Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 168 of 173
Found at i:50547372 original size:26 final size:26
Alignment explanation
Indices: 50547342--50547393 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
50547332 CACCACTGAA
*
50547342 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
50547368 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
50547394 CTTTTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:50547538 original size:104 final size:103
Alignment explanation
Indices: 50547310--50547676 Score: 598
Period size: 104 Copynumber: 3.6 Consensus size: 103
50547300 TAACCGTTAT
* *
50547310 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
*
50547375 ATCAGCACATAGCAACCCCCTTT---TTTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
50547410 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
50547475 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
50547514 TGGTGGATATCGCACTTAGCACCACCAATGAAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
50547579 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * * **
50547618 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
50547677 TTTATATACA
Statistics
Matches: 251, Mismatches: 10, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
100 58 0.23
101 28 0.11
103 26 0.10
104 109 0.43
105 30 0.12
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:50547577 original size:26 final size:26
Alignment explanation
Indices: 50547548--50547598 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
50547538 CCAATGAAAC
*
50547548 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
50547574 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
50547599 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:50548039 original size:29 final size:29
Alignment explanation
Indices: 50548006--50548069 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
50547996 TAATCCACCA
50548006 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
50548035 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
50548065 CCCAA
1 CCCAA
50548070 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:50548043 original size:30 final size:30
Alignment explanation
Indices: 50548013--50548069 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50548003 CCACCCAACT
50548013 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
50548042 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
50548070 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:50549827 original size:19 final size:19
Alignment explanation
Indices: 50549791--50549828 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
50549781 ATGGAATATA
*
50549791 TATATAAATGAGTAATGAT
1 TATATAAATGAATAATGAT
50549810 TATATGAAATGAAT-ATGAT
1 TATAT-AAATGAATAATGAT
50549829 GATCCTTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (19 bp):
TATATAAATGAATAATGAT
Found at i:50552224 original size:40 final size:40
Alignment explanation
Indices: 50552180--50552313 Score: 155
Period size: 40 Copynumber: 3.3 Consensus size: 40
50552170 CTGTGTTTAT
*
50552180 CACTTAGTGTGCGAATTGAGATAACTTCGGCTATTTATGG
1 CACTTAGTGTGCGAATTGAGATAGCTTCGGCTATTTATGG
* *
50552220 CACTTAGTGTGCG-ATTGGGAATAGCTTTGGCTATATT-TGG
1 CACTTAGTGTGCGAATTGAG-ATAGCTTCGGCTAT-TTATGG
* * * * *
50552260 CACATAGTGTGTGAGACTGAGATAGCTTCGGCTATGTAAGG
1 CACTTAGTGTGCGA-ATTGAGATAGCTTCGGCTATTTATGG
50552301 CACTTAGTGTGCG
1 CACTTAGTGTGCG
50552314 GGATTATAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
39 5 0.06
40 40 0.52
41 28 0.36
42 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (40 bp):
CACTTAGTGTGCGAATTGAGATAGCTTCGGCTATTTATGG
Found at i:50552294 original size:41 final size:39
Alignment explanation
Indices: 50552196--50552311 Score: 108
Period size: 41 Copynumber: 2.9 Consensus size: 39
50552186 GTGTGCGAAT
* * * *
50552196 TGAGATAACTTCGGCTATTTATGGCACTTAGTGTGCGAT
1 TGAGATAGCTTCGGCTATTTATGGCACATAGTGTGAGAC
* *
50552235 TGGGAATAGCTTTGGCTATATT-TGGCACATAGTGTGTGAGAC
1 TGAG-ATAGCTTCGGCTAT-TTATGGCACATA--GTGTGAGAC
* * *
50552277 TGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTG
1 TGAGATAGCTTCGGCTATTTATGGCACATAGTGTG
50552312 CGGGATTATA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
39 8 0.13
40 21 0.34
41 22 0.36
42 10 0.16
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (39 bp):
TGAGATAGCTTCGGCTATTTATGGCACATAGTGTGAGAC
Found at i:50556293 original size:14 final size:14
Alignment explanation
Indices: 50556276--50556302 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50556266 ATAGACACAT
50556276 AAATAAATAAATAA
1 AAATAAATAAATAA
50556290 AAATAAATAAATA
1 AAATAAATAAATA
50556303 TCAAGTAAAA
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAATAAATAA
Found at i:50556503 original size:13 final size:14
Alignment explanation
Indices: 50556479--50556507 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
50556469 GAAAGATATA
50556479 AATAATTATATAAT
1 AATAATTATATAAT
50556493 AATAA-TATATAAT
1 AATAATTATATAAT
50556506 AA
1 AA
50556508 GACAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAATTATATAAT
Found at i:50559646 original size:8 final size:8
Alignment explanation
Indices: 50559628--50559673 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
50559618 AGCTGAATTG
50559628 ATTTTTATA
1 ATTTTT-TA
50559637 ATTTTTTA
1 ATTTTTTA
*
50559645 ATATTTTA
1 ATTTTTTA
*
50559653 A-TTTCTA
1 ATTTTTTA
50559660 A-TTTTTA
1 ATTTTTTA
50559667 ATTTTTT
1 ATTTTTT
50559674 TTAAATCAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 11 0.34
8 15 0.47
9 6 0.19
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (8 bp):
ATTTTTTA
Found at i:50559672 original size:7 final size:7
Alignment explanation
Indices: 50559639--50559672 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
50559629 TTTTTATAAT
50559639 TTTTTAA
1 TTTTTAA
50559646 TATTTTAA
1 T-TTTTAA
*
50559654 TTTCTAA
1 TTTTTAA
50559661 TTTTTAA
1 TTTTTAA
50559668 TTTTT
1 TTTTT
50559673 TTTAAATCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:50571737 original size:37 final size:37
Alignment explanation
Indices: 50571696--50571806 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
50571686 TAGTTTTAGC
50571696 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
50571733 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
50571770 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
50571807 AGCCTAGCTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:50579353 original size:37 final size:37
Alignment explanation
Indices: 50579312--50579422 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
50579302 TAGTTTTAGC
50579312 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
50579349 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
50579386 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
50579423 AGCCTAGCTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:50582247 original size:45 final size:45
Alignment explanation
Indices: 50582164--50582255 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
50582154 ACTATTTATG
* *
50582164 GTCAAAATAGAAATGGTGGTCAAAATTGGAATAATGGCATGCAAA
1 GTCAAAATAGAAATGGTAGTCAAAATTGGAATAATGGCATACAAA
** **
50582209 GTCAAAATAGAAATGGTAGTCAAAATTGGGGTGCTGGCATACAAA
1 GTCAAAATAGAAATGGTAGTCAAAATTGGAATAATGGCATACAAA
50582254 GT
1 GT
50582256 GAGAAATTGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.23
Consensus pattern (45 bp):
GTCAAAATAGAAATGGTAGTCAAAATTGGAATAATGGCATACAAA
Found at i:50583072 original size:18 final size:18
Alignment explanation
Indices: 50583037--50583072 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
50583027 CCTACTGTTG
*
50583037 ACGGGAGATAATGGTGAC
1 ACGGGAGATAATGCTGAC
*
50583055 ACGGGAGATATTGCTGAC
1 ACGGGAGATAATGCTGAC
50583073 GGGCCGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.36, T:0.19
Consensus pattern (18 bp):
ACGGGAGATAATGCTGAC
Found at i:50590836 original size:25 final size:23
Alignment explanation
Indices: 50590791--50590837 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
50590781 ATACGTACAC
*
50590791 TTTTATATATACATACTTATATT
1 TTTTATATATACATAATTATATT
*
50590814 TTTTATATATGCTATAATCTATAT
1 TTTTATATATAC-ATAAT-TATAT
50590838 GCTTTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 4 0.20
25 5 0.25
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTTATATATACATAATTATATT
Found at i:50591111 original size:6 final size:6
Alignment explanation
Indices: 50591091--50591124 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
50591081 ACAGATTTTT
*
50591091 TATTTAA TATATA TATTTA TATTTA TATTTA TAT
1 TATTT-A TATTTA TATTTA TATTTA TATTTA TAT
50591125 AAATTGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TATTTA
Found at i:50591633 original size:107 final size:107
Alignment explanation
Indices: 50591445--50591655 Score: 377
Period size: 107 Copynumber: 2.0 Consensus size: 107
50591435 TTTTTTTTCT
50591445 AAATAAGGCAATATTTCACGTTTGGAAAATCGAGCAAACGTGCCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCACGTTTGGAAAATCGAGCAAACGTGCCCTAACGTGCTGGGTTTCGATT
*
50591510 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
66 TCTCGTTCGACCAAATAGCCAAATATCCTCTTTAAACTTTTA
* *
50591552 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCACGTTTGGAAAATCGAGCAAACGTGCCCTAACGTGCTGGGTTTCGATT
* *
50591617 TTTCGTTCGACTAAATAGCCAAATATCCTCTTTAAACTT
66 TCTCGTTCGACCAAATAGCCAAATATCCTCTTTAAACTT
50591656 CAAAGTATGG
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 99 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (107 bp):
AAATAAGGCAATATTTCACGTTTGGAAAATCGAGCAAACGTGCCCTAACGTGCTGGGTTTCGATT
TCTCGTTCGACCAAATAGCCAAATATCCTCTTTAAACTTTTA
Found at i:50596811 original size:28 final size:28
Alignment explanation
Indices: 50596739--50596810 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
50596729 ATAAAAAAAA
**
50596739 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAAATTTTTTTATTT
50596767 ACCAAAATATTATAAAATTTTTTTATTT
1 ACCAAAATATTATAAAATTTTTTTATTT
50596795 ACCAAAATA-TATAAAA
1 ACCAAAATATTATAAAA
50596811 AAAACAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
27 7 0.17
28 35 0.83
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (28 bp):
ACCAAAATATTATAAAATTTTTTTATTT
Found at i:50597236 original size:29 final size:27
Alignment explanation
Indices: 50597204--50597269 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 27
50597194 AAAATAGTTT
*
50597204 AATTTAATAACTCTATTTTAATTTTAAAA
1 AATTTAATAA-ACTATTTTAATTTT-AAA
* *
50597233 AATTAAATTAAACTATTTTAATTTTATA
1 AATTTAA-TAAACTATTTTAATTTTAAA
50597261 AATTTAATA
1 AATTTAATA
50597270 TATTCCCTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.06
28 8 0.25
29 19 0.59
30 3 0.09
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (27 bp):
AATTTAATAAACTATTTTAATTTTAAA
Found at i:50597494 original size:18 final size:19
Alignment explanation
Indices: 50597455--50597550 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
50597445 ATTTTATATT
50597455 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
50597474 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
50597492 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
50597511 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
50597529 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
50597548 TTA
1 TTA
50597551 CTTAATTAGA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
18 30 0.47
19 34 0.53
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.38
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:50597496 original size:37 final size:37
Alignment explanation
