Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 39 of 136
Found at i:12725534 original size:116 final size:112
Alignment explanation
Indices: 12725334--12725550 Score: 344
Period size: 116 Copynumber: 1.9 Consensus size: 112
12725324 TAATTATGTA
* * * *
12725334 TTATGCAAGTTATGTAAGTTATGATATGATATATATAAGTTGTTAAGTTATGTAAGTTGTGTGAG
1 TTATGCAAGTTATGCAAGTTATGATATGATATATATAAGTTGTTAACTTATGTAAGTTATATGAG
12725399 TTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
66 TTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
12725446 TTATGCAAGTTATGCAAGTTATGTAAGTTATGATATATATAAGTTGTTAACTTATGTAAGTTATA
1 TTATGCAAGTTATGCAAGTTATG--A--TATGATATATATAAGTTGTTAACTTATGTAAGTTATA
**
12725511 TGAGTTATGTAGATTATGATATGATGTATATAAGTTATTA
62 TGAGTTATGTAGATTATGATATGATACATATAAGTTATTA
12725551 TTCACTAATT
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
112 22 0.23
114 1 0.01
116 72 0.76
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (112 bp):
TTATGCAAGTTATGCAAGTTATGATATGATATATATAAGTTGTTAACTTATGTAAGTTATATGAG
TTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
Found at i:12725710 original size:9 final size:9
Alignment explanation
Indices: 12725633--12725720 Score: 60
Period size: 9 Copynumber: 10.2 Consensus size: 9
12725623 ATGATACATA
12725633 TAAGTTAT-
1 TAAGTTATG
*
12725641 TAAGTTAGG
1 TAAGTTATG
*
12725650 TAAGTTATC
1 TAAGTTATG
* *
12725659 CAAGTTCTG
1 TAAGTTATG
12725668 TAAGTTATG
1 TAAGTTATG
*
12725677 --A-TATATA
1 TAAGT-TATG
*
12725684 TAAGTTGT-
1 TAAGTTATG
*
12725692 TAACTTATG
1 TAAGTTATG
12725701 TAAGTTATG
1 TAAGTTATG
*
12725710 TGAGTTATG
1 TAAGTTATG
12725719 TA
1 TA
12725721 GATTATGATA
Statistics
Matches: 59, Mismatches: 15, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
8 13 0.22
9 40 0.68
10 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:12725746 original size:199 final size:201
Alignment explanation
Indices: 12725397--12725812 Score: 710
Period size: 199 Copynumber: 2.0 Consensus size: 201
12725387 AAGTTGTGTG
*
12725397 AGTTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAGTTATGCAAGTTATGCA
1 AGTTATGTAGACTATGATATGATACATATAAGTTATTAAGTTAGGTAAGTTATGC-----A--CA
12725462 AGTTATGTAAGTTATGATATATATAAGTTGTTAACTTATGTAAGTTATATGAGTTATGTAGATTA
59 AGTTATGTAAGTTATGATATATATAAGTTGTTAACTTATGTAAGTTATATGAGTTATGTAGATTA
* *
12725527 TGATATGATGTATATAAGTTATTATTCACTAATTTATGAGATACATTTAAGTTACGGTATGATAT
124 TGATATGATATATATAAGTTATTATTCACTAATTTATGAGATACATTTAAGTTACAGTATGATAT
12725592 ATATAAGTTATTA
189 ATATAAGTTATTA
*
12725605 AGTTATGTAGACTATGATATGATACATATAAGTTATTAAGTTAGGTAAGTTAT-C-CAAGTTCTG
1 AGTTATGTAGACTATGATATGATACATATAAGTTATTAAGTTAGGTAAGTTATGCACAAGTTATG
*
12725668 TAAGTTATGATATATATAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGTAGATTATGATATG
66 TAAGTTATGATATATATAAGTTGTTAACTTATGTAAGTTATATGAGTTATGTAGATTATGATATG
12725733 ATATATATAAGTTATTATTCACTAATTTATGAGATACATTTAAGTTACAGTATGATATATATAAG
131 ATATATATAAGTTATTATTCACTAATTTATGAGATACATTTAAGTTACAGTATGATATATATAAG
12725798 TTATTA
196 TTATTA
12725804 AGTTATGTA
1 AGTTATGTA
12725813 AGTTATGTGA
Statistics
Matches: 203, Mismatches: 5, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
199 150 0.74
207 1 0.00
208 52 0.26
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (201 bp):
AGTTATGTAGACTATGATATGATACATATAAGTTATTAAGTTAGGTAAGTTATGCACAAGTTATG
TAAGTTATGATATATATAAGTTGTTAACTTATGTAAGTTATATGAGTTATGTAGATTATGATATG
ATATATATAAGTTATTATTCACTAATTTATGAGATACATTTAAGTTACAGTATGATATATATAAG
TTATTA
Found at i:12725816 original size:9 final size:9
Alignment explanation
Indices: 12725794--12725937 Score: 89
Period size: 9 Copynumber: 15.7 Consensus size: 9
12725784 ATGATATATA
12725794 TAAGTTAT-
1 TAAGTTATG
12725802 TAAGTTATG
1 TAAGTTATG
12725811 TAAGTTATG
1 TAAGTTATG
*
12725820 TGAGTTATG
1 TAAGTTATG
12725829 T-AGATTATG
1 TAAG-TTATG
* *
12725838 ATATGATATATA
1 -TAAG-T-TATG
12725850 TAAGTTAT-
1 TAAGTTATG
*
12725858 TAAGTTAGG
1 TAAGTTATG
*
12725867 TAATTTATG
1 TAAGTTATG
* *
12725876 TGAGTTATT
1 TAAGTTATG
12725885 TAAGTTATGG
1 TAAGTTAT-G
* *
12725895 TATGATATATA
1 TAAG-T-TATG
12725906 TAAGTTAT-
1 TAAGTTATG
*
12725914 TAAGTTTTG
1 TAAGTTATG
*
12725923 TAAATTATG
1 TAAGTTATG
*
12725932 TGAGTT
1 TAAGTT
12725938 TCCGGGATTA
Statistics
Matches: 106, Mismatches: 20, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
8 24 0.23
9 60 0.57
10 6 0.06
11 10 0.09
12 6 0.06
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:12725819 original size:110 final size:112
Alignment explanation
Indices: 12725595--12725937 Score: 422
Period size: 110 Copynumber: 3.1 Consensus size: 112
12725585 ATGATATATA
* * * * *
12725595 TAAGTTAT-TAAGTTATGTAGACTATGATATGATACATATAAGTTATTAAGTTAGGTAAGTTATC
1 TAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATTAAGTTAGCTAATTTAT-
* * * *
12725659 CA-AGT--TCT--G-TA-AGTTATGATATATATAAGTTGTTAACTTATG
65 GAGAGTCATTTAAGTTACAG-TATGATATATATAAGTTATTAAGTTATG
12725701 TAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATT-A-TTCA-CTAATTTAT
1 TAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATTAAGTT-AGCTAATTTAT
12725763 GAGA-TACATTTAAGTTACAGTATGATATATATAAGTTATTAAGTTATG
65 GAGAGT-CATTTAAGTTACAGTATGATATATATAAGTTATTAAGTTATG
*
12725811 TAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATTAAGTTAGGTAATTTATG
1 TAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATTAAGTTAGCTAATTTATG
* * ** *
12725876 TGAGTTATTTAAGTTATGGTATGATATATATAAGTTATTAAGTTTTG
66 AGAGTCATTTAAGTTACAGTATGATATATATAAGTTATTAAGTTATG
*
12725923 TAAATTATGTGAGTT
1 TAAGTTATGTGAGTT
12725938 TCCGGGATTA
Statistics
Matches: 207, Mismatches: 16, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
104 2 0.01
105 10 0.05
106 10 0.05
107 38 0.18
109 1 0.00
110 76 0.37
111 4 0.02
112 65 0.31
113 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (112 bp):
TAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATTAAGTTAGCTAATTTATG
AGAGTCATTTAAGTTACAGTATGATATATATAAGTTATTAAGTTATG
Found at i:12725843 original size:56 final size:56
Alignment explanation
Indices: 12725673--12725937 Score: 310
Period size: 56 Copynumber: 4.8 Consensus size: 56
12725663 TTCTGTAAGT
* *
12725673 TATGATATATATAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGT-AGATTATGA
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAAG-TTATGA
* * * * * *
12725729 TATGATATATATAAGTTATT-A-TTCA-CTAATTTATGAGA-TACATTTAAGTTA-CA
1 TATGATATATATAAGTTATTAAGTT-ATGTAAGTTATGTGAGT-TATGTAAGTTATGA
12725782 GTATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGT-AGATTATGA
1 -TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAAG-TTATGA
* * * *
12725839 TATGATATATATAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTTATGG
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGA
* *
12725895 TATGATATATATAAGTTATTAAGTTTTGTAAATTATGTGAGTT
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTT
12725938 TCCGGGATTA
Statistics
Matches: 178, Mismatches: 20, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
53 2 0.01
54 38 0.21
55 8 0.04
56 126 0.71
57 4 0.02
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.45
Consensus pattern (56 bp):
TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGA
Found at i:12725958 original size:74 final size:75
Alignment explanation
Indices: 12725871--12726013 Score: 225
Period size: 76 Copynumber: 1.9 Consensus size: 75
12725861 GTTAGGTAAT
**
12725871 TTATGTGAGTTATTTAAGTTATGGTATG-ATATATATAAGTTATTAAGTTTTGTAAATTATGTGA
1 TTATGTGAGTTATTTAAGTTATGGTATGAATATATATAAGTTATTAAGTTAGGTAAATTATGTGA
12725935 GTTTCCGGGA
66 GTTTCCGGGA
* * *
12725945 TTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTTATTAAGTTAGGTAATTTATGTG
1 TTATGTGAGTTATTTAAGTTATGGTATGA-ATATATATAAGTTATTAAGTTAGGTAAATTATGTG
12726010 AGTT
65 AGTT
12726014 ATTTAAGTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 26 0.42
76 36 0.58
ACGTcount: A:0.30, C:0.01, G:0.20, T:0.48
Consensus pattern (75 bp):
TTATGTGAGTTATTTAAGTTATGGTATGAATATATATAAGTTATTAAGTTAGGTAAATTATGTGA
GTTTCCGGGA
Found at i:12726083 original size:27 final size:27
Alignment explanation
Indices: 12726042--12726141 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
12726032 ATATATAAGT
*
12726042 TATTATGTAAGTTATATGAGTTATGTA
1 TATTATGTAAGTTATATAAGTTATGTA
* * *
12726069 TATTATGTGATTTATTTAAGTTATGGTTTGA
1 TATTATGTAAGTTATATAAGTTAT-G--T-A
*
12726100 TATATATATAAGTTAT-TAAGTTATGTA
1 TAT-TATGTAAGTTATATAAGTTATGTA
*
12726127 -AGTTATGTGAGTTAT
1 TA-TTATGTAAGTTAT
12726142 GTAGATTATC
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
26 11 0.19
27 22 0.38
28 2 0.03
30 2 0.03
31 12 0.21
32 9 0.16
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (27 bp):
TATTATGTAAGTTATATAAGTTATGTA
Found at i:12726100 original size:126 final size:127
Alignment explanation
Indices: 12725794--12726141 Score: 458
Period size: 126 Copynumber: 2.7 Consensus size: 127
12725784 ATGATATATA
* * * * *
12725794 TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGT-AGATTATGATATG--ATATATATAAGTT
1 TAAGTTATTGAGTTATGTAA-TTATGTGATTTATTTAAG-TTATGGTTTGATATATATATAAGTT
*
12725856 ATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTTATGGTATGATATATATAAGTTATTAAGTTT
64 ATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGGTATGATATATATAAGTTATTAA---T
12725921 TG
126 TG
* **
12725923 TAAATTATGTGAGTT-TCCGGGATTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGT
1 TAAGTTAT-TGAGTTAT--GTAATTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGT
12725987 TATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGG-ATGATATATATAAGTTATT-A-TG
63 TATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGGTATGATATATATAAGTTATTAATTG
12726049 TAAGTTATATGAGTTATGTATATTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTT
1 TAAGTTAT-TGAGTTATGTA-ATTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTT
* *
12726114 ATTAAGTTATGTAAGTTATGTGAGTTAT
64 ATTAAGTTAGGTAATTTATGTGAGTTAT
12726142 GTAGATTATC
Statistics
Matches: 196, Mismatches: 15, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
125 1 0.01
126 85 0.43
127 1 0.01
129 8 0.04
130 27 0.14
131 23 0.12
132 51 0.26
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (127 bp):
TAAGTTATTGAGTTATGTAATTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTTAT
TAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGGTATGATATATATAAGTTATTAATTG
Found at i:12726130 original size:9 final size:9
Alignment explanation
Indices: 12726108--12726144 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
12726098 GATATATATA
12726108 TAAGTTAT-
1 TAAGTTATG
12726116 TAAGTTATG
1 TAAGTTATG
12726125 TAAGTTATG
1 TAAGTTATG
*
12726134 TGAGTTATG
1 TAAGTTATG
12726143 TA
1 TA
12726145 GATTATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:12726891 original size:13 final size:13
