Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 112 of 208
Found at i:33815783 original size:9 final size:9
Alignment explanation
Indices: 33815747--33815897 Score: 64
Period size: 10 Copynumber: 16.8 Consensus size: 9
33815737 CATGTGGCAA
*
33815747 AAAAAATAT
1 AAAAATTAT
33815756 AAAAA--AT
1 AAAAATTAT
*
33815763 AAAAATCAAT
1 AAAAAT-TAT
*
33815773 AAAAGTTAT
1 AAAAATTAT
33815782 AAAAATTATT
1 AAAAATTA-T
*
33815792 AAATATTAAT
1 AAAAATT-AT
33815802 AAAAA-TA-
1 AAAAATTAT
*
33815809 AAATATT-T
1 AAAAATTAT
*
33815817 -AAATTTAT
1 AAAAATTAT
* *
33815825 TAAAATTAGA
1 AAAAATTA-T
33815835 AAAAATTAT
1 AAAAATTAT
*
33815844 -AAAATACAT
1 AAAAAT-TAT
* *
33815853 AAAATATAAA
1 AAAA-ATTAT
33815863 AAAAATTAT
1 AAAAATTAT
*
33815872 AAAATTTTAT
1 AAAA-ATTAT
*
33815882 AAAAATCAT
1 AAAAATTAT
*
33815891 TAAAATT
1 AAAAATT
33815898 TTATAAAATG
Statistics
Matches: 106, Mismatches: 22, Indels: 28
0.68 0.14 0.18
Matches are distributed among these distances:
7 15 0.14
8 8 0.08
9 38 0.36
10 42 0.40
11 3 0.03
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:33815794 original size:19 final size:20
Alignment explanation
Indices: 33815760--33815807 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
33815750 AAATATAAAA
33815760 AATAAAAATCAATAAA-AGTT
1 AATAAAAATCAATAAATA-TT
* *
33815780 -ATAAAAATTATTAAATATT
1 AATAAAAATCAATAAATATT
33815799 AATAAAAAT
1 AATAAAAAT
33815808 AAAATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAAAAATCAATAAATATT
Found at i:33815848 original size:28 final size:29
Alignment explanation
Indices: 33815773--33815887 Score: 90
Period size: 28 Copynumber: 3.8 Consensus size: 29
33815763 AAAAATCAAT
* *
33815773 AAAAGTTATAAAAATTATTAAATATTAATAAA
1 AAAAATTATAAAATTTATTAAA-A-T-ATAAA
* * *
33815805 AATAAAATATTTAAATTTATTAAAAT-TAGA
1 AA-AAATTA-TAAAATTTATTAAAATATAAA
**
33815835 AAAAATTATAAAATACA-TAAAATATAAA
1 AAAAATTATAAAATTTATTAAAATATAAA
*
33815863 AAAAATTATAAAATTTTATAAAAAT
1 AAAAATTATAAAA-TTTATTAAAAT
33815888 CATTAAAATT
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
27 6 0.09
28 22 0.34
29 7 0.11
30 10 0.15
32 3 0.05
33 5 0.08
34 12 0.18
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAAATTATAAAATTTATTAAAATATAAA
Found at i:33815885 original size:20 final size:21
Alignment explanation
Indices: 33815862--33815905 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
33815852 TAAAATATAA
*
33815862 AAAAAATTA-TAAAATTTTAT
1 AAAAAATCATTAAAATTTTAT
33815882 -AAAAATCATTAAAATTTTAT
1 AAAAAATCATTAAAATTTTAT
33815902 AAAA
1 AAAA
33815906 TGCATCAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 11 0.52
21 3 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAAAATCATTAAAATTTTAT
Found at i:33818872 original size:23 final size:22
Alignment explanation
Indices: 33818832--33818874 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33818822 TTGTATTTTC