Indices: 50597455--50597550 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
50597445 ATTTTATATT
*
50597455 TTAAATGAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
50597492 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
50597529 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
50597551 CTTAATTAGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.38
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
Found at i:50602173 original size:21 final size:19
Alignment explanation
Indices: 50602147--50602185 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
50602137 TTTCTTTCAA
50602147 TTCCTTATATACTATTATTCC
1 TTCCTTATAT--TATTATTCC
*
50602168 TTCCTTCTATTATTATTC
1 TTCCTTATATTATTATTC
50602186 TTCAGCTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (19 bp):
TTCCTTATATTATTATTCC
Found at i:50605001 original size:15 final size:16
Alignment explanation
Indices: 50604983--50605020 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
50604973 TTATTCAATC
*
50604983 TTATTTTATAT-TTTT
1 TTATTTTATATCATTT
50604998 TTATTTT-TATCATTT
1 TTATTTTATATCATTT
50605013 TTATTTTA
1 TTATTTTA
50605021 GTCAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTATATCATTT
Found at i:50607790 original size:38 final size:38
Alignment explanation
Indices: 50607739--50607816 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
50607729 GCTCGCACCA
50607739 TATAGAAGAACCCACATTGTATAAACACGTGGTAACCT
1 TATAGAAGAACCCACATTGTATAAACACGTGGTAACCT
50607777 TATAGAAGAACCCACATTGTATAAACACGTGGTAACCT
1 TATAGAAGAACCCACATTGTATAAACACGTGGTAACCT
50607815 TA
1 TA
50607817 GAATAGAGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (38 bp):
TATAGAAGAACCCACATTGTATAAACACGTGGTAACCT
Found at i:50616588 original size:88 final size:87
Alignment explanation
Indices: 50616359--50616734 Score: 259
Period size: 90 Copynumber: 4.3 Consensus size: 87
50616349 AAAATGTCAA
* * * * *
50616359 CATCGTAGATAAAACAAACCAAAACAATCCA-ACTAT-TGATAATAAACCAAACATGAAAGATGT
1 CATCATAGAAAAAACAAACCAAAACAA-CCAGAATATGT-ATAATAAAACAAACATGAAAGATGC
* *
50616422 CGAT-AAAAGAAA-TTTACTCA-A-
64 CGATAAAAAAAAACATTA-TCACAT
** * * *** * * * **
50616443 CATCATAGCTAAAACAAACTAAAACCATTTGAACATGAACAATAAAACTGACATGAAAGATGCCG
1 CATCATAGAAAAAACAAACCAAAACAACCAGAATATGTATAATAAAACAAACATGAAAGATGCCG
50616508 ATAAAAGAAAAACATTATCA-AT
66 ATAAAA-AAAAACATTATCACAT
* * * *
50616530 GGCATCCTA-AAAAAACAAACCAAAGCAACTC-GAATATAG-ATAATAAAACAAATATGAAAAAT
1 --CATCATAGAAAAAACAAACCAAAACAAC-CAGAATAT-GTATAATAAAACAAACATGAAAGAT
* *
50616592 GCCGATTAGAAAAAACTATTATCAGCAT
62 GCCGATAAAAAAAAAC-ATTATCA-CAT
* * *
50616620 CATCATATGGAAAAACAAACCAAAACAACCAGAATATGTGTAGTAAAACAAACATGAAAGATGCC
1 CATCATA-GAAAAAACAAACCAAAACAACCAGAATATGTATAATAAAACAAACATGAAAGATGCC
* * *
50616685 GACAAAACAAAAACACTATCTGCAT
65 GATAAAA-AAAAACATTATC-ACAT
**
50616710 CATCATAGGTAAAACAAACCCAAAA
1 CATCATAGAAAAAACAAA-CCAAAA
50616735 AAGAAATAAA
Statistics
Matches: 226, Mismatches: 46, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
84 50 0.22
85 3 0.01
86 8 0.04
87 9 0.04
88 58 0.26
89 19 0.08
90 73 0.32
91 6 0.03
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (87 bp):
CATCATAGAAAAAACAAACCAAAACAACCAGAATATGTATAATAAAACAAACATGAAAGATGCCG
ATAAAAAAAAACATTATCACAT
Found at i:50630692 original size:23 final size:24
Alignment explanation
Indices: 50630651--50630706 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
50630641 TAGAAGACTT
*
50630651 TTTATATTAGTAAACTTATATATA
1 TTTATATTAGTAAAATTATATATA
*
50630675 TTTAT-TTATTAAAATTATATATAA
1 TTTATATTAGTAAAATTATATAT-A
50630699 TTT-TATTA
1 TTTATATTA
50630707 ACAATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTATATTAGTAAAATTATATATA
Found at i:50631247 original size:21 final size:21
Alignment explanation
Indices: 50631218--50631280 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
50631208 ATGGGACAGT
*
50631218 TGACATGGCTAGTTAACTAAC
1 TGACATGGCCAGTTAACTAAC
*
50631239 TGACGTGGCCAGTTAACT-AC
1 TGACATGGCCAGTTAACTAAC
* * *
50631259 TTGATATGACCAGCTAACTAAC
1 -TGACATGGCCAGTTAACTAAC
50631281 CATGATGGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (21 bp):
TGACATGGCCAGTTAACTAAC
Found at i:50634173 original size:13 final size:13
Alignment explanation
Indices: 50634138--50634180 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
50634128 ACATGTTAGT
50634138 AAAAT-AATTAATA
1 AAAATAAATTAA-A
*
50634151 AAAATGAATTAAA
1 AAAATAAATTAAA
*
50634164 ATAATAAATTAAA
1 AAAATAAATTAAA
50634177 AAAA
1 AAAA
50634181 ATATTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAATAAATTAAA
Found at i:50635189 original size:23 final size:23
Alignment explanation
Indices: 50635119--50635204 Score: 101
Period size: 21 Copynumber: 4.0 Consensus size: 23
50635109 CCTAATCAGT
*
50635119 ATACGACACAT-AGGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
50635140 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
50635160 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
50635183 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
50635205 TCGACAAAGC
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
20 9 0.16
21 24 0.43
23 23 0.41
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:50635201 original size:44 final size:41
Alignment explanation
Indices: 50635119--50635210 Score: 114
Period size: 44 Copynumber: 2.2 Consensus size: 41
50635109 CCTAATCAGT
* * *
50635119 ATACGACACATAGGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
50635160 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
50635204 AT-CGACA
1 ATACGACA
50635211 AAGCCGATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 11 0.25
42 9 0.20
43 6 0.14
44 18 0.41
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:50636220 original size:18 final size:21
Alignment explanation
Indices: 50636197--50636237 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 21
50636187 TTATTTCTAG
50636197 TTAATAAT-A-ATAAT-ATAT
1 TTAATAATCATATAATAATAT
50636215 TTAATAATCATATAATAATAT
1 TTAATAATCATATAATAATAT
50636236 TT
1 TT
50636238 TATTCACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 1 0.05
20 5 0.25
21 6 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAATAATCATATAATAATAT
Found at i:50636409 original size:15 final size:15
Alignment explanation
Indices: 50636366--50636422 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
50636356 TTTCCTATAA
*
50636366 TATATTATTTTAATT
1 TATAATATTTTAATT
* *
50636381 T-TAATTAATATAATT
1 TATAA-TATTTTAATT
50636396 TATAATATTTTAATT
1 TATAATATTTTAATT
50636411 TAATAAT-TTTTA
1 T-ATAATATTTTA
50636423 TAATATAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 2 0.06
15 24 0.71
16 8 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATAATATTTTAATT
Found at i:50636413 original size:25 final size:24
Alignment explanation
Indices: 50636378--50636428 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
50636368 TATTATTTTA
50636378 ATTTTAATTAAT-ATAATTTATAAT
1 ATTTTAATTAATAAT-ATTTATAAT
*
50636402 ATTTTAATTTAATAATTTTTATAAT
1 ATTTTAA-TTAATAATATTTATAAT
50636427 AT
1 AT
50636429 AAATCAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 15 0.62
26 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTAATTAATAATATTTATAAT
Found at i:50638092 original size:3 final size:3
Alignment explanation
Indices: 50638086--50638139 Score: 63
Period size: 3 Copynumber: 16.7 Consensus size: 3
50638076 TTGTTTTTTA
*
50638086 TAT TAT TAAT TAT GTCAT ATAT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT T-AT TAT -T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50638135 TAT TA
1 TAT TA
50638140 CCATTACTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
3 36 0.80
4 6 0.13
5 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:50638144 original size:15 final size:15
Alignment explanation
Indices: 50638112--50638145 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
50638102 ATATATTATT
*
50638112 ATTATTATTATTATC
1 ATTATTATTATTACC
50638127 ATTATTATTATTACC
1 ATTATTATTATTACC
50638142 ATTA
1 ATTA
50638146 CTATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTATTATTATTACC
Found at i:50644149 original size:20 final size:19
Alignment explanation
Indices: 50644124--50644170 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
50644114 TTATGAAAGT
50644124 TATAAAAATACTAAAATTG
1 TATAAAAATACTAAAATTG
** *
50644143 ATATAAATTTATTAAAATTG
1 -TATAAAAATACTAAAATTG
50644163 TA-AAAAAT
1 TATAAAAAT
50644171 TTAAAAACTC
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 2 0.09
20 16 0.73
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
TATAAAAATACTAAAATTG
Found at i:50648397 original size:29 final size:29
Alignment explanation
Indices: 50648343--50648398 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
50648333 AATAGGGTCT
** *
50648343 GGTGCCGCCTGACAATGTCCCTCCACCTG
1 GGTGCCGCCAAACAATGTCCCCCCACCTG
50648372 GGTGCCGCCAAACAA-GTCTCCCCCACC
1 GGTGCCGCCAAACAATGTC-CCCCCACC
50648399 CCTCCAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.18, C:0.45, G:0.21, T:0.16
Consensus pattern (29 bp):
GGTGCCGCCAAACAATGTCCCCCCACCTG
Found at i:50651920 original size:41 final size:41
Alignment explanation
Indices: 50651875--50651959 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
50651865 GCTCCAAGGC
*
50651875 CAAAGAACCAGCAAAGGGCAGAGGGTAAGGAAATTGAAAAT
1 CAAAGAACCAGCAAAGGGCAGAGGGCAAGGAAATTGAAAAT
*
50651916 CAAAGAACCAGCAAAGGGCAGAGGGCAGGGAAATTGAAAAT
1 CAAAGAACCAGCAAAGGGCAGAGGGCAAGGAAATTGAAAAT
50651957 CAA
1 CAA
50651960 TCCCAGACAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.48, C:0.14, G:0.29, T:0.08
Consensus pattern (41 bp):
CAAAGAACCAGCAAAGGGCAGAGGGCAAGGAAATTGAAAAT
Found at i:50652055 original size:23 final size:23
Alignment explanation
Indices: 50652027--50652096 Score: 122
Period size: 23 Copynumber: 3.0 Consensus size: 23
50652017 AGGGTAGAGA
* *
50652027 AACAAAGAACCAGCAAAGGTCAG
1 AACAAAGAACCAGCAGAGGGCAG
50652050 AACAAAGAACCAGCAGAGGGCAG
1 AACAAAGAACCAGCAGAGGGCAG
50652073 AACAAAGAACCAGCAGAGGGCAG
1 AACAAAGAACCAGCAGAGGGCAG
50652096 A
1 A
50652097 GATGAGGGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.50, C:0.21, G:0.27, T:0.01
Consensus pattern (23 bp):
AACAAAGAACCAGCAGAGGGCAG
Found at i:50652293 original size:17 final size:18
Alignment explanation
Indices: 50652255--50652304 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
50652245 TCTTCATTGC
*
50652255 TTTTCAAAGAAAAGCACT
1 TTTTCAAGGAAAAGCACT
*
50652273 TTTTCAAGGAAAATCACT
1 TTTTCAAGGAAAAGCACT
50652291 TTTTCAAGGAAAAG
1 TTTTCAAGGAAAAG
50652305 TTCGTTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (18 bp):
TTTTCAAGGAAAAGCACT
Found at i:50653114 original size:21 final size:21
Alignment explanation
Indices: 50653088--50653127 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
50653078 ATTAGTGAAT
50653088 TTATATATATATT-TATTAAGA
1 TTATATATA-ATTATATTAAGA
50653109 TTATATATAATTATATTAA
1 TTATATATAATTATATTAA
50653128 TATTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TTATATATAATTATATTAAGA
Found at i:50660206 original size:23 final size:24
Alignment explanation
Indices: 50660165--50660220 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
50660155 TAGAAGACTT
*
50660165 TTTATATTAGTAAACTTATATATA
1 TTTATATTAGTAAAATTATATATA
*
50660189 TTTAT-TTATTAAAATTATATATAA
1 TTTATATTAGTAAAATTATATAT-A
50660213 TTT-TATTA
1 TTTATATTA
50660221 ACAATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTATATTAGTAAAATTATATATA
Found at i:50660761 original size:21 final size:21
Alignment explanation
Indices: 50660732--50660794 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
