Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 73 of 425
Found at i:20582690 original size:23 final size:22
Alignment explanation
Indices: 20582629--20582690 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 22
20582619 CATTCATTAT
20582629 TAAATATTTATAAAT-TCTAATA
1 TAAATATTT-TAAATATCTAATA
20582651 TAAATTTATTTTTAATATAT-TAATA
1 TAAA--TA-TTTTAA-ATATCTAATA
20582676 TAAATATTTTAAATA
1 TAAATATTTTAAATA
20582691 ATATATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
21 3 0.09
22 10 0.29
23 2 0.06
24 5 0.14
25 14 0.40
26 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAATATTTTAAATATCTAATA
Found at i:20582698 original size:26 final size:26
Alignment explanation
Indices: 20582663--20582715 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
20582653 AATTTATTTT
20582663 TAATATATTAAT-ATAAATATTTTAAA
1 TAATATATTAATAAT-AATATTTTAAA
*
20582689 TAATATATTAATAATATTATTTTAAA
1 TAATATATTAATAATAATATTTTAAA
20582715 T
1 T
20582716 TTAAATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATATATTAATAATAATATTTTAAA
Found at i:20582816 original size:25 final size:23
Alignment explanation
Indices: 20582784--20582843 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
20582774 ACTAAAAATA
*
20582784 TATTATATTAATTATATTAATAATT
1 TATTATATTAATTAAATT--TAATT
20582809 TATTATATT-ATTAAATTTAATT
1 TATTATATTAATTAAATTTAATT
*
20582831 AATTA-ATTAATTA
1 TATTATATTAATTA
20582844 CGTATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 3 0.09
22 13 0.41
24 7 0.22
25 9 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTATATTAATTAAATTTAATT
Found at i:20582834 original size:4 final size:4
Alignment explanation
Indices: 20582785--20582843 Score: 50
Period size: 4 Copynumber: 14.0 Consensus size: 4
20582775 CTAAAAATAT
*
20582785 ATTA TATTA ATTA TATTA A-TA ATTT ATTA TATT- ATTAA ATTTA ATTA
1 ATTA -ATTA ATTA -ATTA ATTA ATTA ATTA -ATTA ATT-A A-TTA ATTA
20582832 ATTA ATTA ATTA
1 ATTA ATTA ATTA
20582844 CGTATAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
3 6 0.13
4 24 0.52
5 14 0.30
6 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
ATTA
Found at i:20582838 original size:30 final size:30
Alignment explanation
Indices: 20582782--20582843 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
20582772 TCACTAAAAA
* *
20582782 TATATTATATTAATTATATTAATAATTTAT
1 TATATTATATAAATTATATTAATAATTAAT
20582812 TATATTAT-TAAATT-TAATTAATTAATTAAT
1 TATATTATATAAATTAT-ATTAA-TAATTAAT
20582842 TA
1 TA
20582844 CGTATAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 10 0.36
30 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TATATTATATAAATTATATTAATAATTAAT
Found at i:20601674 original size:29 final size:29
Alignment explanation
Indices: 20601642--20601803 Score: 261
Period size: 29 Copynumber: 5.6 Consensus size: 29
20601632 GCTTGGAAGG
20601642 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
20601671 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
*
20601700 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
20601729 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
* * * **
20601758 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCAAACTTAAATTA
*
20601787 CATGGCACTAAGTGTGC
1 TATGGCACTAAGTGTGC
20601804 GAGATCGTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 124 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCAAACTTAAATTA
Found at i:20609707 original size:29 final size:29
Alignment explanation
Indices: 20609675--20609836 Score: 261
Period size: 29 Copynumber: 5.6 Consensus size: 29
20609665 GCTTGGAAGG
20609675 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
20609704 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
*
20609733 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
20609762 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
* * * **
20609791 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCAAACTTAAATTA
*
20609820 CATGGCACTAAGTGTGC
1 TATGGCACTAAGTGTGC
20609837 GAGATCGTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 124 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCAAACTTAAATTA
Found at i:20614287 original size:40 final size:41
Alignment explanation
Indices: 20614200--20614382 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 41
20614190 CGAGCTTGGG
*
20614200 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAAT
1 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
*
20614241 TACGAAGGGCTTTTGAGCCAGTGCTAATAA-CGAACTTAGT
1 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
* *
20614281 TTCGAAGGGCTTTTGAGCCAGTG-TCATAACCGGACTTAGT
1 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
* * * * *
20614321 TCCGAAGGGCCTTCGAGCCAGTGGCCTAAT---CGAGCTTGGT
1 TTCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGT
*
20614361 CTCGAAGGGC-TTTGAGCCAGTG
1 TTCGAAGGGCTTTTGAGCCAGTG
20614383 TTAAGAATCG
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 74 0.60
41 30 0.24
43 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
Found at i:20614339 original size:80 final size:80
Alignment explanation
Indices: 20614200--20614383 Score: 239
Period size: 80 Copynumber: 2.3 Consensus size: 80
20614190 CGAGCTTGGG
* *
20614200 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTACGAAGGGCTTTTGAGCCAGT-G
1 TTCGAAGGGCTTTTGAGCCAGTG-TAATAACCGAACTTAATTACGAAGGGCCTTCGAGCCAGTGG
20614264 -CTAATAACGAACTTAGT
65 CCTAAT--CGAACTTAGT
* * * *
20614281 TTCGAAGGGCTTTTGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCGAGCCAGTGGC
1 TTCGAAGGGCTTTTGAGCCAGTGTAATAACCGAACTTAATTACGAAGGGCCTTCGAGCCAGTGGC
* *
20614346 CTAATCGAGCTTGGT
66 CTAATCGAACTTAGT
*
20614361 CTCGAAGGGC-TTTGAGCCAGTGT
1 TTCGAAGGGCTTTTGAGCCAGTGT
20614384 TAAGAATCGT
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
79 13 0.14
80 50 0.54
81 24 0.26
82 5 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TTCGAAGGGCTTTTGAGCCAGTGTAATAACCGAACTTAATTACGAAGGGCCTTCGAGCCAGTGGC
CTAATCGAACTTAGT
Found at i:20614404 original size:80 final size:76
Alignment explanation
Indices: 20614190--20614409 Score: 219
Period size: 80 Copynumber: 2.7 Consensus size: 76
20614180 GGTGTAAATC
* * * *
20614190 CGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTACGAAGGGCTTTT
1 CGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTG-TAATAACCG-GCTT-ATTCCGAAGGGCCTTC
20614255 GAGCCAGTGCTAATAA
62 GAGCCAGTGCTAAT-A
* * *
20614271 CGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCG
1 CGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGG-CTTA-TTCCGAAGGGCCTTCG
20614336 AGCCAGTGGCCTAAT-
63 AGCCAGT-G-CTAATA
* *
20614351 CGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGTTAAGAATCGTGCTTGATTCCGAAGGG
1 CGAGCTTGGT-TCGAAGGGCTTTTGAGCCAGTG-TAATAACCG-GCTT-ATTCCGAAGGG
20614410 TGGTTGTGCC
Statistics
Matches: 118, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
79 15 0.13
80 65 0.55
81 33 0.28
82 5 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (76 bp):
CGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGGCTTATTCCGAAGGGCCTTCGAGC
CAGTGCTAATA
Found at i:20614407 original size:40 final size:39
Alignment explanation
Indices: 20614202--20614409 Score: 170
Period size: 40 Copynumber: 5.2 Consensus size: 39
20614192 AGCTTGGGTT
* *
20614202 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTA
1 CGAAGGGCTTTTGAGCCAGTG-TAATAACCGAGCTT-ATTC
* *
20614243 CGAAGGGCTTTTGAGCCAGTGCTAATAA-CGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTG-TAATAACCGAGCTTA-TTC
*
20614283 CGAAGGGCTTTTGAGCCAGTGTCATAACCG-GACTTAGTTC
1 CGAAGGGCTTTTGAGCCAGTGTAATAACCGAG-CTTA-TTC
* * *** * **
20614323 CGAAGGGCCTTCGAGCCAGTGGCCTAATCGAGCTTGGTC
1 CGAAGGGCTTTTGAGCCAGTGTAATAACCGAGCTTATTC
* * *
20614362 TCGAAGGGC-TTTGAGCCAGTGTTAAGAATCGTGCTTGATTC
1 -CGAAGGGCTTTTGAGCCAGTG-TAATAACCGAGCTT-ATTC
20614403 CGAAGGG
1 CGAAGGG
20614410 TGGTTGTGCC
Statistics
Matches: 141, Mismatches: 19, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
39 19 0.13
40 91 0.65
41 31 0.22
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CGAAGGGCTTTTGAGCCAGTGTAATAACCGAGCTTATTC
Found at i:20622942 original size:40 final size:41
Alignment explanation
Indices: 20622814--20622956 Score: 198
Period size: 41 Copynumber: 3.5 Consensus size: 41
20622804 AGCTTGGGTT
*
20622814 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTA
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
* *
20622855 CGAAGGGCTTTTGAGCCAGTGCTAATAAGCGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
* * * *
20622896 CGAAGGGCTTTTGAGTCAGTG-TCATAACCGGACTTAGTTC
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
* *
20622936 CGAAGGGCCTTCGAGCCAGTG
1 CGAAGGGCTTTTGAGCCAGTG
20622957 GCCTAATCCG
Statistics
Matches: 91, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 33 0.36
41 58 0.64
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (41 bp):
CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
Found at i:20622983 original size:81 final size:79
Alignment explanation
Indices: 20622793--20622991 Score: 213
Period size: 81 Copynumber: 2.5 Consensus size: 79
20622783 GTTAATCGGG
*
20622793 GTGCAAATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTACGA
1 GTGCTAATCCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTACGA
* *
20622858 AGGGCTTTTGAGCCA
65 AGGGCCTTCGAGCCA
* * * * * * * *
20622873 GTGCTAATAAGCGAACTTAGTTTCGAAGGGCTTTTGAGTCAGTG-TCATAACCGGACTTAGTTCC
1 GTGCTAAT--CCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTAC
20622937 GAAGGGCCTTCGAGCCA
63 GAAGGGCCTTCGAGCCA
*
20622954 GTGGCCTAATCCGAGCTTGGTCTCAAAGGGC-TTTGAGC
1 GT-G-CTAATCCGAGCTTGGT-TCGAAGGGCTTTTGAGC
20622992 TAATGTTAAG
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
80 15 0.15
81 47 0.48
82 30 0.31
83 5 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
GTGCTAATCCGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTACGAA
GGGCCTTCGAGCCA
Found at i:20629776 original size:13 final size:13
Alignment explanation
Indices: 20629758--20629782 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20629748 AAACAAAGAA
20629758 AGGCATAAAATTC
1 AGGCATAAAATTC
20629771 AGGCATAAAATT
1 AGGCATAAAATT
