Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 68 of 185
Found at i:21433487 original size:20 final size:20
Alignment explanation
Indices: 21433464--21433527 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
21433454 TACTTTGATA
*
21433464 CCCCTGGTTGCACATACGTG
1 CCCCTGATTGCACATACGTG
* ** * ** *
21433484 CCCCTGTTTGTGCTTTTGTA
1 CCCCTGATTGCACATACGTG
21433504 CCCCTGATTGCACATACGTG
1 CCCCTGATTGCACATACGTG
21433524 CCCC
1 CCCC
21433528 CGTTTGTTCT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.12, C:0.36, G:0.20, T:0.31
Consensus pattern (20 bp):
CCCCTGATTGCACATACGTG
Found at i:21433580 original size:40 final size:40
Alignment explanation
Indices: 21433328--21433578 Score: 331
Period size: 40 Copynumber: 6.3 Consensus size: 40
21433318 AATTATACTT
*
21433328 TGTTTGTACTTTGGTACCTCTGATTGCACATACGTGCCCC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
* *
21433368 TGTTTCTACTTTGGTACCCCTGATTGCACTTACGTGCCCC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
* * *
21433408 TGTTTGTACTTTGGTACCCTTGAATACACATACGTGCCCC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
* * *
21433448 TTTTTGTACTTTGATACCCCTGGTTGCACATACGTGCCCC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
* *
21433488 TGTTTGTGCTTTTGTACCCCTGATTGCACATACGTGCCCC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
* * *** * *
21433528 CGTTTGTTCTTCAATACCCCTGATTGCACATACGTTCACC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
*
21433568 TGTTTATACTT
1 TGTTTGTACTT
21433579 CAGTAATTTC
Statistics
Matches: 182, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 182 1.00
ACGTcount: A:0.16, C:0.29, G:0.17, T:0.38
Consensus pattern (40 bp):
TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
Found at i:21439682 original size:20 final size:20
Alignment explanation
Indices: 21439659--21439723 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
21439649 CACATACGTG
21439659 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
** * * *
21439679 CCCCTAATTGCACTTTC-TTG
1 CCCCTGTTTGTAC-TTCGATA
**
21439699 TGCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
21439719 CCCCT
1 CCCCT
21439724 AATTGCACAT
Statistics
Matches: 29, Mismatches: 14, Indels: 4
0.62 0.30 0.09
Matches are distributed among these distances:
19 3 0.10
20 23 0.79
21 3 0.10
ACGTcount: A:0.14, C:0.32, G:0.14, T:0.40
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGATA
Found at i:21439761 original size:80 final size:79
Alignment explanation
Indices: 21439625--21439834 Score: 213
Period size: 79 Copynumber: 2.6 Consensus size: 79
21439615 TTATACCCTT
* * * *
21439625 TTTGTACTTCTATACCCCTGATTACACATACGTGCCCCTGTTTGTACTTCGATACCCCTAATTGC
1 TTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCT-ACTGC
* * * ** *
21439690 ACTTTCTTGTGCCTG
65 ACATACGTGCCCCCG
* * * *** *
21439705 TTTGTACTTCGATACCCCTAATTGCACATACGTGCCCCTATTTTTATTTTTCTACCCCTGCTGCA
1 TTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTACTGCA
21439770 CATACGTGCCCCCG
66 CATACGTGCCCCCG
* * * * *
21439784 TTTGTACTTCGGTATCCCTGATTGCACATACGTGCCCTTGTTTATACTTCG
1 TTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCG
21439835 GTAATTCAAA
Statistics
Matches: 104, Mismatches: 26, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
79 54 0.52
80 50 0.48
ACGTcount: A:0.17, C:0.30, G:0.14, T:0.38
Consensus pattern (79 bp):
TTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTACTGCA
CATACGTGCCCCCG
Found at i:21439837 original size:40 final size:40
Alignment explanation
Indices: 21439620--21439834 Score: 225
Period size: 40 Copynumber: 5.4 Consensus size: 40
21439610 GTAAATTATA
* * *
21439620 CCCTTTTTGTACTTCTATACCCCTGATTACACATACGTGC
1 CCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGC
* * * * *
21439660 CCCTGTTTGTACTTCGATACCCCTAATTGCACTTTCTTGT
1 CCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGC
* *
21439700 GCCTGTTTGTACTTCGATACCCCTAATTGCACATACGTGC
1 CCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGC
* * * *** *
21439740 CCCTATTTTTATTTTTCTACCCCTG-CTGCACATACGTGC
1 CCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGC
* * *
21439779 CCCCGTTTGTACTTCGGTATCCCTGATTGCACATACGTGC
1 CCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGC
* *
21439819 CCTTGTTTATACTTCG
1 CCCTGTTTGTACTTCG
21439835 GTAATTCAAA
Statistics
Matches: 140, Mismatches: 34, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
39 30 0.21
40 110 0.79
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (40 bp):
CCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGC
Found at i:21440247 original size:13 final size:13
Alignment explanation
Indices: 21440229--21440253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21440219 TGTGACGCAC
21440229 GGCTATACCACAT
1 GGCTATACCACAT
21440242 GGCTATACCACA
1 GGCTATACCACA
21440254 CGGTCGTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (13 bp):
GGCTATACCACAT
Found at i:21446820 original size:28 final size:28
Alignment explanation
Indices: 21446777--21446888 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
21446767 GGCTAGTCTA
* *
21446777 TCATAGTTCGTCACAAAGGTTTATTCCTT
1 TCATAATTCGCCACAAAGGTTTATT-CTT
* *
21446806 T-ATAATTCACCACAAAGGTGTATTCTT
1 TCATAATTCGCCACAAAGGTTTATTCTT
* * *
21446833 TCGTAATTTGCCACAAAGGTTTATTTTT
1 TCATAATTCGCCACAAAGGTTTATTCTT
* *
21446861 TCATAGTTCGCCACAAAGGCTTATTCTT
1 TCATAATTCGCCACAAAGGTTTATTCTT
21446889 CCCTAATGTG
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 4 0.06
28 63 0.93
29 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (28 bp):
TCATAATTCGCCACAAAGGTTTATTCTT
Found at i:21457305 original size:29 final size:29
Alignment explanation
Indices: 21457273--21457340 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
21457263 GTAAAAGTGA
*
21457273 GCCTTTGTGGTTGTTTTTGTTAAAGGAAT
1 GCCTTTGTGGTTGTTTCTGTTAAAGGAAT
*
21457302 GCCTTTGTGATTGTTTCTGTTAAAGGAAT
1 GCCTTTGTGGTTGTTTCTGTTAAAGGAAT
*
21457331 TCCTTTGTGG
1 GCCTTTGTGG
21457341 AAAATCTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.16, C:0.10, G:0.26, T:0.47
Consensus pattern (29 bp):
GCCTTTGTGGTTGTTTCTGTTAAAGGAAT
Found at i:21457479 original size:29 final size:29
Alignment explanation
Indices: 21457415--21457622 Score: 177
Period size: 29 Copynumber: 7.2 Consensus size: 29
21457405 AAAAAGTACA
* * * *
21457415 TTTGTGGCAATTTTTG-TACAAGGACGCC
1 TTTGTGGCAATCTCTGTTAAAAGGAAGCC
** * * *
21457443 TCGGTGGCTATCTTTGTTAAAAAGAAGCC
1 TTTGTGGCAATCTCTGTTAAAAGGAAGCC
* * * *
21457472 TTTATGGCAATTTCTGTTACAAGGAAACC
1 TTTGTGGCAATCTCTGTTAAAAGGAAGCC
** * *
21457501 TTTGTGGCGGTCTCTATTAAACGGAA-CC
1 TTTGTGGCAATCTCTGTTAAAAGGAAGCC
** *
21457529 TTTGTGGTGATCTCTGTTAAAAGGATGCC
1 TTTGTGGCAATCTCTGTTAAAAGGAAGCC
* *
21457558 TTTGTGGCGATCTCTATTAAAAGGAAGCC
1 TTTGTGGCAATCTCTGTTAAAAGGAAGCC
* * *
21457587 TTTGTGGCAATATCTGTTAAAAGGATGCA
1 TTTGTGGCAATCTCTGTTAAAAGGAAGCC
21457616 TTTGTGG
1 TTTGTGG
21457623 TTATCTCAAT
Statistics
Matches: 142, Mismatches: 36, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
28 35 0.25
29 107 0.75
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (29 bp):
TTTGTGGCAATCTCTGTTAAAAGGAAGCC
Found at i:21457612 original size:58 final size:58
Alignment explanation
Indices: 21457415--21457638 Score: 227
Period size: 58 Copynumber: 3.9 Consensus size: 58
21457405 AAAAAGTACA
* * * ** * * * *
21457415 TTTGTGGCAATTTTTG-TACAAGGACGCCTCGGTGGCTATCTTTGTTAAAAAGAAGCC
1 TTTGTGGCAATTTCTGTTAAAAGGATGCCTTTGTGGCGATCTCTATTAAAAGGAAGCC
* * ** * *
21457472 TTTATGGCAATTTCTGTTACAAGGAAACCTTTGTGGCGGTCTCTATTAAACGGAA-CC
1 TTTGTGGCAATTTCTGTTAAAAGGATGCCTTTGTGGCGATCTCTATTAAAAGGAAGCC
** *
21457529 TTTGTGGTGATCTCTGTTAAAAGGATGCCTTTGTGGCGATCTCTATTAAAAGGAAGCC
1 TTTGTGGCAATTTCTGTTAAAAGGATGCCTTTGTGGCGATCTCTATTAAAAGGAAGCC
* * ** *
21457587 TTTGTGGCAATATCTGTTAAAAGGATGCATTTGTGGTTATCTCAATTAAAAG
1 TTTGTGGCAATTTCTGTTAAAAGGATGCCTTTGTGGCGATCTCTATTAAAAG
21457639 AATACCTTAT
Statistics
Matches: 137, Mismatches: 28, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
57 62 0.45
58 75 0.55
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (58 bp):
TTTGTGGCAATTTCTGTTAAAAGGATGCCTTTGTGGCGATCTCTATTAAAAGGAAGCC
Found at i:21457635 original size:29 final size:29
Alignment explanation
Indices: 21457499--21457638 Score: 156
Period size: 29 Copynumber: 4.9 Consensus size: 29
21457489 TACAAGGAAA
* * *
21457499 CCTTTGTGGCGGTCTCTATTAAACGGA-A
1 CCTTTGTGGCGATCTCTATTAAAAGGATG
* *
21457527 CCTTTGTGGTGATCTCTGTTAAAAGGATG
1 CCTTTGTGGCGATCTCTATTAAAAGGATG
*
21457556 CCTTTGTGGCGATCTCTATTAAAAGGAAG
1 CCTTTGTGGCGATCTCTATTAAAAGGATG
* * *
21457585 CCTTTGTGGCAATATCTGTTAAAAGGATG
1 CCTTTGTGGCGATCTCTATTAAAAGGATG
* ** *
21457614 CATTTGTGGTTATCTCAATTAAAAG
1 CCTTTGTGGCGATCTCTATTAAAAG
21457639 AATACCTTAT
Statistics
Matches: 93, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 23 0.25
29 70 0.75
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (29 bp):
CCTTTGTGGCGATCTCTATTAAAAGGATG
Found at i:21464000 original size:12 final size:12
Alignment explanation
Indices: 21463985--21464015 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
21463975 TTTAGTTGTA
21463985 AATGGAGTTGAG
1 AATGGAGTTGAG
21463997 AATGGAGTTGAG
1 AATGGAGTTGAG
21464009 AATGGAG
1 AATGGAG
21464016 CATGCTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.42, T:0.23
Consensus pattern (12 bp):
AATGGAGTTGAG
Found at i:21465820 original size:13 final size:13
Alignment explanation
Indices: 21465802--21465828 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21465792 TAATTAATGG
21465802 GTTAAAATTTAAA
1 GTTAAAATTTAAA
21465815 GTTAAAATTTAAA
1 GTTAAAATTTAAA