50660722 ATGGGACAGT
*
50660732 TGACATGGCTAGTTAACTAAC
1 TGACATGGCCAGTTAACTAAC
*
50660753 TGACGTGGCCAGTTAACT-AC
1 TGACATGGCCAGTTAACTAAC
* * *
50660773 TTGATATGACCAGCTAACTAAC
1 -TGACATGGCCAGTTAACTAAC
50660795 CATGATGGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (21 bp):
TGACATGGCCAGTTAACTAAC
Found at i:50663689 original size:13 final size:13
Alignment explanation
Indices: 50663654--50663696 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
50663644 ACATGTTAGT
50663654 AAAAT-AATTAATA
1 AAAATAAATTAA-A
*
50663667 AAAATGAATTAAA
1 AAAATAAATTAAA
*
50663680 ATAATAAATTAAA
1 AAAATAAATTAAA
50663693 AAAA
1 AAAA
50663697 ATATTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAATAAATTAAA
Found at i:50664705 original size:23 final size:23
Alignment explanation
Indices: 50664635--50664720 Score: 101
Period size: 21 Copynumber: 4.0 Consensus size: 23
50664625 CCTAATCAGT
*
50664635 ATACGACACAT-AGGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
50664656 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
50664676 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
50664699 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
50664721 TCGACAAAGC
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
20 9 0.16
21 24 0.43
23 23 0.41
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:50664717 original size:44 final size:41
Alignment explanation
Indices: 50664635--50664726 Score: 114
Period size: 44 Copynumber: 2.2 Consensus size: 41
50664625 CCTAATCAGT
* * *
50664635 ATACGACACATAGGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
50664676 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
50664720 AT-CGACA
1 ATACGACA
50664727 AAGCCGATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 11 0.25
42 9 0.20
43 6 0.14
44 18 0.41
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:50665746 original size:22 final size:24
Alignment explanation
Indices: 50665718--50665764 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
50665708 TATTTCTAGT
*
50665718 TAATAAT-A-ATAATCATATATTA
1 TAATAATCATATAATAATATATTA
*
50665740 TAATAATCATATAATAATATTTTA
1 TAATAATCATATAATAATATATTA
50665764 T
1 T
50665765 TCACAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
24 13 0.62
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATAATCATATAATAATATATTA
Found at i:50665930 original size:30 final size:27
Alignment explanation
Indices: 50665890--50665954 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 27
50665880 TTTCCTATAA
*
50665890 TATATTATTTTAATTTTAATTAATATAATT
1 TATAATATTTTAA-TTTAA-TAATAT-ATT
*
50665920 TATAATATTTTAATTTAATAATATTTT
1 TATAATATTTTAATTTAATAATATATT
50665947 TATAATAT
1 TATAATAT
50665955 AAATCAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 10 0.30
28 6 0.18
29 5 0.15
30 12 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TATAATATTTTAATTTAATAATATATT
Found at i:50665937 original size:25 final size:26
Alignment explanation
Indices: 50665902--50665954 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
50665892 TATTATTTTA
50665902 ATTTTAATTAAT-ATA-ATTTATAAT
1 ATTTTAATTAATAATATATTTATAAT
*
50665926 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAATAATATATTTATAAT
50665953 AT
1 AT
50665955 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTAATTAATAATATATTTATAAT
Found at i:50665940 original size:16 final size:16
Alignment explanation
Indices: 50665895--50665946 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
50665885 TATAATATAT
50665895 TATTTTAATTTTAATTAA
1 TATTTTAA-TTTAA-TAA
50665913 TA---TAATTT-ATAA
1 TATTTTAATTTAATAA
50665925 TATTTTAATTTAATAA
1 TATTTTAATTTAATAA
50665941 TATTTT
1 TATTTT
50665947 TATAATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 3 0.10
15 9 0.30
16 10 0.33
18 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTTAATTTAATAA
Found at i:50667624 original size:3 final size:3
Alignment explanation
Indices: 50667618--50667671 Score: 63
Period size: 3 Copynumber: 16.7 Consensus size: 3
50667608 TTGTTTTTTA
*
50667618 TAT TAT TAAT TAT GTCAT ATAT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT T-AT TAT -T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50667667 TAT TA
1 TAT TA
50667672 CCATTACTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
3 36 0.80
4 6 0.13
5 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:50667676 original size:15 final size:15
Alignment explanation
Indices: 50667644--50667677 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
50667634 ATATATTATT
*
50667644 ATTATTATTATTATC
1 ATTATTATTATTACC
50667659 ATTATTATTATTACC
1 ATTATTATTATTACC
50667674 ATTA
1 ATTA
50667678 CTATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTATTATTATTACC
Found at i:50673681 original size:20 final size:19
Alignment explanation
Indices: 50673656--50673702 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
50673646 TTATGAAAGT
50673656 TATAAAAATACTAAAATTG
1 TATAAAAATACTAAAATTG
** *
50673675 ATATAAATTTATTAAAATTG
1 -TATAAAAATACTAAAATTG
50673695 TA-AAAAAT
1 TATAAAAAT
50673703 TTGAAAACTC
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 2 0.09
20 16 0.73
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
TATAAAAATACTAAAATTG
Found at i:50677931 original size:29 final size:29
Alignment explanation
Indices: 50677877--50677932 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
50677867 AATAGGGTCT
** *
50677877 GGTGCCGCCTGACAATGTCCCTCCACCTG
1 GGTGCCGCCAAACAATGTCCCCCCACCTG
50677906 GGTGCCGCCAAACAA-GTCTCCCCCACC
1 GGTGCCGCCAAACAATGTC-CCCCCACC
50677933 CCTCCAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.18, C:0.45, G:0.21, T:0.16
Consensus pattern (29 bp):
GGTGCCGCCAAACAATGTCCCCCCACCTG
Found at i:50678996 original size:4 final size:4
Alignment explanation
Indices: 50678989--50679013 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
50678979 TATTTAAACG
50678989 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
50679014 GTTAATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:50680523 original size:16 final size:16
Alignment explanation
Indices: 50680504--50680544 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
50680494 TAATCATTTA
50680504 AAAATTATAAAGAT-AT
1 AAAATTATAAA-ATGAT
50680520 AAAA-TATTAAAATGAT
1 AAAATTA-TAAAATGAT
50680536 AAAATTATA
1 AAAATTATA
50680545 TTTTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.18
16 16 0.73
17 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
AAAATTATAAAATGAT
Found at i:50684343 original size:21 final size:22
Alignment explanation
Indices: 50684317--50684363 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
50684307 CTCTGCTCAA
*
50684317 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
50684338 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
50684360 ACTC
1 ACTC
50684364 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:50687339 original size:2 final size:2
Alignment explanation
Indices: 50687329--50687375 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
50687319 AAATATATAT
* *
50687329 AC AC CC AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
50687371 AC AC A
1 AC AC A
50687376 AAAGAGATGC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:50692277 original size:32 final size:32
Alignment explanation
Indices: 50692229--50692292 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
50692219 ACTTTTGGTT
*
50692229 TTTTTCATGTTGTCAAAGAGTTAAACAATGAA
1 TTTTTCATGTTATCAAAGAGTTAAACAATGAA
* *
50692261 TTTTTCGTGTTATCAAAGAGTTGAACAATGAA
1 TTTTTCATGTTATCAAAGAGTTAAACAATGAA
50692293 AATAGTCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (32 bp):
TTTTTCATGTTATCAAAGAGTTAAACAATGAA
Found at i:50698590 original size:38 final size:38
Alignment explanation
Indices: 50698541--50698634 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 38
50698531 AATATAAAGA
* *
50698541 ATATATAAGTATGTATATG-ATGTA-AAATATGCATAAAT
1 ATATATAAGTATGTATAAGAAT-TAGAAATATG-AAAAAT
*
50698579 ATATGTAAGTA--TATAAGAATTATGAAATATGAAAAAT
1 ATATATAAGTATGTATAAGAATTA-GAAATATGAAAAAT
*
50698616 ATATTTAAGTATGTATAAG
1 ATATATAAGTATGTATAAG
50698635 TACGTATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
36 7 0.15
37 17 0.36
38 17 0.36
39 6 0.13
ACGTcount: A:0.49, C:0.01, G:0.14, T:0.36
Consensus pattern (38 bp):
ATATATAAGTATGTATAAGAATTAGAAATATGAAAAAT
Found at i:50700608 original size:44 final size:43
Alignment explanation
Indices: 50700528--50701316 Score: 224
Period size: 44 Copynumber: 17.9 Consensus size: 43
50700518 GCTTCGCTGA
* ** * *
50700528 CAAATACAGGAAGGCAAGATCTGCAATCCTCAATCTA-TTCCACTGC
1 CAAATACAGG--GACAAGATCTGCTTTCTTCGATCTACTT-CAC-GC
50700574 CAAATACAGGGACAAGATCTGCTTTCTTCGATCTACTTCACGC
1 CAAATACAGGGACAAGATCTGCTTTCTTCGATCTACTTCACGC
* *
50700617 C-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTT--CGC
1 CAAATACA-G-GGACAAGATCTGCTTTCTTCGATCTACTTCACGC
** * * *
50700659 CACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTAC
1 CA--AATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCAC-GC
** *
50700705 C-AATACAGGAAGACCGGACCTG-TTATCTTCGATCTACTTCACGC
1 CAAATACAGG--GACAAGATCTGCTT-TCTTCGATCTACTTCACGC
* *
50700749 C-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTT--CGC
1 CAAATACA-G-GGACAAGATCTGCTTTCTTCGATCTACTTCACGC
** * * *
50700791 CACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTAC
1 CA--AATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCAC-GC
** * *
50700837 C-AATACAGGAAGACCGGACCTG-TTACCTTCGATCTACTTCACGC
1 CAAATACAGG--GACAAGATCTGCTT-TCTTCGATCTACTTCACGC
* *
50700881 C-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTT--CGC
1 CAAATACA-G-GGACAAGATCTGCTTTCTTCGATCTACTTCACGC
** * * * *
50700923 CACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTAC
1 CA--AATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCAC-GC
* * * * * *
50700969 C-ATTATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGC
1 CAAATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCACGC
** *
50701013 C-AATACATAAAGACAAGATCTGCTTTCTGCGATCTACTT--CGC
1 CAAATAC--AGGGACAAGATCTGCTTTCTTCGATCTACTTCACGC
** * * * *
50701055 CACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTAC
1 CA--AATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCAC-GC
* * * * * *
50701101 C-AATATAGGAAGACAAGACCTACTATCTTTGATTTACTTCACGC
1 CAAATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCACGC
* * *
50701145 C-AATACATGAAGACAAGATCTGCTTTCTGCGGTCTACTT--CGC
1 CAAATACA-G-GGACAAGATCTGCTTTCTTCGATCTACTTCACGC
** * * * *
50701187 CACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTAC
1 CA--AATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCAC-GC
* * * * *
50701233 C-AATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGC
1 CAAATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCACGC
* *
50701277 C-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CAAATACA-G-GGACAAGATCTGCTTTCTTCGATCTACTTC
50701317 GCCACCAACC
Statistics
Matches: 558, Mismatches: 123, Indels: 126
0.69 0.15 0.16
Matches are distributed among these distances:
42 26 0.05
43 92 0.16
44 319 0.57
45 100 0.18
46 21 0.04
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
CAAATACAGGGACAAGATCTGCTTTCTTCGATCTACTTCACGC
Found at i:50700636 original size:88 final size:85
Alignment explanation
Indices: 50700530--50701316 Score: 512
Period size: 88 Copynumber: 8.9 Consensus size: 85
50700520 TTCGCTGACA
* *
50700530 AATACAGGAAGGCAAGATCTGCAATCCTCAATCTA-TTCCACTGCCAAATACAGG-GACAAGATC
1 AATACAGGAAGACAAGATCTGC-ATCCTCGATCTACTTCCA---CC-AATACAGGAGACAAGATC
*
50700593 TGCTTTCTTCGATCTACTTCACGCC