33818832 TAAAATATTATTAAATTAAATT
1 TAAAATATTATTAAATTAAATT
33818854 TAAAATAATTA-TAATATTAAA
1 TAAAAT-ATTATTAA-ATTAAA
33818875 AAGTTTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAAATATTATTAAATTAAATT
Found at i:33818883 original size:28 final size:28
Alignment explanation
Indices: 33818852--33818914 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
33818842 TTAAATTAAA
**
33818852 TTTAAAATAATTATAATATT-AAAAAGTT
1 TTTAAAATAACAATAAT-TTAAAAAAGTT
* * *
33818880 TTTACAATTACAATCATTTAAAAAAGTT
1 TTTAAAATAACAATAATTTAAAAAAGTT
33818908 TTTAAAA
1 TTTAAAA
33818915 CATTTAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (28 bp):
TTTAAAATAACAATAATTTAAAAAAGTT
Found at i:33818920 original size:21 final size:22
Alignment explanation
Indices: 33818894--33818938 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
33818884 CAATTACAAT
33818894 CATTT-AAAAAAGTTTTTAAAA
1 CATTTAAAAAAAGTTTTTAAAA
*
33818915 CATTTAAAAAAAGTTTTTTAAA
1 CATTTAAAAAAAGTTTTTAAAA
33818937 CA
1 CA
33818939 ATTTTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (22 bp):
CATTTAAAAAAAGTTTTTAAAA
Found at i:33819362 original size:83 final size:84
Alignment explanation
Indices: 33819266--33819439 Score: 235
Period size: 90 Copynumber: 2.0 Consensus size: 84
33819256 CCGAAGCAAC
* * *
33819266 TACAATTTCATTTCAATATT-C-AATCATGCAAACAAAAATTGAGTTTTTAAAACTTCTAGTAAC
1 TACAATTTCATTTCAATATTACAAATCATGCAAA-AAAAATTGAGTCTTTAAAACGTCTAATAAC
33819329 ATTAATTGTTCAAATCCGGG
65 ATTAATTGTTCAAATCCGGG
33819349 TACAATTTCATTTCAATATTCAAAAGACAAATCATGCAAAAAAAATTGAGTCTTTAAAACGTCTA
1 TACAATTTCATTTCAATATT------ACAAATCATGCAAAAAAAATTGAGTCTTTAAAACGTCTA
*
33819414 ATAACATTAATTGTTCAAATCTGGG
60 ATAACATTAATTGTTCAAATCCGGG
33819439 T
1 T
33819440 TATAAATAGG
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
83 20 0.25
90 48 0.61
91 11 0.14
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (84 bp):
TACAATTTCATTTCAATATTACAAATCATGCAAAAAAAATTGAGTCTTTAAAACGTCTAATAACA
TTAATTGTTCAAATCCGGG
Found at i:33824398 original size:2 final size:2
Alignment explanation
Indices: 33824391--33824421 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33824381 GATAACCAAC
33824391 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33824422 CTCACTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33824609 original size:41 final size:41
Alignment explanation
Indices: 33824551--33824660 Score: 184
Period size: 41 Copynumber: 2.7 Consensus size: 41
33824541 TTAATTTAAA
*
33824551 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
33824593 CAGATCACCCGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
33824634 CAGTTCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
33824661 TTTTAAAACC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 60 0.94
42 4 0.06
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:33838931 original size:78 final size:77
Alignment explanation