21465828 G
1 G
21465829 ATGATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:21465936 original size:43 final size:43
Alignment explanation
Indices: 21465881--21465971 Score: 182
Period size: 43 Copynumber: 2.1 Consensus size: 43
21465871 AAATTTGGAT
21465881 CATAACTTACATAATACATAAATATATATCATATCATAACTTA
1 CATAACTTACATAATACATAAATATATATCATATCATAACTTA
21465924 CATAACTTACATAATACATAAATATATATCATATCATAACTTA
1 CATAACTTACATAATACATAAATATATATCATATCATAACTTA
21465967 CATAA
1 CATAA
21465972 ATATATATCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.34
Consensus pattern (43 bp):
CATAACTTACATAATACATAAATATATATCATATCATAACTTA
Found at i:21465969 original size:27 final size:27
Alignment explanation
Indices: 21465938--21465998 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
21465928 ACTTACATAA
21465938 TACATAAATATATATCATATCATAACT
1 TACATAAATATATATCATATCATAACT
21465965 TACATAAATATATATCATATCATAACT
1 TACATAAATATATATCATATCATAACT
*
21465992 TGCATAA
1 TACATAA
21465999 CTTAATTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.36
Consensus pattern (27 bp):
TACATAAATATATATCATATCATAACT
Found at i:21474767 original size:43 final size:43
Alignment explanation
Indices: 21474711--21474860 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
21474701 AAAAACGCCT
* * *
21474711 CTAAAAGTCATGTTCTTTAACGGCGTTTGTGAGGAAATCTCCG
1 CTAAAGGTCATGTTCTTTAACGGCGTTTGTGAGGAAAGCACCG
* * * * *
21474754 CTAAAGGTGATGTTCTTTAGCGACGTTTGTGGGGAAAGCGCCG
1 CTAAAGGTCATGTTCTTTAACGGCGTTTGTGAGGAAAGCACCG
* * *
21474797 ATAAAGGTCATGTTC-TT-GCGGCGTTTGT-AGGAAAAGCACTG
1 CTAAAGGTCATGTTCTTTAACGGCGTTTGTGAGG-AAAGCACCG
*
21474838 CTAAAGGTCATGTTCTATAACGG
1 CTAAAGGTCATGTTCTTTAACGG
21474861 TATTTTTCCA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
40 2 0.02
41 31 0.35
42 3 0.03
43 52 0.59
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
CTAAAGGTCATGTTCTTTAACGGCGTTTGTGAGGAAAGCACCG
Found at i:21478322 original size:6 final size:6
Alignment explanation
Indices: 21478313--21478350 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
21478303 TTTAGAATGA
21478313 TTTATT TTTATT TTTATT TTTATT TTGTAATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TT-T-ATT TTTATT
21478351 AATTTATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 23 0.77
7 2 0.07
8 5 0.17
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:21480497 original size:17 final size:18
Alignment explanation
Indices: 21480475--21480515 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
21480465 GTTTCTTATT
21480475 TTTTCTATCACCTT-TCA
1 TTTTCTATCACCTTCTCA
*
21480492 TTTTCT-TCATCTTCTCA
1 TTTTCTATCACCTTCTCA
21480509 TTTTCTA
1 TTTTCTA
21480516 ACCTAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTCTATCACCTTCTCA
Found at i:21482988 original size:29 final size:29
Alignment explanation
Indices: 21482955--21483028 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
21482945 GTTGTGAGAT
* *
21482955 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
21482984 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
21483013 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21483029 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:21489958 original size:47 final size:47
Alignment explanation
Indices: 21489846--21490180 Score: 521
Period size: 47 Copynumber: 7.1 Consensus size: 47
21489836 GAAATGATAG
21489846 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
21489895 TAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21489942 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21489989 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21490036 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21490083 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
21490129 TATGTGAC-AGGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAG-GCCTA-ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21490177 TAAG
1 TAAG
21490181 TCCCGAAGGG
Statistics
Matches: 267, Mismatches: 16, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
46 5 0.02
47 223 0.84
48 4 0.01
49 35 0.13
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:21490355 original size:37 final size:37
Alignment explanation
Indices: 21490299--21490377 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21490289 CCGAGCTCTA
* * *
21490299 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
21490336 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21490373 AAGAC
1 AAGAC
21490378 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21500648 original size:16 final size:17
Alignment explanation
Indices: 21500627--21500662 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
21500617 CACATCATCC
21500627 CTCATCCCTCATCC-CT
1 CTCATCCCTCATCCTCT
*
21500643 CTCATCTCTCATCCTCT
1 CTCATCCCTCATCCTCT
21500660 CTC
1 CTC
21500663 TCAACTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.36
Consensus pattern (17 bp):
CTCATCCCTCATCCTCT
Found at i:21512108 original size:185 final size:185
Alignment explanation
Indices: 21511796--21512164 Score: 711
Period size: 185 Copynumber: 2.0 Consensus size: 185
21511786 TTCCAAACTA
21511796 ATGAAAGATCGAGTTGTCAGGGAATGTTTTTCTGACTATTATTAAACATGATGCTAATAAATTAA
1 ATGAAAGATCGAGTTGTCAGGGAATGTTTTTCTGACTATTATTAAACATGATGCTAATAAATTAA
21511861 GTTTAATTAAAGTAATTGTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTAAATTTTG
66 GTTTAATTAAAGTAATTGTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTAAATTTTG
21511926 CTAAAATATATTTCATTCATATAGTCTACATATTAGGATAATTTACATTTGGGAC
131 CTAAAATATATTTCATTCATATAGTCTACATATTAGGATAATTTACATTTGGGAC
*
21511981 ATGAAAGATCGAGTTGTCAGGGAATGTTTTTCTGACTATTATTAAGCATGATGCTAATAAATTAA
1 ATGAAAGATCGAGTTGTCAGGGAATGTTTTTCTGACTATTATTAAACATGATGCTAATAAATTAA
21512046 GTTTAATTAAAGTAATTGTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTAAATTTTG
66 GTTTAATTAAAGTAATTGTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTAAATTTTG
* *
21512111 CTAAAATCTATTTCATTCATATAGTCTACATATTAGTATAATTTACATTTGGGA
131 CTAAAATATATTTCATTCATATAGTCTACATATTAGGATAATTTACATTTGGGA
21512165 TCATTGCATC
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
185 181 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (185 bp):
ATGAAAGATCGAGTTGTCAGGGAATGTTTTTCTGACTATTATTAAACATGATGCTAATAAATTAA
GTTTAATTAAAGTAATTGTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTAAATTTTG
CTAAAATATATTTCATTCATATAGTCTACATATTAGGATAATTTACATTTGGGAC
Found at i:21517165 original size:21 final size:22
Alignment explanation
Indices: 21517136--21517182 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
21517126 CAGAAGGAGT
*
21517136 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
21517158 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
21517179 GAGT
1 GAGT
21517183 TTGAGCAGAG
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:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:21519764 original size:61 final size:58
Alignment explanation
Indices: 21519699--21519810 Score: 152
Period size: 61 Copynumber: 1.9 Consensus size: 58
21519689 ATTATCTTAA
* *
21519699 TATTAAATTAAATTTAATATTTATCTTGTAGATAAATATTCTAATAATTTAATAGTCTTCC
1 TATTAAATTAAATCTAATATTTATC-T-TA-ATAAATATTATAATAATTTAATAGTCTTCC
* * *
21519760 TATTAAATTTAATCTAATATTTATCTTAATAAGTATTATATTAATTTAATA
1 TATTAAATTAAATCTAATATTTATCTTAATAAATATTATAATAATTTAATA
21519811 TTAAAGTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
58 20 0.43
59 2 0.04
60 1 0.02
61 23 0.50
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (58 bp):
TATTAAATTAAATCTAATATTTATCTTAATAAATATTATAATAATTTAATAGTCTTCC
Found at i:21519863 original size:32 final size:32
Alignment explanation
Indices: 21519808--21519870 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
21519798 TATTAATTTA
21519808 ATATTAAAGTAATTAAGTTTAATCATAGTTGT
1 ATATTAAAGTAATTAAGTTTAATCATAGTTGT
21519840 ATATTAAAGTAATTAAGTTTAATCATAGTTG
1 ATATTAAAGTAATTAAGTTTAATCATAGTTG
21519871 AACTCTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (32 bp):
ATATTAAAGTAATTAAGTTTAATCATAGTTGT
Found at i:21523101 original size:18 final size:19
Alignment explanation
Indices: 21523070--21523105 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
21523060 GGTTATATAT
21523070 AAAATATAATATTTAATTG
1 AAAATATAATATTTAATTG
21523089 AAAATAT-ATATTTAATT
1 AAAATATAATATTTAATT
21523106 ATATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AAAATATAATATTTAATTG
Found at i:21527462 original size:48 final size:49
Alignment explanation
Indices: 21527382--21527477 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 49
21527372 ACTAGTTACA
21527382 AATGGAAAACATAAAAAAAACTATGTTAAAAGAAATGAACAAGGGAGGG
1 AATGGAAAACATAAAAAAAACTATGTTAAAAGAAATGAACAAGGGAGGG
* *
21527431 AATGGAAAACAT-AGAAAAACTATGTTAAAAGAAATGAAGAAGGGAGG
1 AATGGAAAACATAAAAAAAACTATGTTAAAAGAAATGAACAAGGGAGG
21527478 AAAATAGAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 33 0.73
49 12 0.27
ACGTcount: A:0.56, C:0.05, G:0.24, T:0.15
Consensus pattern (49 bp):
AATGGAAAACATAAAAAAAACTATGTTAAAAGAAATGAACAAGGGAGGG
Found at i:21527981 original size:20 final size:21
Alignment explanation
Indices: 21527943--21527981 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
21527933 GTATTAAATT
* *
21527943 TTAATAATAATATATGAAAAC
1 TTAATAATAATACACGAAAAC
21527964 TTAA-AATAATACACGAAA
1 TTAATAATAATACACGAAA
21527982 GAAAACTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (21 bp):
TTAATAATAATACACGAAAAC
Found at i:21529275 original size:25 final size:26
Alignment explanation
Indices: 21529246--21529317 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