61 TGCTTTCTTCGATCTACTTCACACC
* * * **
50700618 AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
1 AATACAGGAAGACAAGATCTGCATCCT-CGATCTACTT--CCACCAATACAGG-AGACAAGATCT
* *
50700683 GC-ATCTTCGATCCACTTC-CTACC
62 GCTTTCTTCGATCTACTTCAC-ACC
** * * * * *
50700706 AATACAGGAAGACCGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
1 AATACAGGAAGACAAGATCTG-CATCCTCGATCTACTTC-CACCAATACA-GGAGACAAGATCTG
* *
50700771 CTTTCTGCGATCTACTTCGCCACC
63 CTTTCTTCGATCTACTTC-ACACC
** * * ** *
50700795 AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGGAAGACCGGACCTG-
1 AATACAGGAAGACAAGATCTGCATCCTCGATCTACTTCC-ACCAATACAGG-AGACAAGATCTGC
* *
50700859 TTACCTTCGATCTACTTCACGCC
64 TT-TCTTCGATCTACTTCACACC
* * * **
50700882 AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
1 AATACAGGAAGACAAGATCTGCATCCT-CGATCTACTT--CCACCAATACAGG-AGACAAGATCT
* * *
50700947 GC-ATCGTCGATCCACTTC-CTACC
62 GCTTTCTTCGATCTACTTCAC-ACC
* * * * * * * **
50700970 ATTATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATAAAGACAAGATCTG
1 AATACAGGAAGACAAGATCTGC-ATCCTCGATCTACTTC-CACCAATACA-GGAGACAAGATCTG
* *
50701035 CTTTCTGCGATCTACTTCGCCACC
63 CTTTCTTCGATCTACTTC-ACACC
** * * * * *
50701059 AATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTAC
1 AATACAGGAAGACAAGATCTGCATCCTCGATCTACTTCC-ACCAATACAGG-AGACAAGATCTGC
* * * *
50701124 TATCTTTGATTTACTTCACGCC
64 TTTCTTCGATCTACTTCACACC
* * * * **
50701146 AATACATGAAGACAAGATCTGCTTTCTGCGGTCTACTTCGCCACCAATATGGGAAGACAAGATCT
1 AATACAGGAAGACAAGATCTGCATCCT-CGATCTACTT--CCACCAATACAGG-AGACAAGATCT
* * *
50701211 GC-ATCGTCGATCCACTTC-CTACC
62 GCTTTCTTCGATCTACTTCAC-ACC
* * * * * * *
50701234 AATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
1 AATACAGGAAGACAAGATCTGC-ATCCTCGATCTACTTC-CACCAATACA-GGAGACAAGATCTG
*
50701299 CTTTCTGCGATCTACTTC
63 CTTTCTTCGATCTACTTC
50701317 GCCACCAACC
Statistics
Matches: 534, Mismatches: 128, Indels: 74
0.73 0.17 0.10
Matches are distributed among these distances:
86 3 0.01
87 125 0.23
88 296 0.55
89 101 0.19
90 6 0.01
91 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (85 bp):
AATACAGGAAGACAAGATCTGCATCCTCGATCTACTTCCACCAATACAGGAGACAAGATCTGCTT
TCTTCGATCTACTTCACACC
Found at i:50700747 original size:132 final size:132
Alignment explanation
Indices: 50700584--50701324 Score: 1275
Period size: 132 Copynumber: 5.6 Consensus size: 132
50700574 CAAATACAGG
* * *
50700584 GACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
1 GACAAGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
* *
50700649 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGG
66 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGG
50700714 AA
131 AA
** **
50700716 GACCGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
1 GACAAGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
* *
50700781 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGG
66 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGG
50700846 AA
131 AA
** ** *
50700848 GACCGGACCTGTTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
1 GACAAGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
*
50700913 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCATTATAGG
66 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGG
50700978 AA
131 AA
* *
50700980 GACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATAAAGACAAGATCTGCTTTCTGCGA
1 GACAAGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
50701045 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGG
66 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGG
50701110 AA
131 AA
* * *
50701112 GACAAGACCTACTATCTTTGATTTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGG
1 GACAAGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
50701177 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGG
66 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGG
50701242 AA
131 AA
*
50701244 GACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
1 GACAAGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
50701309 TCTACTTCGCCACCAA
66 TCTACTTCGCCACCAA
50701325 CCTATAAATA
Statistics
Matches: 587, Mismatches: 22, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 587 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (132 bp):
GACAAGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGG
AA
Found at i:50712535 original size:12 final size:13
Alignment explanation
Indices: 50712518--50712554 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
50712508 GAACCGGACA
50712518 CGAACCGAA-CTC
1 CGAACCGAAGCTC
50712530 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
50712542 CGAACCGTAGCTC
1 CGAACCGAAGCTC
50712555 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:50715186 original size:30 final size:28
Alignment explanation
Indices: 50715152--50715249 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 28
50715142 ACCCTTGTAC
* *
50715152 TTTTTGAAATTTCTATTTTGACCCCAAAC
1 TTTTTTAAATTTC-ATTTTGACCCCAAAA
* *
50715181 TTTTTTAAAATTCACATTTTAACCCCAAAA
1 TTTTTT-AAATT-TCATTTTGACCCCAAAA
* * **
50715211 TTTTCTAAAATTACATTTTGACCCTTAAA
1 TTTT-TTAAATTTCATTTTGACCCCAAAA
50715240 TTTTCTTAAA
1 TTTT-TTAAA
50715250 ATTGCACTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
29 28 0.49
30 27 0.47
31 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (28 bp):
TTTTTTAAATTTCATTTTGACCCCAAAA
Found at i:50715250 original size:30 final size:29
Alignment explanation
Indices: 50715126--50715269 Score: 110
Period size: 30 Copynumber: 4.8 Consensus size: 29
50715116 AAGCTAAAAA
** *
50715126 TAAAGATTACATTTTAACCCTTGTACTTTT
1 TAAA-ATTACATTTTAACCCTTAAATTTTT
* * * *
50715156 TGAAATTTCTATTTTGACCC-CAAACTTTTT
1 TAAAATTAC-ATTTTAACCCTTAAA-TTTTT
** *
50715186 TAAAATTCACATTTTAACCCCAAAATTTTC
1 TAAAATT-ACATTTTAACCCTTAAATTTTT
*
50715216 TAAAATTACATTTTGACCCTTAAATTTTCT
1 TAAAATTACATTTTAACCCTTAAATTTT-T
* * *
50715246 TAAAATTGCACTTTAACCCCTAAA
1 TAAAATTACATTTTAACCCTTAAA
50715270 CTCTCAGGAA
Statistics
Matches: 89, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
29 23 0.26
30 62 0.70
31 4 0.04
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (29 bp):
TAAAATTACATTTTAACCCTTAAATTTTT
Found at i:50716894 original size:3 final size:3
Alignment explanation
Indices: 50716886--50716921 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
50716876 TTAAAAGAGT
*
50716886 ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50716922 TGAAATTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:50717621 original size:20 final size:20
Alignment explanation
Indices: 50717592--50717635 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
50717582 AGTTACGAAA
*
50717592 AAAAGAAAAAA-AATAAAGAG
1 AAAAGAAAAAATAAAAAAG-G
*
50717612 AAAAGTAAAAATAAAAAAGG
1 AAAAGAAAAAATAAAAAAGG
50717632 AAAA
1 AAAA
50717636 TAGAACTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAAATAAAAAAGG
Found at i:50718376 original size:40 final size:40
Alignment explanation
Indices: 50718324--50718431 Score: 110
Period size: 44 Copynumber: 2.6 Consensus size: 40
50718314 ACACTGCGCT
*
50718324 TTAGGGAAATAAGACTTGATGCGAACTGCTCCACTACTGC
1 TTAGGGAGATAAGACTTGATGCGAACTGCTCCACTACTGC
* * * *
50718364 TTAGGGAGATAAGATCTGGTTTCTTTTG-TCTGCTCCACTACTGC
1 TTAGGGAGATAAGA-CTTGATGC----GAACTGCTCCACTACTGC
*
50718408 TTAGGGAGATAATACTTGATGCGA
1 TTAGGGAGATAAGACTTGATGCGA
50718432 TCTGTGGTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
39 1 0.02
40 13 0.25
41 5 0.09
43 5 0.09
44 28 0.53
45 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (40 bp):
TTAGGGAGATAAGACTTGATGCGAACTGCTCCACTACTGC
Found at i:50718744 original size:174 final size:172
Alignment explanation
Indices: 50718439--50719047 Score: 640
Period size: 174 Copynumber: 3.5 Consensus size: 172
50718429 CGATCTGTGG
* *
50718439 TTTTAATCCGCTCCGCTGTAACTTCAGAGAGATAGGA-TAGTGTCTTCGATCTGCTCCGTTGTAA
1 TTTTAATCCGCTCCGCTGTAACTTCAGGGAGATAGGATTA-TGTCTTCGATCTGCTCCGCTGTAA
* * *
50718503 CCTCAGGGGGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCT
65 CCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCT
50718568 GGTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
130 GGTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCC--TA
* * * *
50718613 TTTTAAACCGTTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCAATCTGCTCCGCTGTAAC
1 TTTTAATCCGCTCCGCTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAAC
50718678 CTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
66 CTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
50718743 GTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTA
131 GTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTA
** * * * * * * *
50718785 TCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTG
1 T-TTTAATCCGCTCCGCTGTAACTTCAGGGAGATAGGAT-T--ATGTCTTCGATCTGCTCCGCTG
* * * * * * *
50718850 TAACCTCAGGGAGATAAGACCTG---G--TGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGA
62 TAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA
** *** * * * *
50718910 TCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAATAT--TA
127 -CC--TGGTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTA
* * * * * * *
50718957 TGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCAC
1 T-T-TT-AATCCGCTCCGCTGTAACTTCAGGGAGATAGGAT-T--ATGTCTTCGATCTGCTCCGC
*
50719022 TGTAACCTCAGGGAGATAAGACCTGA
60 TGTAACCTCAGGGAGATAAGATCTGA
50719048 TGCGATCTAC
Statistics
Matches: 383, Mismatches: 41, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
171 30 0.08
172 9 0.02
173 31 0.08
174 272 0.71
175 2 0.01
176 39 0.10
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (172 bp):
TTTTAATCCGCTCCGCTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAAC
CTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
GTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTA
Found at i:50718795 original size:130 final size:127
Alignment explanation
Indices: 50718627--50719256 Score: 556
Period size: 130 Copynumber: 4.9 Consensus size: 127
50718617 AAACCGTTCC
* * ** * *
50718627 ACTGTAACTTCAGGGAGATAGGATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAG
1 ACTGTAACTTCAGAGAGATAAGATCCTAT-TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
*
50718692 ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
65 ATCT--AAGTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
* *
50718757 ACTGTAACTTCAGAGAGATAAGATCCTATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
1 ACTGTAACTTCAGAGAGATAAGATCCTAT-TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
*
50718822 ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
65 ATCT--AAGTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
* * *
50718887 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAA
1 ACTGTAACTTCAGAGAGATAAGATCC--TATTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
* * * * * * * * *
50718952 TAT-TATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTA
64 GATCTAAGTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTG---G--TGCGATCTG
*
50719016 CTCC
124 CTCT
* * * * * * * * *
50719020 ACTGTAACCTCAGGGAGATAAGA-CCTGA-TGCGATCTACTCTACTGTAACTTCAGAGAGACAAG
1 ACTGTAACTTCAGAGAGATAAGATCCT-ATTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
* * * * *
50719083 ATCCT--GTCTTCGATCTACTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTA
65 AT-CTAAGTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTG---G--TGCGATCTG
50719146 CTCT
124 CTCT
* * * ** * * * * * *
50719150 ACTGTAACCTCAGGGAGTTAAGA-CCTGGTGCGATCTGCTCTACTGTAACTTTAGAGAGATAAGA
1 ACTGTAACTTCAGAGAGATAAGATCCTATTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
