
21381344 AAATAAAATAAATAAAAT
1 AAATAAAA-AAAT-GAAT
*
21381362 AAAATAAAAATATGAAT
1 -AAATAAAAAAATGAAT
21381379 AAATAAAAAAATGA
1 AAATAAAAAAATGA
21381393 GGATTCAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 13 0.48
17 3 0.11
18 3 0.11
19 8 0.30
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
AAATAAAAAAATGAAT
Found at i:21381390 original size:49 final size:49
Alignment explanation
Indices: 21381294--21381390 Score: 108
Period size: 49 Copynumber: 2.0 Consensus size: 49
21381284 TATGTCTTTC
* * **
21381294 AAAATAAAATAATAAAATTGAAATGAAAATAAAAATCAAAATCAAAATA
1 AAAATAAAATAATAAAATTAAAATAAAAATAAAAATCAAAAAAAAAATA
**
21381343 AAAATAAAATAAATAAAA-TAAAATAAAAATATGAAT-AAATAAAAAAAT
1 AAAATAAAAT-AATAAAATTAAAATAAAAATAAAAATCAAA-AAAAAAAT
21381391 GAGGATTCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
48 3 0.08
49 30 0.75
50 7 0.17
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (49 bp):
AAAATAAAATAATAAAATTAAAATAAAAATAAAAATCAAAAAAAAAATA
Found at i:21383040 original size:39 final size:40
Alignment explanation
Indices: 21382862--21383044 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
21382852 CCGCACCAAG
* * * * * * * *
21382862 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
21382902 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
21382942 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
21382982 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
21383021 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
21383045 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:21391120 original size:39 final size:40
Alignment explanation
Indices: 21390944--21391124 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
21390934 CCGCACCAAG
* * * * * * * *
21390944 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
21390984 GCCTTCGGGTCTTAGCCCGG--ATAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
21391022 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
21391062 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
21391101 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
21391125 CATTCAATTT
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
38 32 0.27
39 33 0.28
40 55 0.46
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:21396561 original size:13 final size:13
Alignment explanation
Indices: 21396539--21396571 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21396529 AAGGATTTGT
21396539 TTAT-TAAACTAA
1 TTATCTAAACTAA
21396551 TTATCTAAACTAA
1 TTATCTAAACTAA
*
21396564 TTAACTAA
1 TTATCTAA
21396572 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:21398720 original size:10 final size:10
Alignment explanation
Indices: 21398683--21398727 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
21398673 ATATTTTAAA
21398683 ACATATCAATC
1 ACATAT-AATC
*
21398694 ACATATAAGC
1 ACATATAATC
* *
21398704 ACGTATAATT
1 ACATATAATC
21398714 ACATATAATC
1 ACATATAATC
21398724 ACAT
1 ACAT
21398728 TTAGTCACAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
10 22 0.79
11 6 0.21
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (10 bp):
ACATATAATC
Found at i:21408736 original size:16 final size:16
Alignment explanation
Indices: 21408707--21408758 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 16
21408697 TGCATTTAAC
*
21408707 ATATTACAAT-ATATCA
1 ATATTA-AATAATATAA
21408723 ATATTAAATAATATAA
1 ATATTAAATAATATAA
21408739 ACTACATTAAATAATATAA
1 A-T--ATTAAATAATATAA
21408758 A
1 A
21408759 CTACATGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 3 0.10
16 12 0.39
17 1 0.03
19 15 0.48
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATTAAATAATATAA
Found at i:21408749 original size:19 final size:19
Alignment explanation
Indices: 21408725--21408764 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
21408715 ATATATCAAT
21408725 ATTAAATAATATAAACTAC
1 ATTAAATAATATAAACTAC
21408744 ATTAAATAATATAAACTAC