21529236 TTTAGGCCAG
21529246 TTGGGCCAGGGT-ATTGGGCTTAG-GT
1 TTGGGCCAGGGTAATTGGG-TTAGAGT
* * *
21529271 TTGGGCTAGGTTAATTGGGTTAGATT
1 TTGGGCCAGGGTAATTGGGTTAGAGT
* *
21529297 TTGGGCTAGGTTAATTGGGTT
1 TTGGGCCAGGGTAATTGGGTT
21529318 TGTAAAAGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 14 0.33
26 28 0.67
ACGTcount: A:0.15, C:0.07, G:0.39, T:0.39
Consensus pattern (26 bp):
TTGGGCCAGGGTAATTGGGTTAGAGT
Found at i:21529289 original size:26 final size:26
Alignment explanation
Indices: 21529258--21529317 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
21529248 GGGCCAGGGT
21529258 ATTGGGCTTAG-GTTTGGGCTAGGTTA
1 ATTGGG-TTAGAGTTTGGGCTAGGTTA
*
21529284 ATTGGGTTAGATTTTGGGCTAGGTTA
1 ATTGGGTTAGAGTTTGGGCTAGGTTA
21529310 ATTGGGTT
1 ATTGGGTT
21529318 TGTAAAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.17, C:0.05, G:0.37, T:0.42
Consensus pattern (26 bp):
ATTGGGTTAGAGTTTGGGCTAGGTTA
Found at i:21529736 original size:44 final size:44
Alignment explanation
Indices: 21529665--21529786 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
21529655 ACTTGATGCG
* * *
21529665 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT-TACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGACTTCA
* * *
21529709 AT-TCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTATCGACTTCA
* *
21529753 ATCTGCTCCACTGCAACCTCAAGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
21529787 TGCTTCTTCG
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
43 4 0.06
44 60 0.92
45 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGACTTCA
Found at i:21529802 original size:44 final size:44
Alignment explanation
Indices: 21529666--21529873 Score: 131
Period size: 44 Copynumber: 4.7 Consensus size: 44
21529656 CTTGATGCGA
* * * * * *
21529666 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT-TACTTTAAT
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGA-CT-TGTTCTCTCAG
* * * * * *
21529711 TC-GCTCCACTACAACTTCAGGGAGATAGGA-TT-ATCGGCTTCAA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTTC-TC-TCAG
* * *
21529754 TCTGCTCCACTGCAACCTCAAGGAGATAAGATTTGCTTCT-TCGG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTG-TTCTCTCAG
* ** * *
21529798 TCTGCCCCACTG-TGCCTTCAGGGGGATAAGACTTGTTTTCTCAG
1 TCTGCTCCACTGCAACC-TCAGGGAGATAAGACTTGTTCTCTCAG
*
21529842 TCTGCTCCACTGCAACCTTAGGGAGATAAGAC
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGAC
21529874 CTGATGCGAT
Statistics
Matches: 124, Mismatches: 30, Indels: 19
0.72 0.17 0.11
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 9 0.07
44 104 0.84
45 6 0.05
47 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTTCTCTCAG
Found at i:21530301 original size:129 final size:129
Alignment explanation
Indices: 21529945--21530368 Score: 609
Period size: 129 Copynumber: 3.3 Consensus size: 129
21529935 CTACAACTTC
* * * * *
21529945 AGGGAGATAGGATCTGTAATTTCTCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
1 AGGGAGACAAGATCTATAATTTCCCAACCTATTCCACTGCTGACCATGGATATAGGACTTGTGGC
* * *
21530010 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGTCGTCTCTGATCTACTCCGCTATTGCTT
66 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGACGTCTTTGATCTGCTCCGCTATTGCTT
* *
21530074 AGGGAGACAAGATCCATAATTT-CCAACCGATTCCACTGCTGACCAAT-GATATAGGACTTGTGG
1 AGGGAGACAAGATCTATAATTTCCCAACCTATTCCACTGCTGACC-ATGGATATAGGACTTGTGG
* * *
21530137 CTTAAATCAGCTTCCTTACTCTTGAAGATAAGATTCGACGTCTTTGATCTGCTCTGCTATTGCTT
65 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGACGTCTTTGATCTGCTCCGCTATTGCTT
* ** ** ** *
21530202 AGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGGTCATGGAGCTAGGTTTTGTGGT
1 AGGGAGACAAGATCTATAATTTCCCAACCTATTCCACTGCTGACCATGGATATAGGACTTGTGGC
* * *
21530267 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTT
66 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGACGTCTTTGATCTGCTCCGCTATTGCTT
21530331 AGGGAGACAAGATCTATAATTTCCCAACCTATTCCACT
1 AGGGAGACAAGATCTATAATTTCCCAACCTATTCCACT
21530369 ACAACCGAGG
Statistics
Matches: 262, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
128 117 0.45
129 145 0.55
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (129 bp):
AGGGAGACAAGATCTATAATTTCCCAACCTATTCCACTGCTGACCATGGATATAGGACTTGTGGC
TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGACGTCTTTGATCTGCTCCGCTATTGCTT
Found at i:21531692 original size:14 final size:13
Alignment explanation
Indices: 21531673--21531703 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
21531663 TTAGCCTTAC
21531673 TTTTTCATTTTTCA
1 TTTTTCA-TTTTCA
21531687 TTTTTCATTTTCA
1 TTTTTCATTTTCA
21531700 TTTT
1 TTTT
21531704 CACATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:21531705 original size:6 final size:7
Alignment explanation
Indices: 21531673--21531703 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
21531663 TTAGCCTTAC
21531673 TTTTTCA
1 TTTTTCA
21531680 TTTTTCA
1 TTTTTCA
21531687 TTTTTCA
1 TTTTTCA
21531694 -TTTTCA
1 TTTTTCA
21531700 TTTT
1 TTTT
21531704 CACATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:21536740 original size:23 final size:23
Alignment explanation
Indices: 21536710--21536758 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
21536700 ATTATCACAC
21536710 TCAGTGAGTTAGGATGCAACAAT
1 TCAGTGAGTTAGGATGCAACAAT
21536733 TCAGTGAGTTAGGATGCAACAAT
1 TCAGTGAGTTAGGATGCAACAAT
21536756 TCA
1 TCA
21536759 ATCATCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (23 bp):
TCAGTGAGTTAGGATGCAACAAT
Found at i:21542180 original size:21 final size:21
Alignment explanation
Indices: 21542154--21542207 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
21542144 AGTAGTGTTG
*
21542154 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
21542175 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
21542196 GCGGTGAGATTA
1 GCGGTGAGATTA
21542208 AAAACAGCGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.09, G:0.37, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:21543000 original size:112 final size:112
Alignment explanation
Indices: 21542803--21543017 Score: 430
Period size: 112 Copynumber: 1.9 Consensus size: 112
21542793 CACACCTATC
21542803 CCAAATATATGCCGAAACATGTAATTTACGGTAAAACAAGAGTCTAGGTAGCATATATTACAGTT
1 CCAAATATATGCCGAAACATGTAATTTACGGTAAAACAAGAGTCTAGGTAGCATATATTACAGTT
21542868 CTTAATACAATATATGATTACTATCAGTATGTTGTGCCCATACCTTT
66 CTTAATACAATATATGATTACTATCAGTATGTTGTGCCCATACCTTT
21542915 CCAAATATATGCCGAAACATGTAATTTACGGTAAAACAAGAGTCTAGGTAGCATATATTACAGTT
1 CCAAATATATGCCGAAACATGTAATTTACGGTAAAACAAGAGTCTAGGTAGCATATATTACAGTT
21542980 CTTAATACAATATATGATTACTATCAGTATGTTGTGCC
66 CTTAATACAATATATGATTACTATCAGTATGTTGTGCC
21543018 ATGATTAAAG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 103 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (112 bp):
CCAAATATATGCCGAAACATGTAATTTACGGTAAAACAAGAGTCTAGGTAGCATATATTACAGTT
CTTAATACAATATATGATTACTATCAGTATGTTGTGCCCATACCTTT
Found at i:21549472 original size:16 final size:17
Alignment explanation
Indices: 21549426--21549488 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
21549416 TACCCCAATG
* *
21549426 ATTTCATTTAGTTTTAT
1 ATTTTATTTATTTTTAT
21549443 ATTTTATTTATTTTTAT
1 ATTTTATTTATTTTTAT
*
21549460 -TTTTATGTTTTTTGTGTATT
1 ATTTTAT-TTATTT-T-TA-T
21549480 ATTTTATTT
1 ATTTTATTT
21549489 TATTATGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 6 0.16
17 20 0.53
18 1 0.03
19 2 0.05
20 3 0.08
21 6 0.16
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (17 bp):
ATTTTATTTATTTTTAT
Found at i:21551642 original size:50 final size:50
Alignment explanation
Indices: 21551584--21551725 Score: 185
Period size: 50 Copynumber: 2.8 Consensus size: 50
21551574 ATTTGGGTAA
21551584 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
** * * *
21551634 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
** * * * *
21551684 AGAACTCCCATGTAAGACCATATCTTGGATATGTCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
21551726 GTACAGGAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
Found at i:21561051 original size:50 final size:49
Alignment explanation
Indices: 21560979--21561103 Score: 133
Period size: 50 Copynumber: 2.5 Consensus size: 49
21560969 TATCCCAGAT
* ** * * *
21560979 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAAAC
1 ATGGTCTTACAGGGGACCTCTCATA-CGATGCCAACGCCATGTCCCAAAC
** * *
21561029 ATGGTCTTAGGGGGGACCTCTCATCACTATGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACAGGGGACCTCTCAT-ACGATGCCAACGCCATGTCCCAAAC
*
21561079 ATGGTCTTACATGGGACCTCTCATA
1 ATGGTCTTACAGGGGACCTCTCATA
21561104 ACCTCAATGA
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
49 1 0.02
50 59 0.97
51 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (49 bp):
ATGGTCTTACAGGGGACCTCTCATACGATGCCAACGCCATGTCCCAAAC
Found at i:21562846 original size:56 final size:56
Alignment explanation
Indices: 21562754--21562864 Score: 177
Period size: 56 Copynumber: 2.0 Consensus size: 56
21562744 GTTGTTCCTA
* *
21562754 ACACTACCCACACTCGCTACAGATGTAGCCTGAGGTTTTGAGCTCGAATGATGCTG
1 ACACTACCCACACTCGCTACAGATGTAGCCTCAGGTTTTGAGCTCGAATAATGCTG
* * *
21562810 ACACTGCCCACACTCGCTATAGATGTAGCTTCAGGTTTTGAGCTCGAATAATGCT
1 ACACTACCCACACTCGCTACAGATGTAGCCTCAGGTTTTGAGCTCGAATAATGCT
21562865 TTCCTTTATC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (56 bp):
ACACTACCCACACTCGCTACAGATGTAGCCTCAGGTTTTGAGCTCGAATAATGCTG
Found at i:21565206 original size:318 final size:320
Alignment explanation
Indices: 21564629--21565267 Score: 1201
Period size: 318 Copynumber: 2.0 Consensus size: 320
21564619 AGCAAAATAT
21564629 TACAAATATGTATATATTTGAATACTATAATTATGCATCAACTTACGAACATGAGTTAATTCATG