* * *
50719214 TCCT--GTCTTCGATCTGCTCCGCTGTAACCTCAGAGAGATAAGA
66 T-CTAAGTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGA
50719257 TCTGAAATTC
Statistics
Matches: 446, Mismatches: 43, Indels: 22
0.87 0.08 0.04
Matches are distributed among these distances:
128 39 0.09
130 338 0.76
131 33 0.07
132 6 0.01
133 30 0.07
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (127 bp):
ACTGTAACTTCAGAGAGATAAGATCCTATTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
TCTAAGTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
Found at i:50719003 original size:304 final size:304
Alignment explanation
Indices: 50718454--50719217 Score: 1366
Period size: 304 Copynumber: 2.5 Consensus size: 304
50718444 ATCCGCTCCG
* ** * *
50718454 CTGTAACTTCAGAGAGATAGGATAGTGTCTTCGATCTGCTCCGTTGTAACCTCAGGGGGATAAGA
1 CTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGA
*
50718519 TCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTA
66 TCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTA
* *
50718584 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAACCGTTCCACTGTAACTTCAGGGAGATAGG
131 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAACCGCTCCACTGTAACTTCAGGGAGATAAG
50718649 ATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACT
196 ATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACT
* *
50718714 CCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTA
261 CCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTA
*
50718758 CTGTAACTTCAGAGAGATAAGATCCTATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGA
1 CTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGA
*
50718823 TCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTA
66 TCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTA
* *
50718888 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAT
131 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAACCGCTCCACTGTAACTTCAGGGAGATAAG
50718953 ATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACT
196 ATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACT
50719018 CCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTA
261 CCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTA
* *
50719062 CTGTAACTTCAGAGAGACAAGATCCTGTCTTCGATCTACTCCGCTGTAACCTCAGGGAGATAAGA
1 CTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGA
*
50719127 TCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGTTAAGACCTGGTGCGATCTGCTCTA
66 TCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTA
*
50719192 CTGTAACTTTAGAGAGATAAGATCCT
131 CTGTAACTTCAGAGAGATAAGATCCT
50719218 GTCTTCGATC
Statistics
Matches: 440, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
304 440 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (304 bp):
CTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGA
TCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTA
CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAACCGCTCCACTGTAACTTCAGGGAGATAAG
ATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACT
CCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTA
Found at i:50719054 original size:174 final size:174
Alignment explanation
Indices: 50718752--50719087 Score: 582
Period size: 174 Copynumber: 1.9 Consensus size: 174
50718742 GGTGCGATCT
* * *
50718752 GCTCTACTGTAACTTCAGAGAGATAAGATCCTATCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
1 GCTCCACTGTAACTTCAGAGAGATAAGATCATATCTTCAATCTGCTCCGCTGTAACCTCAGGGAG
*
50718817 ATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCT
66 ATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCT
* *
50718882 GCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
131 ACTCTACTGTAACTTCAGAGAGACAAGATCCTTTATTTTAATCC
* * * *
50718926 GCTCCACTGTAACTTCAGGGAGATAATATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAG
1 GCTCCACTGTAACTTCAGAGAGATAAGATCATATCTTCAATCTGCTCCGCTGTAACCTCAGGGAG
50718991 ATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCT
66 ATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCT
50719056 ACTCTACTGTAACTTCAGAGAGACAAGATCCT
131 ACTCTACTGTAACTTCAGAGAGACAAGATCCT
50719088 GTCTTCGATC
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 152 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (174 bp):
GCTCCACTGTAACTTCAGAGAGATAAGATCATATCTTCAATCTGCTCCGCTGTAACCTCAGGGAG
ATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCT
ACTCTACTGTAACTTCAGAGAGACAAGATCCTTTATTTTAATCC
Found at i:50719257 original size:130 final size:130
Alignment explanation
Indices: 50718926--50719347 Score: 700
Period size: 130 Copynumber: 3.2 Consensus size: 130
50718916 ATTTTAATCC
* * * ** *
50718926 GCTCCACTGTAACTTCAGGGAGATAATATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAG
1 GCTCTACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
*
50718991 ATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCT
66 ATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCT
* * *
50719056 ACTCTACTGTAACTTCAGAGAGACAAGATCCTGTCTTCGATCTACTCCGCTGTAACCTCAGGGAG
1 GCTCTACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
* *
50719121 ATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGTTAAGACCTGGTGCGATCT
66 ATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCT
* *
50719186 GCTCTACTGTAACTTTAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGAGAG
1 GCTCTACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
* *
50719251 ATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGGTGCGATCT
66 ATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCT
50719316 GCTCTACTGTAACTTCAGAGAGATAAGATCCT
1 GCTCTACTGTAACTTCAGAGAGATAAGATCCT
50719348 TTATTTTAAA
Statistics
Matches: 270, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 270 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (130 bp):
GCTCTACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
ATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCT
Found at i:50719262 original size:434 final size:435
Alignment explanation
Indices: 50718627--50719444 Score: 1406
Period size: 434 Copynumber: 1.9 Consensus size: 435
50718617 AAACCGTTCC
* * * * *
50718627 ACTGTAACTTCAGGGAGATAGGATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAG
1 ACTGTAACTTCAGAGAGACAAGATCATGTCTTCAATCTACTCCGCTGTAACCTCAGGGAGATAAG
50718692 ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
66 ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
*
50718757 ACTGTAACTTCAGAGAGATAAGATCCTATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
131 ACTGTAACTTCAGAGAGATAAGATCCTATCTTCGATCTGCTCCGCTGTAACCTCAGAGAGATAAG
*
50718822 ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
196 ATCTGAAAGTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
* *
50718887 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATA
261 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAACCGCTCCACTATAATC-TCAGGGAGATA
* **
50718951 ATATTA-TGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCT
325 AGATTACTAACTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCT
50719015 ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
390 ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
* *
50719061 ACTGTAACTTCAGAGAGACAAGATCCTGTCTTCGATCTACTCCGCTGTAACCTCAGGGAGATAAG
1 ACTGTAACTTCAGAGAGACAAGATCATGTCTTCAATCTACTCCGCTGTAACCTCAGGGAGATAAG
* *
50719126 ATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGTTAAGACCTGGTGCGATCTGCTCT
66 ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
* *
50719191 ACTGTAACTTTAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGAGAGATAAG
131 ACTGTAACTTCAGAGAGATAAGATCCTATCTTCGATCTGCTCCGCTGTAACCTCAGAGAGATAAG
*
50719256 ATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
196 ATCTGAAAGTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
* *
50719321 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAACCGTTCCACTATAATCTCAGGGAGATAG
261 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAACCGCTCCACTATAATCTCAGGGAGATAA
* *
50719386 GATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTC
326 GATTACTAACTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTC
50719445 AGCCAGCTCC
Statistics
Matches: 359, Mismatches: 23, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
434 309 0.86
435 50 0.14
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (435 bp):
ACTGTAACTTCAGAGAGACAAGATCATGTCTTCAATCTACTCCGCTGTAACCTCAGGGAGATAAG
ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
ACTGTAACTTCAGAGAGATAAGATCCTATCTTCGATCTGCTCCGCTGTAACCTCAGAGAGATAAG
ATCTGAAAGTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCT
ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAACCGCTCCACTATAATCTCAGGGAGATAA
GATTACTAACTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTA
CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
Found at i:50719322 original size:46 final size:42
Alignment explanation
Indices: 50718480--50719343 Score: 443
Period size: 46 Copynumber: 19.9 Consensus size: 42
50718470 ATAGGATAGT
* ** * *
50718480 GTCTTCGATCTGCTCCGTTGTAACCTCAGGGGGATAAGATCTG
1 GTCTTCG-TCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
* *
50718523 AAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTG
1 ---GTCTTC-GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
* * * * *
50718569 G--TGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCT-
1 GTCTTCG-TCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTG
* * * ** * * * *
50718610 TTATT-TTAAACCGTTCCACTGTAACTTCAGGGAGATAGGA-TTAT
1 GTCTTCGTCTA-C--TCCACTGTAACCTCAGGGAGATAAGACCT-G
* * * *
50718654 GTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTG
1 GTCTTC-GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
50718697 AAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
1 ---GTCTTC-GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
* * * * *
50718743 G--TGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCT-
1 GTCTTCG-TCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTG
* * * *
50718784 ATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTG
1 GTCTTCG-TCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
50718827 AAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
1 ---GTCTTC-GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
* * * * * *
50718873 G--TGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTT
1 GTCTTCG-TCTACTCCACTGTAACCTCAGGGAGATAAGA-CC-TG
* * ** ** * * * *
50718916 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAATA-TTAT
1 GTCTTCGTCTACTCCACTGTAACCTCAGGGAGATAAGACCT-G
* * * *
50718958 GTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTG
1 GTCTTC-GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
50719001 AAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCT-
1 ---GTCTTC-GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
* * * * * *
50719046 G-ATGCGATCTACTCTACTGTAACTTCAGAGAGACAAGATCCT-
1 GTCTTCG-TCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTG
* *
50719088 GTCTTCGATCTACTCCGCTGTAACCTCAGGGAGATAAGATCTG
1 GTCTTCG-TCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
* *
50719131 AAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGTTAAGACCTG
1 ---GTCTTC-GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
* * * * * *
50719177 G--TGCGATCTGCTCTACTGTAACTTTAGAGAGATAAGATCCT-
1 GTCTTCG-TCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTG
* * * *
50719218 GTCTTCGATCTGCTCCGCTGTAACCTCAGAGAGATAAGATCTG
1 GTCTTCG-TCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
* *
50719261 AAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTG
1 ---GTCTTC-GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