Alignment explanation
Indices: 12726873--12726897 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12726863 TTACCCACAG
12726873 CATTAACCAGAAA
1 CATTAACCAGAAA
12726886 CATTAACCAGAA
1 CATTAACCAGAA
12726898 CTTGCAGCAA
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:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (13 bp):
CATTAACCAGAAA
Found at i:12728278 original size:19 final size:20
Alignment explanation
Indices: 12728241--12728280 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
12728231 ATTTGGCAGA
*
12728241 GATTTCGAAGGGGAGTTAGG
1 GATTTCGAAGGGGAATTAGG
*
12728261 GATTTGGAA-GGGAATTAGG
1 GATTTCGAAGGGGAATTAGG
12728280 G
1 G
12728281 GCTGGGTGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.28, C:0.03, G:0.45, T:0.25
Consensus pattern (20 bp):
GATTTCGAAGGGGAATTAGG
Found at i:12729117 original size:29 final size:28
Alignment explanation
Indices: 12729085--12729140 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
12729075 ATATAAAATG
* * *
12729085 TAAATTATAATACCCTAAACCCTAAAACA
1 TAAACTATAAT-CCCTAAAACCAAAAACA
*
12729114 TAAACTCTAATCCCTAAAACCAAAAAC
1 TAAACTATAATCCCTAAAACCAAAAAC
12729141 CTTCACTGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (28 bp):
TAAACTATAATCCCTAAAACCAAAAACA
Found at i:12729230 original size:20 final size:20
Alignment explanation
Indices: 12729195--12729232 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12729185 GAAGCCTTAA
*
12729195 ACCCTAAACCATAAATATAC
1 ACCCTAAACCAGAAATATAC
*
12729215 ACCCTAAACCCGAAATAT
1 ACCCTAAACCAGAAATAT
12729233 GATATTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.18
Consensus pattern (20 bp):
ACCCTAAACCAGAAATATAC
Found at i:12729617 original size:7 final size:7
Alignment explanation
Indices: 12729607--12729656 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
12729597 AATAAATAAT
12729607 CTAAACC
1 CTAAACC
12729614 CTAAACC
1 CTAAACC
12729621 CT-AA-C
1 CTAAACC
*
12729626 CTAACCC
1 CTAAACC
*
12729633 CTAATCC
1 CTAAACC
*
12729640 CTAATCC
1 CTAAACC
*
12729647 CTAATCC
1 CTAAACC
12729654 CTA
1 CTA
12729657 TAAATCCTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 3 0.08
6 3 0.08
7 33 0.85
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:12729634 original size:19 final size:19
Alignment explanation
Indices: 12729607--12729643 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12729597 AATAAATAAT
12729607 CTAAACCCTAAACCCTAAC
1 CTAAACCCTAAACCCTAAC
* *
12729626 CTAACCCCTAATCCCTAA
1 CTAAACCCTAAACCCTAA
12729644 TCCCTAATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (19 bp):
CTAAACCCTAAACCCTAAC
Found at i:12729642 original size:14 final size:14
Alignment explanation
Indices: 12729607--12729656 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
12729597 AATAAATAAT
*
12729607 CTAAACCCTAAACC
1 CTAATCCCTAAACC
*
12729621 CTAA--CCTAACCC
1 CTAATCCCTAAACC
*
12729633 CTAATCCCTAATCC
1 CTAATCCCTAAACC
12729647 CTAATCCCTA
1 CTAATCCCTA
12729657 TAAATCCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 11 0.34
14 21 0.66
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22
Consensus pattern (14 bp):
CTAATCCCTAAACC
Found at i:12729868 original size:29 final size:28
Alignment explanation
Indices: 12729836--12729891 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
12729826 ATATAAAATG
* * *
12729836 TAAATTATAATACCCTAAACCCTAAAACA
1 TAAACTATAAT-CCCTAAAACCAAAAACA
*
12729865 TAAACTCTAATCCCTAAAACCAAAAAC
1 TAAACTATAATCCCTAAAACCAAAAAC
12729892 CTTCACTGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (28 bp):
TAAACTATAATCCCTAAAACCAAAAACA
Found at i:12729981 original size:20 final size:20
Alignment explanation
Indices: 12729946--12729983 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12729936 GAAGCCTTAA
*
12729946 ACCCTAAACCATAAATATAC
1 ACCCTAAACCAGAAATATAC
*
12729966 ACCCTAAACCCGAAATAT
1 ACCCTAAACCAGAAATAT
12729984 GATATTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.18
Consensus pattern (20 bp):
ACCCTAAACCAGAAATATAC
Found at i:12730686 original size:41 final size:40
Alignment explanation
Indices: 12730627--12730863 Score: 330
Period size: 41 Copynumber: 5.8 Consensus size: 40
12730617 AAATGTTTTT
* *
12730627 GCGGCGCATTTTCAAAAACGCCGCTATAGCCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCC-GAGCATTA
* ** * *
12730668 GCGGCGCTTCTTGGAAAACGCCGCTATAGCCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG-CCCGAGCATTA
*
12730709 GCGGCGCTTTTTCAAAACCGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG-CCCGAGCATTA
*
12730750 GCGGCGCTTTTTTAAAAACGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG-CCCGAGCATTA
*
12730791 GCGGCGCTTTTTCAAAAACGCCTCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCC-GAGCATTA
*
12730832 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCC
12730864 CGAAAGGTCA
Statistics
Matches: 177, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 3 0.02
41 171 0.97
42 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCGAGCATTA
Found at i:12735892 original size:19 final size:19
Alignment explanation
Indices: 12735868--12735947 Score: 88
Period size: 19 Copynumber: 3.9 Consensus size: 19
12735858 GTATCATATG
12735868 AAACTTATAAAATACTTTC
1 AAACTTATAAAATACTTTC
* *
12735887 AAACTTACAAAATACTTTAAAATG
1 AAACTTATAAAATAC-TT----TC
12735911 AAACTTATAAAATACTTTC
1 AAACTTATAAAATACTTTC
*
12735930 AAACTTAAAAAATACTTT
1 AAACTTATAAAATACTTT
12735948 AAAATTCATA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
19 32 0.63
20 2 0.04
23 2 0.04
24 15 0.29
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (19 bp):
AAACTTATAAAATACTTTC
Found at i:12735912 original size:43 final size:43
Alignment explanation
Indices: 12735865--12735952 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
12735855 ACAGTATCAT
*
12735865 ATGAAACTTATAAAATACTTTCAAACTTACAAAATACTTTAAA
1 ATGAAACTTATAAAATACTTTCAAACTTAAAAAATACTTTAAA
12735908 ATGAAACTTATAAAATACTTTCAAACTTAAAAAATACTTTAAA
1 ATGAAACTTATAAAATACTTTCAAACTTAAAAAATACTTTAAA
12735951 AT
1 AT
12735953 TCATATTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (43 bp):
ATGAAACTTATAAAATACTTTCAAACTTAAAAAATACTTTAAA
Found at i:12741291 original size:40 final size:40
Alignment explanation
Indices: 12741247--12741369 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 40
12741237 CCCTTGTGAA
* * *
12741247 CACTTTGGTGTCCATGTTTGCACATTCATGCCCCTGAATG
1 CACTTTGGTGCCCATGATAGCACATTCATGCCCCTGAATG
* **
12741287 CACTTTGGTGCCCCTGATAGCACATTTGTGCCCCTGAATG
1 CACTTTGGTGCCCATGATAGCACATTCATGCCCCTGAATG
* * ** *
12741327 CGCTTTGATGCCC-TGGATAGCACATTTGTGCCCCTGATTG
1 CACTTTGGTGCCCAT-GATAGCACATTCATGCCCCTGAATG
12741367 CAC
1 CAC
12741370 ACTTGTCCTC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.32
Consensus pattern (40 bp):
CACTTTGGTGCCCATGATAGCACATTCATGCCCCTGAATG
Found at i:12741298 original size:20 final size:20
Alignment explanation
Indices: 12741265--12741375 Score: 104
Period size: 20 Copynumber: 5.5 Consensus size: 20
12741255 TGTCCATGTT
**
12741265 TGCACATTCATGCCCCTGAA
1 TGCACATTTGTGCCCCTGAA
12741285 TGCAC-TTTGGTGCCCCTG-A
1 TGCACATTT-GTGCCCCTGAA
12741304 TAGCACATTTGTGCCCCTGAA
1 T-GCACATTTGTGCCCCTGAA
* *
12741325 TGCGC-TTTGATG-CCCTGGA
1 TGCACATTTG-TGCCCCTGAA
*
12741344 TAGCACATTTGTGCCCCTGAT
1 T-GCACATTTGTGCCCCTGAA
*
12741365 TGCACACTTGT
1 TGCACATTTGT
12741376 CCTCCTGATT
Statistics
Matches: 75, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
19 15 0.20
20 45 0.60
21 15 0.20
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.31
Consensus pattern (20 bp):
TGCACATTTGTGCCCCTGAA
Found at i:12741393 original size:60 final size:59
Alignment explanation
Indices: 12741278--12741393 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 59
12741268 ACATTCATGC
* * *
12741278 CCCTGAATGCACTTTGGTGCCCCTGATAGCACATTTGTGCCCCTGAATGCGCTTTGATG
1 CCCTGAATGCACTTTGGTGCCCCTGATAGCACACTTGTGCCCCTGAATACACTTTGATG
* * *
12741337 CCCTGGATAGCACATTT-GTGCCCCTGATTGCACACTTGT-CCTCCTGATTACACTTTG
1 CCCTGAAT-GCAC-TTTGGTGCCCCTGATAGCACACTTGTGCC-CCTGAATACACTTTG
12741394 GTACCTCTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
59 9 0.19
60 36 0.75
61 3 0.06
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.32
Consensus pattern (59 bp):
CCCTGAATGCACTTTGGTGCCCCTGATAGCACACTTGTGCCCCTGAATACACTTTGATG
Found at i:12747385 original size:40 final size:40
Alignment explanation
Indices: 12747341--12747463 Score: 113
Period size: 40 Copynumber: 3.1 Consensus size: 40
12747331 CCCTTGTGAA
* * *
12747341 CACTTTGGTGTCCATGTTTGCACATTCATGCCCCTGAATG
1 CACTTTGGTGCCCATGATAGCACATTCATGCCCCTGAATG
* **
12747381 CACTTTGGTGCCCCTGATAGCACATTTGTGCCCCTGAATG
1 CACTTTGGTGCCCATGATAGCACATTCATGCCCCTGAATG
* * * * ** *
12747421 CGCTTCGATGCCC-TGGAGAGCACATTTGTGCCCCTGATTG
1 CACTTTGGTGCCCAT-GATAGCACATTCATGCCCCTGAATG
12747461 CAC
1 CAC
12747464 ACTTGTCCTC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.17, C:0.30, G:0.23, T:0.30
Consensus pattern (40 bp):
CACTTTGGTGCCCATGATAGCACATTCATGCCCCTGAATG
Found at i:12747496 original size:20 final size:20
Alignment explanation
Indices: 12747358--12747487 Score: 99
Period size: 20 Copynumber: 6.5 Consensus size: 20
12747348 GTGTCCATGT
**
12747358 TTGCACATTCATGCCCCTGA
1 TTGCACATTTGTGCCCCTGA
*
12747378 ATGCAC-TTTGGTGCCCCTGA
1 TTGCACATTT-GTGCCCCTGA
*
12747398 TAGCACATTTGTGCCCCTGA
1 TTGCACATTTGTGCCCCTGA
* * *
12747418 ATGCGC-TTCGATG-CCCTGGA
1 TTGCACATTTG-TGCCCCT-GA
**
12747438 GAGCACATTTGTGCCCCTGA
1 TTGCACATTTGTGCCCCTGA
*
12747458 TTGCACACTTGT-CCTCCTGA
1 TTGCACATTTGTGCC-CCTGA
12747478 TTGCAC-TTTG
1 TTGCACATTTG
12747488 GTACCCCTGT
Statistics
Matches: 86, Mismatches: 17, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
19 14 0.16
20 62 0.72
21 10 0.12
ACGTcount: A:0.17, C:0.31, G:0.22, T:0.31
Consensus pattern (20 bp):
TTGCACATTTGTGCCCCTGA
Found at i:12750515 original size:22 final size:23
Alignment explanation
Indices: 12750474--12750522 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
12750464 TTAATATGTC
*
12750474 AATGCAATATTTTCAGAAAACAA
1 AATGCAATATTTTCAGAAAAAAA
*
12750497 AATGCAGAT-TTTTCAAAAAAAAA
1 AATGCA-ATATTTTCAGAAAAAAA
12750520 AAT
1 AAT
12750523 TCCTACCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (23 bp):
AATGCAATATTTTCAGAAAAAAA
Found at i:12751267 original size:32 final size:32
Alignment explanation
Indices: 12751231--12751303 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
12751221 CTAGAAAATG
* **
12751231 GGCCCACACGACTTAAACAACCCAGATTGTGT
1 GGCCCACACGACCTAAACAACCCAGACCGTGT
* *
12751263 GGCCCACATGGCCTAAACAACCCAGACCGTGT
1 GGCCCACACGACCTAAACAACCCAGACCGTGT
*
12751295 GGACCACAC
1 GGCCCACAC
12751304 AGTTTGGCAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.36, G:0.21, T:0.14