20629783 GGTAAGAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
AGGCATAAAATTC
Found at i:20632292 original size:9 final size:9
Alignment explanation
Indices: 20632270--20632302 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
20632260 AATAAAATTT
20632270 AAAATTGAAC
1 AAAATTG-AC
20632280 AAAATTGAC
1 AAAATTGAC
20632289 AAAATTGAC
1 AAAATTGAC
20632298 AAAAT
1 AAAAT
20632303 GATTTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (9 bp):
AAAATTGAC
Found at i:20634507 original size:18 final size:18
Alignment explanation
Indices: 20634486--20634522 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
20634476 TATCTTTTAG
*
20634486 ATTTTTTTAAAAAATTAT
1 ATTTTTTTAAAAAAATAT
20634504 ATTTTTTTAAAAAAATAT
1 ATTTTTTTAAAAAAATAT
20634522 A
1 A
20634523 AATTTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTTTTAAAAAAATAT
Found at i:20634528 original size:18 final size:18
Alignment explanation
Indices: 20634489--20634528 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20634479 CTTTTAGATT
* **
20634489 TTTTTAAAAAATTATATT
1 TTTTTAAAAAAATATAAA
20634507 TTTTTAAAAAAATATAAA
1 TTTTTAAAAAAATATAAA
20634525 TTTT
1 TTTT
20634529 AGAATTTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTTAAAAAAATATAAA
Found at i:20634540 original size:18 final size:19
Alignment explanation
Indices: 20634519--20634554 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20634509 TTTAAAAAAA
20634519 TATAAAT-TTTAGAATTTC
1 TATAAATATTTAGAATTTC
*
20634537 TATAAATATTTTGAATTT
1 TATAAATATTTAGAATTT
20634555 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
TATAAATATTTAGAATTTC
Found at i:20634554 original size:19 final size:18
Alignment explanation
Indices: 20634519--20634567 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
20634509 TTTAAAAAAA
*
20634519 TATAAAT-TTTAGAATTT
1 TATAAATATTTTGAATTT
20634536 CTATAAATATTTTGAATTT
1 -TATAAATATTTTGAATTT
*
20634555 TAAAAATTATTTT
1 TATAAA-TATTTT
20634568 CAAATTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:20634593 original size:20 final size:20
Alignment explanation
Indices: 20634546--20634596 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
20634536 CTATAAATAT
*
20634546 TTTGAA-TTTTAAAAATTAT
1 TTTGAATTTTTAAAAATTAC
* *
20634565 TTTCAAATTTTTGAAAATTAC
1 TTT-GAATTTTTAAAAATTAC
20634586 TTTGAATTTTT
1 TTTGAATTTTT
20634597 TGTATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 3 0.12
20 9 0.35
21 14 0.54
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (20 bp):
TTTGAATTTTTAAAAATTAC
Found at i:20635003 original size:7 final size:7
Alignment explanation
Indices: 20634991--20635032 Score: 57
Period size: 8 Copynumber: 5.6 Consensus size: 7
20634981 GACGTTCTCC
20634991 TTTTTCT
1 TTTTTCT
20634998 TTTTTCT
1 TTTTTCT
20635005 TTTTTCTT
1 TTTTTC-T
20635013 TTTTTGCT
1 TTTTT-CT
20635021 TTTGTTCT
1 TTT-TTCT
20635029 TTTT
1 TTTT
20635033 GGCTTCTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 14 0.44
8 15 0.47
9 3 0.09
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:20635010 original size:14 final size:15
Alignment explanation
Indices: 20634991--20635037 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
20634981 GACGTTCTCC
20634991 TTTTTCTTTTTT-CT
1 TTTTTCTTTTTTGCT
20635005 TTTTTCTTTTTTTGCT
1 TTTTTC-TTTTTTGCT
*
20635021 TTTGTTCTTTTTGGCT
1 TTT-TTCTTTTTTGCT
20635037 T
1 T
20635038 CTTCTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 14 0.48
17 3 0.10
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.79
Consensus pattern (15 bp):
TTTTTCTTTTTTGCT
Found at i:20635011 original size:23 final size:24
Alignment explanation
Indices: 20634985--20635032 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
20634975 TCTCTGGACG
20634985 TTCTCCTTTTT-CTTTT-TTCTTTT
1 TTCT-CTTTTTGCTTTTGTTCTTTT
*
20635008 TTCTTTTTTTGCTTTTGTTCTTTT
1 TTCTCTTTTTGCTTTTGTTCTTTT
20635032 T
1 T
20635033 GGCTTCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (24 bp):
TTCTCTTTTTGCTTTTGTTCTTTT
Found at i:20635028 original size:17 final size:15
Alignment explanation
Indices: 20634991--20635032 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
20634981 GACGTTCTCC
20634991 TTTTTC-TTTTTTCT
1 TTTTTCTTTTTTTCT
20635005 TTTTTCTTTTTTTGCT
1 TTTTTCTTTTTTT-CT
20635021 TTTGTTCTTTTT
1 TTT-TTCTTTTT
20635033 GGCTTCTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.24
15 6 0.24
16 5 0.20
17 8 0.32
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:20635033 original size:9 final size:8
Alignment explanation
Indices: 20634991--20635032 Score: 52
Period size: 7 Copynumber: 5.4 Consensus size: 8
20634981 GACGTTCTCC
20634991 TTTTTC-T
1 TTTTTCTT
20634998 TTTTTC-T
1 TTTTTCTT
20635005 TTTTTCTT
1 TTTTTCTT
20635013 TTTTTGCTT
1 TTTTT-CTT
*
20635022 TTGTTCTT
1 TTTTTCTT
20635030 TTT
1 TTT
20635033 GGCTTCTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 13 0.42
8 11 0.35
9 7 0.23
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:20637804 original size:21 final size:21
Alignment explanation
Indices: 20637778--20637818 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20637768 GATCCTTCAC
*
20637778 GGGCGTGTGTTATGGACACAT
1 GGGCGTATGTTATGGACACAT
*
20637799 GGGCGTATGTTATGGTCACA
1 GGGCGTATGTTATGGACACA
20637819 CAGCTGTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.37, T:0.29
Consensus pattern (21 bp):
GGGCGTATGTTATGGACACAT
Found at i:20641724 original size:10 final size:10
Alignment explanation
Indices: 20641690--20641758 Score: 58
Period size: 10 Copynumber: 7.3 Consensus size: 10
20641680 TTCATACTTT
20641690 TATTTTTA-A
1 TATTTTTATA
20641699 -ATTTTTATA
1 TATTTTTATA
* *
20641708 AACTTTTATA
1 TATTTTTATA
20641718 TATTTTTTATA
1 TA-TTTTTATA
20641729 TATTTTTA-A
1 TATTTTTATA
*
20641738 -ATTTTGA-A
1 TATTTTTATA
*
20641746 TCTTTTTATA
1 TATTTTTATA
20641756 TAT
1 TAT
20641759 GAAAACTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
8 14 0.29
9 7 0.15
10 18 0.38
11 9 0.19
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (10 bp):
TATTTTTATA
Found at i:20641725 original size:11 final size:11
Alignment explanation
Indices: 20641711--20641735 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20641701 TTTTATAAAC
20641711 TTTTATATATT
1 TTTTATATATT
20641722 TTTTATATATT
1 TTTTATATATT
20641733 TTT
1 TTT
20641736 AAATTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATATATT
Found at i:20644240 original size:41 final size:41
Alignment explanation
Indices: 20644165--20644454 Score: 381
Period size: 41 Copynumber: 7.1 Consensus size: 41
20644155 CAAAAATTAT
* *
20644165 AAAACACAGAGCAATAGTGGCG-TTTTGGGTAAAACGCCGCTA
1 AAAAC-CAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGCTA
* * * * *
20644207 AAAA-AAGAGGAATAGTGGCG-TTTTAGTAAAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGT--AAAACGCCGCTA
* *
20644248 AAAA-TAGAGCATTAGCGGCGCTTTTGGTAAAACGCCACTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* *
20644288 AAAACCAGAGAATTAGCGGCGCTTCTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* *
20644329 AAAACCAGAGCATTAGCGGCGCTTCTAGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
*
20644370 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAGACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
*
20644411 AAAACAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
20644452 AAA
1 AAA
20644455 GTCATATAAC
Statistics
Matches: 224, Mismatches: 20, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
39 2 0.01
40 33 0.15
41 179 0.80
42 10 0.04
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:20644677 original size:46 final size:46
Alignment explanation
Indices: 20644627--20644736 Score: 202
Period size: 46 Copynumber: 2.4 Consensus size: 46
20644617 GTTTAAGGTT
20644627 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
*
20644673 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
*
20644719 TATGGTTTAAGATTTATG
1 TATGGTTTAAGATATATG
20644737 ATGAATTATG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.45
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
Found at i:20644727 original size:25 final size:25
Alignment explanation
Indices: 20644627--20644737 Score: 112
Period size: 25 Copynumber: 4.8 Consensus size: 25
20644617 GTTTAAGGTT
*
20644627 TATGGTTTAAGATATATG-GTT---
1 TATGGTTTAAGATTTATGAGTTAAC
* *
20644648 TAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATTTATGAGTTAAC
*
20644673 TATGGTTTAAGATATAT-AGTT---
1 TATGGTTTAAGATTTATGAGTTAAC
* *
20644694 TAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATTTATGAGTTAAC
20644719 TATGGTTTAAGATTTATGA
1 TATGGTTTAAGATTTATGA
20644738 TGAATTATGA
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
21 29 0.41
22 7 0.10
24 4 0.06
25 31 0.44
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (25 bp):
TATGGTTTAAGATTTATGAGTTAAC
Found at i:20644736 original size:14 final size:14
Alignment explanation
Indices: 20644612--20644736 Score: 61
Period size: 14 Copynumber: 8.4 Consensus size: 14
20644602 TTAATTGTCA
* *
20644612 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
20644626 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
* * *
20644640 ATATGGTTTAGGGT
1 TTATGGTTTAAGAT
* *
20644654 TTAAGGTTTATGAGT
1 TTATGGTTTAAGA-T
20644669 TAACTATGGTTTAAGAT
1 T---TATGGTTTAAGAT
* * * *
20644686 ATATAGTTTAGGGT
1 TTATGGTTTAAGAT
* *
20644700 TTAAGGTTTATGAGT
1 TTATGGTTTAAGA-T
20644715 TAACTATGGTTTAAGAT
1 T---TATGGTTTAAGAT
20644732 TTATG
1 TTATG
20644737 ATGAATTATG
Statistics
Matches: 81, Mismatches: 22, Indels: 16
0.68 0.18 0.13
Matches are distributed among these distances:
14 54 0.67
15 4 0.05
17 3 0.04
18 20 0.25
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:20644751 original size:25 final size:25
Alignment explanation
Indices: 20644651--20644752 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 25
20644641 TATGGTTTAG
* *
20644651 GGTTTAAGGTTTATGAGTTAACTAT
1 GGTTTAAGATTTATGAGTGAACTAT
* * *
20644676 GGTTTAAGATATAT-AGT---TTAG
1 GGTTTAAGATTTATGAGTGAACTAT
* *
20644697 GGTTTAAGGTTTATGAGTTAACTAT
1 GGTTTAAGATTTATGAGTGAACTAT
*
20644722 GGTTTAAGATTTATGA-TGAATTAT
1 GGTTTAAGATTTATGAGTGAACTAT
20644746 GAGTTTA
1 G-GTTTA