1 TACAAATATGTATATATTTGAATACTATAATTATGCATCAACTTACGAACATGAGTTAATTCATG
21564694 AGCCACTCATGACATCATTTCATGCCAAACATACCACACGCATATGCTATGAAACTTTATTTTCT
66 AGCCACTCATGACATCATTTCATGCCAAACATACCACACGCATATGCTATGAAACTTTATTTTCT
* *
21564759 CTCATGAGCTTACCATGACCAGTAATGCACCAATATAAGCATCACTCCTATTTCAACATTTATCG
131 CTCATGAGCTTACCATGACCAGTAATGCACCAATATAAACATCACTCCAATTTCAACATTTATCG
* *
21564824 ATTATAATCAGACATTTAACCAATTATACACAATTCATTCATATACTTTATTGTCCTCCTCCTCC
196 ATTATAATCAGACATTTAACCAATTATACACAATTAATTCATATACTTTATTGACCTCCTCCTCC
21564889 T-C-TCCATCCCACATCCTTTATGTATATAACATGCTTAAATAGCATTATACATAATTTC
261 TCCGTCCATCCCACATCCTTTATGTATATAACATGCTTAAATAGCATTATACATAATTTC
21564947 TACAAATATGTATATATTTGAATACTATAATTATGCATCAACTTACGAACATGAGTTAATTCATG
1 TACAAATATGTATATATTTGAATACTATAATTATGCATCAACTTACGAACATGAGTTAATTCATG
21565012 AGCCACTCATGACATCATTTCATGCCAAACATACCACACGCATATGCTATGAAACTTTATTTTCT
66 AGCCACTCATGACATCATTTCATGCCAAACATACCACACGCATATGCTATGAAACTTTATTTTCT
* *
21565077 CTCATGAGCTTACCATGACCAGTAATGCATCAGTATAAACATCACTCCAATTTCAACATTTATCG
131 CTCATGAGCTTACCATGACCAGTAATGCACCAATATAAACATCACTCCAATTTCAACATTTATCG
21565142 ATTATAATCAGACATTTAACCAATTATACACAATTAATTCATATACTTTATTGACCTCCTCCTCC
196 ATTATAATCAGACATTTAACCAATTATACACAATTAATTCATATACTTTATTGACCTCCTCCTCC
21565207 TCCTGTCCATCCCACATCCTTTATGTATATAACATGCTTAAATAGCATTATACATAATTTC
261 TCC-GTCCATCCCACATCCTTTATGTATATAACATGCTTAAATAGCATTATACATAATTTC
21565268 ACTATTCACT
Statistics
Matches: 312, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
318 255 0.82
319 1 0.00
321 56 0.18
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.34
Consensus pattern (320 bp):
TACAAATATGTATATATTTGAATACTATAATTATGCATCAACTTACGAACATGAGTTAATTCATG
AGCCACTCATGACATCATTTCATGCCAAACATACCACACGCATATGCTATGAAACTTTATTTTCT
CTCATGAGCTTACCATGACCAGTAATGCACCAATATAAACATCACTCCAATTTCAACATTTATCG
ATTATAATCAGACATTTAACCAATTATACACAATTAATTCATATACTTTATTGACCTCCTCCTCC
TCCGTCCATCCCACATCCTTTATGTATATAACATGCTTAAATAGCATTATACATAATTTC
Found at i:21566197 original size:51 final size:49
Alignment explanation
Indices: 21566105--21566288 Score: 181
Period size: 51 Copynumber: 3.7 Consensus size: 49
21566095 CCGGTTCACA
* ** * * *
21566105 TAGTAGCCTGCATATAGTACTACACTTGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CA-AACTATCTGGTACACG
* * *
21566156 TAGTAGCCTACACATAGTACTACACACGTGATCAAAGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CAAA-CTATCTGGTACACG
* * ** *
21566207 TAGTAGCCTGCACATAGTACTACACATGCGACCTA-TCATTCTGGTGCACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACAAACT-A-TCTGGTACACG
21566257 TAGTAGCCTGCACATAGTACTACACACGTGAC
1 TAGTAGCCTGCACATAGTACTACACACGTGAC
21566289 CATCACTTTC
Statistics
Matches: 110, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 41 0.37
51 67 0.61
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACAAACTATCTGGTACACG
Found at i:21566272 original size:101 final size:102
Alignment explanation
Indices: 21566103--21566287 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
21566093 TACCGGTTCA
* * *
21566103 CATAGTAGCCTGCATATAGTACTACACTTGTGACCATCACTATCCGATACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
21566168 CATAGTACTACACACGTGATCAAAGCTATCTGGTACG
66 CATAGTACTACACACGTGATCAAAGCTATCTGGTACG
* * * *
21566205 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTGCACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTAC
21566268 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
21566288 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCAAAGCTATCTGGTACG
Found at i:21566310 original size:101 final size:102
Alignment explanation
Indices: 21566098--21566325 Score: 264
Period size: 101 Copynumber: 2.2 Consensus size: 102
21566088 AATGATACCG
* * *
21566098 GTTCACATAGTAGCCTGCATATAGTACTACACTTGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
* **
21566163 CTACACATAGTACTACACACGTGATCAAAGCTATCTG
66 CTACACATAGTACTACACACGTGACCAAAGCTATCAC
* * * * *
21566200 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTGCACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAG
* * *
21566263 CCTGCACATAGTACTACACACGTGACCATCA-CTTTCAC
65 CCTACACATAGTACTACACACGTGACCA-AAGCTATCAC
* * *
21566301 TTTCACATAGTGGCCTACACATAGT
1 GTTCACATAGTAGCCTGCACATAGT
21566326 CCATGCCACA
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
101 64 0.61
102 37 0.35
103 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
CTACACATAGTACTACACACGTGACCAAAGCTATCAC
Found at i:21566428 original size:8 final size:10
Alignment explanation
Indices: 21566398--21566422 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21566388 CAATCGGGAA
21566398 TTTTCTCATT
1 TTTTCTCATT
21566408 TTTTCTCATT
1 TTTTCTCATT
21566418 TTTTC
1 TTTTC
21566423 CTTTTTCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTCTCATT
Found at i:21569072 original size:42 final size:42
Alignment explanation
Indices: 21568992--21569073 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
21568982 CGTTTTCTCT
* **
21568992 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
21569034 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
21569074 CACACCGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:21571627 original size:16 final size:16
Alignment explanation
Indices: 21571606--21571636 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21571596 ATTTTGTTGC
*
21571606 TAATTTTACTTTTTCG
1 TAATTTCACTTTTTCG
21571622 TAATTTCACTTTTTC
1 TAATTTCACTTTTTC
21571637 ACTTTCAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.16, G:0.03, T:0.61
Consensus pattern (16 bp):
TAATTTCACTTTTTCG
Found at i:21571929 original size:51 final size:51
Alignment explanation
Indices: 21571865--21572000 Score: 159
Period size: 50 Copynumber: 2.7 Consensus size: 51
21571855 CCGGTTGACA
* * * *
21571865 TAGTAACCTGCACATAGTACTACACATGTGGCCATAACTATCC-GATGCATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATAAC-ATCCTGATACACG
* * * *
21571916 TAGTCGCCTGCACATAGTACTACACATGCGACC-TATCATCCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATAACATCCTGATACACG
* *
21571966 TAGTAGCCTCCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
21572001 CACTTTAACT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
49 4 0.06
50 37 0.52
51 30 0.42
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATAACATCCTGATACACG
Found at i:21577670 original size:16 final size:16
Alignment explanation
Indices: 21577649--21577680 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21577639 GTTCTGTTGC
*
21577649 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
21577665 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
21577681 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:21577961 original size:51 final size:50
Alignment explanation
Indices: 21577905--21578048 Score: 164
Period size: 50 Copynumber: 2.9 Consensus size: 50
21577895 ATACCGGTTG
* *
21577905 ACATAGTAACCTCCACATAGTACTACACATGTGATCATCACTATCCGGTAC
1 ACATAGTAGCCTCCACATAGTACTACACATGTGAACATCACT-TCCGGTAC
* * * * * *
21577956 GCATAGTAGCCTGCACATAGTACTACATATGCGACCTATCA-TTCTGGTAC
1 ACATAGTAGCCTCCACATAGTACTACACATGTGAAC-ATCACTTCCGGTAC
* * *
21578006 ACGTAGTAGCCTCCACATAGTACTTCACACGTGAACATCACTT
1 ACATAGTAGCCTCCACATAGTACTACACATGTGAACATCACTT
21578049 TCACTTTCAC
Statistics
Matches: 76, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
49 4 0.05
50 37 0.49
51 31 0.41
52 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (50 bp):
ACATAGTAGCCTCCACATAGTACTACACATGTGAACATCACTTCCGGTAC
Found at i:21586585 original size:19 final size:18
Alignment explanation
Indices: 21586543--21586585 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
21586533 AACGAGCTTG
21586543 TTTTTTAGTATTTTTATA
1 TTTTTTAGTATTTTTATA
21586561 TGTTTTTAGTTCATTTTT-TA
1 T-TTTTTAG-T-ATTTTTATA
21586581 TTTTT
1 TTTTT
21586586 ATTGTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.05
19 11 0.50
20 4 0.18
21 6 0.27
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTTTTAGTATTTTTATA
Found at i:21588431 original size:20 final size:20
Alignment explanation
Indices: 21588406--21588461 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
21588396 TTGTACGGGT
21588406 TTGCACTTCGGTGCCTCTGA
1 TTGCACTTCGGTGCCTCTGA
* *
21588426 TTGCACTTTGGTGCCTTTGA
1 TTGCACTTCGGTGCCTCTGA
* *
21588446 TTGCAATTCTGTGCCT
1 TTGCACTTCGGTGCCT
21588462 TTGCTAGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGA
Found at i:21591052 original size:16 final size:16
Alignment explanation
Indices: 21591031--21591061 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21591021 GTTAATTGGT
*
21591031 TAATTTTTAGTTTAAA
1 TAATTTTTAGGTTAAA
21591047 TAATTTTTAGGTTAA
1 TAATTTTTAGGTTAA
21591062 TTTAATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
TAATTTTTAGGTTAAA
Found at i:21591067 original size:17 final size:16
Alignment explanation
Indices: 21591030--21591068 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
21591020 TGTTAATTGG
*
21591030 TTAATTTTTAGTTTAA
1 TTAATTTTTAGGTTAA
*
21591046 ATAATTTTTAGGTTAA
1 TTAATTTTTAGGTTAA
21591062 TTTAATT
1 -TTAATT
21591069 CATTGATGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (16 bp):
TTAATTTTTAGGTTAA
Found at i:21601663 original size:19 final size:19
Alignment explanation
Indices: 21601639--21601676 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21601629 GGCCCATTTC
21601639 ATTCTCCAAATTCCTTAGA
1 ATTCTCCAAATTCCTTAGA
*
21601658 ATTCTCCAATTTCCTTAGA
1 ATTCTCCAAATTCCTTAGA
21601677 GTGGCGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTCTCCAAATTCCTTAGA
Found at i:21607572 original size:26 final size:26
Alignment explanation