Consensus pattern (32 bp):
GGCCCACACGACCTAAACAACCCAGACCGTGT
Found at i:12764804 original size:28 final size:28
Alignment explanation
Indices: 12764764--12764820 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
12764754 TAATTTTTTG
*
12764764 TAATAATTAATATC-ATATAAAAACTTAA
1 TAATAAATAATATCTA-ATAAAAACTTAA
* *
12764792 TAATAAATGATATCTAATTAAAACTTAA
1 TAATAAATAATATCTAATAAAAACTTAA
12764820 T
1 T
12764821 TTAAAGTAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (28 bp):
TAATAAATAATATCTAATAAAAACTTAA
Found at i:12766905 original size:6 final size:6
Alignment explanation
Indices: 12766894--12766919 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12766884 TTAAATATTT
12766894 TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAAA TTAAAA TTAAAA TT
12766920 TTATTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:12770620 original size:9 final size:9
Alignment explanation
Indices: 12770606--12770642 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
12770596 TATATTTTGA
12770606 TATTCGAAT
1 TATTCGAAT
12770615 TATTCGAAT
1 TATTCGAAT
*
12770624 TATTCGAGT
1 TATTCGAAT
12770633 TATTCGAAT
1 TATTCGAAT
12770642 T
1 T
12770643 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12782389 original size:17 final size:17
Alignment explanation
Indices: 12782367--12782403 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
12782357 ACAGGTATTA
12782367 ATTGTTCTATACTGTTC
1 ATTGTTCTATACTGTTC
12782384 ATTGTTCTATACTGTTC
1 ATTGTTCTATACTGTTC
12782401 ATT
1 ATT
12782404 ATTTGGCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.16, G:0.11, T:0.54
Consensus pattern (17 bp):
ATTGTTCTATACTGTTC
Found at i:12782495 original size:19 final size:19
Alignment explanation
Indices: 12782471--12782510 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
12782461 TTATCATGAC
12782471 AATAGAACTATAGCTATTG
1 AATAGAACTATAGCTATTG
12782490 AATAGAACTATAGCTATTG
1 AATAGAACTATAGCTATTG
12782509 AA
1 AA
12782511 CACAGATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (19 bp):
AATAGAACTATAGCTATTG
Found at i:12792448 original size:16 final size:16
Alignment explanation
Indices: 12792427--12792461 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
12792417 TCTAGAAAAG
12792427 TATTTGACAATATAAT
1 TATTTGACAATATAAT
12792443 TATTTGACAATATAAT
1 TATTTGACAATATAAT
12792459 TAT
1 TAT
12792462 CAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (16 bp):
TATTTGACAATATAAT
Found at i:12794931 original size:33 final size:33
Alignment explanation
Indices: 12794894--12794960 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
12794884 ATCCCAACCC
12794894 ATGTATATGCAGTGTACAAATATCCACATTTAT
1 ATGTATATGCAGTGTACAAATATCCACATTTAT
12794927 ATGTATATGCAGTGTACAAATATCCACATTTAT
1 ATGTATATGCAGTGTACAAATATCCACATTTAT
12794960 A
1 A
12794961 GAGTACAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATATGCAGTGTACAAATATCCACATTTAT
Found at i:12804729 original size:17 final size:18
Alignment explanation
Indices: 12804680--12804729 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
12804670 CATTTTAAAA
12804680 TAAAATAATACAAATTTGT
1 TAAAATAATAC-AATTTGT
*
12804699 TAAAAGCAAT--AATTT-T
1 TAAAA-TAATACAATTTGT
12804715 TAAAATAATACAATT
1 TAAAATAATACAATT
12804730 GTGTCAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
15 3 0.12
16 6 0.23
17 9 0.35
19 5 0.19
20 3 0.12
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (18 bp):
TAAAATAATACAATTTGT
Found at i:12829098 original size:8 final size:7
Alignment explanation
Indices: 12829085--12829149 Score: 52
Period size: 6 Copynumber: 9.7 Consensus size: 7
12829075 ACTAGATGGT
12829085 ATAAATGA
1 ATAAAT-A
12829093 ATAAATA
1 ATAAATA
12829100 AT-AATA
1 ATAAATA
12829106 AT-AATA
1 ATAAATA
12829112 AT-AATA
1 ATAAATA
*
12829118 A-CAATA
1 ATAAATA
12829124 AT-AATA
1 ATAAATA
12829130 ATAACAGTA
1 ATAA-A-TA
12829139 AT-AATA
1 ATAAATA
12829145 ATAAA
1 ATAAA
12829150 CCAATTGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
6 32 0.63
7 7 0.14
8 8 0.16
9 4 0.08
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (7 bp):
ATAAATA
Found at i:12829104 original size:3 final size:3
Alignment explanation
Indices: 12829096--12829148 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
12829086 TAAATGAATA
* * *
12829096 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAC AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12829144 AAT AA
1 AAT AA
12829149 ACCAATTGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:12829116 original size:15 final size:15
Alignment explanation
Indices: 12829096--12829148 Score: 88
Period size: 15 Copynumber: 3.5 Consensus size: 15
12829086 TAAATGAATA
*
12829096 AATAATAATAATAAT
1 AATAATAACAATAAT
12829111 AATAATAACAATAAT
1 AATAATAACAATAAT
*
12829126 AATAATAACAGTAAT
1 AATAATAACAATAAT
12829141 AATAATAA
1 AATAATAA
12829149 ACCAATTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (15 bp):
AATAATAACAATAAT
Found at i:12831472 original size:310 final size:311
Alignment explanation
Indices: 12830899--12831526 Score: 1240
Period size: 310 Copynumber: 2.0 Consensus size: 311
12830889 TAATATAAAA
12830899 ATATATTATATATTATTTATTTCTATTAATTCAGTTAATTATCTAATTTCGAACTGAATTAACTG
1 ATATATTATATATTATTTATTTCTATTAATTCAGTTAATTATCTAATTTCGAACTGAATTAACTG
12830964 ATAACTGCACTTCCAAAAAATTATTAACCGACATCCGATCCAATTAAATCAGTTAACCGATAGAT
66 ATAACTGCACTTCCAAAAAATTATTAACCGACATCCGATCCAATTAAATCAGTTAACCGATAGAT
12831029 TAACCAAATTAGATCAGTTCAGTTGATTAATTTGGTTTAAATAAAAAAATTGAACAATCCTAATC
131 TAACCAAATTAGATCAGTTCAGTTGATTAATTTGGTTTAAATAAAAAAATTGAACAATCCTAATC
12831094 GTAGGTACGATTACTTGCCAACATGTGAACCATTTCTCACACTAGAGTTGCCGACATCTCCGTAT
196 GTAGGTACGATTACTTGCCAACATGTGAACCATTTCTCACACTAGAGTTGCCGACATCTCCGTAT
12831159 AGGAATGTGCTGTCAATTTGGACAAGTGGCTTACAGTACCAAAATGCAGTT
261 AGGAATGTGCTGTCAATTTGGACAAGTGGCTTACAGTACCAAAATGCAGTT
12831210 ATATATTATA-ATTATTTATTTCTATTAATTCAGTTAATTATCTAATTTCGAACTGAATTAACTG
1 ATATATTATATATTATTTATTTCTATTAATTCAGTTAATTATCTAATTTCGAACTGAATTAACTG
12831274 ATAACTGCACTTCCAAAAAATTATTAACCGACATCCGATCCAATTAAATCAGTTAACCGATAGAT
66 ATAACTGCACTTCCAAAAAATTATTAACCGACATCCGATCCAATTAAATCAGTTAACCGATAGAT
12831339 TAACCAAATTAGATCAGTTCAGTTGATTAATTTGGTTTAAATAAAAAAATTGAACAATCCTAATC
131 TAACCAAATTAGATCAGTTCAGTTGATTAATTTGGTTTAAATAAAAAAATTGAACAATCCTAATC
12831404 GTAGGTACGATTACTTGCCAACATGTGAACCATTTCTCACACTAGAGTTGCCGACATCTCCGTAT
196 GTAGGTACGATTACTTGCCAACATGTGAACCATTTCTCACACTAGAGTTGCCGACATCTCCGTAT
12831469 AGGAATGTGCTGTCAATTTGGACAAGTGGCTTACAGTACCAAAATGCAGTT
261 AGGAATGTGCTGTCAATTTGGACAAGTGGCTTACAGTACCAAAATGCAGTT
*
12831520 ATGTATT
1 ATATATT
12831527 GCTTGAAACT
Statistics
Matches: 316, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
310 306 0.97
311 10 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (311 bp):
ATATATTATATATTATTTATTTCTATTAATTCAGTTAATTATCTAATTTCGAACTGAATTAACTG
ATAACTGCACTTCCAAAAAATTATTAACCGACATCCGATCCAATTAAATCAGTTAACCGATAGAT
TAACCAAATTAGATCAGTTCAGTTGATTAATTTGGTTTAAATAAAAAAATTGAACAATCCTAATC
GTAGGTACGATTACTTGCCAACATGTGAACCATTTCTCACACTAGAGTTGCCGACATCTCCGTAT
AGGAATGTGCTGTCAATTTGGACAAGTGGCTTACAGTACCAAAATGCAGTT
Found at i:12835053 original size:13 final size:13
Alignment explanation
Indices: 12835033--12835096 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
12835023 AGTTCTTCAT
12835033 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
12835046 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
12835059 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
12835072 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
12835085 TGCTTTTGAAAA
1 TGCTTTTGAAAA
12835097 ATTTGAGTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:12836356 original size:19 final size:19
Alignment explanation
Indices: 12836332--12836395 Score: 74
Period size: 19 Copynumber: 3.1 Consensus size: 19
12836322 TCAGTGGAGA
12836332 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
12836351 AGAGGAACAAAGAACTAGCACCAGC
1 AGAGGAACAAAG----A--ACCAGC
12836376 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
12836395 A
1 A
12836396 CCAGCAGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
19 19 0.49
21 1 0.03
23 1 0.03
25 18 0.46
ACGTcount: A:0.52, C:0.22, G:0.25, T:0.02
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:12836373 original size:25 final size:25
Alignment explanation
Indices: 12836345--12836404 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
12836335 GGAACAAAGA
*
12836345 ACCAGCAGAGGAACAAAGAACTAGC
1 ACCAGCAGAGGAACAAAGAACCAGC
12836370 ACCAGCAGAGGAACAAAGAACCAGC
1 ACCAGCAGAGGAACAAAGAACCAGC
12836395 ACCAGCAGAG
1 ACCAGCAGAG
12836405 AAGAGATGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.47, C:0.27, G:0.25, T:0.02
Consensus pattern (25 bp):
ACCAGCAGAGGAACAAAGAACCAGC
Found at i:12836786 original size:19 final size:18
Alignment explanation
Indices: 12836749--12836791 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
12836739 AAGTATTTAT
*
12836749 AGTAAAAATAATAACCAAA
1 AGTAATAATAATAACC-AA
12836768 AGTAATAATGAATAA-CAA
1 AGTAATAAT-AATAACCAA
12836786 AGTAAT
1 AGTAAT
12836792 TAAAAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.21
Consensus pattern (18 bp):
AGTAATAATAATAACCAA
Found at i:12840366 original size:34 final size:35
Alignment explanation
Indices: 12840323--12840390 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
12840313 GCATATTTGA
* *
12840323 TACTGTACTG-AGATGGGCTAAGGCCCAA-ACTGT
1 TACTGTACTGAAAAAGGGCTAAGGCCCAAGACTGT
*
12840356 TACTGATACTGAAAAAGGGCTTAGGCCCAAGACTG
1 TACTG-TACTGAAAAAGGGCTAAGGCCCAAGACTG
12840391 CTTTAACTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 5 0.17
34 5 0.17
35 15 0.52
36 4 0.14
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (35 bp):
TACTGTACTGAAAAAGGGCTAAGGCCCAAGACTGT
Found at i:12842945 original size:22 final size:22
Alignment explanation
Indices: 12842920--12842966 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
12842910 ATATCTTAAC
12842920 AAAA-AAAAT-TATTTATTCATAT
1 AAAAGAAAATATATTT-TT-ATAT
12842942 AAAAGAAAATATATTTTTATAT
1 AAAAGAAAATATATTTTTATAT
12842964 AAA
1 AAA
12842967 GAATAAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 11 0.48
23 7 0.30
24 5 0.22
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAAGAAAATATATTTTTATAT
Found at i:12844761 original size:24 final size:24
Alignment explanation
Indices: 12844740--12844806 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
12844730 AATATGAAGA
12844740 GTTAAGGAAGATAAAAGGTGAAAG
1 GTTAAGGAAGATAAAAGGTGAAAG
* * *
12844764 GTTGAGGAAGATGAAAGGTGAAAT
1 GTTAAGGAAGATAAAAGGTGAAAG
* * *
12844788 GTGAAGAAAGATGAAAGGT
1 GTTAAGGAAGATAAAAGGT
12844807 TGAACATCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (24 bp):