Indices: 33838792--33839156 Score: 260
Period size: 78 Copynumber: 4.7 Consensus size: 77
33838782 GCATGGTTTG
** *** * * * *
33838792 CTGATTTACGATCACGACCTTCGACTTT-TATATAATATGCTAATTTATGATCATGATCTTTGAC
1 CTGATTTACGATCACGACCTTCGACTTTCT-TATGGTCCACTGATTTACGATCACGACCTTTGAC
*
33838856 TTTTTTACGATCCG
65 TTTTTTAC-ATCCA
* * * *
33838870 CTAATTTACGATCACGACCTTC-AGTTTTCTTATGGTCCGCTTATTTACGATCACGACCTTTGA-
1 CTGATTTACGATCACGACCTTCGA-CTTTCTTATGGTCCACTGATTTACGATCACGACCTTTGAC
33838933 TTTTCTTACAGTCCA
65 TTTT-TTACA-TCCA
** * * ** * * *
33838948 CTGATTTATTATCAC-AGCCTTCAACTTTCTTATAGTCTGCTAATTTACGATCACAACCTTCGAC
1 CTGATTTACGATCACGA-CCTTCGACTTTCTTATGGTCCACTGATTTACGATCACGACCTTTGAC
**
33839012 TTATGGT--A--CA
65 TT-TTTTACATCCA
* * * *
33839022 CTTATTTAAGATCATGACCTTCGACTTTCTTATGGTCCACTGATTTACGATCACGACCTCTGACT
1 CTGATTTACGATCACGACCTTCGACTTTCTTATGGTCCACTGATTTACGATCACGACCTTTGACT
* * *
33839087 TTCTTACGGTTCA
66 TTTTTAC-ATCCA
* * * * * *
33839100 TTGATTTACGATCATGACTTTCGCCTTTCTTATGGTTCACTGATTTATGATCACGAC
1 CTGATTTACGATCACGACCTTCGACTTTCTTATGGTCCACTGATTTACGATCACGAC
33839157 TTTCTACTTA
Statistics
Matches: 229, Mismatches: 44, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
73 2 0.01
74 54 0.24
75 1 0.00
77 8 0.03
78 158 0.69
79 5 0.02
80 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (77 bp):
CTGATTTACGATCACGACCTTCGACTTTCTTATGGTCCACTGATTTACGATCACGACCTTTGACT
TTTTTACATCCA
Found at i:33839092 original size:113 final size:115
Alignment explanation
Indices: 33838869--33839075 Score: 274
Period size: 113 Copynumber: 1.8 Consensus size: 115
33838859 TTTACGATCC
* * * * * * *
33838869 GCTAATTTACGATCACGACCTTCAGTTTTCTTATGGTCCGCTTATTTACGATCACGACCTTTGAT
1 GCTAATTTACGATCACAACCTTCAG--TACTTATGGTACACTTATTTAAGATCACGACCTTCGAC
**
33838934 TTTCTTACAGTCCACTGATTTATTATCACAGCCTTCAACTTTCTTATAGTCT
64 TTTCTTACAGTCCACTGATTTACGATCACAGCCTTCAACTTTCTTATAGTCT
*
33838986 GCTAATTTACGATCACAACCTTC-G-ACTTATGGTACACTTATTTAAGATCATGACCTTCGACTT
1 GCTAATTTACGATCACAACCTTCAGTACTTATGGTACACTTATTTAAGATCACGACCTTCGACTT
**
33839049 TCTTATGGTCCACTGATTTACGATCAC
66 TCTTACAGTCCACTGATTTACGATCAC
33839076 GACCTCTGAC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
113 55 0.71
116 1 0.01
117 22 0.28
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (115 bp):
GCTAATTTACGATCACAACCTTCAGTACTTATGGTACACTTATTTAAGATCACGACCTTCGACTT
TCTTACAGTCCACTGATTTACGATCACAGCCTTCAACTTTCTTATAGTCT
Found at i:33839158 original size:39 final size:39
Alignment explanation
Indices: 33838873--33839165 Score: 199
Period size: 39 Copynumber: 7.6 Consensus size: 39
33838863 CGATCCGCTA
* * * * *
33838873 ATTTACGATCACGACCTTC-AGTTTTCTTATGGTCCGCTT
1 ATTTACGATCACGACTTTCGA-CTTTCTTATGGTTCACTG
* ** *
33838912 ATTTACGATCACGACCTTT-GATTTTCTTACAGTCCACTG
1 ATTTACGATCACGA-CTTTCGACTTTCTTATGGTTCACTG
** * * * * *
33838951 ATTTATTATCAC-AGCCTTCAACTTTCTTATAG-TCTGCTA