20644753 GGGATTATGA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
21 14 0.23
22 3 0.05
24 10 0.16
25 34 0.56
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (25 bp):
GGTTTAAGATTTATGAGTGAACTAT
Found at i:20644768 original size:14 final size:15
Alignment explanation
Indices: 20644741--20644769 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20644731 TTTATGATGA
20644741 ATTATGAGTTTAGGG
1 ATTATGAGTTTAGGG
20644756 ATTATGA-TTTAGGG
1 ATTATGAGTTTAGGG
20644770 TTTAAGGGTT
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:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (15 bp):
ATTATGAGTTTAGGG
Found at i:20644835 original size:7 final size:7
Alignment explanation
Indices: 20644748--20644843 Score: 54
Period size: 7 Copynumber: 13.7 Consensus size: 7
20644738 TGAATTATGA
20644748 GTTTAGG
1 GTTTAGG
* *
20644755 GATTATG
1 GTTTAGG
*
20644762 ATTTAGG
1 GTTTAGG
20644769 GTTTAAGG
1 GTTT-AGG
20644777 G-TTAGG
1 GTTTAGG
20644783 G-TT-GG
1 GTTTAGG
*
20644788 AGTTTAAG
1 -GTTTAGG
*
20644796 GTGTAAGG
1 GT-TTAGG
*
20644804 GTTTGGG
1 GTTTAGG
*
20644811 GTTAAGG
1 GTTTAGG
* *
20644818 GTTAAAG
1 GTTTAGG
20644825 GTTTAGG
1 GTTTAGG
*
20644832 GTTTAGT
1 GTTTAGG
20644839 GTTTA
1 GTTTA
20644844 TGGGATACGG
Statistics
Matches: 67, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
5 2 0.03
6 7 0.10
7 48 0.72
8 10 0.15
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:20645687 original size:17 final size:19
Alignment explanation
Indices: 20645667--20645704 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20645657 AGAAAGAAGG
20645667 AAAGA-AAAGAGA-GAAAA
1 AAAGAGAAAGAGAGGAAAA
20645684 AAAGAGTAAAGAGAGGAAAA
1 AAAGAG-AAAGAGAGGAAAA
20645704 A
1 A
20645705 TTAAGGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (19 bp):
AAAGAGAAAGAGAGGAAAA
Found at i:20649811 original size:43 final size:43
Alignment explanation
Indices: 20649716--20649903 Score: 252
Period size: 43 Copynumber: 4.3 Consensus size: 43
20649706 TTTTGAATTT
* **
20649716 ATGACATTTAGCGGCATTTGTGGGAAAAAATGCCGCTAAAAGTC
1 ATGACCTTTAGCGGCATTTGTGGG-AAAAGCGCCGCTAAAAGTC
* *
20649760 ATGACCTTTCGCGGCATTTTTGGGAAAA-CTGCCGCTAAAAGTC
1 ATGACCTTTAGCGGCATTTGTGGGAAAAGC-GCCGCTAAAAGTC
* * * *
20649803 ATGTCCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAATGTC
1 ATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTC
20649846 ATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTC
1 ATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTC
**
20649889 ATGATTTTTAGCGGC
1 ATGACCTTTAGCGGC
20649904 GTTTTTTCAA
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
43 104 0.83
44 22 0.17
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (43 bp):
ATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTC
Found at i:20651173 original size:30 final size:30
Alignment explanation
Indices: 20651138--20651209 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
20651128 GAAAAAATGA
*
20651138 GTAAATTAGCTCC-TATACATTTTGAAACAT
1 GTAAATTAGC-CCTTATACATTTCGAAACAT
*
20651168 GTAAATTATCCCTTATACATTTCGAAACAT
1 GTAAATTAGCCCTTATACATTTCGAAACAT
**
20651198 ACAAATTAGCCC
1 GTAAATTAGCCC
20651210 CTCGTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 2 0.06
30 34 0.94
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (30 bp):
GTAAATTAGCCCTTATACATTTCGAAACAT
Found at i:20655719 original size:28 final size:27
Alignment explanation
Indices: 20655670--20655723 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
20655660 AATATATTTA
*
20655670 AACCCAACCCAATTACCTAATTTAATT
1 AACCCAACCCAATTACATAATTTAATT
20655697 AACCCAACCCAA-TACAAATAATTTAAT
1 AACCCAACCCAATTAC--ATAATTTAAT
20655724 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 3 0.12
27 12 0.50
28 9 0.38
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (27 bp):
AACCCAACCCAATTACATAATTTAATT
Found at i:20655750 original size:14 final size:14
Alignment explanation
Indices: 20655727--20655756 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20655717 ATTTAATAAA
20655727 TAAAAATAAAAATC
1 TAAAAATAAAAATC
*
20655741 TAAAAGTAAAAATC
1 TAAAAATAAAAATC
20655755 TA
1 TA
20655757 CTAAAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAAAATAAAAATC
Found at i:20656634 original size:2 final size:2
Alignment explanation
Indices: 20656622--20656661 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
20656612 CATAAAACTA
20656622 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20656662 AGAGACAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20657087 original size:12 final size:11
Alignment explanation
Indices: 20657058--20657091 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
20657048 TTGTACCAAT
20657058 ATTTTATTTAA
1 ATTTTATTTAA
*
20657069 TTTTTATTATAA
1 ATTTTATT-TAA
20657081 ATTTTATTTAA
1 ATTTTATTTAA
20657092 CAAGTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATTTAA
Found at i:20657178 original size:19 final size:21
Alignment explanation
Indices: 20657139--20657188 Score: 79
Period size: 19 Copynumber: 2.5 Consensus size: 21
20657129 ATGAAAATTG
20657139 TTTAATATTATAAATATGTAT
1 TTTAATATTATAAATATGTAT
20657160 TTTAATATTAT-AA-ATGTAT
1 TTTAATATTATAAATATGTAT
20657179 TTTAAT-TTAT
1 TTTAATATTAT
20657189 TATATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.14
19 12 0.41
20 2 0.07
21 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTAATATTATAAATATGTAT
Found at i:20659651 original size:37 final size:37
Alignment explanation
Indices: 20659610--20659756 Score: 226
Period size: 37 Copynumber: 4.0 Consensus size: 37
20659600 TGTTAATTTC
20659610 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
** *
20659647 AAGAC-T-TGTAATGCTTTAAATTATGTAGTGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
*
20659682 TAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
* *
20659719 AAGACTTATGTAATGTTTTTAATTATGTAATGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
20659756 A
1 A
20659757 TTCGGGTATT
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
35 30 0.31
36 2 0.02
37 66 0.67
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (37 bp):
AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
Found at i:20659691 original size:72 final size:73
Alignment explanation
Indices: 20659607--20659756 Score: 250
Period size: 72 Copynumber: 2.1 Consensus size: 73
20659597 ATGTGTTAAT
20659607 TTCAAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGAC-T-TGTAATGCTTTAAATTA
1 TTCAAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGCTTTAAATTA
*
20659670 TGTAGTGA
66 TGTAATGA
* *
20659678 TTCATAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTTAATT
1 TTCA-AGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGCTTTAAATT
20659743 ATGTAATGA
65 ATGTAATGA
20659752 TTCAA
1 TTCAA
20659757 TTCGGGTATT
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
71 4 0.05
72 41 0.56
73 2 0.03
74 26 0.36
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (73 bp):
TTCAAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGCTTTAAATTA
TGTAATGA
Found at i:20659692 original size:20 final size:20
Alignment explanation
Indices: 20659667--20659730 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
20659657 ATGCTTTAAA
20659667 TTATGTAGTGATTCATAGAC
1 TTATGTAGTGATTCATAGAC
* **
20659687 TTATGTAAT-ATTTTTA-A-
1 TTATGTAGTGATTCATAGAC
*
20659704 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCATAGAC
20659724 TTATGTA
1 TTATGTA
20659731 ATGTTTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 15 0.44
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (20 bp):
TTATGTAGTGATTCATAGAC
Found at i:20659750 original size:17 final size:17
Alignment explanation
Indices: 20659687--20659750 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
20659677 ATTCATAGAC
*
20659687 TTATGTAATATTTTTAA
1 TTATGTAATGTTTTTAA
* ***
20659704 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
20659723 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
20659741 TTATGTAATG
1 TTATGTAATG
20659751 ATTCAATTCG
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
17 18 0.51
18 4 0.11
19 4 0.11
20 9 0.26
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:20659778 original size:9 final size:9
Alignment explanation
Indices: 20659755--20659910 Score: 260
Period size: 9 Copynumber: 17.4 Consensus size: 9
20659745 GTAATGATTC
*
20659755 AATTCGGGT
1 AATTCGGTT
20659764 -ATTCGGTT
1 AATTCGGTT
20659772 AATTCGGTT
1 AATTCGGTT
20659781 AATTCGGTT
1 AATTCGGTT
20659790 AATTCGGTT
1 AATTCGGTT
20659799 AATTCGGTT
1 AATTCGGTT
20659808 AATTCGGTT
1 AATTCGGTT
20659817 AATTCGGTT
1 AATTCGGTT
20659826 AATTCGGTT
1 AATTCGGTT
20659835 AATTCGGTT
1 AATTCGGTT
*
20659844 AATCCGGTT
1 AATTCGGTT
20659853 AATTCGGTT
1 AATTCGGTT
*
20659862 AATCCGGTT
1 AATTCGGTT
20659871 AATTCGGTT
1 AATTCGGTT
20659880 AATTCGGTT
1 AATTCGGTT
* *
20659889 AACTCGTTT
1 AATTCGGTT
20659898 AATTCGGTT
1 AATTCGGTT
20659907 AATT
1 AATT
20659911 TTTAACCACA
Statistics
Matches: 137, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
8 7 0.05
9 130 0.95
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:20661584 original size:21 final size:21
Alignment explanation
Indices: 20661560--20661600 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20661550 GACTGAATTT
20661560 GAGA-CCTCCAATTTTGACCAA
1 GAGACCCT-CAATTTTGACCAA
20661581 GAGACCCTCAATTTTGACCA
1 GAGACCCTCAATTTTGACCA
20661601 TCTCAAGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (21 bp):
GAGACCCTCAATTTTGACCAA
Found at i:20663302 original size:7 final size:8
Alignment explanation
Indices: 20663275--20663299 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20663265 AACAATTTTC
20663275 AATTTGAA
1 AATTTGAA
20663283 AATTTGAA
1 AATTTGAA
20663291 AATTTGAA
1 AATTTGAA
20663299 A
1 A
20663300 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (8 bp):
AATTTGAA
Found at i:20669166 original size:16 final size:16
Alignment explanation
Indices: 20669145--20669187 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
20669135 GTAGATCGGT
*
20669145 AAAAGCCGAAATGCCA
1 AAAAGCTGAAATGCCA
*
20669161 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCA
20669177 AAAAGCTGAAA