Indices: 21607543--21607602 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
21607533 GAAAAGTTGT
*
21607543 TAAATGACCGTAATGCCCCT-AGAGGG
1 TAAATGACCATAATGCCCCTCA-AGGG
* **
21607569 TAAATGACTATTTTGCCCCTCAAGGG
1 TAAATGACCATAATGCCCCTCAAGGG
21607595 TAAATGAC
1 TAAATGAC
21607603 TGATTTGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (26 bp):
TAAATGACCATAATGCCCCTCAAGGG
Found at i:21607603 original size:26 final size:27
Alignment explanation
Indices: 21607556--21607608 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
21607546 ATGACCGTAA
21607556 TGCCCCTAGAGGGTAAATGACT-ATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
21607582 TGCCCCTCA-AGGGTAAATGACTGATTT
1 TGCCCCT-AGAGGGTAAATGACTGATTT
21607609 GTGCTATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (27 bp):
TGCCCCTAGAGGGTAAATGACTGATTT
Found at i:21608909 original size:6 final size:6
Alignment explanation
Indices: 21608881--21608920 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
21608871 TATTTAACCC
*
21608881 AAATT- AAATT- AAATT- AGATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA A
21608921 TTATGTTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 14 0.44
6 18 0.56
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (6 bp):
AAATTA
Found at i:21609185 original size:20 final size:21
Alignment explanation
Indices: 21609160--21609205 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21609150 TTTTCGATAA
*
21609160 GAATTTTA-CCAAAAATGCGT
1 GAATTTGAGCCAAAAATGCGT
**
21609180 GAATTTGAGTTAAAAATGCGT
1 GAATTTGAGCCAAAAATGCGT
21609201 GAATT
1 GAATT
21609206 CGTGTTTCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (21 bp):
GAATTTGAGCCAAAAATGCGT
Found at i:21619379 original size:6 final size:6
Alignment explanation
Indices: 21619364--21619399 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
21619354 TCTATTTCAC
21619364 TTTTTA -TTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
21619400 CTCATATCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:21620275 original size:215 final size:215
Alignment explanation
Indices: 21619904--21620979 Score: 2143
Period size: 215 Copynumber: 5.0 Consensus size: 215
21619894 GTTTAGCCAT
*
21619904 AGAAGCTCGAGAATCGAACTCATCCGTTAGAAATTGGAATTAGAATCCTGATTCGATTTACAAAG
1 AGAAGCTCGAGAATCGAACTCATCCGTTAGAAATTGGAATTAGAATCCTGATTTGATTTACAAAG
21619969 TTAGGTGTGGTGATTTATTTTGATAAAATTAATTAATATTAGATTTAATCAAGATAAAATTATAT
66 TTAGGTGTGGTGATTTATTTTGATAAAATTAATTAATATTAGATTTAATCAAGATAAAATTATAT
21620034 ATGAGAAATATTTAATTAACGTTTAAATAAATTTCTAAAAGGTGTACTTGGGCGAATATGTAAAA
131 ATGAGAAATATTTAATTAACGTTTAAATAAATTTCTAAAAGGTGTACTTGGGCGAATATGTAAAA
21620099 GTATTCGTTGGATTCGTAAA
196 GTATTCGTTGGATTCGTAAA
21620119 AGAAGCTCGAGAATCGAACTCATCCGTTAGAAATTGGAATTAGAATCCTGATTTGATTTACAAAG
1 AGAAGCTCGAGAATCGAACTCATCCGTTAGAAATTGGAATTAGAATCCTGATTTGATTTACAAAG
21620184 TTAGGTGTGGTGATTTATTTTGATAAAATTAATTAATATTAGATTTAATCAAGATAAAATTATAT
66 TTAGGTGTGGTGATTTATTTTGATAAAATTAATTAATATTAGATTTAATCAAGATAAAATTATAT
21620249 ATGAGAAATATTTAATTAACGTTTAAATAAATTTCTAAAAGGTGTACTTGGGCGAATATGTAAAA
131 ATGAGAAATATTTAATTAACGTTTAAATAAATTTCTAAAAGGTGTACTTGGGCGAATATGTAAAA
21620314 GTATTCGTTGGATTCGTAAA
196 GTATTCGTTGGATTCGTAAA
21620334 AGAAGCTCGAGAATCGAACTCATCCGTTAGAAATTGGAATTAGAATCCTGATTTGATTTACAAAG
1 AGAAGCTCGAGAATCGAACTCATCCGTTAGAAATTGGAATTAGAATCCTGATTTGATTTACAAAG
21620399 TTAGGTGTGGTGATTTATTTTGATAAAATTAATTAATATTAGATTTAATCAAGATAAAATTATAT
66 TTAGGTGTGGTGATTTATTTTGATAAAATTAATTAATATTAGATTTAATCAAGATAAAATTATAT
21620464 ATGAGAAATATTTAATTAACGTTTAAATAAATTTCTAAAAGGTGTACTTGGGCGAATATGTAAAA
131 ATGAGAAATATTTAATTAACGTTTAAATAAATTTCTAAAAGGTGTACTTGGGCGAATATGTAAAA
21620529 GTATTCGTTGGATTCGTAAA
196 GTATTCGTTGGATTCGTAAA
21620549 AGAAGCTCGAGAATCGAACTCATCCGTTAGAAATTGGAATTAGAATCCTGATTTGATTTACAAAG
1 AGAAGCTCGAGAATCGAACTCATCCGTTAGAAATTGGAATTAGAATCCTGATTTGATTTACAAAG
21620614 TTAGGTGTGGTGATTTATTTTGATAAAATTAATTAATATTAGATTTAATCAAGATAAAATTATAT
66 TTAGGTGTGGTGATTTATTTTGATAAAATTAATTAATATTAGATTTAATCAAGATAAAATTATAT
21620679 ATGAGAAATATTTAATTAACGTTTAAATAAATTTCTAAAAGGTGTACTTGGGCGAATATGTAAAA
131 ATGAGAAATATTTAATTAACGTTTAAATAAATTTCTAAAAGGTGTACTTGGGCGAATATGTAAAA
21620744 GTATTCGTTGGATTCGTAAA
196 GTATTCGTTGGATTCGTAAA
21620764 AGAAGCTCGAGAATCGAACTCATCCGTTAGAAATTGGAATTAGAATCCTGATTTGATTTACAAAG
1 AGAAGCTCGAGAATCGAACTCATCCGTTAGAAATTGGAATTAGAATCCTGATTTGATTTACAAAG
21620829 TTAGGTGTGGTGATTTATTTTGATAAAATTAATTAATATTAGATTTAATCAAGATAAAATTATAT
66 TTAGGTGTGGTGATTTATTTTGATAAAATTAATTAATATTAGATTTAATCAAGATAAAATTATAT
21620894 ATGAGAAATATTTAATTAACGTTTAAATAAATTTCTAAAAGGTGTACTTGGGCGAATATGTAAAA
131 ATGAGAAATATTTAATTAACGTTTAAATAAATTTCTAAAAGGTGTACTTGGGCGAATATGTAAAA
21620959 GTATTCGTTGGATTCGTAAA
196 GTATTCGTTGGATTCGTAAA
21620979 A
1 A
21620980 CTCGGGAAAG
Statistics
Matches: 860, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
215 860 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.36
Consensus pattern (215 bp):
AGAAGCTCGAGAATCGAACTCATCCGTTAGAAATTGGAATTAGAATCCTGATTTGATTTACAAAG
TTAGGTGTGGTGATTTATTTTGATAAAATTAATTAATATTAGATTTAATCAAGATAAAATTATAT
ATGAGAAATATTTAATTAACGTTTAAATAAATTTCTAAAAGGTGTACTTGGGCGAATATGTAAAA
GTATTCGTTGGATTCGTAAA
Found at i:21648142 original size:20 final size:20
Alignment explanation
Indices: 21648117--21648187 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
21648107 GGCAGCTTGA
21648117 CCACAATACTGGTGGTTTGT
1 CCACAATACTGGTGGTTTGT
* *
21648137 CCACAATTCTGGTAGTTTGT
1 CCACAATACTGGTGGTTTGT
** * *
21648157 CTGCAATAACTGGAGGCTTGT
1 CCACAAT-ACTGGTGGTTTGT
*
21648178 CCATAATACT
1 CCACAATACT
21648188 AGCAGTTTAT
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 26 0.67
21 13 0.33
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (20 bp):
CCACAATACTGGTGGTTTGT
Found at i:21648179 original size:41 final size:40
Alignment explanation
Indices: 21648120--21648224 Score: 120
Period size: 41 Copynumber: 2.6 Consensus size: 40
21648110 AGCTTGACCA
* * * * *
21648120 CAATACTGGTGGTTTGTCCACAATTCTGGTAGTTTGTCTG
1 CAATACTGGTGGCTTGTCCACAATACTAGCAGTTTATCTG
* *
21648160 CAATAACTGGAGGCTTGTCCATAATACTAGCAGTTTATCTG
1 CAAT-ACTGGTGGCTTGTCCACAATACTAGCAGTTTATCTG
*
21648201 CAATTACTTGTGGCTTGTCCACAA
1 CAA-TACTGGTGGCTTGTCCACAA
21648225 CTTGTTTGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
40 4 0.08
41 48 0.91
42 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (40 bp):
CAATACTGGTGGCTTGTCCACAATACTAGCAGTTTATCTG
Found at i:21649155 original size:22 final size:22
Alignment explanation
Indices: 21649113--21649155 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
21649103 TAGGATTTAT
* *
21649113 AGTTTAGTTCTATTTTCTTTTC
1 AGTTTAGTCCTATTTTATTTTC
21649135 AGTTTAGTCCT-TTTGTATTTT
1 AGTTTAGTCCTATTT-TATTTT
21649156 TGTTACTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.63
Consensus pattern (22 bp):
AGTTTAGTCCTATTTTATTTTC
Found at i:21650173 original size:5 final size:5
Alignment explanation
Indices: 21650163--21650188 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21650153 ATAGATACCA
21650163 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
21650189 TTAATTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:21651638 original size:26 final size:25
Alignment explanation
Indices: 21651599--21651657 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 25
21651589 CAAAATAACA
21651599 TTTCCTTTGAACACTTACCATTTCG
1 TTTCCTTTGAACACTTACCATTTCG
*
21651624 TTTCCTTCTGAACACTTACCATTTTG
1 TTTCCTT-TGAACACTTACCATTTCG
21651650 TTTCCTTT
1 TTTCCTTT
21651658 TCATACCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 8 0.25
26 24 0.75
ACGTcount: A:0.17, C:0.27, G:0.07, T:0.49
Consensus pattern (25 bp):
TTTCCTTTGAACACTTACCATTTCG
Found at i:21656853 original size:53 final size:53
Alignment explanation
Indices: 21656758--21656859 Score: 123
Period size: 53 Copynumber: 1.9 Consensus size: 53
21656748 CATGGAATAG
* **** *
21656758 CACATGGCCTGCGACATGGCCATGTGTTGTAAGTCAGAGAGTTACACAGTCTA
1 CACATGGCCTACGACATGGCCATGTGACCCAACTCAGAGAGTTACACAGTCTA
* * *
21656811 CACATGGCCTACGACATGGCCGTGTGACCCAACTCAGTGAGTTATACAG
1 CACATGGCCTACGACATGGCCATGTGACCCAACTCAGAGAGTTACACAG
21656860 CTAGAGATAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
53 40 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.23
Consensus pattern (53 bp):
CACATGGCCTACGACATGGCCATGTGACCCAACTCAGAGAGTTACACAGTCTA
Found at i:21662244 original size:19 final size:21
Alignment explanation
Indices: 21662219--21662264 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
21662209 TTAAATTTTA
21662219 ATTTTTGG-ATGTT-TTTATTT
1 ATTTTTGGAAT-TTGTTTATTT
21662239 -TTTTTGGAATTTGTTTATTT
1 ATTTTTGGAATTTGTTTATTT
21662259 ATTTTT
1 ATTTTT
21662265 TGCTTTAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 9 0.39
20 9 0.39
21 5 0.22
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (21 bp):
ATTTTTGGAATTTGTTTATTT
Found at i:21664051 original size:25 final size:25
Alignment explanation
Indices: 21664023--21664097 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
21664013 GCATGCTGAT
* *
21664023 ACGAGCTATGAATCGGTATGCTCTC
1 ACGAGCTATAAATCGGTAAGCTCTC
*
21664048 ACGAGCTATAAATTGGTAAGCTCAT-
1 ACGAGCTATAAATCGGTAAGCTC-TC
* *
21664073 ATGAGCTA-AAATTGGTAAGCTCTC
1 ACGAGCTATAAATCGGTAAGCTCTC
21664097 A
1 A
21664098 ATAGTTGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 1 0.02
24 15 0.34
25 27 0.61
26 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (25 bp):
ACGAGCTATAAATCGGTAAGCTCTC
Found at i:21664089 original size:24 final size:24
Alignment explanation
Indices: 21664050--21664127 Score: 97