* * * * *
50719307 G--TGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGA
1 GTCTTCG-TCTACTCCACTGTAACCTCAGGGAGATAAGA
50719344 TCCTTTATTT
Statistics
Matches: 638, Mismatches: 126, Indels: 113
0.73 0.14 0.13
Matches are distributed among these distances:
40 6 0.01
41 176 0.28
42 28 0.04
43 148 0.23
44 55 0.09
45 2 0.00
46 219 0.34
47 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (42 bp):
GTCTTCGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
Found at i:50719519 original size:87 final size:86
Alignment explanation
Indices: 50719439--50720051 Score: 759
Period size: 86 Copynumber: 7.1 Consensus size: 86
50719429 AGATCTGAAA
* * * * * * * *
50719439 TTCTTCAGCCAGCTCCACTACAACCGA-GAGAGGTAAGG-TTCGTCTTCGACCTGCTTCGCTGTC
1 TTCTTCAACCAGCTCCACTGCAACCAATGA-AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTT
* *
50719502 AATGCAAGAAGGCAAGATCTGT
65 AACGCAGGAAGGCAAGATCTGT
* * *
50719524 TGTCTTCAACCAGCTCCA-T-C-ACAAATGAGGGAGGCAAGGTTTGTGTTTTCGACCTGCTTCGC
1 T-TCTTCAACCAGCTCCACTGCAACCAATGA---AGGCAAGGCTT-TGTTTTCGATCTGCTTCGC
* * *
50719586 TGTCAATGCAGGAAGGCAAGATCTTT
61 TGTTAACGCAGGAAGGCAAGATCTGT
*
50719612 TGTCTTCAACCAGCTCCACTGCAACCAATGAAGGTAAGGCTTTGTTTTCGATCTGCTTCGCTGTT
1 T-TCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTT
* *
50719677 AACGCAGGAAAGCAAGATCTGC
65 AACGCAGGAAGGCAAGATCTGT
*
50719699 TTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTA
1 TTCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTA
*
50719764 ACGCAGGAAGGCAAGATCTAT
66 ACGCAGGAAGGCAAGATCTGT
* * * *
50719785 TTCTTTAACTAGCTCCACTGTAACCAATGAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTA
1 TTCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTA
* *
50719850 ATGCAGGAAGGCAAGATCTGC
66 ACGCAGGAAGGCAAGATCTGT
* * * * *
50719871 TTCTTTAACCAGCTTCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCAATCTGCTTCACTATTA
1 TTCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTA
50719936 ACGCAGGAAGGCAAGATCTGCT
66 ACGCAGGAAGGCAAGATCTG-T
* * * * *
50719958 ATCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGGATTTGTTTTCGATCTGCTTCACTGTTA
1 TTCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTA
*
50720023 ACGCAGAAAGGCAAGATCTGAT
66 ACGCAGGAAGGCAAGATCTG-T
*
50720045 GTCTTCA
1 TTCTTCA
50720052 TTGATCTGTT
Statistics
Matches: 470, Mismatches: 48, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
83 3 0.01
84 3 0.01
85 2 0.00
86 260 0.55
87 125 0.27
88 68 0.14
89 1 0.00
90 1 0.00
91 7 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (86 bp):
TTCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTA
ACGCAGGAAGGCAAGATCTGT
Found at i:50719560 original size:44 final size:44
Alignment explanation
Indices: 50719501--50719629 Score: 120
Period size: 44 Copynumber: 2.9 Consensus size: 44
50719491 GCTTCGCTGT
*
50719501 CAATGCAAGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCA
1 CAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCA
* * * * * * **
50719545 CAAATG-AGGGAGGCAAGGTTTG-TGTTTTCGACCTGCTTCGC-TGT
1 C-AATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGC-TC-CATCA
*
50719589 CAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA
1 CAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCA
50719630 CTGCAACCAA
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
43 16 0.25
44 31 0.49
45 16 0.25
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (44 bp):
CAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCA
Found at i:50719862 original size:259 final size:258
Alignment explanation
Indices: 50719440--50720051 Score: 804
Period size: 259 Copynumber: 2.4 Consensus size: 258
50719430 GATCTGAAAT
* * * * * * *
50719440 TCTTCAGCCAGCTCCACTACAACCGA-GAGAGGTAAGGTTCGTCTTCGACCTGCTTCGCTGTCAA
1 TCTTCAACCAGCTCCACTGCAACCGATGA-AGGCAAGGTTTGTTTTCGATCTGCTTCGCTGTTAA
* * * * *
50719504 TGCAAGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAAATGAGGGAGGCAAGGTTTGTG
65 CGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATAACAAATGA--GAGGCAAGGCTTGTG
* **
50719569 TTTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTGC
128 TTTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCT-TCTTCAACCAGCTCCACTGC
* * * *
50719634 AACCAATGAAGGTAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAAGCAAGATCTGC
192 AACCAATGAAGGCAAGGCTTTGTTTTCAATCTGCTTCACTATTAACGCAGGAAAGCAAGATCTGC
50719699 T-
257 TA
* *
50719700 TCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
1 TCTTCAACCAGCTCCACTGCAACCGATGAAGGCAAGG-TTTGTTTTCGATCTGCTTCGCTGTTAA
* * *
50719765 CGCAGGAAGGCAAGATCTATT-TCTTTAACTAGCTCCACTGTAACCAATGA-AGGCAAGGCTT-T
65 CGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCA---TAACAAATGAGAGGCAAGGCTTGT
* * * *
50719827 GTTTTCGATCTACTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTTCACTGC
127 GTTTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCACTGC
*
50719892 AACCAATGAAGGCAAGGCTTTGTTTTCAATCTGCTTCACTATTAACGCAGGAAGGCAAGATCTGC
192 AACCAATGAAGGCAAGGCTTTGTTTTCAATCTGCTTCACTATTAACGCAGGAAAGCAAGATCTGC
50719957 TA
257 TA
* *
50719959 TCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGGATTTGTTTTCGATCTGCTTCACTGTTAA
1 TCTTCAACCAGCTCCACTGCAACCGATGAAGGCAAGG-TTTGTTTTCGATCTGCTTCGCTGTTAA
*
50720024 CGCAGAAAGGCAAGATCTGA-TGTCTTCA
65 CGCAGGAAGGCAAGATCT-ATTGTCTTCA
50720052 TTGATCTGTT
Statistics
Matches: 308, Mismatches: 36, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
258 79 0.26
259 119 0.39
260 59 0.19
261 43 0.14
263 8 0.03
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (258 bp):
TCTTCAACCAGCTCCACTGCAACCGATGAAGGCAAGGTTTGTTTTCGATCTGCTTCGCTGTTAAC
GCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATAACAAATGAGAGGCAAGGCTTGTGTTT
TCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCACTGCAACC
AATGAAGGCAAGGCTTTGTTTTCAATCTGCTTCACTATTAACGCAGGAAAGCAAGATCTGCTA
Found at i:50720952 original size:20 final size:20
Alignment explanation
Indices: 50720923--50720966 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
50720913 AGTTACGAAA
*
50720923 AAAAGAAAAAA-AATAAAGAG
1 AAAAGAAAAAATAAAAAAG-G
*
50720943 AAAAGTAAAAATAAAAAAGG
1 AAAAGAAAAAATAAAAAAGG
50720963 AAAA
1 AAAA
50720967 TAGAACTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAAATAAAAAAGG
Found at i:50721643 original size:6 final size:6
Alignment explanation
Indices: 50721636--50721694 Score: 64
Period size: 6 Copynumber: 9.3 Consensus size: 6
50721626 CGGCCCGAAG
* * *
50721636 AAGAAG AAGAAA AAGAAA AAGAAA GAAGGAAA AAGAGAG AAGAAA AAGAGA
1 AAGAAA AAGAAA AAGAAA AAGAAA -AA-GAAA AAGA-AA AAGAAA AAGAAA
50721687 AAGAAA AA
1 AAGAAA AA
50721695 AAGAAATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 32 0.71
7 9 0.20
8 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:50722222 original size:11 final size:11
Alignment explanation
Indices: 50722191--50722239 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
50722181 GTATTTATAT
50722191 TTTTAATTTAA
1 TTTTAATTTAA
*
50722202 -TTCAATTTTAA
1 TTTTAA-TTTAA
50722213 TTTTAATTT-A
1 TTTTAATTTAA
*
50722223 TTTTAA-ATAA
1 TTTTAATTTAA
50722233 TTTTAAT
1 TTTTAAT
50722240 AAATAAGACA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
9 1 0.03
10 18 0.58
11 8 0.26
12 4 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAATTTAA
Found at i:50722527 original size:17 final size:17
Alignment explanation
Indices: 50722507--50722766 Score: 125
Period size: 17 Copynumber: 14.6 Consensus size: 17
50722497 AAAAAATCAG
*
50722507 GTTTCAAAAATTGTCGT
1 GTTTCAAAAATTCTCGT
* * *
50722524 GTTTTAAAAATTTTCAT
1 GTTTCAAAAATTCTCGT
* *
50722541 GTTTCTAAAATGT-TTGT
1 GTTTCAAAAAT-TCTCGT
* *
50722558 ATTTCAAAAAATCCTCGT
1 GTTTC-AAAAATTCTCGT
*
50722576 GTTTTCAAAAATTCTCAT
1 G-TTTCAAAAATTCTCGT
*
50722594 GTTTC-AAAATTCTAGT
1 GTTTCAAAAATTCTCGT
* *
50722610 GTTTCAAAAATTTTCAT
1 GTTTCAAAAATTCTCGT
* *
50722627 GTTTTCAAAAATTTCCCCT
1 G-TTTCAAAAA-TTCTCGT
50722646 GTTTTCAAAAATTCTCGT
1 G-TTTCAAAAATTCTCGT
* ** * **
50722664 ATTTTGAAAATTTTATT
1 GTTTCAAAAATTCTCGT
50722681 GTTTTCAAAAAAAAAACTT-TCGT
1 G-TTTC-----AAAAA-TTCTCGT
* *
50722704 GTTTTATAAA-TCTCCGT
1 GTTTCAAAAATTCT-CGT
50722721 GTTTTCAAAAAATTCTCGT
1 G-TTTC-AAAAATTCTCGT
*
50722740 CTTTCAAAAATT-TCCGT
1 GTTTCAAAAATTCT-CGT
50722757 GTTTCAAAAA
1 GTTTCAAAAA
50722767 AAAAATCCTC
Statistics
Matches: 182, Mismatches: 41, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
15 1 0.01
16 16 0.09
17 80 0.44
18 44 0.24
19 26 0.14
20 3 0.02
22 3 0.02
23 7 0.04
24 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (17 bp):
GTTTCAAAAATTCTCGT
Found at i:50722568 original size:52 final size:51
Alignment explanation
Indices: 50722508--50722691 Score: 165
Period size: 54 Copynumber: 3.5 Consensus size: 51
50722498 AAAAATCAGG
* *
50722508 TTTCAAAAATTGTCGTGTTTT-AAAAATTTTCATGTTTCTAAAATGT-TTGTA
1 TTTCAAAAATTCTCGTGTTTTCAAAAATTTTCATGTTTC-AAAAT-TCTAGTA
* * *
50722559 TTTCAAAAAATCCTCGTGTTTTCAAAAATTCTCATGTTTCAAAATTCTAGTG
1 TTTC-AAAAATTCTCGTGTTTTCAAAAATTTTCATGTTTCAAAATTCTAGTA
* * * * *
50722611 TTTCAAAAATTTTCATGTTTTCAAAAATTTCCCCTGTTTTCAAAAATTCTCGTA
1 TTTCAAAAATTCTCGTGTTTTCAAAAATTT-TCATG-TTTC-AAAATTCTAGTA
** * **
50722665 TTTTGAAAATTTTATTGTTTTCAAAAA
1 TTTCAAAAATTCTCGTGTTTTCAAAAA
50722692 AAAAACTTTC
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
51 27 0.25
52 30 0.27
53 20 0.18
54 33 0.30
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (51 bp):
TTTCAAAAATTCTCGTGTTTTCAAAAATTTTCATGTTTCAAAATTCTAGTA
Found at i:50722583 original size:19 final size:18
Alignment explanation
Indices: 50722559--50722691 Score: 107
Period size: 18 Copynumber: 7.5 Consensus size: 18
50722549 AATGTTTGTA
* *
50722559 TTTCAAAAAATCCTCGTGT
1 TTTC-AAAAATTCTCATGT
50722578 TTTCAAAAATTCTCATG-
1 TTTCAAAAATTCTCATGT
50722595 TTTC-AAAATTCT-A-GT
1 TTTCAAAAATTCTCATGT
*
50722610 GTTTCAAAAATTTTCATGT
1 -TTTCAAAAATTCTCATGT
* *
50722629 TTTCAAAAATTTCCCCTGT
1 TTTCAAAAA-TTCTCATGT
* *
50722648 TTTCAAAAATTCTCGTAT
1 TTTCAAAAATTCTCATGT
* *
50722666 TTT-GAAAATT-TTATTGT
1 TTTCAAAAATTCTCA-TGT
50722683 TTTCAAAAA
1 TTTCAAAAA
50722692 AAAAACTTTC
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
14 1 0.01
15 1 0.01
16 13 0.14
17 22 0.24
18 34 0.37
19 21 0.23
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (18 bp):
TTTCAAAAATTCTCATGT
Found at i:50722634 original size:70 final size:70
Alignment explanation
Indices: 50722508--50722675 Score: 173
Period size: 70 Copynumber: 2.4 Consensus size: 70
50722498 AAAAATCAGG
* * * *
50722508 TTTCAAAAATTGTCGTGTTTTAAAAATTTTCATGTTTCTAAAATGTTTGTATTTCAAAAA-ATCC
1 TTTCAAAAATTCTCATGTTTTAAAAATTCTCATGTTTCAAAAATGTTTGTATTTCAAAAATATCC
*
50722572 TCGTGT
66 -CCTGT
* * *
50722578 TTTCAAAAATTCTCATG-TTTCAAAATTCT-AGTGTTTCAAAAATTTTCATGT-TTTCAAAAATT
1 TTTCAAAAATTCTCATGTTTTAAAAATTCTCA-TGTTTCAAAAATGTT--TGTATTTCAAAAATA
50722640 TCCCCTGT
63 TCCCCTGT
* * *
50722648 TTTCAAAAATTCTCGTATTTTGAAAATT
1 TTTCAAAAATTCTCATGTTTTAAAAATT
50722676 TTATTGTTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
68 1 0.01
69 23 0.28
70 43 0.52
71 15 0.18
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (70 bp):
TTTCAAAAATTCTCATGTTTTAAAAATTCTCATGTTTCAAAAATGTTTGTATTTCAAAAATATCC
CCTGT
Found at i:50722668 original size:18 final size:18
Alignment explanation
Indices: 50722508--50722673 Score: 80
Period size: 18 Copynumber: 9.4 Consensus size: 18
50722498 AAAAATCAGG
* *
50722508 TTTCAAAAATTGTCGTGT
1 TTTCAAAAATTCTCGTAT
*
50722526 TTT-AAAAATTTTC--AT
1 TTTCAAAAATTCTCGTAT
* *
50722541 GTTTCTAAAATGT-TTGTA-
1 -TTTCAAAAAT-TCTCGTAT
* *
50722559 TTTCAAAAAATCCTCGTGT
1 TTTC-AAAAATTCTCGTAT
50722578 TTTCAAAAATTCTC--AT