GTTAAGGAAGATAAAAGGTGAAAG
Found at i:12845091 original size:89 final size:86
Alignment explanation
Indices: 12844864--12845091 Score: 278
Period size: 89 Copynumber: 2.6 Consensus size: 86
12844854 GCTTAAGAGT
* * *
12844864 GCAAAAA-ACTCTCAAACTTAAAAAAAAAAAATTAAGCCCTTGTTTTTTCTTTTTGCACTCATTT
1 GCAAAAAGACCCTCAAACTTAAAAAAAAAAAATTAAGCCCTTG--CTTT-TTTTTGCACTCAATT
12844928 GGGTACTTGAACTTTCAAAATGCA
63 GGGTACTTGAACTTTCAAAATGCA
* * * ** * *
12844952 TCAAAAAGGCCCTCAAACCTTTTCAAAAAAAGTAATTAAGCCCCTACTTTTTTTTGCACTCAATT
1 GCAAAAAGACCCTCAAA-C--TTAAAAAAAAAAAATTAAGCCCTTGCTTTTTTTTGCACTCAATT
12845017 GGGTACTTGAACTTTCAAAATGCA
63 GGGTACTTGAACTTTCAAAATGCA
12845041 GCAAAAAAGACCCTCAAACTTAAAAAAAAAAACAATTAAGCCCTTGCTTTT
1 GC-AAAAAGACCCTCAAACTT-AAAAAAAAAA-AATTAAGCCCTTGCTTTT
12845092 ATTAAAAGTT
Statistics
Matches: 116, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
87 2 0.02
88 13 0.11
89 63 0.54
90 18 0.16
92 20 0.17
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (86 bp):
GCAAAAAGACCCTCAAACTTAAAAAAAAAAAATTAAGCCCTTGCTTTTTTTTGCACTCAATTGGG
TACTTGAACTTTCAAAATGCA
Found at i:12859466 original size:12 final size:14
Alignment explanation
Indices: 12859434--12859470 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
12859424 TTTTACATTG
*
12859434 CAATTCATCATATT
1 CAATTTATCATATT
12859448 CAATTTATCA-ATT
1 CAATTTATCATATT
12859461 -AATTTATCAT
1 CAATTTATCAT
12859471 TTTCTTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 9 0.43
13 3 0.14
14 9 0.43
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.46
Consensus pattern (14 bp):
CAATTTATCATATT
Found at i:12868066 original size:138 final size:138
Alignment explanation
Indices: 12867818--12868114 Score: 371
Period size: 138 Copynumber: 2.2 Consensus size: 138
12867808 GCGGATACTT
* * * * * *
12867818 GACAGCTTGTGTGAGTAGAACTAGGTTATCATGTTTCGGGTGTTGGTCTTGAATGTCCTATCGGT
1 GACAGCTTGTGTGAGCAGACCTAGGTTACCATGTTTCGGGTGCTGGTCTTGAATGTCCTACCGAT
* * * * * *
12867883 GGCTAAGTTTCAATACGTGTTGCAGATACTTGACAGCTTGTGTGAGCAACACCGTGTAGCTTACA
66 GGATAAGTGTCAAGAAGTGTTGCAGATACTCGACAGCTTGTGTGAGCAACACCGTCTAGCTTACA
*
12867948 TTCCGACC
131 TTCCAACC
*
12867956 GACAGCTTGTGTGAGCAGACCTAGGTTACCATGTTTCGGGTGCTGGTCTTGAATGTCTTACCGAT
1 GACAGCTTGTGTGAGCAGACCTAGGTTACCATGTTTCGGGTGCTGGTCTTGAATGTCCTACCGAT
* * * ** * *
12868021 GGATGAG-GTCTAGAATTAGTTGTGGATACTCGATAGCTTGTGTGAGCAACATCGTCTAGCTTAC
66 GGATAAGTGTCAAGAAGT-GTTGCAGATACTCGACAGCTTGTGTGAGCAACACCGTCTAGCTTAC
*
12868085 ATTTCAACC
130 ATTCCAACC
*
12868094 GATAGCTTGTGTGAGCAGACC
1 GACAGCTTGTGTGAGCAGACC
12868115 CATTTTACAG
Statistics
Matches: 135, Mismatches: 23, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
137 5 0.04
138 130 0.96
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (138 bp):
GACAGCTTGTGTGAGCAGACCTAGGTTACCATGTTTCGGGTGCTGGTCTTGAATGTCCTACCGAT
GGATAAGTGTCAAGAAGTGTTGCAGATACTCGACAGCTTGTGTGAGCAACACCGTCTAGCTTACA
TTCCAACC
Found at i:12873994 original size:101 final size:101
Alignment explanation
Indices: 12873819--12874016 Score: 387
Period size: 101 Copynumber: 2.0 Consensus size: 101
12873809 GTTAATTACT
*
12873819 TATAATCAAGATTTGATTCATTCTCCTTTTCTATCTCTTGAATTTTATTTCTTTTATGATATTTT
1 TATAATAAAGATTTGATTCATTCTCCTTTTCTATCTCTTGAATTTTATTTCTTTTATGATATTTT
12873884 GTTTTATTATTATAAAAAAACCCTAAAAATCCCACC
66 GTTTTATTATTATAAAAAAACCCTAAAAATCCCACC
12873920 TATAATAAAGATTTGATTCATTCTCCTTTTCTATCTCTTGAATTTTATTTCTTTTATGATATTTT
1 TATAATAAAGATTTGATTCATTCTCCTTTTCTATCTCTTGAATTTTATTTCTTTTATGATATTTT
12873985 GTTTTATTATTATAAAAAAACCCTAAAAATCC
66 GTTTTATTATTATAAAAAAACCCTAAAAATCC
12874017 TTTATTTTAT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 96 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.48
Consensus pattern (101 bp):
TATAATAAAGATTTGATTCATTCTCCTTTTCTATCTCTTGAATTTTATTTCTTTTATGATATTTT
GTTTTATTATTATAAAAAAACCCTAAAAATCCCACC
Found at i:12874130 original size:14 final size:14
Alignment explanation
Indices: 12874111--12874140 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12874101 CCTCCCTTGG
12874111 GTACGATCCTCGGA
1 GTACGATCCTCGGA
12874125 GTACGATCCTCGGA
1 GTACGATCCTCGGA
12874139 GT
1 GT
12874141 TGTAAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (14 bp):
GTACGATCCTCGGA
Found at i:12896337 original size:21 final size:21
Alignment explanation
Indices: 12896313--12896369 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
12896303 TGAATAGTGT
* *
12896313 TGTGGTTGCATCTGATTTTGA
1 TGTGGATGCATCTGACTTTGA
* *
12896334 TGTGGATGCATCTGGCTTTGT
1 TGTGGATGCATCTGACTTTGA
12896355 TGTGGATGCATCTGA
1 TGTGGATGCATCTGA
12896370 GTATGCTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.14, C:0.12, G:0.32, T:0.42
Consensus pattern (21 bp):
TGTGGATGCATCTGACTTTGA
Found at i:12916844 original size:50 final size:50
Alignment explanation
Indices: 12916735--12916915 Score: 172
Period size: 50 Copynumber: 3.6 Consensus size: 50
12916725 AGAGGTTCAG
* * * * * ** *
12916735 TGTAACACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCC
1 TGTAAGACCATATCTGGGACATGGCATTGGCACCGATATGAGAACTCCCA
* * *
12916785 CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCA
1 TGTAAGACCATATCTGGGACATGGCATTGGCACCGATATGAGAACTCCCA
* *
12916835 TGTAGGACCATATCTGGGATATGGCATTGGCA--G-TACT-AGAAACATCCCA
1 TGTAAGACCATATCTGGGACATGGCATTGGCACCGATA-TGAG-AAC-TCCCA
* *
12916884 TGTAAGACCATATATGGGACATGGCTTTGGCA
1 TGTAAGACCATATCTGGGACATGGCATTGGCA
12916916 TGTCATTATC
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
47 4 0.04
48 5 0.05
49 33 0.30
50 68 0.62
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TGTAAGACCATATCTGGGACATGGCATTGGCACCGATATGAGAACTCCCA
Found at i:12924705 original size:42 final size:42
Alignment explanation
Indices: 12924654--12924894 Score: 270
Period size: 43 Copynumber: 5.7 Consensus size: 42
12924644 TTATATGGAA
* * *
12924654 AAACGCCGCTATAGAACATGACTTTTAGCGGTGCTTCCTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTCCCCAC
* * * *
12924696 AAATGCCGCTATAGAACATGACCTTTACCGGTGCTGCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTCCCCAC
* *
12924738 AAA-GACCTCTAAAGAACATGACCTTTAGCGGCGCTTACCCCAC
1 AAACG-CCGCTAAAGAACATGACCTTTAGCGGTGCTT-CCCCAC
* * * * *
12924781 AAACGCTGCTAGAA-AACATGACATTTATCAGCGCTTTCCCCAC
1 AAACGCCGCTA-AAGAACATGACCTTTAGCGGTGC-TTCCCCAC
* * *
12924824 AAATGCCGCTAAAAAACATGACCTTTAGCGGTACTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGC-TTCCCCAC
12924867 AAACGCCGCTAAAGAACATGACCTTTAG
1 AAACGCCGCTAAAGAACATGACCTTTAG
12924895 TGAAATTTCC
Statistics
Matches: 169, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.40
43 95 0.56
44 5 0.03
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTCCCCAC
Found at i:12924917 original size:42 final size:43
Alignment explanation
Indices: 12924652--12924922 Score: 165
Period size: 43 Copynumber: 6.4 Consensus size: 43
12924642 GTTTATATGG
* * *** *
12924652 AAAAACGCCGCTATAGAACATGACTTTTAGCGG-TGCTTCCTC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGAAATTTCCCC
* * * * *** *
12924694 ACAAATGCCGCTATAGAACATGACCTTTACCGG-TGCTGCCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGAAATTTCCCC
* * *** *
12924736 ACAAA-GACCTCTAAAGAACATGACCTTTAGCGGCGCTTACCCC
1 AAAAACG-CCGCTAAAGAACATGACCTTTAGCGGAAATTTCCCC
* * * * * ***
12924779 ACAAACGCTGCTAGAA-AACATGACATTTATCAGCGCTTTCCCC
1 AAAAACGCCGCTA-AAGAACATGACCTTTAGCGGAAATTTCCCC
* * * * *
12924822 ACAAATGCCGCTAAAAAACATGACCTTTAGCGGTACTTTCCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGAAATTTCCCC
* * *
12924865 ACAAACGCCGCTAAAGAACATGACCTTTAG-TGAAATTTCCTC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGAAATTTCCCC
12924907 AAAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
12924923 GTCATGTTCT
Statistics
Matches: 191, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 89 0.47
43 98 0.51
44 3 0.02
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGAAATTTCCCC
Found at i:12934252 original size:9 final size:9
Alignment explanation
Indices: 12934235--12934266 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
12934225 TATTTATGTA
*
12934235 TTATATAAG
1 TTATGTAAG
12934244 TTATGTAAG
1 TTATGTAAG
12934253 TTATGTAAG
1 TTATGTAAG
12934262 TTATG
1 TTATG
12934267 ATCCAAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:12934337 original size:13 final size:13
Alignment explanation
Indices: 12934319--12934344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12934309 GATTATCATT
12934319 TTTAAATTTTAAC
1 TTTAAATTTTAAC
12934332 TTTAAATTTTAAC
1 TTTAAATTTTAAC
12934345 CCTTTAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAAATTTTAAC
Found at i:12936533 original size:26 final size:26
Alignment explanation
Indices: 12936486--12936540 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
12936476 AACACACCAA
* *
12936486 TATCGCAGCAAAGCTGCAAGTAATAG
1 TATCGCAGCAAAGCTACAAGTAACAG
* *
12936512 TATCGCAGCAAAGTTACCAGTAACAG
1 TATCGCAGCAAAGCTACAAGTAACAG
12936538 TAT
1 TAT
12936541 ATGTGGCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACAAGTAACAG
Found at i:12936698 original size:27 final size:27
Alignment explanation
Indices: 12936681--12936904 Score: 258
Period size: 27 Copynumber: 8.3 Consensus size: 27
12936671 GGGTATAACA
*
12936681 GTCATTTTACCCTATAGGGGAATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
12936708 GTCATTTTACTCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
12936735 ATCATTTTACCCTAT-GGGGTTATTTTG
1 GTCATTTTACCCTATAGGGG-TATTTCG
* *
12936762 GTCATTTTACCCTA-CGAGGGTATTTTG
1 GTCATTTTACCCTATAG-GGGTATTTCG
* * *
12936789 ATCATTTTACCCTACAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
12936816 GTCATTTTATCCTA-CGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
*
12936842 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
12936869 GTCATTTTACCCTAT-GAGGGTATTTTG
1 GTCATTTTACCCTATAG-GGGTATTTCG
12936896 GTCATTTTA
1 GTCATTTTA
12936905 TTAACCTCAC
Statistics
Matches: 173, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.16
27 142 0.82
28 4 0.02
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:12936728 original size:54 final size:55
Alignment explanation
Indices: 12936682--12936893 Score: 290
Period size: 54 Copynumber: 3.9 Consensus size: 55
12936672 GGTATAACAG
* * *
12936682 TCATTTTACCCTATAGGGGAATTTCGGTCATTTTACTCTATGGGGGTATTTC-GA
1 TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAGA
* * *
12936736 TCATTTTACCCTAT-GGGGTTATTTTGGTCATTTTACCCTACGAGGGTATTT-TGA
1 TCATTTTACCCTATAGGGG-TATTTTGGTCATTTTACCCTATGGGGGTATTTCAGA
* * *
12936790 TCATTTTACCCTACAGGGGTATTTTGGTCATTTTATCCTA-CGGGGTATTTCAG-
1 TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAGA
*
12936843 TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGAGGGTATTT
1 TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTT
12936894 TGGTCATTTT
Statistics
Matches: 139, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
53 50 0.36
54 85 0.61
55 4 0.03
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (55 bp):
TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAGA
Found at i:12936874 original size:80 final size:78
Alignment explanation
Indices: 12936665--12936905 Score: 286
Period size: 80 Copynumber: 3.0 Consensus size: 78
12936655 TTATTTAATC
** * * * *
12936665 TCCTAGGGGTATAACAGTCATTTTACCCTATAGGGGAATTTCGGTCATTTTACTCTATGGGGGTA
1 TCCTAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTA-AGGGGTA
* *
12936730 TTTCGATCATTTTA
65 TTTTGGTCATTTTA
* ** * *
12936744 CCCTATGGGGTTATTTTGGTCATTTTACCCTA-CGAGGGTATTTTGATCATTTTACCCTACAGGG
1 TCCTA-GGGG-TATTTCAGTCATTTTACCCTATAG-GGGTATTTTGGTCATTTTACCCTA-AGGG
12936808 GTATTTTGGTCATTTTA
62 GTATTTTGGTCATTTTA
*
12936825 TCCTACGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGAGGGT
1 TCCTA-GGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTAAG-GGGT
12936890 ATTTTGGTCATTTTA
64 ATTTTGGTCATTTTA
12936905 T
1 T
12936906 TAACCTCACG
Statistics
Matches: 136, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
79 5 0.04
80 67 0.49
81 64 0.47
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (78 bp):
TCCTAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTAAGGGGTAT
TTTGGTCATTTTA
Found at i:12936876 original size:107 final size:108
Alignment explanation
Indices: 12936682--12936904 Score: 337
Period size: 107 Copynumber: 2.1 Consensus size: 108
12936672 GGTATAACAG
* *
12936682 TCATTTTACCCTATAGGGGAATTTCGGTCATTTTACTCTATGGGGGTATTTCGATCATTTTACCC
1 TCATTTTACCCTACAGGGGAATTTCGGTCATTTTACTCTATCGGGGTATTTCGATCATTTTACCC
12936747 TATGGGGTTATTTTGGTCATTTTACCCTACGAGGGTATTTTGA
66 TATGGGGTTATTTTGGTCATTTTACCCTACGAGGGTATTTTGA
* *
12936790 TCATTTTACCCTACAGGGGTATTTTGGTCATTTTA-TCCTA-CGGGGTATTTC-AGTCATTTTAC
1 TCATTTTACCCTACAGGGGAATTTCGGTCATTTTACT-CTATCGGGGTATTTCGA-TCATTTTAC
* *
12936852 CCTATAGGGG-TATTTTGGTCATTTTACCCTATGAGGGTATTTTGG
64 CCTAT-GGGGTTATTTTGGTCATTTTACCCTACGAGGGTATTTTGA
12936897 TCATTTTA
1 TCATTTTA
12936905 TTAACCTCAC
Statistics
Matches: 106, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
106 1 0.01
107 66 0.62
108 39 0.37
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (108 bp):
TCATTTTACCCTACAGGGGAATTTCGGTCATTTTACTCTATCGGGGTATTTCGATCATTTTACCC
TATGGGGTTATTTTGGTCATTTTACCCTACGAGGGTATTTTGA
Found at i:12944202 original size:16 final size:17
Alignment explanation
Indices: 12944166--12944203 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
12944156 AGTATTTCAT
*
12944166 GTCATAAATCATATACA
1 GTCATAAATCAAATACA
12944183 -TCATAAATCAAAT-CA
1 GTCATAAATCAAATACA
12944198 GTCATA
1 GTCATA
12944204 CATAACATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.29
Consensus pattern (17 bp):
GTCATAAATCAAATACA
Found at i:12944370 original size:81 final size:82
Alignment explanation
Indices: 12944254--12944474 Score: 331
Period size: 81 Copynumber: 2.7 Consensus size: 82
12944244 TATAATAGTC
* * * *
12944254 ATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTTTAAC-CT
1 ATTTTACCCTACAGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTAACGCT
12944318 ATGGGGGTATTTTGGTT
66 ATGGGGGTATTTTGGTT
* * * * *
12944335 ATTTTACCCTACAGGGGTATTTCGGTCAATCTACCCTACAAGGGTATTTTGGTCATTTT-ACGTT
1 ATTTTACCCTACAGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTAACGCT
12944399 ATGGGGGTATTTTGGTT
66 ATGGGGGTATTTTGGTT
*
12944416 ATTTTACCCTAC-GGGGTATTTTGGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTA
1 ATTTTACCCTACAGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTA
12944475 TTGACTTCAC
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 43 0.35
81 81 0.65
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (82 bp):
ATTTTACCCTACAGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTAACGCT
ATGGGGGTATTTTGGTT
Found at i:12944468 original size:27 final size:27
Alignment explanation
Indices: 12944251--12944474 Score: 243
Period size: 27 Copynumber: 8.3 Consensus size: 27
12944241 GGGTATAATA
12944251 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
* *
12944278 ATCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
* ** *
12944305 GTCATTTTAACCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* * *
12944332 GTTATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
* * * *
12944359 GTCAATCTACCCTACAAGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
** ** *
12944386 GTCATTTTACGTTATGGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* ** *
12944413 GTTATTTTACCCTA-CGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
12944439 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
12944466 GTCATTTTA
1 GTCATTTTA
12944475 TTGACTTCAC
Statistics
Matches: 165, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 24 0.15
27 141 0.85
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAAGGGTATTTCG
Found at i:12954055 original size:19 final size:19
Alignment explanation
Indices: 12954026--12954069 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
12954016 TGGGGCACAC
* *
12954026 GACCATGTGAAATCATGCA
1 GACCGTGTGAAATCAGGCA
*
12954045 GGCCGTGTGAAATCAGGCA
1 GACCGTGTGAAATCAGGCA
12954064 GACCGT
1 GACCGT
12954070 ATGGGTAGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.18
Consensus pattern (19 bp):
GACCGTGTGAAATCAGGCA
Found at i:12957500 original size:27 final size:28
Alignment explanation
Indices: 12957440--12957500 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
12957430 TAATATTGAA
*
12957440 TAGTAAATTTTAATTAAAAATTCAAAGT
1 TAGTAAAATTTAATTAAAAATTCAAAGT
* *
12957468 TGGTAAAATTTAA-T-AAAATTCAAAATT
1 TAGTAAAATTTAATTAAAAATTC-AAAGT
12957495 TAGTAA
1 TAGTAA
12957501 TAAAAATCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.25
27 10 0.36
28 11 0.39
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (28 bp):
TAGTAAAATTTAATTAAAAATTCAAAGT
Found at i:12959820 original size:16 final size:18
Alignment explanation
Indices: 12959794--12959826 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12959784 TAAATGTAAA
12959794 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
12959811 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
12959827 CACAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:12973374 original size:9 final size:9
Alignment explanation
Indices: 12973360--12973396 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
12973350 TCAGTTTAAT
12973360 ATGTGTTTA
1 ATGTGTTTA
12973369 ATGTGTTTA
1 ATGTGTTTA
12973378 ATGTGTTTTTA
1 ATGTG--TTTA
12973389 ATGTGTTT
1 ATGTGTTT
12973397 TGATTGTACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 17 0.65
11 9 0.35
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:12973378 original size:20 final size:20
Alignment explanation
Indices: 12973353--12973396 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
12973343 TGCTTATTCA
12973353 GTTTAATATGTGTTTAATGT
1 GTTTAATATGTGTTTAATGT
* *
12973373 GTTTAATGTGTTTTTAATGT
1 GTTTAATATGTGTTTAATGT
12973393 GTTT
1 GTTT
12973397 TGATTGTACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.59
Consensus pattern (20 bp):
GTTTAATATGTGTTTAATGT
Found at i:12973391 original size:11 final size:11
Alignment explanation
Indices: 12973354--12973397 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
12973344 GCTTATTCAG
* *
12973354 TTTAATATGTG
1 TTTAATGTGTT
12973365 TTTAATGTG--
1 TTTAATGTGTT
12973374 TTTAATGTGTT
1 TTTAATGTGTT
12973385 TTTAATGTGTT
1 TTTAATGTGTT
12973396 TT
1 TT
12973398 GATTGTACGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 9 0.30
11 21 0.70
ACGTcount: A:0.20, C:0.00, G:0.18, T:0.61
Consensus pattern (11 bp):
TTTAATGTGTT
Found at i:12973544 original size:24 final size:23
Alignment explanation
Indices: 12973508--12973590 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
12973498 CAAAGGGCTA
*
12973508 TTACATCAATTAAATGAGAGCATT
1 TTACATCATTTAAA-GAGAGCATT
12973532 TTACATCATTTAAAG-GAG--TT
1 TTACATCATTTAAAGAGAGCATT
* *
12973552 GTTACGTCATGTAAAAGAGAGCATT
1 -TTACATCAT-TTAAAGAGAGCATT
* *
12973577 ATACATCCTTTAAA
1 TTACATCATTTAAA
12973591 ATTCGGCAGC
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
20 2 0.04
21 8 0.17
22 8 0.17
23 8 0.17
24 19 0.40
25 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (23 bp):
TTACATCATTTAAAGAGAGCATT
Found at i:12980232 original size:50 final size:50
Alignment explanation
Indices: 12980135--12980251 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 50
12980125 GTTATCAGAG
* * * *
12980135 GTCCCACGTAAGACCATTTCTGAGACATGGCATTGGTACCGAGATGAGAT
1 GTCCCACGTAAGACCATGTCTGAGACATGGCATGGGCACCGAAATGAGAT
* * *
12980185 GTCCCCCGTAAGACCATGTCTG-GCACATGGCATGGGCACGGAAATGAGAA
1 GTCCCACGTAAGACCATGTCTGAG-ACATGGCATGGGCACCGAAATGAGAT
* * *
12980235 CTCTCATGTAAGACCAT
1 GTCCCACGTAAGACCAT
12980252 ATCTAGGATA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 1 0.02
50 54 0.98
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (50 bp):
GTCCCACGTAAGACCATGTCTGAGACATGGCATGGGCACCGAAATGAGAT
Found at i:12985544 original size:386 final size:387
Alignment explanation
Indices: 12984820--12985592 Score: 1539
Period size: 386 Copynumber: 2.0 Consensus size: 387
12984810 AGAACAGGGG
12984820 ACTTCAAAAACCATTCTGACCCTGTCTCACTAGAATTTAAATATTACAAAATATAATTTTTTTTT
1 ACTTCAAAAACCATTCTGACCCTGTCTCACTAGAATTTAAATATTACAAAATATAATTTTTTTTT
12984885 GCCTACATCGTTTAATTCATGTTAAAAAAGACTCGATAAGCTTTAATTCTATATCTCATTAACTC
66 GCCTACATCGTTTAATTCATGTTAAAAAAGACTCGATAAGCTTTAATTCTATATCTCATTAACTC
12984950 TCTAATTTCATTTCTACTATTTTTGGTGATTTTTCAAAGTCACGTCAATGCTGCTGTCCAAAAAT
131 TCTAATTTCATTTCTACTATTTTTGGTGATTTTTCAAAGTCACGTCAATGCTGCTGTCCAAAAAT
12985015 TGTTCTATTGTAATTTTTTTACTATTTTATAATTTCTTTGTATTAACTATCATTTAGGCATACAT
196 TGTTCTATTGTAATTTTTTTACTATTTTATAATTTCTTTGTATTAACTATCATTTAGGCATACAT
12985080 AACACCAAAACATGTTCTTAAAAATCCATTTCAATAGTTAATCATTATAGAATATTTACATGCTA
261 AACACCAAAACATGTTCTTAAAAATCCATTTCAATAGTTAATCATTATAGAATATTTACATGCTA
12985145 TTAATTAGCCATATCATAAGGACACACACACAAAACAACTAAGTCCCTACACATGCCATAAC
326 TTAATTAGCCATATCATAAGGACACACACACAAAACAACTAAGTCCCTACACATGCCATAAC
12985207 ACTTCAAAAA-CATTCTGACCCTGTCTCACTAGAATTTAAATATTACAAAATATAATTTTTTTTT
1 ACTTCAAAAACCATTCTGACCCTGTCTCACTAGAATTTAAATATTACAAAATATAATTTTTTTTT
12985271 GCCTACATCGTTTAATTCATGTTAAAAAAGACTCGATAAGCTTTAATTCTATATCTCATTAACTC
66 GCCTACATCGTTTAATTCATGTTAAAAAAGACTCGATAAGCTTTAATTCTATATCTCATTAACTC
12985336 TCTAATTTCATTTCTACTATTTTTGGTGATTTTTCAAAGTCACGTCAATGCTGCTGTCCAAAAAT
131 TCTAATTTCATTTCTACTATTTTTGGTGATTTTTCAAAGTCACGTCAATGCTGCTGTCCAAAAAT
12985401 TGTTCTATTGTAATTTTTTTACTATTTTATAATTTCTTTGTATTAACTATCATTTAGGCATACAT
196 TGTTCTATTGTAATTTTTTTACTATTTTATAATTTCTTTGTATTAACTATCATTTAGGCATACAT