1 ATTAAATAATATAAACTAC
21408763 AT
1 AT
21408765 GATGCATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAATAATATAAACTAC
Found at i:21409458 original size:20 final size:19
Alignment explanation
Indices: 21409398--21409470 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
21409388 TACATAATAA
*
21409398 ATAATTAATAATAAAATGAT
1 ATAA-TAATAATAAAAAGAT
* *
21409418 ATAGTAA-AATAAAAATAAT
1 ATAATAATAATAAAAA-GAT
21409437 ATAATGAATAATAAAAAGAT
1 ATAAT-AATAATAAAAAGAT
21409457 ATAATATATAATAA
1 ATAATA-ATAATAA
21409471 TTTTTACACA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.16
19 10 0.23
20 19 0.43
21 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAATAATAATAAAAAGAT
Found at i:21413557 original size:23 final size:21
Alignment explanation
Indices: 21413530--21413584 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
21413520 TTATTTTATG
21413530 TTTATTATAACATATATTAACA
1 TTTATTATAACATAT-TTAACA
* *
21413552 TATTATTTAATTACATATTTAACC
1 T-TTA-TT-ATAACATATTTAACA
21413576 TTTATTATA
1 TTTATTATA
21413585 TAATATGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 2 0.07
22 3 0.11
23 6 0.22
24 8 0.30
25 8 0.30
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATTATAACATATTTAACA
Found at i:21413800 original size:14 final size:15
Alignment explanation
Indices: 21413783--21413811 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21413773 TCACAAAAAT
21413783 TTCACACATA-TAAA
1 TTCACACATAGTAAA
21413797 TTCACACATAGTAAA
1 TTCACACATAGTAAA
21413812 CATAGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (15 bp):
TTCACACATAGTAAA
Found at i:21414819 original size:23 final size:24
Alignment explanation
Indices: 21414793--21414837 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
21414783 TATCCCCACA
21414793 TGGTGTGTAG-GGATGGATGGAGC
1 TGGTGTGTAGAGGATGGATGGAGC
*
21414816 TGGTGTGTAGAGGTTGGATGGA
1 TGGTGTGTAGAGGATGGATGGA
21414838 CAGGTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.18, C:0.02, G:0.51, T:0.29
Consensus pattern (24 bp):
TGGTGTGTAGAGGATGGATGGAGC
Found at i:21425474 original size:42 final size:42
Alignment explanation
Indices: 21425368--21425526 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 42
21425358 CGATATGTGT
* * *
21425368 TTTCGTGTTAGACCACATCTGGGACATTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGTA-TT-TGA
*
21425411 TTTACGTGTAAGACCACGTCTGGTACGTTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA
**
21425454 TTTCGTGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGA
1 TTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCG-TATTTGA
* * *
21425497 TTACATGTAAGACCACGTCCGGGACGTTGG
1 TTTCGTGTAAGACCACGTCTGGGACGTTGG
21425527 TATTGTTGAG
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 28 0.28
43 40 0.40
44 30 0.30
45 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA
Found at i:21425758 original size:20 final size:20
Alignment explanation
Indices: 21425721--21425765 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
21425711 AATATGCTAC
21425721 ATGTGTAAATGAATTGAAAT
1 ATGTGTAAATGAATTGAAAT
* *
21425741 ATGTG-AAATGTATATGAACT
1 ATGTGTAAATGAAT-TGAAAT
21425761 ATGTG
1 ATGTG
21425766 GTTTAAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (20 bp):
ATGTGTAAATGAATTGAAAT
Found at i:21429805 original size:41 final size:42
Alignment explanation
Indices: 21429703--21429811 Score: 159
Period size: 41 Copynumber: 2.6 Consensus size: 42
21429693 TAATAGTGAT
*
21429703 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCTGGTATATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTATATG
*
21429745 ATATCAGGCTTATTGCCTAGCAGGCTTT-ATGCCGGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTATA-TG
* *
21429787 A-ATCAGGTTTATTACCTAGCAGGCT
1 ATATCAGGCTTATTGCCTAGCAGGCT
21429812 CTGTGTCGGT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 31 0.50
42 31 0.50
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTATATG
Found at i:21430872 original size:2 final size:2
Alignment explanation
Indices: 21430825--21430854 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21430815 TTGTGTATTG
*
21430825 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21430855 TTGAATGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:21432876 original size:26 final size:26
Alignment explanation
Indices: 21432843--21432952 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
21432833 TGATACAAAT
21432843 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
21432869 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21432895 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21432921 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21432947 TGATAA
1 TGATAA
21432953 GAATTACATG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:21437783 original size:20 final size:19
Alignment explanation
Indices: 21437736--21437793 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
21437726 TTTTAAAAAA
*
21437736 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
21437754 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
*
21437773 TGA-AAATTATTTTAAATTTT
1 T-ATAAA-TATTTTGAATTTT
21437793 T
1 T
21437794 TTTGTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.20
19 14 0.40
20 14 0.40
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:21438140 original size:17 final size:16
Alignment explanation
Indices: 21438109--21438143 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
21438099 TATGCAATAC
*
21438109 AAGGTACCCCGAGAGT
1 AAGGTACCCCAAGAGT
21438125 AAGGTACCCCCAAGAGT
1 AAGGTA-CCCCAAGAGT
21438142 AA
1 AA
21438144 AGAATTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.37, C:0.26, G:0.26, T:0.11
Consensus pattern (16 bp):
AAGGTACCCCAAGAGT
Found at i:21439569 original size:18 final size:18
Alignment explanation
Indices: 21439546--21439581 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21439536 AACAAGTTTG
21439546 TCTTTAAAATTTAGATAT
1 TCTTTAAAATTTAGATAT
*
21439564 TCTTTAAATTTTAGATAT
1 TCTTTAAAATTTAGATAT
21439582 AAATTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
TCTTTAAAATTTAGATAT
Found at i:21439898 original size:2 final size:2
Alignment explanation
Indices: 21439891--21439925 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
21439881 TAGTAATGTT
*
21439891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21439926 TTGTTAGAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21445940 original size:20 final size:20
Alignment explanation
Indices: 21445899--21445940 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21445889 ATTTCCCATG
*
21445899 TTGGCCCATTTTCTCCTTTT
1 TTGGCCCATTTTCTCCTCTT
21445919 TTGGCCCA-TTTCTCGCTCTT
1 TTGGCCCATTTTCTC-CTCTT
21445939 TT
1 TT
21445941 TACTCTCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.05, C:0.31, G:0.12, T:0.52
Consensus pattern (20 bp):
TTGGCCCATTTTCTCCTCTT
Found at i:21447869 original size:17 final size:17
Alignment explanation
Indices: 21447834--21447881 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
21447824 AAGTAATTTC
*
21447834 AAAATATAAATAA-AGAT
1 AAAA-ATAAATAATAAAT
21447851 AAAAATAAATAATAAAT
1 AAAAATAAATAATAAAT
21447868 AAAAATAAATAATA
1 AAAAATAAATAATA
21447882 GGTGTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (17 bp):
AAAAATAAATAATAAAT
Found at i:21448482 original size:55 final size:55
Alignment explanation
Indices: 21448398--21448507 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
21448388 CTTATTTATA
21448398 GTCTAAGCTCTACTTACCTCGATTTCGCATAGTCATGGTGGTTCGAGGAGTTTAC
1 GTCTAAGCTCTACTTACCTCGATTTCGCATAGTCATGGTGGTTCGAGGAGTTTAC
*
21448453 GTCTAAGCTCTATTTACCTCGATTTCGCATAGTCATGGTGGTTCGAGGAGTTTAC
1 GTCTAAGCTCTACTTACCTCGATTTCGCATAGTCATGGTGGTTCGAGGAGTTTAC
21448508 ACTCCTCATC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (55 bp):
GTCTAAGCTCTACTTACCTCGATTTCGCATAGTCATGGTGGTTCGAGGAGTTTAC
Done.