Period size: 24 Copynumber: 3.2 Consensus size: 24
21664040 ATGCTCTCAC
21664050 GAGCTATAAATTGGTAAGCTCATAT
1 GAGCTA-AAATTGGTAAGCTCATAT
21664075 GAGCTAAAATTGGTAAGCTC-TCAAT
1 GAGCTAAAATTGGTAAGCTCAT--AT
* *
21664100 -AGTTGAAATTGGTAAGCTCATAT
1 GAGCTAAAATTGGTAAGCTCATAT
21664123 GAGCT
1 GAGCT
21664128 GTGGTGTACC
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 3 0.07
24 34 0.74
25 9 0.20
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.31
Consensus pattern (24 bp):
GAGCTAAAATTGGTAAGCTCATAT
Found at i:21665282 original size:27 final size:26
Alignment explanation
Indices: 21665252--21665316 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
21665242 ATATATAATT
21665252 ATTATATAATAATTAAATTTTACTTAA
1 ATTATATAATAATTAAATTTTACTT-A
* * *
21665279 ATTAT-TAACACGTTTAATTTTACTTA
1 ATTATATAATA-ATTAAATTTTACTTA
*
21665305 ATTTTATAATAA
1 ATTATATAATAA
21665317 ATTTAGATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 9 0.30
27 21 0.70
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTATATAATAATTAAATTTTACTTA
Found at i:21670249 original size:89 final size:89
Alignment explanation
Indices: 21670098--21670271 Score: 294
Period size: 89 Copynumber: 2.0 Consensus size: 89
21670088 TCTCAAGGTG
*
21670098 AGACTATTACTATTTCCTCGATGGATACTCGGGGTATAATCAGATTACAATAGCATTGGAAGATC
1 AGACTATTACTATTTCCTCAATGGATACTCGGGGTATAATCAGATTACAATAGCATTGGAAGATC
**
21670163 AACACAATTCAACATTCACCCCTT
66 AACACAAGACAACATTCACCCCTT
* * *
21670187 AGACTATTACTATTTTCTCAATGGATACTCGGGGTATAATCAGATTACATTAGGATTGGAAGATC
1 AGACTATTACTATTTCCTCAATGGATACTCGGGGTATAATCAGATTACAATAGCATTGGAAGATC
21670252 AACACAAGACAACATTCACC
66 AACACAAGACAACATTCACC
21670272 TGCCCATACG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (89 bp):
AGACTATTACTATTTCCTCAATGGATACTCGGGGTATAATCAGATTACAATAGCATTGGAAGATC
AACACAAGACAACATTCACCCCTT
Found at i:21672958 original size:16 final size:15
Alignment explanation
Indices: 21672931--21672964 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
21672921 ATAACTAGTA
*
21672931 TATAATTATATTTAT
1 TATAATTATATTAAT
21672946 TATAATATATATTAAT
1 TATAAT-TATATTAAT
21672962 TAT
1 TAT
21672965 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:21677600 original size:42 final size:42
Alignment explanation
Indices: 21677541--21677625 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
21677531 TTATCACATT
*
21677541 TGCTTATTAAAATTTGTTTAATCGGTTGAATTGACATAGAGA
1 TGCTTATTAAAATTTGTTTAATCAGTTGAATTGACATAGAGA
* *
21677583 TGCTTATTAAAATTTGTTTAATTAGTTTAATTGACATAGAGA
1 TGCTTATTAAAATTTGTTTAATCAGTTGAATTGACATAGAGA
21677625 T
1 T
21677626 ATAGTCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (42 bp):
TGCTTATTAAAATTTGTTTAATCAGTTGAATTGACATAGAGA
Found at i:21678061 original size:30 final size:30
Alignment explanation
Indices: 21678027--21678085 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
21678017 TGAGGATTCA
*
21678027 GCTTCCAATTGAGTCGGTGTGTTAAGTATT
1 GCTTCCAATTGAGTCCGTGTGTTAAGTATT
21678057 GCTTCCAATTGAGTCCGTGTGTTAAGTAT
1 GCTTCCAATTGAGTCCGTGTGTTAAGTAT
21678086 ATACTTTCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.39
Consensus pattern (30 bp):
GCTTCCAATTGAGTCCGTGTGTTAAGTATT
Found at i:21683649 original size:20 final size:20
Alignment explanation
Indices: 21683621--21683659 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21683611 AAGTGATTTT
21683621 CTTTATTTT-TGTTGTGTTTC
1 CTTTATTTTGTGTT-TGTTTC
*
21683641 CTTTTTTTTGTGTTTGTTT
1 CTTTATTTTGTGTTTGTTT
21683660 TTACGCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.03, C:0.08, G:0.15, T:0.74
Consensus pattern (20 bp):
CTTTATTTTGTGTTTGTTTC
Found at i:21684940 original size:14 final size:14
Alignment explanation
Indices: 21684921--21684950 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21684911 TGTGTGCGTG
*
21684921 TTTTATTTTGTTTC
1 TTTTATCTTGTTTC
21684935 TTTTATCTTGTTTC
1 TTTTATCTTGTTTC
21684949 TT
1 TT
21684951 GAGGACAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.77
Consensus pattern (14 bp):
TTTTATCTTGTTTC
Found at i:21687150 original size:25 final size:23
Alignment explanation
Indices: 21687122--21687168 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
21687112 AACCATTCAT
*
21687122 TCTTCACTTCTCTATCACTTTTCTC
1 TCTTCACTGCTCT-TCA-TTTTCTC
*
21687147 TCTTCAGTGCTCTTCATTTTCT
1 TCTTCACTGCTCTTCATTTTCT
21687169 TCCCCACTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.11, C:0.32, G:0.04, T:0.53
Consensus pattern (23 bp):
TCTTCACTGCTCTTCATTTTCTC
Found at i:21689572 original size:50 final size:50
Alignment explanation
Indices: 21689513--21689797 Score: 417
Period size: 50 Copynumber: 5.7 Consensus size: 50
21689503 ATTTGGGTAA
* *
21689513 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
* *
21689563 AGAGGTCCCATGTAAGACCATGTCTAGGATATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
21689613 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
* *
21689663 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
** * * * * *
21689713 AGAGGTCCCCCGTAAGACCATGCCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
** *
21689763 AGAACATCCCATGTAAGACCATGTCTAAGACATGG
1 AG-AGGTCCCATGTAAGACCATGTCTAGGACATGG
21689798 TTTTGGCATG
Statistics
Matches: 214, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
50 189 0.88
51 25 0.12
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
Found at i:21699835 original size:22 final size:23
Alignment explanation
Indices: 21699801--21699845 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
21699791 CAACCAAACA
21699801 TCCAACTAAACA-TCATTATAAG
1 TCCAACTAAACAGTCATTATAAG
* *
21699823 TCCACCTATACATGTCATTATAA
1 TCCAACTAAACA-GTCATTATAA
21699846 CCTTGGACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
24 9 0.47
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.31
Consensus pattern (23 bp):
TCCAACTAAACAGTCATTATAAG
Found at i:21705207 original size:20 final size:21
Alignment explanation
Indices: 21705165--21705207 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
21705155 GAATCTTTCC
**
21705165 TCCCTTTTCTTCTTTCTCCTT
1 TCCCTTTTCTTCTCCCTCCTT
*
21705186 TCCCTTTT-TTCTCCCTCTTT
1 TCCCTTTTCTTCTCCCTCCTT
21705206 TC
1 TC
21705208 ACTCCTTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (21 bp):
TCCCTTTTCTTCTCCCTCCTT
Found at i:21705344 original size:17 final size:15
Alignment explanation
Indices: 21705314--21705355 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
21705304 GACACCATCA
21705314 TTCATTTTTTTTCTT
1 TTCATTTTTTTTCTT
21705329 TTCATCTTTTTCTTCTT
1 TTCAT-TTTTT-TTCTT
*
21705346 TAC-TTTTTTT
1 TTCATTTTTTT
21705356 CTCTCTTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 10 0.42
16 6 0.25
17 7 0.29
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCATTTTTTTTCTT
Found at i:21707926 original size:50 final size:50
Alignment explanation
Indices: 21707858--21707995 Score: 159
Period size: 50 Copynumber: 2.8 Consensus size: 50
21707848 ACTGCCAATC
* * ** * * *
21707858 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAACG
** *
21707908 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAACG
* * *
21707958 CCATGTCCCAAACATGGTCCTACATAGGACCTCTCATA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
21707996 ATCTCAATGA
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.25
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAACG
Found at i:21710087 original size:6 final size:6
Alignment explanation
Indices: 21710076--21710118 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
21710066 CATTTTTAAG
21710076 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T
21710119 GGAGAAAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (6 bp):
TCATTT
Found at i:21713692 original size:37 final size:37
Alignment explanation
Indices: 21713636--21713710 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
21713626 TGTTAATTTC
* *
21713636 AAGAATTATATAATGTTTTTAATTATGTAGTGGTTCA
1 AAGAATTATATAATATTTTTAATTATGTAGTGATTCA
* *
21713673 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATATAATATTTTTAATTATGTAGTGATTCA
21713710 A
1 A
21713711 TTCGAGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGAATTATATAATATTTTTAATTATGTAGTGATTCA
Found at i:21722859 original size:3 final size:3
Alignment explanation
Indices: 21722846--21722876 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
21722836 GAATATGAGC
*
21722846 AAG ATG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
21722877 TAAAGGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:21729081 original size:31 final size:31
Alignment explanation
Indices: 21729023--21729082 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
21729013 GTCTTTTGAA
* *
21729023 AATATTTACAAAAAGAGACATCTAATTTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTTT
*
21729054 AATATTTACAAACAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
21729083 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (31 bp):
AATATTTACAAAAAGAGACACCAAATTTTTT
Found at i:21734693 original size:27 final size:27
Alignment explanation
Indices: 21734662--21734839 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21734652 TAAATTGTAC
21734662 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21734689 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21734715 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21734743 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21734771 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21734798 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21734825 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21734840 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21734776 original size:82 final size:81