1 AAAAGCTGAAA
20669188 GTTTGACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.51, C:0.19, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGCTGAAATGCCA
Found at i:20669481 original size:28 final size:28
Alignment explanation
Indices: 20669400--20669489 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
20669390 TGAGCATGAC
*
20669400 TATAAATGTGAATCGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
20669429 TATAAATGTGGTTTGGGCCTAGTGGGCCA
1 TATAAATGT-GATTGGGCCTAGTGGGCCA
*
20669458 TATAAATGTGATTGGGCCTAGTGGGTCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
20669486 TATA
1 TATA
20669490 CAGGTATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 21 0.38
29 32 0.58
30 2 0.04
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:20671331 original size:37 final size:39
Alignment explanation
Indices: 20671279--20671357 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
20671269 AGTCTTTTAA
* *
20671279 AAATGCTATGTGA-T-TATGAGTATTGTGATATATGCTT
1 AAATGCTATGCGATTATATGAGTAATGTGATATATGCTT
* *
20671316 AAATGTTATGCGATTATATGTGTAATGTGATATATGCTT
1 AAATGCTATGCGATTATATGAGTAATGTGATATATGCTT
20671355 AAA
1 AAA
20671358 AGTGAATATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
37 11 0.31
38 1 0.03
39 24 0.67
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (39 bp):
AAATGCTATGCGATTATATGAGTAATGTGATATATGCTT
Found at i:20685679 original size:37 final size:37
Alignment explanation
Indices: 20685629--20685702 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
20685619 AAGTATAAAT
20685629 TTACCATATATGAATATATAATTTCATTGTTTAGATA
1 TTACCATATATGAATATATAATTTCATTGTTTAGATA
20685666 TTACCATATATGAATATATAATTTCATTGTTTAGATA
1 TTACCATATATGAATATATAATTTCATTGTTTAGATA
20685703 AGGACTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (37 bp):
TTACCATATATGAATATATAATTTCATTGTTTAGATA
Found at i:20686635 original size:11 final size:11
Alignment explanation
Indices: 20686592--20686645 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
20686582 TTATTTTAAT
20686592 TTTTAAAACAAA
1 TTTTAAAA-AAA
*
20686604 TATTTAACAATAA
1 T-TTTAA-AAAAA
20686617 TTTT-AAAAAA
1 TTTTAAAAAAA
20686627 TTTTAAAAAAA
1 TTTTAAAAAAA
*
20686638 TCTTAAAA
1 TTTTAAAA
20686646 TATTATAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
10 8 0.22
11 14 0.39
12 4 0.11
13 8 0.22
14 2 0.06
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (11 bp):
TTTTAAAAAAA
Found at i:20686643 original size:21 final size:21
Alignment explanation
Indices: 20686601--20686654 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
20686591 TTTTTAAAAC
* *
20686601 AAATATTTAACAATAATTTTAAA
1 AAAT-TTTAA-AAAAATCTTAAA
20686624 AAATTTTAAAAAAATCTTAAA
1 AAATTTTAAAAAAATCTTAAA
* *
20686645 ATATTATAAA
1 AAATTTTAAA
20686655 TTATTAAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 18 0.67
22 5 0.19
23 4 0.15
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTTTAAAAAAATCTTAAA
Found at i:20686674 original size:19 final size:18
Alignment explanation
Indices: 20686640--20686677 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
20686630 TAAAAAAATC
*
20686640 TTAAAATATTATAAATTA
1 TTAAAATATTAAAAATTA
20686658 TTAAAACTATTAAAAATTA
1 TTAAAA-TATTAAAAATTA
20686677 T
1 T
20686678 GTTAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAATATTAAAAATTA
Found at i:20689787 original size:33 final size:34
Alignment explanation
Indices: 20689750--20689817 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 34
20689740 AGTAATATAA
*
20689750 GCCCACACGTCC-AGATTT-GCCTTTGCCCTTGTG
1 GCCCACACG-CCTAGATTTGGCCTTTGCCCGTGTG
* *
20689783 GCCCACACGCCTATATTTGGCCTTTTCCCGTGTG
1 GCCCACACGCCTAGATTTGGCCTTTGCCCGTGTG
20689817 G
1 G
20689818 ATCACATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 2 0.07
33 14 0.47
34 14 0.47
ACGTcount: A:0.12, C:0.35, G:0.22, T:0.31
Consensus pattern (34 bp):
GCCCACACGCCTAGATTTGGCCTTTGCCCGTGTG
Found at i:20692000 original size:27 final size:26
Alignment explanation
Indices: 20691903--20692015 Score: 91
Period size: 27 Copynumber: 4.2 Consensus size: 26
20691893 AGCAAAGCTG
* * * **
20691903 CCAGTAATAATAATGTAGCATAGCTG
1 CCAGTAACAGTAATGTGGCATAGCCA
* * *
20691929 CCAGAAACAATAAATGTGGCAAAGCCA
1 CCAGTAACAGT-AATGTGGCATAGCCA
* **
20691956 CCAATATTAGTAATTGTGGCATAGCCA
1 CCAGTAACAGTAA-TGTGGCATAGCCA
*
20691983 CCAGTAACAGTGAATGTGGCATAGTCA
1 CCAGTAACAGT-AATGTGGCATAGCCA
20692010 CCAGTA
1 CCAGTA
20692016 CAATACTTCC
Statistics
Matches: 68, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
26 11 0.16
27 55 0.81
28 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (26 bp):
CCAGTAACAGTAATGTGGCATAGCCA
Found at i:20692215 original size:27 final size:27
Alignment explanation
Indices: 20692155--20692430 Score: 261
Period size: 27 Copynumber: 10.3 Consensus size: 27
20692145 GGGCATAATC
* *
20692155 GTCATTTTACCATACATGGGTATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* * * *
20692182 GTGATTTTACCATATAGGGGCATCACA
1 GTCATTTTACCATACAGGGGCATTACG
* *
20692209 GTCATTTTACCATTCAGGGGTATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* *
20692236 GTCATTTTA-GACTACAGGGGCATTAGG
1 GTCATTTTACCA-TACAGGGGCATTACG
* *
20692263 GTCATTTTACCCTACAGGGGCA-TAGG
1 GTCATTTTACCATACAGGGGCATTACG
*
20692289 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* * *
20692316 GTCATTTTACCCTACGGGGGTATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* * *
20692343 GTTATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* *
20692370 ATCATTTTATCC-TACAGGGGTATTACG
1 GTCATTTTA-CCATACAGGGGCATTACG
* * * * * * *
20692397 ATTATTTTACCCTATAAGGGTATTACA
1 GTCATTTTACCATACAGGGGCATTACG
20692424 GTCATTT
1 GTCATTT
20692431 ATTACAGTCA
Statistics
Matches: 213, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 29 0.14
27 182 0.85
28 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCATTACG
Found at i:20692221 original size:54 final size:54
Alignment explanation
Indices: 20692155--20692430 Score: 306
Period size: 54 Copynumber: 5.1 Consensus size: 54
20692145 GGGCATAATC
* * * * *
20692155 GTCATTTTACCATACATGGGTATTACGGTGATTTTACCATATAGGGGCATCACA
1 GTCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACA
* ** **
20692209 GTCATTTTACCATTCAGGGGTATTACGGTCATTTTAGACTACAGGGGCATTAGG
1 GTCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACA
* * * *
20692263 GTCATTTTACCCTACAGGGGCA-TAGGGTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACA
* * * *
20692316 GTCATTTTACCCTACGGGGGTATTACGGTTATTTTACCCTACAGGGGTATTAC-
1 GTCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACA
* * * * *
20692369 GATCATTTTATCC-TACAGGGGTATTACGATTATTTTACCCTATAAGGGTATTACA
1 G-TCATTTTA-CCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACA
20692424 GTCATTT
1 GTCATTT
20692431 ATTACAGTCA
Statistics
Matches: 192, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
53 48 0.25
54 141 0.73
55 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACA
Found at i:20692435 original size:13 final size:13
Alignment explanation
Indices: 20692417--20692443 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20692407 CCTATAAGGG
20692417 TATTACAGTCATT
1 TATTACAGTCATT
20692430 TATTACAGTCATT
1 TATTACAGTCATT
20692443 T
1 T
20692444 TACCCTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (13 bp):
TATTACAGTCATT
Found at i:20692460 original size:27 final size:27
Alignment explanation
Indices: 20692430--20692629 Score: 265
Period size: 27 Copynumber: 7.4 Consensus size: 27
20692420 TACAGTCATT
*
20692430 TATTACAGTCATTTTACCCTATAGGGG
1 TATTACGGTCATTTTACCCTATAGGGG
** * *
20692457 TATTACGACCATTTTACCCTACAAGGG
1 TATTACGGTCATTTTACCCTATAGGGG
* *
20692484 TATTACGGTCATTTTACCCTACAGAGG
1 TATTACGGTCATTTTACCCTATAGGGG
*
20692511 AATTACGGTCATTTTACCCTATAGGGG
1 TATTACGGTCATTTTACCCTATAGGGG
* *
20692538 TATTGCGATCATTTTACCCTATAGGGG
1 TATTACGGTCATTTTACCCTATAGGGG
* * *
20692565 CATTACGGTCATTCTACCCTATATGGG
1 TATTACGGTCATTTTACCCTATAGGGG
*
20692592 TATTACGGTCATATTACCCTATAGGGG
1 TATTACGGTCATTTTACCCTATAGGGG
*
20692619 TATTATGGTCA
1 TATTACGGTCA
20692630 AATAAATACC
Statistics
Matches: 148, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
TATTACGGTCATTTTACCCTATAGGGG
Found at i:20692471 original size:67 final size:67
Alignment explanation
Indices: 20692363--20692497 Score: 200
Period size: 67 Copynumber: 2.0 Consensus size: 67
20692353 CCTACAGGGG
* ** *
20692363 TATTACGATCATTTTATCCTACAGGGGTATTACGATTATTTTACCCTATAAGGGTATTACAGTCA
1 TATTACGATCATTTTACCCTACAGGGGTATTACGACCATTTTACCCTACAAGGGTATTACAGTCA
20692428 TT
66 TT
* *
20692430 TATTAC-AGTCATTTTACCCTATAGGGGTATTACGACCATTTTACCCTACAAGGGTATTACGGTC
1 TATTACGA-TCATTTTACCCTACAGGGGTATTACGACCATTTTACCCTACAAGGGTATTACAGTC
20692494 ATT
65 ATT
20692497 T
1 T
20692498 TACCCTACAG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 1 0.02
67 60 0.98
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.39
Consensus pattern (67 bp):
TATTACGATCATTTTACCCTACAGGGGTATTACGACCATTTTACCCTACAAGGGTATTACAGTCA
TT
Found at i:20692551 original size:121 final size:121
Alignment explanation
Indices: 20692310--20692541 Score: 338
Period size: 121 Copynumber: 1.9 Consensus size: 121
20692300 CTACAGGGGC
* * *** *
20692310 ATTACGGTCATTTTACCCTACGGGGGTATTACGGTTATTTTACCCTACAGGGGTATTACGATCAT
1 ATTACAGTCATTTTACCCTACAGGGGTATTACGACCATTTTACCCTACAAGGGTATTACGATCAT
* * * *
20692375 TTTATCCTACAGGGGTATTACGATTATTTTACCCTATAAGGGTATTACAGTCATTT
66 TTTACCCTACAGAGGAATTACGATCATTTTACCCTATAAGGGTATTACAGTCATTT
* *
20692431 ATTACAGTCATTTTACCCTATAGGGGTATTACGACCATTTTACCCTACAAGGGTATTACGGTCAT
1 ATTACAGTCATTTTACCCTACAGGGGTATTACGACCATTTTACCCTACAAGGGTATTACGATCAT
* *
20692496 TTTACCCTACAGAGGAATTACGGTCATTTTACCCTATAGGGGTATT
66 TTTACCCTACAGAGGAATTACGATCATTTTACCCTATAAGGGTATT
20692542 GCGATCATTT
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
121 97 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (121 bp):
ATTACAGTCATTTTACCCTACAGGGGTATTACGACCATTTTACCCTACAAGGGTATTACGATCAT
TTTACCCTACAGAGGAATTACGATCATTTTACCCTATAAGGGTATTACAGTCATTT
Found at i:20692557 original size:148 final size:148
Alignment explanation
Indices: 20692289--20692577 Score: 425
Period size: 148 Copynumber: 2.0 Consensus size: 148