1 ATTTACGATCACGA-CTTTCGACTTTCTTATGGTTC-ACTG
* * * *
33838990 ATTTACGATCACAACCTTCGA----CTTATGGTACACTT
1 ATTTACGATCACGACTTTCGACTTTCTTATGGTTCACTG
* * * *
33839025 ATTTAAGATCATGACCTTCGACTTTCTTATGGTCCACTG
1 ATTTACGATCACGACTTTCGACTTTCTTATGGTTCACTG
* * *
33839064 ATTTACGATCACGAC-CTCTGACTTTCTTACGGTTCATTG
1 ATTTACGATCACGACTTTC-GACTTTCTTATGGTTCACTG
* *
33839103 ATTTACGATCATGACTTTCGCCTTTCTTATGGTTCACTG
1 ATTTACGATCACGACTTTCGACTTTCTTATGGTTCACTG
* *
33839142 ATTTATGATCACGACTTTCTACTT
1 ATTTACGATCACGACTTTCGACTT
33839166 ACAAGATTTT
Statistics
Matches: 200, Mismatches: 42, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
35 26 0.13
36 1 0.00
38 7 0.04
39 159 0.80
40 7 0.04
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (39 bp):
ATTTACGATCACGACTTTCGACTTTCTTATGGTTCACTG
Found at i:33839349 original size:54 final size:54
Alignment explanation
Indices: 33839139--33839375 Score: 264
Period size: 54 Copynumber: 4.4 Consensus size: 54
33839129 TTATGGTTCA
* * *
33839139 CTGATTTATGATCACGA-CTTTCTACTTACAAGATTTTACGAATCTCGCT-ATCCG
1 CTGATTTACGATCACGACCTTT-TACTTACAAGATTTTACGAATCTCG-TGGTCTG
* * **
33839193 CTGATTTACGATCACGGCCTTTTACTTACAAGATTTTACGAGTCTCGCAGT-TCG
1 CTGATTTACGATCACGACCTTTTACTTACAAGATTTTACGAATCTCGTGGTCT-G
**
33839247 CTGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGTGGTCTG
1 CTGATTTACGATCACGACCTTTTACTTACAAGATTTTACGAATCTCGTGGTCTG
* * ** * * *
33839301 CTGATTTACAATCACGACTTTTTACTTACGGGATTTTATGAATTTCGTGGTTTG
1 CTGATTTACGATCACGACCTTTTACTTACAAGATTTTACGAATCTCGTGGTCTG
* *
33839355 CTGATTTATGACCACGACCTT
1 CTGATTTACGATCACGACCTT
33839376 CGGCTTTCTT
Statistics
Matches: 158, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
54 153 0.97
55 5 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (54 bp):
CTGATTTACGATCACGACCTTTTACTTACAAGATTTTACGAATCTCGTGGTCTG
Found at i:33839358 original size:108 final size:109
Alignment explanation
Indices: 33839134--33839375 Score: 292
Period size: 108 Copynumber: 2.2 Consensus size: 109
33839124 CTTTCTTATG
*
33839134 GTTCACTGATTTATGATCACGA-CTTTCTACTTACAAGATTTTACGAATCTCGCTATCCGCTGAT
1 GTTCGCTGATTTATGATCACGACCTTTCTACTTACAAGATTTTACGAATCTCGCTATCCGCTGAT
* * *
33839198 TTACGATCACGGCCTTTTACTTACAAGATTTTACGAGTCTCGCA
66 TTACAATCACGACCTTTTACTTACAAGATTTTACGAATCTCGCA
* ** * *
33839242 GTTCGCTGATTTACGATCACGACCTTT-TACTTACGGGATTTTACGAATCTCG-TGGTCTGCTGA
1 GTTCGCTGATTTATGATCACGACCTTTCTACTTACAAGATTTTACGAATCTCGCT-ATCCGCTGA
* ** * * **
33839305 TTTACAATCACGACTTTTTACTTACGGGATTTTATGAATTTCGTG
65 TTTACAATCACGACCTTTTACTTACAAGATTTTACGAATCTCGCA
* *
33839350 GTTTGCTGATTTATGACCACGACCTT
1 GTTCGCTGATTTATGATCACGACCTT
33839376 CGGCTTTCTT
Statistics
Matches: 113, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
107 1 0.01
108 108 0.96
109 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (109 bp):
GTTCGCTGATTTATGATCACGACCTTTCTACTTACAAGATTTTACGAATCTCGCTATCCGCTGAT