Alignment explanation
Indices: 21734663--21734818 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21734653 AAATTGTACA
* *
21734663 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21734727 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21734744 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21734809 TGCGAGTTGA
65 TGCGAATTGA
21734819 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21734830 original size:82 final size:81
Alignment explanation
Indices: 21734659--21734839 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21734649 GATTAAATTG
* *
21734659 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21734724 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21734740 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21734804 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21734822 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21734840 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21742756 original size:27 final size:27
Alignment explanation
Indices: 21742725--21742902 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21742715 TAAATTGTAC
21742725 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21742752 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21742778 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21742806 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21742834 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21742861 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21742888 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21742903 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21742839 original size:82 final size:81
Alignment explanation
Indices: 21742726--21742881 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21742716 AAATTGTACA
* *
21742726 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21742790 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21742807 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21742872 TGCGAGTTGA
65 TGCGAATTGA
21742882 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21742893 original size:82 final size:81
Alignment explanation
Indices: 21742722--21742902 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21742712 GATTAAATTG
* *
21742722 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21742787 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21742803 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21742867 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21742885 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21742903 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21746110 original size:15 final size:15
Alignment explanation
Indices: 21746090--21746118 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21746080 TTAAAATTGA
21746090 ACAGAAAAATTAATC
1 ACAGAAAAATTAATC
21746105 ACAGAAAAATTAAT
1 ACAGAAAAATTAAT
21746119 TAAGTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (15 bp):
ACAGAAAAATTAATC
Found at i:21755390 original size:9 final size:9
Alignment explanation
Indices: 21755372--21755461 Score: 99
Period size: 9 Copynumber: 9.8 Consensus size: 9
21755362 ACAACCAAAA
21755372 TGAGAGAGT
1 TGAGAGAGT
*
21755381 TGAGAAAGT
1 TGAGAGAGT
* *
21755390 TGAGAAATT
1 TGAGAGAGT
*
21755399 TGAGAGACT
1 TGAGAGAGT
* *
21755408 TGAAAGGGTT
1 TGAGAGAG-T
21755418 TGAGAGAGT
1 TGAGAGAGT
21755427 TGAGAGAGT
1 TGAGAGAGT
21755436 TGAGAGAGTT
1 TGAGAGAG-T
*
21755446 TGAAAGAGT
1 TGAGAGAGT
21755455 TGAGAGA
1 TGAGAGA
21755462 AAGATGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
9 53 0.78
10 15 0.22
ACGTcount: A:0.37, C:0.01, G:0.38, T:0.24
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:21755421 original size:19 final size:18
Alignment explanation
Indices: 21755376--21755461 Score: 75
Period size: 19 Copynumber: 4.7 Consensus size: 18
21755366 CCAAAATGAG
* *
21755376 AGAGTTGAGAAAGTTGAGA
1 AGAGTTGAGAGACTTGA-A
*
21755395 A-ATTTGAGAGACTTGAA
1 AGAGTTGAGAGACTTGAA
* * *
21755412 AGGGTTTGAGAGAGTTGAG
1 AGAG-TTGAGAGACTTGAA
*
21755431 AGAGTTGAGAGAGTTTGAA
1 AGAGTTGAGAGA-CTTGAA
21755450 AGAGTTGAGAGA
1 AGAGTTGAGAGA
21755462 AAGATGTGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
17 2 0.04
18 20 0.37
19 32 0.59
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.24
Consensus pattern (18 bp):
AGAGTTGAGAGACTTGAA
Found at i:21755429 original size:28 final size:28
Alignment explanation
Indices: 21755402--21755461 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
21755392 AGAAATTTGA
*
21755402 GAGACTTGAAAGGGTTTGAGAGAGTTGA
1 GAGACTTGAAAGAGTTTGAGAGAGTTGA
* * *
21755430 GAGAGTTGAGAGAGTTTGAAAGAGTTGA
1 GAGACTTGAAAGAGTTTGAGAGAGTTGA
21755458 GAGA
1 GAGA
21755462 AAGATGTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.40, T:0.23
Consensus pattern (28 bp):
GAGACTTGAAAGAGTTTGAGAGAGTTGA
Found at i:21755430 original size:37 final size:37
Alignment explanation
Indices: 21755376--21755461 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 37
21755366 CCAAAATGAG
* *
21755376 AGAGTTGAGAAAGTTGAGAAATTTGAGAGA-CTTGAA
1 AGAGTTGAGAGAGTTGAGAAAGTTGAGAGAGCTTGAA
* * *
21755412 AGGGTTTGAGAGAGTTGAGAGAGTTGAGAGAGTTTGAA
1 AGAG-TTGAGAGAGTTGAGAAAGTTGAGAGAGCTTGAA
21755450 AGAGTTGAGAGA
1 AGAGTTGAGAGA
21755462 AAGATGTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 3 0.07
37 31 0.74
38 8 0.19
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.24
Consensus pattern (37 bp):
AGAGTTGAGAGAGTTGAGAAAGTTGAGAGAGCTTGAA
Found at i:21755872 original size:26 final size:26
Alignment explanation
Indices: 21755842--21755893 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
21755832 ATTTTCAAAT
* *
21755842 AATAAGATATTTTGT-TTTATATATTA
1 AATAA-ATATTTTATATTTAAATATTA
21755868 AATAAATATTTTATATTTAAATATTA
1 AATAAATATTTTATATTTAAATATTA
21755894 TTAATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (26 bp):
AATAAATATTTTATATTTAAATATTA
Found at i:21755903 original size:21 final size:22
Alignment explanation
Indices: 21755877--21755922 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
21755867 AAATAAATAT
*
21755877 TTTATATTTAA-AT-ATTATTAA
1 TTTATATTGAATATAATTA-TAA
21755898 TTTATATTGAATATAATTATAA
1 TTTATATTGAATATAATTATAA
21755920 TTT
1 TTT
21755923 TTTAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 8 0.36
23 4 0.18
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTATATTGAATATAATTATAA
Found at i:21755916 original size:20 final size:21
Alignment explanation
Indices: 21755857--21755916 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
21755847 GATATTTTGT
*
21755857 TTTATATATTAAATA-AA-TAT
1 TTTATAT-TTAAATATAATTAA
*
21755877 TTTATATTTAAATATTATTAA
1 TTTATATTTAAATATAATTAA
*
21755898 TTTATA-TTGAATATAATTA
1 TTTATATTTAAATATAATTA
21755917 TAATTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 7 0.21
20 19 0.56
21 8 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTATATTTAAATATAATTAA
Found at i:21763012 original size:40 final size:40
Alignment explanation
Indices: 21762948--21763027 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
21762938 GCTTTACGGA
* *
21762948 CATTAGCGGTGCTTTTTAACAAACGCCGC-AATATATCGAG
1 CATTAGCGGCGCTTATTAACAAACGCCGCTAA-ATATCGAG
* *
21762988 CATTAGCGGCGCTTATTGAGAAACGCCGCTAAATATCGAG
1 CATTAGCGGCGCTTATTAACAAACGCCGCTAAATATCGAG
21763028 TAATAGCAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 33 0.94
41 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (40 bp):
CATTAGCGGCGCTTATTAACAAACGCCGCTAAATATCGAG
Found at i:21763248 original size:40 final size:39
Alignment explanation
Indices: 21763145--21763271 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
21763135 CTTTACTAGA
* * * *
21763145 ATTAGCGGCGGTTTTTAAAAAACGCTGC-AATAGATTGAGC
1 ATTAGCGGCGCTTTTT-GAAAACGCCGCTAA-AGATCGAGC
* *
21763185 ATTAGCAGCGCTTGTTGAGAAACGCCGCTAAAGATCGAGC
1 ATTAGCGGCGCTTTTTGA-AAACGCCGCTAAAGATCGAGC
* * *
21763225 ATTAGCGGCGCTTTTTGTAAAACGCCGCTATAGGTCAAGC
1 ATTAGCGGCGCTTTTTG-AAAACGCCGCTAAAGATCGAGC
21763265 ATTAGCG
1 ATTAGCG
21763272 TAAGCAAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 69 0.95
41 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (39 bp):
ATTAGCGGCGCTTTTTGAAAACGCCGCTAAAGATCGAGC
Found at i:21763475 original size:14 final size:15
Alignment explanation
Indices: 21763458--21763494 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
21763448 ATTGTTTATT
21763458 GTTTAAGGGTT-GGG
1 GTTTAAGGGTTAGGG
21763472 GTTTAAGGGTTAGGG
1 GTTTAAGGGTTAGGG
21763487 GTTTAAGG
1 GTTTAAGG
21763495 TTTATAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (15 bp):
GTTTAAGGGTTAGGG
Found at i:21763649 original size:64 final size:64
Alignment explanation
Indices: 21763561--21763719 Score: 155
Period size: 64 Copynumber: 2.5 Consensus size: 64
21763551 GATTATACGA
* *
21763561 TTTATGGG-TTATGGGTTTAAGGTTTATAGTTT-AGTGTTTAGGGTTTAAGGGATACATGTTAGG
1 TTTA-GGGATTAT-GGTTTATGGTTTATAGTTTAAG-GGTTAGGGTTTAAGGGATACATGTTAGG
21763624 GG
63 GG
* ** **
21763626 TTTAGGGATTATGGTTTATGGTTTA-AGGTTTAAGGGTTGGGGTTTAAGGTTTAGGTGTTAGGGG
1 TTTAGGGATTATGGTTTATGGTTTATA-GTTTAAGGGTTAGGGTTTAAGGGATACATGTTAGGGG
* * *
21763690 TTAAAGGA-TAGGGGTTTATGGTTTATAGTT
1 TTTAGGGATTA-TGGTTTATGGTTTATAGTT
21763720 AATGTTTTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
63 3 0.04
64 65 0.82
65 11 0.14
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.43
Consensus pattern (64 bp):
TTTAGGGATTATGGTTTATGGTTTATAGTTTAAGGGTTAGGGTTTAAGGGATACATGTTAGGGG