20692279 GGGGCATAGG
** ** *
20692289 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACGGGGGTATTACGGTTATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGACCATTTTACCCTACAAGGGTATTACGGTCATTTTACC
* * * * *
20692354 CTACAGGGGTATTACGATCATTTTATCCTACAGGGGTATTACGATTATTTTACCCTATAAGGGTA
66 CTACAGAGGAATTACGATCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAAGGGCA
20692419 TTACAGTCATTTATTACA
131 TTACAGTCATTTATTACA
* *
20692437 GTCATTTTACCCTATAGGGGTATTACGACCATTTTACCCTACAAGGGTATTACGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGACCATTTTACCCTACAAGGGTATTACGGTCATTTTACC
* * * *
20692502 CTACAGAGGAATTACGGTCATTTTACCCTATAGGGGTATTGCGATCATTTTACCCTATAGGGGCA
66 CTACAGAGGAATTACGATCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAAGGGCA
*
20692567 TTACGGTCATT
131 TTACAGTCATT
20692578 CTACCCTATA
Statistics
Matches: 124, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
148 124 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (148 bp):
GTCATTTTACCCTACAGGGGCATTACGACCATTTTACCCTACAAGGGTATTACGGTCATTTTACC
CTACAGAGGAATTACGATCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAAGGGCA
TTACAGTCATTTATTACA
Found at i:20696261 original size:28 final size:28
Alignment explanation
Indices: 20696229--20696282 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
20696219 GTATAGTCTG
* *
20696229 GGCCTTAGCCCTATACAGTAACAGTGTA
1 GGCCTAAGCCCAATACAGTAACAGTGTA
* *
20696257 GGCCTAAGCCCAATGCAGTATCAGTG
1 GGCCTAAGCCCAATACAGTAACAGTG
20696283 CAGTGTAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (28 bp):
GGCCTAAGCCCAATACAGTAACAGTGTA
Found at i:20696718 original size:27 final size:27
Alignment explanation
Indices: 20696683--20697038 Score: 442
Period size: 27 Copynumber: 13.1 Consensus size: 27
20696673 AAAGGTATTC
*
20696683 CGGTTATTTTACCCTACAGGGGCATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
* * * *
20696710 CAGTCATTTCACCCTTCAGGGGTATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
* * * * *
20696737 CAGTCATTGTACCTTATAGGGACATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
*
20696764 GGGTCATTTTTACCCTACAGGGGCATTA
1 CGGTCA-TTTTACCCTACAGGGGCATTA
* * *
20696792 CAGTCATTTTACCCTACAGGGGTATGA
1 CGGTCATTTTACCCTACAGGGGCATTA
*
20696819 CGGTCATTTTACCCTACAGGGGTATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
* *
20696846 CGATCATTTTACCCTATAGGGGCATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
** *
20696873 CAATCATTTTACCCTACAGGGGTATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
* *
20696900 CGGTCATTTTACCCTACAGAGACATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
20696927 CGGTCATTTTACCCTACAGGGGCATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
* *
20696954 CGGTTATTTTACCCTACAGGGGCAATA
1 CGGTCATTTTACCCTACAGGGGCATTA
* * **
20696981 CGGCCATTTTACCCTACAAGGGTGTTA
1 CGGTCATTTTACCCTACAGGGGCATTA
*
20697008 CGGTCATTTTACCCTACAGGGGTATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
20697035 CGGT
1 CGGT
20697039 TAAATAAAGA
Statistics
Matches: 280, Mismatches: 48, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
27 259 0.93
28 21 0.08
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (27 bp):
CGGTCATTTTACCCTACAGGGGCATTA
Found at i:20699002 original size:79 final size:79
Alignment explanation
Indices: 20698907--20699064 Score: 219
Period size: 79 Copynumber: 2.0 Consensus size: 79
20698897 TCGTTCAAAC
* ** *
20698907 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGG-CGTAACCCGGATATC
20698972 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* * ** *
20698987 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCGTAGCCCGGATATCA
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGCGTAACCCGGATATCA
20699051 CAATTTGCACAATT
66 CAATTTGCACAATT
20699065 CACTTAGCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
78 28 0.41
79 32 0.46
80 9 0.13
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGCGTAACCCGGATATCA
CAATTTGCACAATT
Found at i:20699022 original size:39 final size:40
Alignment explanation
Indices: 20698907--20699064 Score: 167
Period size: 39 Copynumber: 4.0 Consensus size: 40
20698897 TCGTTCAAAC
* * *** * **
20698907 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
* * *
20698947 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
*
20698987 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
* * *
20699026 GCCTTCGGG-CGTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
20699065 CACTTAGCAA
Statistics
Matches: 99, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 61 0.62
40 38 0.38
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
Found at i:20703463 original size:40 final size:40
Alignment explanation
Indices: 20703404--20703611 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
20703394 CAATTGAATG
* * *
20703404 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
20703444 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20703484 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20703524 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20703564 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
20703604 ATATCCGG
1 ATATCCGG
20703612 TTGTAATCCG
Statistics
Matches: 145, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:20703542 original size:80 final size:80
Alignment explanation
Indices: 20703406--20703611 Score: 261
Period size: 80 Copynumber: 2.6 Consensus size: 80
20703396 ATTGAATGAT
* * * * * *
20703406 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
20703471 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
20703486 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
20703551 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
20703566 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
20703612 TTGTAATCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:20711449 original size:40 final size:40
Alignment explanation
Indices: 20711390--20711597 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
20711380 CAATTGAATG
* * *
20711390 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
20711430 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20711470 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20711510 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20711550 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
20711590 ATATCCGG
1 ATATCCGG
20711598 TTGTAATCCG
Statistics
Matches: 145, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:20711528 original size:80 final size:80
Alignment explanation
Indices: 20711392--20711597 Score: 261
Period size: 80 Copynumber: 2.6 Consensus size: 80
20711382 ATTGAATGAT
* * * * * *
20711392 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
20711457 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
20711472 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
20711537 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
20711552 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
20711598 TTGTAATCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:20720252 original size:14 final size:15
Alignment explanation
Indices: 20720225--20720253 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20720215 CTGCAAGTAT
20720225 CTACATAGCTTGCTC
1 CTACATAGCTTGCTC
20720240 CTACATA-CTTGCTC
1 CTACATAGCTTGCTC
20720254 TAGAAGGTAG
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:0.34, G:0.10, T:0.34
Consensus pattern (15 bp):
CTACATAGCTTGCTC
Found at i:20721816 original size:25 final size:24
Alignment explanation
Indices: 20721783--20721835 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
20721773 ATTAAAGGAG
* * *
20721783 AAATTAAATCAATTTGATTAAAAT
1 AAATCAAATCAATTGGAATAAAAT
*
20721807 CAAATCAAATTAATTGGAATAAAAT
1 -AAATCAAATCAATTGGAATAAAAT
20721832 AAAT
1 AAAT
20721836 TAGGATACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.32
Consensus pattern (24 bp):
AAATCAAATCAATTGGAATAAAAT
Found at i:20722316 original size:9 final size:9
Alignment explanation
Indices: 20722294--20722350 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
20722284 AATAATTTTA
*
20722294 AAAAAAATT
1 AAAAATATT
20722303 CAAAAATATT
1 -AAAAATATT
*
20722313 AAAAATAAAT
1 AAAAAT-ATT
*
20722323 ATAAATTATT
1 A-AAAATATT
20722333 AAAAATATT
1 AAAAATATT
20722342 AAAAA-ATT
1 AAAAATATT
20722350 A
1 A
20722351 TGTTAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
8 4 0.10
9 18 0.45
10 14 0.35
11 4 0.10
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATATT
Found at i:20722317 original size:10 final size:10
Alignment explanation
Indices: 20722291--20722372 Score: 51
Period size: 10 Copynumber: 7.9 Consensus size: 10
20722281 AACAATAATT
*
20722291 TTAAAAAAAA
1 TTAAAAAATA
*
20722301 TTCAAAAATA
1 TTAAAAAATA
20722311 TT-AAAAATAA
1 TTAAAAAAT-A
* * *
20722321 ATATAAATTA
1 TTAAAAAATA
20722331 TT-AAAAATA
1 TTAAAAAATA
20722340 TTAAAAAATTA
1 TTAAAAAA-TA
*
20722351 TGTTAAAATATA
1 --TTAAAAAATA
20722363 TTTAAAAAAT
1 -TTAAAAAAT
20722373 TAATATATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
9 13 0.24
10 19 0.35
11 14 0.25
12 2 0.04
13 7 0.13
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:20722348 original size:20 final size:20
Alignment explanation
Indices: 20722294--20722374 Score: 69
Period size: 20 Copynumber: 3.9 Consensus size: 20
20722284 AATAATTTTA
* *
20722294 AAAAAAATTCAAAAA-TATT
1 AAAAATATTAAAAAATTATT
20722313 AAAAATA--AATATAAATTATT
1 AAAAATATTAA-A-AAATTATT
20722333 AAAAATATTAAAAAATTATGTT
1 AAAAATATTAAAAAATTA--TT
20722355 AAAATATATTTAAAAAATTA
1 AAAA-ATA-TTAAAAAATTA
20722375 ATATATAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
17 1 0.02
18 1 0.02
19 9 0.18
20 17 0.33
21 1 0.02
22 8 0.16
23 3 0.06
24 11 0.22
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (20 bp):
AAAAATATTAAAAAATTATT
Found at i:20722363 original size:23 final size:23
Alignment explanation
Indices: 20722331--20722425 Score: 77
Period size: 24 Copynumber: 3.9 Consensus size: 23
20722321 ATATAAATTA
20722331 TTAAAAATA-TTAAAAAATTATG
1 TTAAAAATATTTAAAAAATTATG
*
20722353 TTAAAATATATTTAAAAAATTAATA
1 TTAAAA-ATATTTAAAAAATT-ATG
*