TTACAATCACGACCTTTTACTTACAAGATTTTACGAATCTCGCA
Found at i:33839420 original size:39 final size:39
Alignment explanation
Indices: 33839356--33839570 Score: 171
Period size: 39 Copynumber: 5.5 Consensus size: 39
33839346 CGTGGTTTGC
* * * *
33839356 TGATTTATGACCACGACCTTCGGCTTTCTTATGACCCGT
1 TGATTTACGATCACAACCTTCGGCTTTCTTATGATCCGT
* * * **
33839395 TGATTTACGATCACAAACTTTGGCTTTCTTATGGTCTAT
1 TGATTTACGATCACAACCTTCGGCTTTCTTATGATCCGT
* ** * * *
33839434 TGATTTACGGTCACAGTCATCGGCTTTCTTATGGTCTGT
1 TGATTTACGATCACAACCTTCGGCTTTCTTATGATCCGT
* * * *
33839473 TGGTTTACGATCACGACCTTTGGCTTTCTTAT-AGTCCGC
1 TGATTTACGATCACAACCTTCGGCTTTCTTATGA-TCCGT
* * * * ** *
33839512 TGATTTACAATCACGACCTTCGACTTTCTTATGGTTTGC
1 TGATTTACGATCACAACCTTCGGCTTTCTTATGATCCGT
*
33839551 TGATTTATGATCACAACCTT
1 TGATTTACGATCACAACCTT
33839571 TTACTTACAA
Statistics
Matches: 139, Mismatches: 35, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
39 139 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.40
Consensus pattern (39 bp):
TGATTTACGATCACAACCTTCGGCTTTCTTATGATCCGT
Found at i:33839539 original size:78 final size:78
Alignment explanation
Indices: 33839367--33839571 Score: 232
Period size: 78 Copynumber: 2.6 Consensus size: 78
33839357 GATTTATGAC
** * * * *
33839367 CACGACCTTCGGCTTTCTTATGACCCGTTGATTTACGATCACAAACTTTGGCTTTCTTATGGTCT
1 CACGACCTTCGGCTTTCTTATGGTCTGTTGATTTACGATCACAACCTTTGGCTTTCTTATAGTCC
* **
33839432 ATTGATTTACGGT
66 ACTGATTTACAAT
* * * *
33839445 CAC-AGTCATCGGCTTTCTTATGGTCTGTTGGTTTACGATCACGACCTTTGGCTTTCTTATAGTC
1 CACGA-CCTTCGGCTTTCTTATGGTCTGTTGATTTACGATCACAACCTTTGGCTTTCTTATAGTC
*
33839509 CGCTGATTTACAAT
65 CACTGATTTACAAT
* * * *
33839523 CACGACCTTCGACTTTCTTATGGTTTGCTGATTTATGATCACAACCTTT
1 CACGACCTTCGGCTTTCTTATGGTCTGTTGATTTACGATCACAACCTTT
33839572 TACTTACAAG
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
77 1 0.01
78 101 0.98
79 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (78 bp):
CACGACCTTCGGCTTTCTTATGGTCTGTTGATTTACGATCACAACCTTTGGCTTTCTTATAGTCC
ACTGATTTACAAT
Found at i:33839743 original size:53 final size:54
Alignment explanation
Indices: 33839549--33839787 Score: 266
Period size: 54 Copynumber: 4.4 Consensus size: 54
33839539 CTTATGGTTT
* *
33839549 GCTGATTTATGATCACAACCTTTTACTTACAAGATTTTATGAATCTCACAGTCC
1 GCTGATTTATGATCACAACCTTTTACTTACGAGATTTTACGAATCTCACAGTCC
* * ** **
33839603 GCTAATTTATGATCACAACCTTTTACTTATGAGATTTTACGAATCTC-TTGATAT
1 GCTGATTTATGATCACAACCTTTTACTTACGAGATTTTACGAATCTCACAG-TCC
* * ** * **
33839657 GTTGATTTATGATCACGATATTTTACTTACGGGATTTTACGAATCTTGCAGTCC
1 GCTGATTTATGATCACAACCTTTTACTTACGAGATTTTACGAATCTCACAGTCC
* ** * *
33839711 ACTGA-TTACAATCACAACCTTTTACTTACGGGATTTTGCGAATCTCACAGTCC
1 GCTGATTTATGATCACAACCTTTTACTTACGAGATTTTACGAATCTCACAGTCC
*
33839764 GCTGATTTATGATCACGACCTTTT
1 GCTGATTTATGATCACAACCTTTT
33839788 GAAGTCTTAT
Statistics
Matches: 148, Mismatches: 34, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