12985466 AACACCAAAACATGTTCTTAAAAATCCATTTCAATAGTTAATCATTATAGAATATTTACATGCTA
261 AACACCAAAACATGTTCTTAAAAATCCATTTCAATAGTTAATCATTATAGAATATTTACATGCTA
12985531 TTAATTAGCCATATCATAAGGACACACACACAAAACAACTAAGTCCCTACACATGCCATAAC
326 TTAATTAGCCATATCATAAGGACACACACACAAAACAACTAAGTCCCTACACATGCCATAAC
12985593 TTAAAACATT
Statistics
Matches: 386, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
386 376 0.97
387 10 0.03
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (387 bp):
ACTTCAAAAACCATTCTGACCCTGTCTCACTAGAATTTAAATATTACAAAATATAATTTTTTTTT
GCCTACATCGTTTAATTCATGTTAAAAAAGACTCGATAAGCTTTAATTCTATATCTCATTAACTC
TCTAATTTCATTTCTACTATTTTTGGTGATTTTTCAAAGTCACGTCAATGCTGCTGTCCAAAAAT
TGTTCTATTGTAATTTTTTTACTATTTTATAATTTCTTTGTATTAACTATCATTTAGGCATACAT
AACACCAAAACATGTTCTTAAAAATCCATTTCAATAGTTAATCATTATAGAATATTTACATGCTA
TTAATTAGCCATATCATAAGGACACACACACAAAACAACTAAGTCCCTACACATGCCATAAC
Found at i:12985842 original size:12 final size:12
Alignment explanation
Indices: 12985817--12985855 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12985807 CTTTGCTTCT
* *
12985817 TTACTTACTCAC
1 TTACTTGCTTAC
*
12985829 TTACTTGTTTAC
1 TTACTTGCTTAC
12985841 TTACTTGCTTAC
1 TTACTTGCTTAC
12985853 TTA
1 TTA
12985856 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:12986179 original size:50 final size:50
Alignment explanation
Indices: 12986104--12986296 Score: 179
Period size: 50 Copynumber: 3.7 Consensus size: 50
12986094 TTTTCTGTAT
* * * ** *
12986104 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCAG
* * * *
12986154 TGCCCATGCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCAG
* * * * *
12986204 TACCAACGCCATGTCCCAGACATGGTCTCACGTGGGACCTCTTATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT-A--TC---AG
* *
12986260 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGA
12986297 TCTCATCCCT
Statistics
Matches: 113, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
50 78 0.69
53 2 0.02
56 33 0.29
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCAG
Found at i:12986998 original size:69 final size:69
Alignment explanation
Indices: 12986887--12987026 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
12986877 TAATTTCAAG
12986887 CTTCATATTATACCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATG
1 CTTCATATTATACCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATG
*
12986952 ATCT
66 AACT
*
12986956 CTTCATATTCTACCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATG
1 CTTCATATTATACCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATG
12987021 AACT
66 AACT
12987025 CT
1 CT
12987027 AACATGAATT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (69 bp):
CTTCATATTATACCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATG
AACT
Found at i:12991235 original size:50 final size:49
Alignment explanation
Indices: 12991178--12991299 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 49
12991168 TCCCAAATAC
* *
12991178 GACCATGTCTGGGACATGGCGTTGG-TACCGAGATGAGAGGTCTCCC-GTAA
1 GACCATGTCTGGGACATGGC-ATGGCCACCGAGATGAGA--TCTCCCAGTAA
* *
12991228 GACCATGTCTGGCACATGGCATGGCCACCGATATGAGATCTCCCATGTAA
1 GACCATGTCTGGGACATGGCATGGCCACCGAGATGAGATCTCCCA-GTAA
* *
12991278 GACCATATCTGGGATATGGCAT
1 GACCATGTCTGGGACATGGCAT
12991300 TTGCAGTACC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
48 6 0.10
49 3 0.05
50 53 0.85
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.23
Consensus pattern (49 bp):
GACCATGTCTGGGACATGGCATGGCCACCGAGATGAGATCTCCCAGTAA
Found at i:12993349 original size:11 final size:11
Alignment explanation
Indices: 12993303--12993367 Score: 75
Period size: 11 Copynumber: 6.2 Consensus size: 11
12993293 GCTTATTAAA
*
12993303 TTTAATATGTGT
1 TTTAATGTGT-T
*
12993315 TTAAATGTG--
1 TTTAATGTGTT
12993324 TTTAATGTG--
1 TTTAATGTGTT
12993333 TTTAATGTGTT
1 TTTAATGTGTT
12993344 TTTAATGTGTT
1 TTTAATGTGTT
12993355 TTTAATGTGTT
1 TTTAATGTGTT
12993366 TT
1 TT
12993368 GATTATAGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
9 17 0.35
11 24 0.50
12 7 0.15
ACGTcount: A:0.22, C:0.00, G:0.18, T:0.60
Consensus pattern (11 bp):
TTTAATGTGTT
Found at i:13003400 original size:22 final size:22
Alignment explanation
Indices: 13003362--13003405 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13003352 AAAGTCTAAA
*
13003362 TATTTATTTATTCATTTGTTTT
1 TATTTATTTATTCATTTATTTT
*
13003384 TATTTATTT-TTAGATTTATTTT
1 TATTTATTTATT-CATTTATTTT
13003406 CTTTTGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (22 bp):
TATTTATTTATTCATTTATTTT
Found at i:13004217 original size:19 final size:20
Alignment explanation
Indices: 13004193--13004231 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
13004183 GTGTAGACCC
*
13004193 CCACACGGCC-TAGGCACTT
1 CCACACAGCCGTAGGCACTT
*
13004212 CCACACAGCCGTAGGGACTT
1 CCACACAGCCGTAGGCACTT
13004232 ATGTTGCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (20 bp):
CCACACAGCCGTAGGCACTT
Found at i:13004747 original size:38 final size:38
Alignment explanation
Indices: 13004671--13004749 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
13004661 TGGTGTGTAG
* *
13004671 GGTTGGATGGGCCTTCCAAAGTCATATGTGGTATGCAT
1 GGTTGGATGGGCCTTCCAAAGTCATATGTGGGACGCAT
* *
13004709 GGTTGGATGGG-CTT-GAATAGCTCATATGTGGGGCGCAT
1 GGTTGGATGGGCCTTCCAA-AG-TCATATGTGGGACGCAT
13004747 GGT
1 GGT
13004750 GATCAGAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 2 0.06
37 5 0.14
38 28 0.80
ACGTcount: A:0.19, C:0.14, G:0.37, T:0.30
Consensus pattern (38 bp):
GGTTGGATGGGCCTTCCAAAGTCATATGTGGGACGCAT
Found at i:13022837 original size:39 final size:39
Alignment explanation
Indices: 13022794--13022908 Score: 196
Period size: 39 Copynumber: 2.9 Consensus size: 39
13022784 AACATGTTTT
*
13022794 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
13022833 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
13022872 TGAGTATTGTGATATATGCCTAAAAT-TTATGTGATTA
1 TGAGTATTGTGATATATG-CTTAAATGTTATGTGATTA
13022909 ATGTGGACAT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
39 67 0.92
40 6 0.08
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:13025403 original size:12 final size:12
Alignment explanation
Indices: 13025383--13025412 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13025373 CTAATTTGCC
*
13025383 ATCAATTATCCA
1 ATCACTTATCCA
13025395 ATCACTTATCCA
1 ATCACTTATCCA
13025407 ATCACT
1 ATCACT
13025413 GAAAACAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (12 bp):
ATCACTTATCCA
Found at i:13029824 original size:182 final size:182
Alignment explanation
Indices: 13029517--13029886 Score: 659
Period size: 182 Copynumber: 2.0 Consensus size: 182
13029507 ATGTTTTCTT
*
13029517 TCTTTAACACATCCATCATAATAAGGTTCAGTCTCTATTGTCTATCAATCATCCATTTCTGACCA
1 TCTTTAACACATCCATCATAATAAGGTTCAGTCACTATTGTCTATCAATCATCCATTTCTGACCA
*
13029582 TATTCTAAGATGATCTTGTGCATGTACATGAATAGACTAATACCAAGAATATCAACTATGGTCCA
66 TATTCTAAGATGATCTTGTGCATGTACACGAATAGACTAATACCAAGAATATCAACTATGGTCCA
* *
13029647 TCTGGTAGCCTTCTTGAATTGTTTCAGCACTAAAATAAGTTTATCTTCTTGA
131 TCTAGTAGCCTTCTTGAATTGTTTCAGCACTAAAATAAGTTTATCTTATTGA
* *
13029699 TCTTTAACACATCCATCATAATAGGGTTCAGTCACTATTGTCTATCAATCATCCATTTCTTACCA
1 TCTTTAACACATCCATCATAATAAGGTTCAGTCACTATTGTCTATCAATCATCCATTTCTGACCA
* *
13029764 TATTCTAAGATGATCTTGTGCATGTACACGGATGGACTAATACCAAGAATATCAACTATGGTCCA
66 TATTCTAAGATGATCTTGTGCATGTACACGAATAGACTAATACCAAGAATATCAACTATGGTCCA
13029829 TCTAGTAGCCTTCTTGAATTGTTTCAGCACTAAAATAAGTTTATCTTATTGA
131 TCTAGTAGCCTTCTTGAATTGTTTCAGCACTAAAATAAGTTTATCTTATTGA
*
13029881 CCTTTA
1 TCTTTA
13029887 GTTAAATCTA
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
182 179 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (182 bp):
TCTTTAACACATCCATCATAATAAGGTTCAGTCACTATTGTCTATCAATCATCCATTTCTGACCA
TATTCTAAGATGATCTTGTGCATGTACACGAATAGACTAATACCAAGAATATCAACTATGGTCCA
TCTAGTAGCCTTCTTGAATTGTTTCAGCACTAAAATAAGTTTATCTTATTGA
Found at i:13038958 original size:15 final size:16
Alignment explanation
Indices: 13038938--13038967 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13038928 AGTACTAATA
13038938 ATAAAA-GAAAATAAC
1 ATAAAAGGAAAATAAC
13038953 ATAAAAGGAAAATAA
1 ATAAAAGGAAAATAA
13038968 GTTTCAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.13
Consensus pattern (16 bp):
ATAAAAGGAAAATAAC
Found at i:13044002 original size:29 final size:29
Alignment explanation
Indices: 13043956--13044013 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
13043946 TTTCAAATGT
13043956 AGTTTATATCCTCGATTTGTTGATACTTA
1 AGTTTATATCCTCGATTTGTTGATACTTA
*
13043985 AGTTTATATCCTCTATTTGTTGATACTTA
1 AGTTTATATCCTCGATTTGTTGATACTTA
13044014 TCATCCTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.50
Consensus pattern (29 bp):
AGTTTATATCCTCGATTTGTTGATACTTA
Found at i:13058554 original size:27 final size:27
Alignment explanation
Indices: 13058524--13058610 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
13058514 TCAACTCTTA
*
13058524 GGGTGTAATAGTCATTTTACCCTTCGC
1 GGGTATAATAGTCATTTTACCCTTCGC
** **
13058551 GGGTATTTTAGTCATTTTACCCTTCAA
1 GGGTATAATAGTCATTTTACCCTTCGC
* * *
13058578 GGGTAT-TTCAGTCATTTTATCCTTCGA
1 GGGTATAAT-AGTCATTTTACCCTTCGC
13058605 GGGTAT
1 GGGTAT
13058611 TTCAAACATT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 50 0.96
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATAATAGTCATTTTACCCTTCGC
Found at i:13058890 original size:27 final size:27
Alignment explanation
Indices: 13058535--13058892 Score: 415
Period size: 27 Copynumber: 13.3 Consensus size: 27
13058525 GGTGTAATAG
* *
13058535 TCATTTTACCCTTCGCGGGTATTT-TA
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
13058561 GTCATTTTACCCTTCAAGGGTATTTC-A
1 -TCATTTTACCCTTCGAGGGTATTTCGA
* *
13058588 GTCATTTTATCCTTCGAGGGTATTTCAA
1 -TCATTTTACCCTTCGAGGGTATTTCGA
* * * *
13058616 ACATTTTACCATTTGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
13058643 TCATTTTACCTTTCG-GGGCTAATTTTG-
1 TCATTTTACCCTTCGAGGG-T-ATTTCGA
13058670 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
13058697 TCATTTTA-CCTGTCTAGGGTATTTCGG
1 TCATTTTACCCT-TCGAGGGTATTTCGA
*
13058724 TCATTTTACCCTTC-ATGGGTATTTCGG
1 TCATTTTACCCTTCGA-GGGTATTTCGA
*
13058751 TCAATTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
13058778 TCATTTTACCCTTCAAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
13058805 TCATTTTACCCTTCGGGGGT-TTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
13058831 TCAGTTTACCCTTCGAGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
13058858 TCATTTTACCCGTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
13058885 TTATTTTA
1 TCATTTTA
13058893 GGCCCATTAC
Statistics
Matches: 287, Mismatches: 33, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
26 35 0.12
27 239 0.83
28 13 0.05
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCGA
Found at i:13065124 original size:21 final size:21
Alignment explanation
Indices: 13065080--13065124 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13065070 CTTCAAAAAT
*
13065080 AATTCAAAATAGTTTTTCATA
1 AATTCAAAATAGTTTTTCAAA
* * *
13065101 AATTCCAAATATTTTTTTAAA
1 AATTCAAAATAGTTTTTCAAA
13065122 AAT
1 AAT
13065125 CATTCCATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTCAAAATAGTTTTTCAAA
Found at i:13065758 original size:28 final size:28
Alignment explanation
Indices: 13065727--13065821 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 28
13065717 CCTAAGCCTT
* * *
13065727 ATACAGCAATAGTGTGGGCCATAACTCA
1 ATACAGTAACAGTGTGGGCCATAACCCA
* * *
13065755 ATACAGTAACAGTGTAGGCCTTAGCCCA
1 ATACAGTAACAGTGTGGGCCATAACCCA
* * **
13065783 ATACAGTAACAGCGTGGGCCTTAGTCCA
1 ATACAGTAACAGTGTGGGCCATAACCCA
*
13065811 ATACATTAACA
1 ATACAGTAACA
13065822 ATACAATGCT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (28 bp):
ATACAGTAACAGTGTGGGCCATAACCCA
Found at i:13065959 original size:26 final size:26
Alignment explanation
Indices: 13065930--13065994 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
13065920 CACCAATATC
* *
13065930 GCAGCAAAGTTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAATAATAGTGAT
*
13065956 GCAGTAAAGCTGCCAATAATAGTGAT
1 GCAGCAAAGCTGCCAATAATAGTGAT
*
13065982 GCAGCAAAACTGC
1 GCAGCAAAGCTGC
13065995 TAGTAACTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAATAATAGTGAT
Found at i:13066202 original size:27 final size:27
Alignment explanation
Indices: 13066178--13066617 Score: 536
Period size: 27 Copynumber: 16.4 Consensus size: 27
13066168 AGGGGTATAA
13066178 CAGTCATTTTACCCTTC-AGGCGTATTT
1 CAGTCATTTTACCCTTCGAGG-GTATTT
*
13066205 CAGTCATTTTACCCTTCGAGGTTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
13066232 CAATCATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * *
13066259 CAATTATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * *
13066286 CAATTATTTTACCCTTCAAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
**
13066313 CAGTCATTTTA-CCTTTTAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
**
13066339 CAGTCATTTTACCCTTCGAGGAAATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
13066366 -TGATCATTTTACCCTTCTG-GGGTATTT
1 CAG-TCATTTTACCCTTC-GAGGGTATTT
* *
13066393 CGGTCATTTTACCGTTCGAGGGTACTTT
1 CAGTCATTTTACCCTTCGAGGGTA-TTT
*
13066421 -GGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
13066447 CAGTCATTTTA--CTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
13066472 CAGTCATTTTACCCTTTGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
13066499 CGGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
13066526 CAGTCATTTTACCCTTTGAGAGG-ATTT
1 CAGTCATTTTACCCTTCGAG-GGTATTT
*
13066553 CGGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * * *
13066580 CGGTTAGTTTACCCTTTGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
**
13066607 TGGTCATTTTA
1 CAGTCATTTTA
13066618 GGCCCATTAC
Statistics
Matches: 366, Mismatches: 35, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
25 25 0.07
26 31 0.08
27 300 0.82
28 10 0.03
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:13069741 original size:29 final size:29
Alignment explanation
Indices: 13069704--13069779 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
13069694 TAAACGCCGG
* * *
13069704 TACAAAGTACCTGATAATGTAATCACTGA
1 TACATAGTACCTGATAATATAAACACTGA
*
13069733 TACATAGTACCTGATAATATAAACACTGG
1 TACATAGTACCTGATAATATAAACACTGA
* * *
13069762 CACATAGTGCCTAATAAT
1 TACATAGTACCTGATAAT
13069780 CCCTAATGAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (29 bp):
TACATAGTACCTGATAATATAAACACTGA
Found at i:13073979 original size:16 final size:15
Alignment explanation
Indices: 13073960--13074001 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
13073950 CTAAATATAA
13073960 GTTGTTCAAAACAATG
1 GTTGTTCAAAAC-ATG
*
13073976 GTTGTTCTAAACATG
1 GTTGTTCAAAACATG
*
13073991 GTTATTCAAAA
1 GTTGTTCAAAA
13074002 AATTCCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (15 bp):
GTTGTTCAAAACATG
Found at i:13073993 original size:15 final size:15
Alignment explanation
Indices: 13073946--13073993 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
13073936 AAAAAACAGA
* *
13073946 TGTTCTAAATATAAGT
1 TGTTCTAAACAT-GGT
*
13073962 TGTTCAAAACAATGGT
1 TGTTCTAAAC-ATGGT
13073978 TGTTCTAAACATGGT
1 TGTTCTAAACATGGT
13073993 T
1 T
13073994 ATTCAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 6 0.22
16 19 0.70
17 2 0.07
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (15 bp):
TGTTCTAAACATGGT
Found at i:13075439 original size:10 final size:10
Alignment explanation
Indices: 13075426--13075450 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13075416 TAATGAAAGT
13075426 TTAAACAAAA
1 TTAAACAAAA
13075436 TTAAACAAAA
1 TTAAACAAAA
13075446 TTAAA
1 TTAAA
13075451 GAATGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (10 bp):
TTAAACAAAA
Found at i:13076429 original size:21 final size:21
Alignment explanation
Indices: 13076403--13076444 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13076393 TCGGGTGGAC
*
13076403 CAGCTCTTATGAGCTTCTGTT
1 CAGCTCTTATGAGCATCTGTT
*
13076424 CAGCTCTTTTGAGCATCTGTT
1 CAGCTCTTATGAGCATCTGTT
13076445 GGCTTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (21 bp):
CAGCTCTTATGAGCATCTGTT
Found at i:13076482 original size:39 final size:40
Alignment explanation
Indices: 13076423--13076520 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
13076413 GAGCTTCTGT
* * * * *
13076423 TCAGCTCTTTTGAGCATCTG-TTGGCTTGTTTTGGGTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGGTGGA
*
13076462 -CTAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGTTGGA
1 TC-AGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGGTGGA
13076502 TCAGCTCTTATGAGCTTCT
1 TCAGCTCTTATGAGCTTCT
13076521 CTCTGGTGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.02
39 16 0.32
40 32 0.64
41 1 0.02
ACGTcount: A:0.12, C:0.18, G:0.27, T:0.43
Consensus pattern (40 bp):
TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGGTGGA
Found at i:13079139 original size:16 final size:19
Alignment explanation
Indices: 13079113--13079150 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
13079103 TTAAATTAAC
13079113 TAAATTAA-TTTCTCAA-T
1 TAAATTAATTTTCTCAACT
13079130 TAAA-TAATTTTCTCAACT
1 TAAATTAATTTTCTCAACT
13079148 TAA
1 TAA
13079151 TTCTAATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 12 0.63
18 4 0.21
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATTAATTTTCTCAACT
Found at i:13079288 original size:14 final size:13
Alignment explanation
Indices: 13079243--13079294 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
13079233 CATAATAACT
*
13079243 AATTAATTTAATTA
1 AATT-ATTTAATTC
13079257 AATT-TTTAAAATTC
1 AATTATTT--AATTC
13079271 AATTATTTAATTC
1 AATTATTTAATTC
13079284 TAATTATTTAA
1 -AATTATTTAA
13079295 ATAATAATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 3 0.09
13 5 0.15
14 22 0.67
15 3 0.09
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTATTTAATTC
Found at i:13080201 original size:263 final size:262
Alignment explanation
Indices: 13079734--13080262 Score: 959
Period size: 263 Copynumber: 2.0 Consensus size: 262
13079724 GTATTGTTTT
* *
13079734 AAAATGTATGGATCGACGTCGCGACTTCATCTAGTTCTCTTCACGTTGTTGCCATCACAATATGT
1 AAAATGTATGGATCGACGTCGCGACTTCATCTAGTTCTATTCACGTTGTGGCCATCACAATATGT
** *
13079799 CATGTCATAGTGACAAGCCCTAGCTCATCACGACGTCACTCACTGTAATTACAACATTGTGACAT
66 CATGTCATAACGACAAGCCCTAGCTCATCACGACGTCACTCACTGTAATGACAACATTGTGACAT
13079864 CCAAAATCTGAGGTTGTGACGTGGCCCTTACTTTTGGTAAAAATGAACCATTTAGTGACTATTTC
131 CCAAAATCTGAGGTTGTGACGTGGCCCTTACTTTTGGTAAAAATGAACCATTTAGTGACTATTTC
*
13079929 ATAATCTCCAACCAAACCATACAACATATACAGCCAAAAACCAATTTTAATTGAATCAAAACATG
196 ATAATCTCCAACCAAACCATACAACATATACAG-CAAAAACCAATTTTAATTGAATCAAAACATA
13079994 CCA
260 CCA
*
13079997 AAAATGTATGGATCGACGTCGTGACTTCATCTAGTTCTATTCACGTTGTGGCCATCACAATATGT
1 AAAATGTATGGATCGACGTCGCGACTTCATCTAGTTCTATTCACGTTGTGGCCATCACAATATGT
*
13080062 CATGTCATAACGACAAGCCCTAGCTCGTCACGACGTCACTCACTGTAATGACAACATTGTGACAT
66 CATGTCATAACGACAAGCCCTAGCTCATCACGACGTCACTCACTGTAATGACAACATTGTGACAT
* *
13080127 CCAAAATCTGAGGTTGTGATGTGGCCCTTACTTTTGGTAAAAATGAACCATTTTGTGACTATTTC
131 CCAAAATCTGAGGTTGTGACGTGGCCCTTACTTTTGGTAAAAATGAACCATTTAGTGACTATTTC
13080192 ATAATCTCCAACCAAACCATACAACATATACAGCAAAAACCAATTTTAATTGAATCAAAACATAC
196 ATAATCTCCAACCAAACCATACAACATATACAGCAAAAACCAATTTTAATTGAATCAAAACATAC
13080257 CA
261 CA
13080259 AAAA
1 AAAA
13080263 CATGCCAAAT
Statistics
Matches: 256, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
262 37 0.14
263 219 0.86
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (262 bp):
AAAATGTATGGATCGACGTCGCGACTTCATCTAGTTCTATTCACGTTGTGGCCATCACAATATGT
CATGTCATAACGACAAGCCCTAGCTCATCACGACGTCACTCACTGTAATGACAACATTGTGACAT
CCAAAATCTGAGGTTGTGACGTGGCCCTTACTTTTGGTAAAAATGAACCATTTAGTGACTATTTC
ATAATCTCCAACCAAACCATACAACATATACAGCAAAAACCAATTTTAATTGAATCAAAACATAC
CA
Found at i:13094927 original size:24 final size:26
Alignment explanation
Indices: 13094889--13094936 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
13094879 TCCTTTTCAT
*
13094889 GTTTATTTCCTA-TT-TTTAGTTTTA
1 GTTTATTTCCGATTTATTTAGTTTTA
*
13094913 GTTTATTTTCGATTTATTTAGTTT
1 GTTTATTTCCGATTTATTTAGTTT
13094937 GCTTGAGGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 2 0.10
26 8 0.40
ACGTcount: A:0.17, C:0.06, G:0.10, T:0.67
Consensus pattern (26 bp):
GTTTATTTCCGATTTATTTAGTTTTA
Found at i:13106870 original size:16 final size:18
Alignment explanation
Indices: 13106844--13106876 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13106834 TTAAATTAAC
13106844 TAAATTAATTT-CTCAAT
1 TAAATTAATTTCCTCAAT
13106861 TAAA-TAATTTCCTCAA
1 TAAATTAATTTCCTCAA
13106877 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATTAATTTCCTCAAT
Found at i:13120502 original size:95 final size:95
Alignment explanation
Indices: 13120392--13120575 Score: 252
Period size: 96 Copynumber: 1.9 Consensus size: 95
13120382 TAAATGGCGG
13120392 GAATAAATCCCGAAACAGATTTTA-TTTTA-TTTAATTTC-TCGTTTTTGGTAACA-AAATC-AA
1 GAATAAATCCCGAAACAGATTTTATTTTTACTTTAATTTCAT-G--TTTGG-AA-ATAAATCAAA
* *
13120452 AATGTAATAACTCCATTGAACGGCGAGATTTACGA
61 AATGGAATAAATCCATTGAACGGCGAGATTTACGA
*
13120487 GAATAAATCCTGAAACAGATTTTATTTTTACTTTAATTTCATGTTTGGAAATAAATCAAAAAATG
1 GAATAAATCCCGAAACAGATTTTATTTTTACTTTAATTTCATGTTTGGAAATAAATC-AAAAATG
13120552 GAATAAATCCATTGAACGGCGAGA
65 GAATAAATCCATTGAACGGCGAGA
13120576 ATAAATCCCG
Statistics
Matches: 80, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
93 1 0.01
94 7 0.09
95 28 0.35
96 33 0.41
97 10 0.12