20722378 TATAAAACAAAATTCT-AAAAATATATG
1 T-T-AAA-AATATT-TAAAAAAT-TATG
* *
20722405 TAAAAAATCTTTAAAAAATTA
1 TTAAAAATATTTAAAAAATTA
20722426 CAAAAAAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
22 6 0.10
23 6 0.10
24 20 0.34
25 6 0.10
26 1 0.02
27 16 0.28
28 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (23 bp):
TTAAAAATATTTAAAAAATTATG
Found at i:20724372 original size:45 final size:44
Alignment explanation
Indices: 20724170--20724380 Score: 133
Period size: 45 Copynumber: 4.6 Consensus size: 44
20724160 ACTTGTGTGA
* * * *
20724170 GCTAGTGTAAGACAGGTCTGGGACATGCATCGGCTAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATAGGCTACGA-GA-G-GT
* * * * *
20724216 GCCAGTGTAAGACCATGTCTGGGATATGGCATTGGC-ATTGGGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATAGGCTA-CGAGA-G-GT
* * *
20724264 GCTAGTGTAAGAGATGTCTGGGACATG-ATCGGCCT-CGAGACGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATAGG-CTACGAGAGGT
* * *
20724307 AAGCCAATGTAAGACTTGTCTGGGACATGCATAGGCTACGAGAGGT
1 --GCTAGTGTAAGACATGTCTGGGACATGCATAGGCTACGAGAGGT
* *
20724353 GTTAGTGTAAGACCATGTCTAGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
20724381 GCATCGGCAT
Statistics
Matches: 127, Mismatches: 27, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
43 2 0.02
44 9 0.07
45 45 0.35
46 24 0.19
47 25 0.20
48 22 0.17
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATAGGCTACGAGAGGT
Found at i:20731362 original size:46 final size:45
Alignment explanation
Indices: 20731214--20731380 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 45
20731204 ATTGTGAGCT
* * *
20731214 AGTGTAAGACATGTTTGGGACATGCATCGGCCACAT-TATGA-GAG-CC
1 AGTGTAAGACATGTCTGGGACATGCATC-G--ACATCGA-GACGAGTGC
* *
20731260 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGACGAGTGC
* *
20731307 TAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGACGTAAGT-C
1 -AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACG--AGTGC
*
20731354 AGTATAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
20731381 TTGCTACAAG
Statistics
Matches: 103, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
45 5 0.05
46 52 0.50
47 29 0.28
48 17 0.17
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACGAGTGC
Found at i:20732420 original size:28 final size:28
Alignment explanation
Indices: 20732380--20732446 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
20732370 CACACGGGCT
20732380 AGGACACGGGCGTGTCATGGCCGTGTGA
1 AGGACACGGGCGTGTCATGGCCGTGTGA
20732408 AGGACACGGGCGTGTCATGGCCGTGTGA
1 AGGACACGGGCGTGTCATGGCCGTGTGA
20732436 AGGACACGGGC
1 AGGACACGGGC
20732447 CAGAGACATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.15
Consensus pattern (28 bp):
AGGACACGGGCGTGTCATGGCCGTGTGA
Found at i:20732463 original size:30 final size:28
Alignment explanation
Indices: 20732380--20732466 Score: 111
Period size: 28 Copynumber: 3.0 Consensus size: 28
20732370 CACACGGGCT
* *
20732380 AGGACACGGGCGTGTCATGGCCGTGTGA
1 AGGACACGGGCGAGACATGGCCGTGTGA
* *
20732408 AGGACACGGGCGTGTCATGGCCGTGTGA
1 AGGACACGGGCGAGACATGGCCGTGTGA
*
20732436 AGGACACGGGCCAGAGACATGGGCGTGTGA
1 AGGACACGGG-C-GAGACATGGCCGTGTGA
20732466 A
1 A
20732467 AACCCTTGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 38 0.70
29 1 0.02
30 15 0.28
ACGTcount: A:0.22, C:0.21, G:0.43, T:0.15
Consensus pattern (28 bp):
AGGACACGGGCGAGACATGGCCGTGTGA
Found at i:20734670 original size:46 final size:44
Alignment explanation
Indices: 20734527--20734692 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 44
20734517 TGTGTGAGCT
*
20734527 AGTGTAAGACATGTCTGGGACATGCATCGGCCAATTATGA-G-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC--TGA-GACGAAGCC
* * * * *
20734572 AGTGTAAGACTATGTCTAGGATATGACATCGGCATTGAGACGAGTGCT
1 AGTGTAAGAC-ATGTCTGGGACATG-CATCGGC-CTGAGACGA-AGCC
*
20734620 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGACG-AAGCC
20734666 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
20734693 AGGCAACAAG
Statistics
Matches: 101, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
45 13 0.13
46 56 0.55
47 20 0.20
48 12 0.12
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGACGAAGCC
Found at i:20736313 original size:6 final size:6
Alignment explanation
Indices: 20736302--20736458 Score: 155
Period size: 6 Copynumber: 25.8 Consensus size: 6
20736292 AACCAAAATG
*
20736302 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
20736350 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
20736399 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
20736448 AGAATC AGAAT
1 AGAATC AGAAT
20736459 GTGAATGCAA
Statistics
Matches: 127, Mismatches: 10, Indels: 28
0.77 0.06 0.17
Matches are distributed among these distances:
5 9 0.07
6 106 0.83
7 9 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:20736317 original size:30 final size:30
Alignment explanation
Indices: 20736281--20736458 Score: 194
Period size: 30 Copynumber: 6.1 Consensus size: 30
20736271 AAGAAACATT
* *
20736281 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
20736311 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
20736341 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
20736371 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
20736402 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
20736426 ATCAGAATTACGTG-ACAGAATCAGAATCAGA
1 ATCAGAATTA-G-GAACAGAATCAGAATCAGA
20736457 AT
1 AT
20736459 GTGAATGCAA
Statistics
Matches: 128, Mismatches: 8, Indels: 23
0.81 0.05 0.14
Matches are distributed among these distances:
24 22 0.17
27 1 0.01
28 1 0.01
29 1 0.01
30 58 0.45
31 45 0.35
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:20736410 original size:55 final size:55
Alignment explanation
Indices: 20736302--20736458 Score: 226
Period size: 55 Copynumber: 2.7 Consensus size: 55
20736292 AACCAAAATG
* *
20736302 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTGACAGAATCAGAATCAGAATC---A--AGTAACAGAATC
20736362 AGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGAATC-AGTAACAGAATC
1 AGAATCAGAATCAGAATTA-GTGACAGAATCAGAATCAGAATCAAGTAACAGAATC
20736417 AGAATCAGAATCAGAATTACGTGACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATTA-GTGACAGAATCAGAATCAGAAT
20736459 GTGAATGCAA
Statistics
Matches: 93, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
55 53 0.57
60 18 0.19
61 22 0.24
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (55 bp):
AGAATCAGAATCAGAATTAGTGACAGAATCAGAATCAGAATCAAGTAACAGAATC
Found at i:20736613 original size:27 final size:26
Alignment explanation
Indices: 20736576--20736641 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
20736566 AGTATGGCTG
*
20736576 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
20736602 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
20736629 CCAGAATCAGATA
1 CCAGAA-CAGATA
20736642 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:20736646 original size:27 final size:27
Alignment explanation
Indices: 20736576--20736649 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
20736566 AGTATGGCTG
* *
20736576 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
20736602 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
20736629 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
20736650 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:20736656 original size:27 final size:27
Alignment explanation
Indices: 20736600--20736657 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
20736590 GTGACAGAGT
* * *
20736600 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
20736627 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
20736654 CACC
1 CACC
20736658 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:20737039 original size:27 final size:26
Alignment explanation
Indices: 20736960--20737042 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
20736950 TCGATCGGTC
* * *
20736960 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
20736986 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
20737013 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
20737040 AAC
1 AAC
20737043 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:20737271 original size:27 final size:27
Alignment explanation
Indices: 20737241--20737436 Score: 223
Period size: 27 Copynumber: 7.3 Consensus size: 27
20737231 GGGGCAAAAT
* * *
20737241 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20737268 GGTAATTCTACCCTAC-AGGAGTATTTT
1 GGTAATTCTACCCTACAAGG-GTATTTC
*
20737295 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20737322 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
20737349 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20737376 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20737403 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20737430 AGTAATT
1 GGTAATT
20737437 TCACAATCAA
Statistics
Matches: 146, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 3 0.02
27 140 0.96
28 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:20737471 original size:27 final size:27
Alignment explanation
Indices: 20737441--20737852 Score: 535
Period size: 27 Copynumber: 15.3 Consensus size: 27
20737431 GTAATTTCAC
*
20737441 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20737468 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20737495 AATCGAGGGTAAACCAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** * **
20737522 AATTAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20737549 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
***
20737576 AATCGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20737603 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
20737630 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20737657 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
20737684 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20737711 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20737738 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20737765 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
20737792 AATTGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20737819 AA-CTGAGGGTAAAACAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