1 TTTCAAAAATTCTCGTAT
* *
50722594 GTTTC-AAAATTCTAGT-G
1 -TTTCAAAAATTCTCGTAT
* * *
50722611 TTTCAAAAATTTTCATGT
1 TTTCAAAAATTCTCGTAT
* * *
50722629 TTTCAAAAATTTCCCCTGT
1 TTTCAAAAA-TTCTCGTAT
50722648 TTTCAAAAATTCTCGTAT
1 TTTCAAAAATTCTCGTAT
*
50722666 TTTGAAAA
1 TTTCAAAA
50722674 TTTTATTGTT
Statistics
Matches: 111, Mismatches: 23, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
15 1 0.01
16 16 0.14
17 31 0.28
18 43 0.39
19 20 0.18
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.45
Consensus pattern (18 bp):
TTTCAAAAATTCTCGTAT
Found at i:50722779 original size:75 final size:75
Alignment explanation
Indices: 50722645--50722787 Score: 182
Period size: 75 Copynumber: 1.9 Consensus size: 75
50722635 AAATTTCCCC
** * * * *
50722645 TGTTTTCAAAAATTCTCGTATTTTGAAAATTTTATTGTTTTCAAAAAAAAAACTTTCGTGTTTTA
1 TGTTTTCAAAAATTCTCGTATTTCAAAAATTTCAGTGTTTTCAAAAAAAAAACTCTCGTGTTTCA
50722710 TAAATCTCCG
66 TAAATCTCCG
* *
50722720 TGTTTTCAAAAAATTCTCGTCTTTCAAAAATTTCCGTG-TTTCAAAAAAAAAA-TCCTCGTGTTT
1 TGTTTTC-AAAAATTCTCGTATTTCAAAAATTTCAGTGTTTTCAAAAAAAAAACT-CTCGTGTTT
50722783 CATAA
64 CATAA
50722788 TTTATCAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
74 1 0.02
75 33 0.57
76 24 0.41
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (75 bp):
TGTTTTCAAAAATTCTCGTATTTCAAAAATTTCAGTGTTTTCAAAAAAAAAACTCTCGTGTTTCA
TAAATCTCCG
Found at i:50722831 original size:17 final size:18
Alignment explanation
Indices: 50722804--50722853 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
50722794 AAAATTTTTG
*
50722804 TGTTTTAAAAAATTCTCA
1 TGTTTTCAAAAATTCTCA
* * *
50722822 TG-TTTCAAAAACTGTCG
1 TGTTTTCAAAAATTCTCA
50722839 TGTTTTCAAAAATTC
1 TGTTTTCAAAAATTC
50722854 CCGTGTTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (18 bp):
TGTTTTCAAAAATTCTCA
Found at i:50722899 original size:19 final size:19
Alignment explanation
Indices: 50722875--50722928 Score: 85
Period size: 17 Copynumber: 2.9 Consensus size: 19
50722865 AAAATTTATG
50722875 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTCAAAAAA
50722894 TTTTCGTG-TTTC-AAAAA
1 TTTTCGTGTTTTCAAAAAA
*
50722911 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
50722929 TTATTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 12 0.38
18 8 0.25
19 12 0.38
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTTCGTGTTTTCAAAAAA
Found at i:50722911 original size:17 final size:18
Alignment explanation
Indices: 50722794--50722930 Score: 89
Period size: 18 Copynumber: 7.3 Consensus size: 18
50722784 ATAATTTATC
* *
50722794 AAAATTTTTGTGTTTTAA
1 AAAATTTTCGTGTTTTCA
* *
50722812 AAAATTCTCATG-TTTCA
1 AAAATTTTCGTGTTTTCA
* *
50722829 AAAACTGTCGTGTTTTCA
1 AAAATTTTCGTGTTTTCA
** ***
50722847 AAAATTCCCGTGTTAAAAA
1 AAAATTTTCGTGTT-TTCA
50722866 AAATTTATGTTTTCGTGTTTTCAA
1 AAA---A--TTTTCGTGTTTTC-A
50722890 AAAATTTTCGTG-TTTCA
1 AAAATTTTCGTGTTTTCA
*
50722907 AAAATCTTCGTGTTTTCA
1 AAAATTTTCGTGTTTTCA
50722925 AAAATT
1 AAAATT
50722931 ATTATTTTGT
Statistics
Matches: 90, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
17 25 0.28
18 39 0.43
19 12 0.13
21 1 0.01
22 1 0.01
24 12 0.13
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.44
Consensus pattern (18 bp):
AAAATTTTCGTGTTTTCA
Found at i:50726134 original size:16 final size:16
Alignment explanation
Indices: 50726108--50726146 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
50726098 TTAAGAAATA
*
50726108 ATAATTATTATGTTAAT
1 ATAA-TATTATATTAAT
50726125 ATAATATTATATTAAT
1 ATAATATTATATTAAT
50726141 ATAATA
1 ATAATA
50726147 AACATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
ATAATATTATATTAAT
Found at i:50729321 original size:36 final size:36
Alignment explanation
Indices: 50729235--50729321 Score: 138
Period size: 36 Copynumber: 2.4 Consensus size: 36
50729225 AGGTTTAATG
* *
50729235 AAACTACGTCATTTTGGCCTCGCTTCAAAAGCCCCA
1 AAACAACGTCGTTTTGGCCTCGCTTCAAAAGCCCCA
50729271 AAACAACGTCGTTTTGGCCTCGCTTCAAAAGCCCCA
1 AAACAACGTCGTTTTGGCCTCGCTTCAAAAGCCCCA
* *
50729307 AAACGACGTTGTTTT
1 AAACAACGTCGTTTT
50729322 AATGCTGACC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (36 bp):
AAACAACGTCGTTTTGGCCTCGCTTCAAAAGCCCCA
Found at i:50736545 original size:89 final size:89
Alignment explanation
Indices: 50736394--50736567 Score: 330
Period size: 89 Copynumber: 2.0 Consensus size: 89
50736384 ACCACCTGGA
*
50736394 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTCGACATGTCGAAGATCGCA
1 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
*
50736459 TGAGGCAGAGCCACATCGACGTAG
66 TGAGGCAGAACCACATCGACGTAG
50736483 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
1 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
50736548 TGAGGCAGAACCACATCGAC
66 TGAGGCAGAACCACATCGAC
50736568 CCAGACAATC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (89 bp):
ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
TGAGGCAGAACCACATCGACGTAG
Found at i:50737081 original size:57 final size:57
Alignment explanation
Indices: 50737009--50737124 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
50736999 ATTTCATCCA
50737009 TTTATAACTGAGATTACTTTGCAATTTTTTAAGTAGATAAATAAAACACAATCTGAC
1 TTTATAACTGAGATTACTTTGCAATTTTTTAAGTAGATAAATAAAACACAATCTGAC
50737066 TTTATAACTGAGATTACTTTGCAATTTTTTAAGTAGATAAATAAAACACAATCTGAC
1 TTTATAACTGAGATTACTTTGCAATTTTTTAAGTAGATAAATAAAACACAATCTGAC
50737123 TT
1 TT
50737125 AGGGCCTCCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (57 bp):
TTTATAACTGAGATTACTTTGCAATTTTTTAAGTAGATAAATAAAACACAATCTGAC
Found at i:50744718 original size:18 final size:18
Alignment explanation
Indices: 50744678--50744721 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
50744668 AATTTTTATG
**
50744678 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
50744696 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
50744714 CTTGGGTT
1 ATTGGGTT
50744722 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:50745919 original size:20 final size:20
Alignment explanation
Indices: 50745880--50745921 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
50745870 CTGTTAGAGT
*
50745880 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
50745900 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
50745920 TA
1 TA
50745922 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:50745950 original size:15 final size:15
Alignment explanation
Indices: 50745930--50745960 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50745920 TACCGTTGTA
50745930 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
50745945 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
50745960 A
1 A
50745961 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:50750636 original size:20 final size:20
Alignment explanation
Indices: 50750597--50750638 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
50750587 ATGTTAGAGT
*
50750597 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
50750617 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
50750637 TA
1 TA
50750639 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:50750667 original size:15 final size:15
Alignment explanation
Indices: 50750647--50750677 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50750637 TACCGTTGTA
50750647 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
50750662 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
50750677 A
1 A
50750678 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:50753631 original size:13 final size:13
Alignment explanation
Indices: 50753613--50753652 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
50753603 AAATCATGAT
50753613 CCTAAACCCAAAC
1 CCTAAACCCAAAC
*
50753626 CCTAAATCCTAAAC
1 CCTAAA-CCCAAAC
*
50753640 CTTAAACCCAAAC
1 CCTAAACCCAAAC
50753653 TTTAACTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.15
Consensus pattern (13 bp):
CCTAAACCCAAAC
Found at i:50753657 original size:13 final size:13
Alignment explanation
Indices: 50753615--50753657 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
50753605 ATCATGATCC
*
50753615 TAAACCCAAACCC
1 TAAACCCAAACCT
*
50753628 TAAATCCTAAACCT
1 TAAA-CCCAAACCT
*
50753642 TAAACCCAAACTT
1 TAAACCCAAACCT
50753655 TAA
1 TAA
50753658 CTCATGAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAACCCAAACCT
Found at i:50753667 original size:27 final size:26
Alignment explanation
Indices: 50753597--50753680 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 26
50753587 TCGAACTCCG
* *
50753597 AACTTCAAATCATGATCCTAAACCCA
1 AACTTTAAATCATGAACCTAAACCCA
** * *
50753623 AACCCTAAATCCTAAACCTTAAACCCA
1 AACTTTAAATCATGAACC-TAAACCCA
*
50753650 AACTTTAACTCATGAACCCTAAACACCA
1 AACTTTAAATCATGAA-CCTAAAC-CCA
50753678 AAC
1 AAC
50753681 AACTTATTAT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
26 12 0.27
27 24 0.55
28 8 0.18
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.20
Consensus pattern (26 bp):
AACTTTAAATCATGAACCTAAACCCA
Found at i:50754167 original size:64 final size:63
Alignment explanation
Indices: 50754066--50754184 Score: 175
Period size: 64 Copynumber: 1.9 Consensus size: 63
50754056 GATAATGGAA
** *
50754066 TTGGTCGAGTCATTAAGAAGAATAGAAGGTGTATGGATTAACCTCCGAAGTGGGAGTATAGGAT
1 TTGGTCGAGTCACAAAGAAGAATAGAAGGTGTATGGATCAACC-CCGAAGTGGGAGTATAGGAT
* * *
50754130 TTGGTGGAGTCACAAAGAAGGATAGAAGGTGTGTGGATCAACCCCGAAGTGGGAG
1 TTGGTCGAGTCACAAAGAAGAATAGAAGGTGTATGGATCAACCCCGAAGTGGGAG
50754185 GATCCTACGG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 12 0.24
64 37 0.76
ACGTcount: A:0.32, C:0.11, G:0.34, T:0.23
Consensus pattern (63 bp):
TTGGTCGAGTCACAAAGAAGAATAGAAGGTGTATGGATCAACCCCGAAGTGGGAGTATAGGAT
Found at i:50759365 original size:50 final size:50
Alignment explanation
Indices: 50759066--50759357 Score: 442
Period size: 50 Copynumber: 5.8 Consensus size: 50
50759056 ATTTGGGTAA
*
50759066 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
50759116 TGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
50759166 ATAGGTCCCCTGTAAGACCATGTCAGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
50759216 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
50759266 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
50759315 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
50759358 TGTTATGATC
Statistics
Matches: 217, Mismatches: 23, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
49 14 0.06
50 198 0.91
51 5 0.02
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:50762156 original size:4 final size:4
Alignment explanation
Indices: 50762147--50762178 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
50762137 GATGATTACG
50762147 TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA
50762179 AAATGATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:50766952 original size:22 final size:24
Alignment explanation
Indices: 50766927--50766971 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
50766917 ATATGGCAAG
50766927 GAATTAAG-TAGAAAAG-AAGTAT
1 GAATTAAGTTAGAAAAGTAAGTAT
50766949 GAATTAAGTTAGAAAAGTAAGTA
1 GAATTAAGTTAGAAAAGTAAGTA
50766972 AACTTACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.24
Consensus pattern (24 bp):
GAATTAAGTTAGAAAAGTAAGTAT
Found at i:50769390 original size:126 final size:124
Alignment explanation
Indices: 50769100--50769518 Score: 574
Period size: 126 Copynumber: 3.4 Consensus size: 124
50769090 CCCAAACATG
* *
50769100 CTACTATAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
* * * * * *
50769165 TAGAAGTG-TTTTTATACTATTTACTCAGAATCGTCAACTCAAAATTATTTTTTCAAGAC
66 T-GAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
*