Found at i:21763669 original size:21 final size:22
Alignment explanation
Indices: 21763617--21763696 Score: 78
Period size: 21 Copynumber: 3.7 Consensus size: 22
21763607 AAGGGATACA
* *
21763617 TGTTAGGGGTTTAGGGATTATGG
1 TGTTAGGGGTTTAAGGTTTA-GG
*
21763640 T-TTA-TGGTTTAAGGTTTAAGG
1 TGTTAGGGGTTTAAGGTTT-AGG
21763661 -GTT-GGGGTTTAAGGTTTAGG
1 TGTTAGGGGTTTAAGGTTTAGG
*
21763681 TGTTAGGGGTTAAAGG
1 TGTTAGGGGTTTAAGG
21763697 ATAGGGGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
20 3 0.06
21 29 0.62
22 14 0.30
23 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (22 bp):
TGTTAGGGGTTTAAGGTTTAGG
Found at i:21763791 original size:28 final size:28
Alignment explanation
Indices: 21763738--21763806 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 28
21763728 ATGATGCAGT
*
21763738 GTTTAGGGGTTAGGGGTTTACAGTTTACG
1 GTTTAAGGGTTAGGGGTTTACAGTTTA-G
21763767 GTTTAAGGGTT-GGGGTTTA-AGGTTTAG
1 GTTTAAGGGTTAGGGGTTTACA-GTTTAG
21763794 GTGTTAAGGGTTA
1 GT-TTAAGGGTTA
21763807 ATGGATAGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 4 0.11
28 22 0.61
29 10 0.28
ACGTcount: A:0.19, C:0.03, G:0.39, T:0.39
Consensus pattern (28 bp):
GTTTAAGGGTTAGGGGTTTACAGTTTAG
Found at i:21763795 original size:6 final size:7
Alignment explanation
Indices: 21763760--21763857 Score: 76
Period size: 7 Copynumber: 13.9 Consensus size: 7
21763750 GGGGTTTACA
*
21763760 GTTTACG
1 GTTTAAG
21763767 GTTTAAG
1 GTTTAAG
* **
21763774 GGTTGGG
1 GTTTAAG
21763781 GTTTAAG
1 GTTTAAG
21763788 GTTT-AG
1 GTTTAAG
21763794 GTGTTAAG
1 GT-TTAAG
*
21763802 GGTTAATG
1 GTTTAA-G
* *
21763810 G-ATAGG
1 GTTTAAG
21763816 AGTTT-AG
1 -GTTTAAG
21763823 GATTTAAG
1 G-TTTAAG
21763831 GTTTAAG
1 GTTTAAG
21763838 GTTTAAG
1 GTTTAAG
21763845 GTTTAAG
1 GTTTAAG
21763852 GTTTAA
1 GTTTAA
21763858 AATTGATAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
6 6 0.08
7 57 0.79
8 9 0.12
ACGTcount: A:0.26, C:0.01, G:0.34, T:0.40
Consensus pattern (7 bp):
GTTTAAG
Found at i:21764239 original size:126 final size:125
Alignment explanation
Indices: 21763954--21764220 Score: 326
Period size: 125 Copynumber: 2.1 Consensus size: 125
21763944 CGTTTGGACA
* * ** * * *
21763954 AAAAACGCTGCAAAAGGTAGGCAATAGCGGCGTTTGGACTG-AAAACG-TCGCAACAGTGTTTTA
1 AAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTT-GTTTGAAAAATGCT-GCAACAATGTATTA
* ** *
21764017 AAAATTGTTCAAAACGACGCTGTTTTGTTACAGGAATTTAATTTTTTAGTGGCGTTTTTCTC
64 AAAATTGTACAAAACGACGCAATTTCGTTACAGGAATTTAATTTTTTAGTGGCGTTTTTCTC
21764079 AAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGTTTGAAAAATGCTGCAACAATGTATTAAA
1 AAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGTTTGAAAAATGCTGCAACAATGTATTAAA
* *
21764144 AATTGTACAAAAATGGCGCAATTTCGTTACAGAGAA-TTAATTTTTTAGTGGCGTTTTTGCT-
66 AATTGTAC-AAAACGACGCAATTTCGTTACAG-GAATTTAATTTTTTAGTGGCGTTTTT-CTC
* *
21764205 GAAAACGCCGTAAAAG
1 AAAAACGCCGCAAAAG
21764221 TTTACAATTA
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
124 3 0.02
125 59 0.48
126 55 0.45
127 5 0.04
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (125 bp):
AAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGTTTGAAAAATGCTGCAACAATGTATTAAA
AATTGTACAAAACGACGCAATTTCGTTACAGGAATTTAATTTTTTAGTGGCGTTTTTCTC
Found at i:21766163 original size:123 final size:122
Alignment explanation
Indices: 21765929--21766190 Score: 413
Period size: 123 Copynumber: 2.1 Consensus size: 122
21765919 CTTTGAAGAA
* * *
21765929 TTAATATGTAACCTATATTAGTATGATATATAACCTACATTTCAAATTCATTACTAATAAGTTTT
1 TTAATATATAACCTATAGTAGTATGATATATAACCTACATTTCAAATTCATTACTAATAAATTTT
21765994 TAAATTTTAAAAATAATTATAATTATTATATTTTTAAATAACTTAAAACCTATATTT
66 TAAATTTTAAAAATAATTATAATTATTATATTTTTAAATAACTTAAAACCTATATTT
*
21766051 TTAATATATAACCTATAGTAGTATGGATATATAACCTACATTTCAAATTCATTACTAGTAAATTT
1 TTAATATATAACCTATAGTAGTAT-GATATATAACCTACATTTCAAATTCATTACTAATAAATTT
* *
21766116 TTAAATTTATTAAATAATAATTGTAATTATTATA-TTTTAAAT-A-TTAAAACCTCTATTT
65 TTAAA-TT-TTAAA-AATAATTATAATTATTATATTTTTAAATAACTTAAAACCTATATTT
21766174 TTAATATATAACCTATA
1 TTAATATATAACCTATA
21766191 TTTCAAATTC
Statistics
Matches: 130, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
122 22 0.17
123 74 0.57
124 3 0.02
125 13 0.10
126 18 0.14
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (122 bp):
TTAATATATAACCTATAGTAGTATGATATATAACCTACATTTCAAATTCATTACTAATAAATTTT
TAAATTTTAAAAATAATTATAATTATTATATTTTTAAATAACTTAAAACCTATATTT
Found at i:21766192 original size:20 final size:21
Alignment explanation
Indices: 21766146--21766198 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
21766136 TTGTAATTAT
21766146 TATATTTTAAATATTAAAACC
1 TATATTTTAAATATTAAAACC
* * *
21766167 TCTATTTTTAATA-TATAACC
1 TATATTTTAAATATTAAAACC
*
21766187 TATATTTCAAAT
1 TATATTTTAAAT
21766199 TCATTACTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (21 bp):
TATATTTTAAATATTAAAACC
Found at i:21766283 original size:97 final size:100
Alignment explanation
Indices: 21766077--21766311 Score: 395
Period size: 97 Copynumber: 2.4 Consensus size: 100
21766067 AGTAGTATGG
* * *
21766077 ATATATAACCTACATTTCAAATTCATTACTAGTAAATTTTTAAATTTATTAAATAATAATTGTAA
1 ATATATAACCTATATTTCAAATTCATTACTAATAAATTTTTAAATTTATTAAATAATAATTATAA
*
21766142 TTATTATATTTTAAATATTAAAACCTCTATTTTTA
66 TTATTATATTTTAAATATTAAAACCTATATTTTTA
*
21766177 ATATATAACCTATATTTCAAATTCATTACTAATAAGTTTTTAAA-TT-TTAAA-AATAATTATAA
1 ATATATAACCTATATTTCAAATTCATTACTAATAAATTTTTAAATTTATTAAATAATAATTATAA
21766239 TTATTATATTTTAAATATTAAAACCTATATTTTTA
66 TTATTATATTTTAAATATTAAAACCTATATTTTTA
*
21766274 GTATATAACCTATATTTCAAATTCATTACTAATAAATT
1 ATATATAACCTATATTTCAAATTCATTACTAATAAATT
21766312 AAAATTATTA
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
97 80 0.62
98 5 0.04
99 2 0.02
100 41 0.32
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (100 bp):
ATATATAACCTATATTTCAAATTCATTACTAATAAATTTTTAAATTTATTAAATAATAATTATAA
TTATTATATTTTAAATATTAAAACCTATATTTTTA
Found at i:21766335 original size:12 final size:12
Alignment explanation
Indices: 21766318--21766392 Score: 100
Period size: 12 Copynumber: 6.2 Consensus size: 12
21766308 AATTAAAATT
21766318 ATTATATTACTA
1 ATTATATTACTA
21766330 ATTATATTACTA
1 ATTATATTACTA
21766342 ATTATATTACTAA
1 ATTATATTACT-A
21766355 TTATTATATTACTA
1 --ATTATATTACTA
21766369 ATTATATT--TA
1 ATTATATTACTA
*
21766379 ATAATATTACTA
1 ATTATATTACTA
21766391 AT
1 AT
21766393 AAGTTTTTAA
Statistics
Matches: 57, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
10 9 0.16
12 35 0.61
13 1 0.02
14 1 0.02
15 11 0.19
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTATATTACTA
Found at i:21766360 original size:27 final size:24
Alignment explanation
Indices: 21766318--21766392 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 24
21766308 AATTAAAATT
21766318 ATTATATTACTAATTATATTACTA
1 ATTATATTACTAATTATATTACTA
21766342 ATTATATTACTAATTATTATATTACTA
1 ATTATATTACT-A--ATTATATTACTA
*
21766369 ATTATATT--TAATAATATTACTA
1 ATTATATTACTAATTATATTACTA
21766391 AT
1 AT
21766393 AAGTTTTTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
22 13 0.28
24 12 0.26
25 2 0.04
27 20 0.43
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTATATTACTAATTATATTACTA
Found at i:21766705 original size:100 final size:100
Alignment explanation
Indices: 21766384--21766675 Score: 566
Period size: 100 Copynumber: 2.9 Consensus size: 100
21766374 ATTTAATAAT
* *
21766384 ATTACTAATAAGTTTTTAAAATTTAAAAATAATTATAATTATTATATTTTTAAATAACTTAAAAC
1 ATTACTAATAAGTTTCTAAATTTTAAAAATAATTATAATTATTATATTTTTAAATAACTTAAAAC
21766449 CTATATTTTTAATATATAACCTATATTTCAAATTC
66 CTATATTTTTAATATATAACCTATATTTCAAATTC
21766484 ATTACTAATAAGTTTCTAAATTTTAAAAATAATTATAATTATTATATTTTTAAATAACTTAAAAC
1 ATTACTAATAAGTTTCTAAATTTTAAAAATAATTATAATTATTATATTTTTAAATAACTTAAAAC
21766549 CTATATTTTTAATATATAACCTATATTTCAAATTC
66 CTATATTTTTAATATATAACCTATATTTCAAATTC
21766584 ATTACTAATAAGTTTCTAAATTTTAAAAATAATTATAATTATTATATTTTTAAATAACTTAAAAC
1 ATTACTAATAAGTTTCTAAATTTTAAAAATAATTATAATTATTATATTTTTAAATAACTTAAAAC
21766649 CTATATTTTTAATATATAACCTATATT
66 CTATATTTTTAATATATAACCTATATT
21766676 AGTATGGATA
Statistics
Matches: 190, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 190 1.00
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (100 bp):
ATTACTAATAAGTTTCTAAATTTTAAAAATAATTATAATTATTATATTTTTAAATAACTTAAAAC
CTATATTTTTAATATATAACCTATATTTCAAATTC
Found at i:21766900 original size:9 final size:9
Alignment explanation
Indices: 21766832--21766910 Score: 52
Period size: 9 Copynumber: 8.8 Consensus size: 9
21766822 CCACATGACA
*
21766832 TACATAACT
1 TACATAATT
21766841 TACATAATT
1 TACATAATT
*
21766850 TACATAAATA
1 TACAT-AATT
* * *
21766860 TATATCATA
1 TACATAATT
* *
21766869 T-CAAAACT
1 TACATAATT
*
21766877 TACATAACT
1 TACATAATT
21766886 TACATAATT
1 TACATAATT
* *
21766895 TGCATATTT
1 TACATAATT
21766904 TACATAA
1 TACATAA
21766911 ATATATATGT
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
8 3 0.06
9 43 0.81
10 7 0.13
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (9 bp):
TACATAATT
Found at i:21778180 original size:50 final size:50
Alignment explanation
Indices: 21778093--21778229 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 50
21778083 NNNNNNNNNN
* * **
21778093 TCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGATATGGCATTGGCACCGAGATGAGAAC
* * * *
21778143 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGATATGGCATTGGCACCGAGATGAGAAC
* * *
21778193 TCCCATGTAAGACTATATCTGGGATATGGCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGATATGGCATTGGCA
21778230 GTACAGGAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGATATGGCATTGGCACCGAGATGAGAAC
Done.