20737846 AATCGAG
1 AATCGAG
20737853 AGTACTTTGG
Statistics
Matches: 334, Mismatches: 43, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.01
27 328 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:20737553 original size:81 final size:81
Alignment explanation
Indices: 20737446--20737848 Score: 594
Period size: 81 Copynumber: 5.0 Consensus size: 81
20737436 TTCACAATCA
* * * *
20737446 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAACCA
1 AGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACA
*
20737511 GTAATTCTGTAAATTA
66 GTAATTCTGTAAATTG
* *
20737527 AGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATA
1 AGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACA
* *
20737592 ATAATTCTGTAAACTG
66 GTAATTCTGTAAATTG
* *
20737608 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAAC
* *
20737672 GGTAATTCTGTAAATCG
65 AGTAATTCTGTAAATTG
* *
20737689 AGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACA
1 AGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACA
*
20737754 GTAATTCTGTAAACTG
66 GTAATTCTGTAAATTG
* * *
20737770 AGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAAC
*
20737834 AGTAATTCTATAAAT
65 AGTAATTCTGTAAAT
20737849 CGAGAGTACT
Statistics
Matches: 288, Mismatches: 31, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
80 2 0.01
81 285 0.99
82 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (81 bp):
AGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACA
GTAATTCTGTAAATTG
Found at i:20741377 original size:40 final size:40
Alignment explanation
Indices: 20741322--20741529 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
20741312 TGAATGATAC
* * *
20741322 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
20741362 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
20741402 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
20741442 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
20741482 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
20741522 CC-GGCTAA
1 CCGGGCTAA
20741530 ATTTCGAAGA
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.03
40 145 0.95
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:20748925 original size:40 final size:40
Alignment explanation
Indices: 20748763--20748964 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
20748753 CGAATGATGT
*
20748763 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
20748803 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
20748842 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
20748880 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
20748921 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
20748961 CCGG
1 CCGG
20748965 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:20748927 original size:78 final size:79
Alignment explanation
Indices: 20748762--20748913 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
20748752 TCGAATGATG
* * *
20748762 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
20748827 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
20748842 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
20748905 GTGCAAGTC
65 GTGCAAGTC
20748914 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:20752713 original size:40 final size:40
Alignment explanation
Indices: 20752658--20752865 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
20752648 TGAATGATAC
* * *
20752658 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
20752698 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
20752738 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
20752778 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
20752818 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
20752858 CC-GGCTAA
1 CCGGGCTAA
20752866 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 5 0.03
40 147 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:20754521 original size:6 final size:6
Alignment explanation
Indices: 20754510--20754666 Score: 146
Period size: 6 Copynumber: 25.8 Consensus size: 6
20754500 AACCAAAATG
* *
20754510 AGAATC AGAATC AGAATC AGTAA-C AGAACC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
20754558 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
20754607 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
20754656 AGAATC AGAAT
1 AGAATC AGAAT
20754667 GTGAATGCAA
Statistics
Matches: 126, Mismatches: 11, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
5 9 0.07
6 105 0.83
7 9 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:20754525 original size:30 final size:30
Alignment explanation
Indices: 20754489--20754666 Score: 185
Period size: 30 Copynumber: 6.1 Consensus size: 30
20754479 AAGAAACATT
* *
20754489 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* * *
20754519 ATCAGAATCAGTAACAGAACCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
20754549 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
20754579 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
20754610 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
20754634 ATCAGAATTACGTG-ACAGAATCAGAATCAGA
1 ATCAGAATTA-G-GAACAGAATCAGAATCAGA
20754665 AT
1 AT
20754667 GTGAATGCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 23
0.79 0.06 0.14
Matches are distributed among these distances:
24 22 0.17
27 1 0.01
28 1 0.01
29 1 0.01
30 56 0.44
31 45 0.36
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:20754618 original size:55 final size:54
Alignment explanation
Indices: 20754510--20754666 Score: 221
Period size: 55 Copynumber: 2.9 Consensus size: 54
20754500 AACCAAAATG
* * *
20754510 AGAATCAGAATCAGAATCAGTAA-CAG-AACCAGAATCAGAATCA-ATATTAGTAAC
1 AGAATCAGAATCAGAATCAG-AATTAGTGA-CAGAATCAGAATCAGA-ATCAGTAAC
20754564 AGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGAATTA-GTGACAGAATCAGAATCAGAATCAGTAAC
20754619 AGAATCAGAATCAGAATCAGAATTACGTGACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGAATTA-GTGACAGAATCAGAATCAGAAT
20754667 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
53 2 0.02
54 21 0.22
55 70 0.74
56 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (54 bp):
AGAATCAGAATCAGAATCAGAATTAGTGACAGAATCAGAATCAGAATCAGTAAC
Found at i:20754854 original size:27 final size:27
Alignment explanation
Indices: 20754784--20754857 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
20754774 AGCATGGCTG
* *
20754784 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
* *
20754810 CCAG-ATACAAATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
20754837 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
20754858 AACCCACCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 30 0.79
28 3 0.08
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:20755070 original size:22 final size:22
Alignment explanation
Indices: 20755022--20755080 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
20755012 GTAAATACGT
*
20755022 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
20755044 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
20755066 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
20755081 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:20755247 original size:27 final size:26
Alignment explanation
Indices: 20755168--20755250 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
20755158 TCGATCGGTC
* * *
20755168 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
20755194 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
20755221 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
20755248 AAC
1 AAC
20755251 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:20755479 original size:27 final size:27
Alignment explanation
Indices: 20755449--20755644 Score: 187
Period size: 27 Copynumber: 7.3 Consensus size: 27
20755439 GGGGCAAAAT
* * *
20755449 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20755476 GGTAATTCTATCCTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* *
20755503 GGTATTTCTACCCTTCAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20755530 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
20755557 GGTAATTCTATCCTATAAGTGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
20755584 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
20755611 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20755638 AGTAATT
1 GGTAATT
20755645 TTACAATTAA
Statistics
Matches: 138, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 3 0.02
27 132 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:20755593 original size:81 final size:81
Alignment explanation
Indices: 20755451--20755644 Score: 237
Period size: 81 Copynumber: 2.4 Consensus size: 81
20755441 GGCAAAATGG
* * * * * * *
20755451 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTATCCTACAGGAGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTATCCTACAAGAGTATTTCAGTAATTCTACCC
20755516 T-TCAAGGGTATTTCGA
66 TAT-AAGGGTATTTCGA
* * * *
20755532 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGTGTATTTTAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTATCCTACAAGAGTATTTCAGTAATTCTACCC
* *
20755597 TATAGGGGTATTTTGA
66 TATAAGGGTATTTCGA
* *
20755613 AAATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
20755645 TTACAATTAA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 95 0.99
82 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTATCCTACAAGAGTATTTCAGTAATTCTACCC
TATAAGGGTATTTCGA
Found at i:20755679 original size:27 final size:27
Alignment explanation
Indices: 20755654--20756013 Score: 458
Period size: 27 Copynumber: 13.3 Consensus size: 27
20755644 TTTACAATTA
* *
20755654 AGGGTAAAATGGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
20755681 AGGGTAAAACGATAATTTTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* ** *
20755708 AGGGTAAACCAATAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
* **
20755735 AGGGTAAAACGGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
20755762 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
20755789 AGGGTAAAACAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