98 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (95 bp):
GAATAAATCCCGAAACAGATTTTATTTTTACTTTAATTTCATGTTTGGAAATAAATCAAAAATGG
AATAAATCCATTGAACGGCGAGATTTACGA
Found at i:13121868 original size:464 final size:464
Alignment explanation
Indices: 13121000--13121931 Score: 1747
Period size: 464 Copynumber: 2.0 Consensus size: 464
13120990 GTTGAAATCG
*
13121000 AAAACAAGAGTAGAGATTTACAAAACATTGAGGCCTGTTTAACACAGTCTCCTTAAGACAGATAC
1 AAAACAAGAGTAGAGATGTACAAAACATTGAGGCCTGTTTAACACAGTCTCCTTAAGACAGATAC
*
13121065 GACCGCTCCTACGGTACTTGGAGAAATGTTGGTCGAATGCCTCCCAGGATACAACAACACAATGA
66 AACCGCTCCTACGGTACTTGGAGAAATGTTGGTCGAATGCCTCCCAGGATACAACAACACAATGA
*
13121130 TCAAAGCAGCAGCACCTCTACAGCAATCAATGAACAGACGATGCAGTTTTCTATCACCGGAACAT
131 TCAAAGCAGCAGCACCTCTACAGCAATCAATGAACAGACGATGCAGTTTTCTATCACCAGAACAT
13121195 ATGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGAAACAAAAATTTGGTGTGAGAGAATATG
196 ATGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGAAACAAAAATTTGGTGTGAGAGAATATG
13121260 AGAGAGTGTTCAATTCTACAAAATTCATAGCCTTTTATAGGCATAGAGAATGTTGGAATTTTGGA
261 AGAGAGTGTTCAATTCTACAAAATTCATAGCCTTTTATAGGCATAGAGAATGTTGGAATTTTGGA
13121325 AATTTCCACAAAATCTGCCATTAAGGAGCCAATAAATCAATCTGATTGAAAACTATGTCAAATTG
326 AATTTCCACAAAATCTGCCATTAAGGAGCCAATAAATCAATCTGATTGAAAACTATGTCAAATTG
* * *
13121390 ATTGGAATCAAATGAATAAGATAAATGTCCTTATATAAAGATTATGTCTGTTGAAGAAAATTTCG
391 ATTGGAATCAAATGAATAAGATAAACGTCCTTATATAAACATTATGTCTGCTGAAGAAAATTTCG
13121455 TGTTGGGCT
456 TGTTGGGCT
*
13121464 AAAACAAGAGTAGAGATGTACAAAACATTGAGGCCTGTTTAACATAGTCTCCTTAAGACAGATAC
1 AAAACAAGAGTAGAGATGTACAAAACATTGAGGCCTGTTTAACACAGTCTCCTTAAGACAGATAC
* *
13121529 AACTGCTCCTACGGTACTTGGAGAAATGTTGGTTGAATGCCTCCCAGGATACAACAACACAATGA
66 AACCGCTCCTACGGTACTTGGAGAAATGTTGGTCGAATGCCTCCCAGGATACAACAACACAATGA
* *
13121594 TCAAAGCAGCAGCACCTCTACAGCAATTAATGAACAGACGATGCATTTTTCTATCACCAGAACAT
131 TCAAAGCAGCAGCACCTCTACAGCAATCAATGAACAGACGATGCAGTTTTCTATCACCAGAACAT
*
13121659 TTGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGAAACAAAAATTTGGTGTGAGAGAATATG
196 ATGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGAAACAAAAATTTGGTGTGAGAGAATATG
13121724 AGAGAGTGTTCAATTCTACAAAATTCATAGCCTTTTATAGGCATAGAGAATGTTGGAATTTTGGA
261 AGAGAGTGTTCAATTCTACAAAATTCATAGCCTTTTATAGGCATAGAGAATGTTGGAATTTTGGA
*
13121789 AATTTCCACAAAATCTGCCATTAAGGAGCCAATAAATCAATCTGATTGAAAATTATGTCAAATTG
326 AATTTCCACAAAATCTGCCATTAAGGAGCCAATAAATCAATCTGATTGAAAACTATGTCAAATTG
13121854 ATTGGAATCAAATGAATAAGATAAACGTCCTTATATAAACATTATGTCTGCTGAAGAAAATTTCG
391 ATTGGAATCAAATGAATAAGATAAACGTCCTTATATAAACATTATGTCTGCTGAAGAAAATTTCG
13121919 TGTTGGGCT
456 TGTTGGGCT
13121928 AAAA
1 AAAA
13121932 TATCGCAAGC
Statistics
Matches: 455, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
464 455 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (464 bp):
AAAACAAGAGTAGAGATGTACAAAACATTGAGGCCTGTTTAACACAGTCTCCTTAAGACAGATAC
AACCGCTCCTACGGTACTTGGAGAAATGTTGGTCGAATGCCTCCCAGGATACAACAACACAATGA
TCAAAGCAGCAGCACCTCTACAGCAATCAATGAACAGACGATGCAGTTTTCTATCACCAGAACAT
ATGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGAAACAAAAATTTGGTGTGAGAGAATATG
AGAGAGTGTTCAATTCTACAAAATTCATAGCCTTTTATAGGCATAGAGAATGTTGGAATTTTGGA
AATTTCCACAAAATCTGCCATTAAGGAGCCAATAAATCAATCTGATTGAAAACTATGTCAAATTG
ATTGGAATCAAATGAATAAGATAAACGTCCTTATATAAACATTATGTCTGCTGAAGAAAATTTCG
TGTTGGGCT
Found at i:13128693 original size:48 final size:48
Alignment explanation
Indices: 13128634--13128878 Score: 292
Period size: 48 Copynumber: 5.1 Consensus size: 48
13128624 TACTATGCTT
* * * * * *
13128634 ACCGATGTTCTGTCATGACACAAGAGTGGCACGGACTATGTGTAGGCC
1 ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
* *
13128682 ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTATGCAGGTC
1 ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
*
13128730 ATCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
1 ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
* * * * *
13128778 TCCAATAATCTGTTAAGATACAAGGGTGGCACGGACTATGTGCAGGCC
1 ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
* * * * * * * *
13128826 ACTGAAAATCTGTTATTACACAAAGGAGGTACGGACTGTGTGCAGGCC
1 ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
13128874 ACCGA
1 ACCGA
13128879 GAAATCTGTT
Statistics
Matches: 168, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 168 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
Found at i:13139339 original size:48 final size:48
Alignment explanation
Indices: 13139268--13139363 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
13139258 GAGTATGTGA
* *
13139268 GGTTGAGTTGAAGAATGAATAGATGAAAGATGGGTAGAATTGTTTGTC
1 GGTTGAGTTAAAGAACGAATAGATGAAAGATGGGTAGAATTGTTTGTC
13139316 GGTTGAGTTAAAGAACGAATAGATGAAAGATGGGTAGAATTGTTTGTC
1 GGTTGAGTTAAAGAACGAATAGATGAAAGATGGGTAGAATTGTTTGTC
13139364 ATGTGGTCAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.34, C:0.03, G:0.32, T:0.30
Consensus pattern (48 bp):
GGTTGAGTTAAAGAACGAATAGATGAAAGATGGGTAGAATTGTTTGTC
Found at i:13141629 original size:42 final size:42
Alignment explanation
Indices: 13141570--13141953 Score: 768
Period size: 42 Copynumber: 9.1 Consensus size: 42
13141560 AACTTTTGCG
13141570 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
1 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
13141612 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
1 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
13141654 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
1 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
13141696 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
1 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
13141738 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
1 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
13141780 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
1 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
13141822 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
1 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
13141864 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
1 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
13141906 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
1 AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
13141948 AGCGGC
1 AGCGGC
13141954 ACCTTGTTTC
Statistics
Matches: 342, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 342 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (42 bp):
AGCGGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTTCTTT
Found at i:13142317 original size:12 final size:12
Alignment explanation
Indices: 13142286--13142320 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
13142276 TTTGAACCTT
*
13142286 TGCTTCTATCGC
1 TGCTTCTCTCGC
13142298 TGCTTCTCTCGC
1 TGCTTCTCTCGC
13142310 TGCTTCTCTCG
1 TGCTTCTCTCG
13142321 TTGCGGCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.03, C:0.37, G:0.17, T:0.43
Consensus pattern (12 bp):
TGCTTCTCTCGC
Found at i:13142353 original size:21 final size:21
Alignment explanation
Indices: 13142309--13142353 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13142299 GCTTCTCTCG
* * *
13142309 CTGCTTCTCTCGTTGCGGCAT
1 CTGCTTCCCTCGCTGCCGCAT
*
13142330 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCCCTCGCTGCCGCAT
13142351 CTG
1 CTG
13142354 ATATAAGTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.42, G:0.22, T:0.33
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCCGCAT
Found at i:13146069 original size:51 final size:51
Alignment explanation
Indices: 13146010--13146245 Score: 454
Period size: 51 Copynumber: 4.6 Consensus size: 51
13146000 ACAATTTTGC
13146010 AATTTTCGACAGAACAGCAGTAAATGATTCAACATGGTAGCAATGGAAACT
1 AATTTTCGACAGAACAGCAGTAAATGATTCAACATGGTAGCAATGGAAACT
13146061 AATTTTCGACAGAACAGCAGTAAATGATTCAACATGGTAGCAATGGAAACT
1 AATTTTCGACAGAACAGCAGTAAATGATTCAACATGGTAGCAATGGAAACT
13146112 AATTTTCGACAGAACAGCAGTAAATGATTCAACATGGTAGCAATGGAAACT
1 AATTTTCGACAGAACAGCAGTAAATGATTCAACATGGTAGCAATGGAAACT
* *
13146163 AATTTTCGACAAAACAGCAATAAATGATTCAACATGGTAGCAATGGAAACT
1 AATTTTCGACAGAACAGCAGTAAATGATTCAACATGGTAGCAATGGAAACT
13146214 AATTTTCGACAGAACAGCAGTAAATGATTCAA
1 AATTTTCGACAGAACAGCAGTAAATGATTCAA
13146246 TTTGAAATGA
Statistics
Matches: 181, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 181 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (51 bp):
AATTTTCGACAGAACAGCAGTAAATGATTCAACATGGTAGCAATGGAAACT
Found at i:13147290 original size:47 final size:47
Alignment explanation
Indices: 13147202--13147293 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
13147192 GTTAATTTCG
* **
13147202 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * * *
13147249 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTT
13147294 TATTTCTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:13147335 original size:24 final size:24
Alignment explanation
Indices: 13147290--13147335 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
13147280 AATTTTAGTT
* *
13147290 TTTTTATTTCTTTTTTATTTTTTA
1 TTTTCATTTCTTTTTTAATTTTTA
13147314 TTTTCATTT-TTTTTGTAATTTT
1 TTTTCATTTCTTTTT-TAATTTT
13147336 GACAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTTCATTTCTTTTTTAATTTTTA
Found at i:13147393 original size:16 final size:14
Alignment explanation
Indices: 13147364--13147390 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13147354 TTTACAATTC
13147364 CAAATTATTATATT
1 CAAATTATTATATT
13147378 CAAATTATTATAT
1 CAAATTATTATAT
13147391 ATTGCATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAATTATTATATT
Found at i:13150834 original size:2 final size:2
Alignment explanation
Indices: 13150827--13150856 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13150817 AAAGAGCTTA
13150827 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13150857 TAAGCTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13151834 original size:7 final size:7
Alignment explanation
Indices: 13151822--13151846 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13151812 TTTATTATGA
13151822 TTATCTT
1 TTATCTT
13151829 TTATCTT
1 TTATCTT
13151836 TTATCTT
1 TTATCTT
13151843 TTAT
1 TTAT
13151847 TAGGATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATCTT
Found at i:13154513 original size:23 final size:22
Alignment explanation
Indices: 13154482--13154538 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
13154472 CAATAGTGTA
*
13154482 TCCTCTGAGGAAGGGATAAAATG
1 TCCTTTGAGGAAGGGA-AAAATG
*
13154505 TCCTTTGA-GAAGGGAAAATTG
1 TCCTTTGAGGAAGGGAAAAATG
13154526 TACCTTATGAGGA
1 T-CCTT-TGAGGA
13154539 GATAATGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 6 0.21
22 11 0.38
23 10 0.34
24 2 0.07
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (22 bp):
TCCTTTGAGGAAGGGAAAAATG
Done.