50769224 CTATTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
*
50769289 ATGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 -TGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
** * * *
50769350 CTACTGTAGTGAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTATTATCATAA-AGCATCCTA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTA
*
50769414 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCTAGGAC
65 C-TGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * *
50769475 CTACCGTAGCAAAAGCACGTACAC-ATGGGCGCGACTTCAGAAAT
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCACAAAT
50769519 CCATCTGATA
Statistics
Matches: 263, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
124 68 0.26
125 81 0.31
126 112 0.43
127 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
TGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:50771081 original size:17 final size:19
Alignment explanation
Indices: 50771055--50771089 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
50771045 CATTATACTA
50771055 TTTTGATATT-TTTTTATT
1 TTTTGATATTATTTTTATT
50771073 TTTTG-TATTATTTTTAT
1 TTTTGATATTATTTTTAT
50771090 AAAATATCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (19 bp):
TTTTGATATTATTTTTATT
Found at i:50776673 original size:10 final size:10
Alignment explanation
Indices: 50776660--50776768 Score: 59
Period size: 10 Copynumber: 11.1 Consensus size: 10
50776650 AGAAGAAAAA
50776660 GAAAGAAGAG
1 GAAAGAAGAG
50776670 GAAAGAA-A-
1 GAAAGAAGAG
50776678 GAAA-AAGAAG
1 GAAAGAAG-AG
* *
50776688 GAAAGGAGAA
1 GAAAGAAGAG
* *
50776698 GAAAAAAGAAA
1 GAAAGAAG-AG
50776709 GAAA-AAGAAG
1 GAAAGAAG-AG
*
50776719 GAAAGAAAAG
1 GAAAGAAGAG
*
50776729 GAAAGGAGAAG
1 GAAAGAAG-AG
* *
50776740 GAAA-AAAAA
1 GAAAGAAGAG
*
50776749 GAAAGAAGAA
1 GAAAGAAGAG
50776759 G-AAGAAGAG
1 GAAAGAAGAG
50776768 G
1 G
50776769 GAATGAAGGA
Statistics
Matches: 78, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
7 2 0.03
8 4 0.05
9 15 0.19
10 41 0.53
11 16 0.21
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAG
Found at i:50776676 original size:14 final size:14
Alignment explanation
Indices: 50776647--50776793 Score: 90
Period size: 14 Copynumber: 10.5 Consensus size: 14
50776637 GAAGGAGAGG
50776647 GAAAGAAGAA-AAA
1 GAAAGAAGAAGAAA
*
50776660 GAAAGAAGAGGAAA
1 GAAAGAAGAAGAAA
* *
50776674 GAAAGAAAAAGAAG
1 GAAAGAAGAAGAAA
*
50776688 GAAAGGAGAAGAAA
1 GAAAGAAGAAGAAA
50776702 -AAAGAAAGAA-AAA
1 GAAAG-AAGAAGAAA
* *
50776715 GAAGGAAAGAA-AAG
1 GAAAG-AAGAAGAAA
*
50776729 GAAAGGAGAAGGAAAA
1 GAAAGAAGAA-G-AAA
*
50776745 AAAAGAAAGAAG-AA
1 GAAAG-AAGAAGAAA
* *
50776759 G-AAGAAGAGGGAAT
1 GAAAGAAGA-AGAAA
* *
50776773 GAAGGAAAAAGAAA
1 GAAAGAAGAAGAAA
50776787 GAAAGAA
1 GAAAGAA
50776794 AAGGTAATTT
Statistics
Matches: 101, Mismatches: 23, Indels: 19
0.71 0.16 0.13
Matches are distributed among these distances:
12 4 0.04
13 24 0.24
14 57 0.56
15 5 0.05
16 7 0.07
17 4 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (14 bp):
GAAAGAAGAAGAAA
Found at i:50776706 original size:41 final size:40
Alignment explanation
Indices: 50776646--50776794 Score: 125
Period size: 41 Copynumber: 3.8 Consensus size: 40
50776636 AGAAGGAGAG
*
50776646 GGAAAGAAGAA-AAAGAAAGAAGAGGAAAGAAAGAAAAAGAA
1 GGAAAGGAGAAGAAA-AAAGAA-AGGAAAGAAAGAAAAAGAA
* *
50776687 GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAA-AA
1 GGAAAGGAGAAGAAAAAAGAAAG-GAAAGAAAGAAA-AAGAA
* *
50776728 GGAAAGGAGAAGGAAAAA-AAA-GAAAG-AAGAAGAAGAA
1 GGAAAGGAGAAGAAAAAAGAAAGGAAAGAAAGAAAAAGAA
* *
50776765 -G-AGGGAATGAAGGAAAAAGAAA-GAAAGAAA
1 GGAAAGG-A-GAAGAAAAAAGAAAGGAAAGAAA
50776795 AGGTAATTTT
Statistics
Matches: 92, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
35 3 0.03
36 4 0.04
37 16 0.17
38 12 0.13
39 2 0.02
40 5 0.05
41 45 0.49
42 5 0.05
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (40 bp):
GGAAAGGAGAAGAAAAAAGAAAGGAAAGAAAGAAAAAGAA
Found at i:50776744 original size:31 final size:31
Alignment explanation
Indices: 50776638--50776797 Score: 114
Period size: 31 Copynumber: 5.0 Consensus size: 31
50776628 AGTGGGTGAG
* *
50776638 AAGGAGAGGGAAAGAAGAAAAAGAAAGAAGAGGA
1 AAGGAGAAGGAAA-AAG--AAAGAAAGAAAAGGA
* *
50776672 AA-GA-AA-GAAAAAGAAGGAAAGGAGAA-GA
1 AAGGAGAAGGAAAAAGAAAGAAA-GAAAAGGA
** * *
50776700 AAAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
1 AAGGAGAAGGAAAAAGAAAGAAAGAAAAGGA
50776731 AAGGAGAAGGAAAAA-AAAGAAAGAAGAAGAAGA
1 AAGGAGAAGGAAAAAGAAAGAAAGAA-AAG--GA
50776764 AGAGGGAATGAAGGAAAAAGAAAGAAAGAAAAGG
1 A-A-GG-A-GAAGGAAAAAGAAAGAAAGAAAAGG
50776798 TAATTTTTGT
Statistics
Matches: 103, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
28 10 0.10
29 4 0.04
30 18 0.17
31 35 0.34
32 1 0.01
33 5 0.05
34 3 0.03
35 3 0.03
36 1 0.01
37 13 0.13
38 10 0.10
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.01
Consensus pattern (31 bp):
AAGGAGAAGGAAAAAGAAAGAAAGAAAAGGA
Found at i:50778543 original size:314 final size:315
Alignment explanation
Indices: 50777123--50778876 Score: 3057
Period size: 315 Copynumber: 5.6 Consensus size: 315
50777113 AAAATGATAT
* * * * *
50777123 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATCATGTAAAATAATAA
1 ATTTAAAAAACACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
* *
50777188 AATTAGAAATTATGATATTTTTTGAAAGTAAAAAAATGCGGAGAAAAAAATACGAATAAATGGCC
66 AATTAGAAATTATTATATTTTTT-AAAGTAAAAAAATGCGGAG-AAAAAATACGAACAAATGGCC
50777253 GAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACA
129 GAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACA
* * *
50777318 AAATGTACTGAAATAATATAAAATAAGAAAATAAGAAAATATTATATTTTTATTGAAAGTAATAA
194 AAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAA
* * * *
50777383 AATTCGGGAAAATAATACGAGCAAAAGGCAAAAATAAGGGTTTTTTTTCCACTAAGTTA
259 AATTCGGGAAAATAATACGAGCAAAGGGCAGAAATAA-GG-TTTTTTTACACTAAATTA
50777442 ATTTAAAAAAACACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATA
1 ATTT-AAAAAACACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATA
* * *
50777507 AAATTAGAAATTATTATATTTTTTAAAGTAAAAAAATGCAGAGAAAAAATACGAAGAAATGACCG
65 AAATTAGAAATTATTATATTTTTTAAAGTAAAAAAATGCGGAGAAAAAATACGAACAAATGGCCG
50777572 AAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACAA
130 AAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACAA
*
50777637 AATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTGTTATTGAAAGTAATAAA
195 AATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAA
50777702 ATTCGGGAAAATAATACGAGCAAAGGGCAGAAATAAGGTTTTTTTACACTAAATTA
260 ATTCGGGAAAATAATACGAGCAAAGGGCAGAAATAAGGTTTTTTTACACTAAATTA
*
50777758 ATTTAAAAAACACACAAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATTATAA
1 ATTTAAAAAACACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
50777823 AATTAGAAATTATTATATTTTTTAAAGTAAAAAAATGCGGAGAAAAAATACGAACAAATGGCCGA
66 AATTAGAAATTATTATATTTTTTAAAGTAAAAAAATGCGGAGAAAAAATACGAACAAATGGCCGA
* * *
50777888 AGTAAGAGTGTTTTCCTAATTTTTTTAAAAATTTAAAAATAATTAATACAAATATTTCAAACAAA
131 AGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACAAA
* *
50777953 ATGTACTGAAATAATATAAAATAAGAAAATACGAAAATAATATATTGTTATTGAAAGTAATAAAA
196 ATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
50778018 TTCGGGAAAATAATACGAGCAAAGGGCAGAAATAAGGTTTTTTTACACTAAATTA
261 TTCGGGAAAATAATACGAGCAAAGGGCAGAAATAAGGTTTTTTTACACTAAATTA
*
50778073 ATTTAAAAAACACACAAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATTATAA
1 ATTTAAAAAACACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
* * *
50778138 AATTAGAAATTATTATATTTTTTAAAGTAAAAAAATGCAGAGAAAAAATACGAAGAAATGACCGA
66 AATTAGAAATTATTATATTTTTTAAAGTAAAAAAATGCGGAGAAAAAATACGAACAAATGGCCGA
*
50778203 AGTAAGAGCGTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACAAA
131 AGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACAAA
50778268 ATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
196 ATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
**
50778333 TTAAGGAAAATAATACGAGCAAAGGGCAGAAATAAGG-TTTTTTACACTAAATTA
261 TTCGGGAAAATAATACGAGCAAAGGGCAGAAATAAGGTTTTTTTACACTAAATTA
50778387 ATTTAAAAAACACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
1 ATTTAAAAAACACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
50778452 AATTAGAAATTATTATATTTTTTAAAGTAAAAAAATGCGGAGAAAAAATACGAACAAATGGCCGA
66 AATTAGAAATTATTATATTTTTTAAAGTAAAAAAATGCGGAGAAAAAATACGAACAAATGGCCGA
* * *
50778517 AGTAAGAGTGTTTTCCTAATTTTTTTAAAAATTTAAAAATAATTAATACAAATATTTCAAACAAA
131 AGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACAAA
50778582 ATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATT-AAAGTAATAAAA
196 ATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
* *
50778646 TTTGGGAAAATAATACGAGCAAAGGGCAGGAATAATGGTTTTTTTTACACTAAATTA
261 TTCGGGAAAATAATACGAGCAAAGGGCAGAAATAA-GG-TTTTTTTACACTAAATTA
50778703 ATTT-AAAAA-ACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
1 ATTTAAAAAACACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
* *
50778766 AATAAGAAATTATGATATTTTTTAAAGTAAAAAAAATGCGGAGAAAAAAATACGAACAAATGGCC
66 AATTAGAAATTATTATATTTTTTAAAGT-AAAAAAATGCGGAG-AAAAAATACGAACAAATGGCC
50778831 GAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAAAAATAATT
129 GAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAAAAATAATT
50778877 TTTAAAAATT
Statistics
Matches: 1377, Mismatches: 52, Indels: 15
0.95 0.04 0.01
Matches are distributed among these distances:
313 44 0.03
314 338 0.25
315 608 0.44
316 105 0.08
317 2 0.00
318 180 0.13
319 22 0.02
320 78 0.06
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (315 bp):
ATTTAAAAAACACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
AATTAGAAATTATTATATTTTTTAAAGTAAAAAAATGCGGAGAAAAAATACGAACAAATGGCCGA
AGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAAAAATAATTAATACAAATATTTCAAACAAA
ATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
TTCGGGAAAATAATACGAGCAAAGGGCAGAAATAAGGTTTTTTTACACTAAATTA
Found at i:50778880 original size:21 final size:21
Alignment explanation
Indices: 50778854--50778896 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
50778844 TTTACTAAAT
50778854 TTTTTAAAAATTCAAAAATAA
1 TTTTTAAAAATTCAAAAATAA
* *
50778875 TTTTTAAAAATTGAGAAATAA
1 TTTTTAAAAATTCAAAAATAA
50778896 T
1 T
50778897 ATATTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTTTAAAAATTCAAAAATAA
Found at i:50783371 original size:10 final size:10
Alignment explanation
Indices: 50783343--50783379 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
50783333 AAATACATTT
50783343 TTTTTCTCTTC
1 TTTTTCTC-TC
*
50783354 TCTTTCTCTC
1 TTTTTCTCTC
50783364 TTTTTCTCTC
1 TTTTTCTCTC
50783374 TTTTTC
1 TTTTTC
50783380 CGACAGCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:50783497 original size:27 final size:27
Alignment explanation
Indices: 50783459--50783522 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
50783449 TAACACAAGT
* * *
50783459 GGTGCTGCCTATGGGAAAGGTACCTTC
1 GGTGCCGCCTATGGGAAAGGCACCATC
50783486 GGTGCCGCCTATGGGAAAGGCACCATC
1 GGTGCCGCCTATGGGAAAGGCACCATC
50783513 GGTGCCGCCT
1 GGTGCCGCCT
50783523 CTGACAGAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.20
Consensus pattern (27 bp):
GGTGCCGCCTATGGGAAAGGCACCATC
Found at i:50783533 original size:27 final size:27
Alignment explanation
Indices: 50783484--50783544 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
50783474 AAAGGTACCT
** *
50783484 TCGGTGCCGCCTATGGGAAAGGCACCA
1 TCGGTGCCGCCTATGACAAAGGCACAA
* *
50783511 TCGGTGCCGCCTCTGACAGAGGCACAA
1 TCGGTGCCGCCTATGACAAAGGCACAA
*
50783538 TTGGTGC
1 TCGGTGC
50783545 TGCCGATGGC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.18
Consensus pattern (27 bp):
TCGGTGCCGCCTATGACAAAGGCACAA
Done.