**
20755816 AGGGTAAAACAATAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
**
20755843 AGGGTAAAATAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
20755870 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* **
20755897 AGGGTAAAACGGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
20755924 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
20755951 AGGGTAAAACAGCAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
20755978 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
20756005 AGGGTAAAA
1 AGGGTAAAA
20756014 TAACTGAGGG
Statistics
Matches: 291, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.01
27 284 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:20755796 original size:108 final size:108
Alignment explanation
Indices: 20755654--20756013 Score: 512
Period size: 108 Copynumber: 3.3 Consensus size: 108
20755644 TTTACAATTA
* * *
20755654 AGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAACCA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAACA
* *
20755719 ATAATTCTGTAAATCAAGGGTAAAACGGTAATT-T-TACAAATCG
66 ATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA-AAAT-G
*
20755762 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAACTGAGGGTAAAAC
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAACTGAGGGTAAAAC
* *
20755826 AATAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
65 AATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAAATG
* **
20755870 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAA-TCGAGGGTAAAAC
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACT-GAGGGTAAAAC
** * * *
20755934 GGTAATTCTATAAATCGAGGGTAAAACAGCAATTCTGTAAACTG
65 AATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAAATG
20755978 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
20756014 TAACTGAGGG
Statistics
Matches: 230, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
107 2 0.01
108 222 0.97
109 4 0.02
110 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (108 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAACA
ATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAAATG
Found at i:20758809 original size:89 final size:90
Alignment explanation
Indices: 20758624--20758863 Score: 252
Period size: 89 Copynumber: 2.7 Consensus size: 90
20758614 CTGCTAGAAA
* * *
20758624 GTTGTGAATGCACAACATATTTGCATATAAGAGCTGCCAGAAAATGGGTGGATAAACCA-AAAGT
1 GTTGTGAATGCACAACATATTTACATATAAGAGCTGCCA-AAAATGGGTGGATGAACCACCAAGT
* * * *
20758688 GTTGCAGGTTCATACACTATTAAATG
65 GTTACAGGTTAATAAACTATCAAATG
*
20758714 G-CGTGAATGCACAACATATTTACATATAAGAGCTGCCAAAAATGGGTGGATGAACCACCAA-TG
1 GTTGTGAATGCACAACATATTTACATATAAGAGCTGCCAAAAATGGGTGGATGAACCACCAAGTG
* * *
20758777 TTACGGGTTAATAAACTGTCAGATG
66 TTACAGGTTAATAAACTATCAAATG
* ** * * * * ** *
20758802 GTTGTGAATGCATAATGTGTTTTCAGATAAGAGCTACCAAAAAGTCTGTGAATGAACCACCA
1 GTTGTGAATGCACAACATATTTACATATAAGAGCTGCCAAAAA-TGGGTGGATGAACCACCA
20758864 GAGTTGTAAA
Statistics
Matches: 125, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
88 39 0.31
89 70 0.56
90 16 0.13
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (90 bp):
GTTGTGAATGCACAACATATTTACATATAAGAGCTGCCAAAAATGGGTGGATGAACCACCAAGTG
TTACAGGTTAATAAACTATCAAATG
Found at i:20764957 original size:25 final size:25
Alignment explanation
Indices: 20764927--20765009 Score: 157
Period size: 25 Copynumber: 3.3 Consensus size: 25
20764917 GAGTGTCCTG
20764927 ATATGGCTCGCTTGAACTTCCTGAA
1 ATATGGCTCGCTTGAACTTCCTGAA
*
20764952 ATATGGCTCGCTTGAACTTCCTAAA
1 ATATGGCTCGCTTGAACTTCCTGAA
20764977 ATATGGCTCGCTTGAACTTCCTGAA
1 ATATGGCTCGCTTGAACTTCCTGAA
20765002 ATATGGCT
1 ATATGGCT
20765010 ATCCAAAGCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (25 bp):
ATATGGCTCGCTTGAACTTCCTGAA
Found at i:20770690 original size:29 final size:29
Alignment explanation
Indices: 20770658--20770760 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
20770648 ATGACGAGAT
* *
20770658 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
20770687 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
20770716 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
20770745 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
20770761 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:20778683 original size:29 final size:29
Alignment explanation
Indices: 20778651--20778753 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
20778641 ATGACGAGAT
* *
20778651 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
20778680 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
20778709 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
20778738 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
20778754 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:20783994 original size:40 final size:41
Alignment explanation
Indices: 20783958--20784155 Score: 248
Period size: 40 Copynumber: 5.0 Consensus size: 41
20783948 GGCCCGGTTA
* *
20783958 TAGTAGCTCGTACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGT-CCGGATT
* * *
20783998 TAGTAACTGGCACCAATGCCTTC-GAATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
20784038 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
*
20784078 TAGTCACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
* * *
20784118 TAGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGATCTTAGTCCGGA
20784156 CATCATTCGA
Statistics
Matches: 143, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 2 0.01
40 129 0.90
41 12 0.08
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (41 bp):
TAGTAACTCGCACAAATGCCTTCGGGATCTTAGTCCGGATT
Found at i:20786070 original size:23 final size:23
Alignment explanation
Indices: 20786044--20786087 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20786034 CCCATTACAT
*
20786044 GGCTCTTTGTAAGGTTCCCGACA
1 GGCTCTTTGTAAGCTTCCCGACA
*
20786067 GGCTCTTTGTGAGCTTCCCGA
1 GGCTCTTTGTAAGCTTCCCGA
20786088 TTAAAAGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.14, C:0.27, G:0.27, T:0.32
Consensus pattern (23 bp):
GGCTCTTTGTAAGCTTCCCGACA
Found at i:20788793 original size:23 final size:23
Alignment explanation
Indices: 20788739--20788795 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
20788729 CGTATACTAT
*
20788739 TATTAGCAACTCTGCTGCGTTAC
1 TATTAGCAGCTCTGCTGCGTTAC
20788762 TATTAGCAGCTCTGCTGCGTTAC
1 TATTAGCAGCTCTGCTGCGTTAC
*
20788785 TGTTAGCAGCT
1 TATTAGCAGCT
20788796 TTACTGTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (23 bp):
TATTAGCAGCTCTGCTGCGTTAC
Found at i:20790708 original size:48 final size:48
Alignment explanation
Indices: 20790643--20790863 Score: 213
Period size: 48 Copynumber: 4.7 Consensus size: 48
20790633 GTTATGTGTA
* * *
20790643 ATCCCATGTAAGACCATGTTTGGAACATGGGATTGGCATCGATATGTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
* *
20790691 ATCCCATGTAAGACCATGTCTGGGAGATGGCATTGGCATCGATATTTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
* * * *
20790739 ATCCCATATAAGACCATATCTGGGATATGGCATTGGCATCGATATGAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
*** * * * *
20790787 A-CATTGTGTAAGACCATAG-CTGGG-C-T---ATCGGCTTCGATCTATG
1 ATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGTG
* *
20790830 ATCCCATGTAAGACCATATCTGGGATATGGCATT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATT
20790864 AGAATCTTAC
Statistics
Matches: 137, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
43 29 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 104 0.76
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
Found at i:20792749 original size:84 final size:84
Alignment explanation
Indices: 20792601--20792824 Score: 421
Period size: 84 Copynumber: 2.7 Consensus size: 84
20792591 TAATTGCAAT
*
20792601 ACATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTATGTGGAAATT
1 ACATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTATGTGAAAATT
20792666 TGGTTATTATTGAGTCCAC
66 TGGTTATTATTGAGTCCAC
*
20792685 ACATAGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTATGTGAAAATT
1 ACATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTATGTGAAAATT
20792750 TGGTTATTATTGAGTCCAC
66 TGGTTATTATTGAGTCCAC
*
20792769 ACATGGGTACGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTAT
1 ACATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTAT
20792825 ATGGAAAGTA
Statistics
Matches: 136, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 136 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (84 bp):
ACATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTATGTGAAAATT
TGGTTATTATTGAGTCCAC
Found at i:20795778 original size:90 final size:90
Alignment explanation
Indices: 20795656--20795878 Score: 277
Period size: 90 Copynumber: 2.5 Consensus size: 90
20795646 AATATGCTAG
* ** *
20795656 CAGAAGGTTGTGAATGCACAAAATATTCGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
1 CAGATGGTTGTGAATGCACAACGTATTTGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
*
20795721 CCAATGTTGTAGGTTAATACACTGC
66 CCAATGTTGCAGGTTAATACACTGC
* * * * *
20795746 CAGATGGTTGAGAATGCACAACGTATTTGTAGATAAAAGCTGCTAAAAAATGGGTGGATGAACCA
1 CAGATGGTTGTGAATGCACAACGTATTTGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
* * * *
20795811 TCAGTGTTGCAGTTTAATACGCTGC
66 CCAATGTTGCAGGTTAATACACTGC
* * *
20795836 CAGATGGTTGTGAATGAACAACGCATTT-TCATATAAGAGCTAC
1 CAGATGGTTGTGAATGCACAACGTATTTGT-AGATAAGAGCTAC
20795879 AAGAAAGTTT
Statistics
Matches: 112, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
89 1 0.01
90 111 0.99
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (90 bp):
CAGATGGTTGTGAATGCACAACGTATTTGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
CCAATGTTGCAGGTTAATACACTGC
Found at i:20803630 original size:40 final size:40
Alignment explanation
Indices: 20803503--20803632 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
20803493 ATGCTGGAAA
* * *
20803503 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
20803543 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
20803583 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
20803623 TTATATCCGG
1 TTATATCCGG
20803633 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Done.