53 45 0.30
54 102 0.69
55 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (54 bp):
GCTGATTTATGATCACAACCTTTTACTTACGAGATTTTACGAATCTCACAGTCC
Found at i:33839776 original size:107 final size:108
Alignment explanation
Indices: 33839549--33839787 Score: 266
Period size: 107 Copynumber: 2.2 Consensus size: 108
33839539 CTTATGGTTT
* * * * **
33839549 GCTGATTTATGATCACAACCTTTTACTTACAAGATTTTATGAATCTCACAGTCCGCTAATTTATG
1 GCTGATTTATGATCACGACATTTTACTTACAAGATTTTACGAATCTCACAGTCCACTAATTTACA
* ** *
33839614 ATCACAACCTTTTACTTATGAGATTTTACGAATCTCTTGATAT
66 ATCACAACCTTTTACTTACGAGATTTTACGAATCTCCAGATAC
* * ** ** *
33839657 GTTGATTTATGATCACGATATTTTACTTACGGGATTTTACGAATCTTGCAGTCCACTGA-TTACA
1 GCTGATTTATGATCACGACATTTTACTTACAAGATTTTACGAATCTCACAGTCCACTAATTTACA
* * *
33839721 ATCACAACCTTTTACTTACGGGATTTTGCGAATCTCACAG-TCC
66 ATCACAACCTTTTACTTACGAGATTTTACGAATCTC-CAGATAC
*
33839764 GCTGATTTATGATCACGACCTTTT
1 GCTGATTTATGATCACGACATTTT
33839788 GAAGTCTTAT
Statistics
Matches: 107, Mismatches: 23, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
107 58 0.54
108 49 0.46
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (108 bp):
GCTGATTTATGATCACGACATTTTACTTACAAGATTTTACGAATCTCACAGTCCACTAATTTACA
ATCACAACCTTTTACTTACGAGATTTTACGAATCTCCAGATAC
Found at i:33843132 original size:44 final size:43
Alignment explanation
Indices: 33843021--33843139 Score: 116
Period size: 43 Copynumber: 2.7 Consensus size: 43
33843011 AAGACCTGCT
* *
33843021 ATCTTCAACCTGCTCCACTGCTGCTAACGGAGATAAGGCTGAG
1 ATCTTCAACCTGCTCCACAGCTGCTAAGGGAGATAAGGCTGAG
* * * *
33843064 GTCTTCAATCTGCTCCACTA-CTGCTTAGGGAGATAAGATCTGTA-
1 ATCTTCAACCTGCTCCAC-AGCTGCTAAGGGAGATAAG-GCTG-AG
* * *
33843108 ATTTTCAACCTACTCCACAGCTGCTCAGGGAG
1 ATCTTCAACCTGCTCCACAGCTGCTAAGGGAG
33843140 CTAGGACTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
43 32 0.52
44 28 0.46
45 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (43 bp):
ATCTTCAACCTGCTCCACAGCTGCTAAGGGAGATAAGGCTGAG
Found at i:33843497 original size:44 final size:44
Alignment explanation
Indices: 33843115--33843497 Score: 507
Period size: 44 Copynumber: 8.7 Consensus size: 44
33843105 GTAATTTTCA
* * * * * * *
33843115 ACCTACTCCACAGCTGCTCAGGGAGCTAGGACTTACAATATTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGGCTTACAGTCTTCC
*
33843159 ACCTATTCCACTGCTGGTCAGAGG-GCTAGGACTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAG-GGAGCTAGGGCTTACAGTCTTCC
* ** *
33843203 ACCTATTCCACTGCTGGTTAGGGAGCTAGGATTTACAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGGCTTACAGTCTTCC
* * * * *
33843247 ACCTATTCTACTACTGTTCAGGGAGCTAGGACTTACAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGGCTTACAGTCTTCC
* * *
33843291 ACCTATTCCACTGCTGGTTAGGGAACTAGGGCTTACAGTCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGGCTTACAGTCTTCC
*
33843335 ACCTATTCCACTGCTGGTCAGGGAGCTAGGGCTTGCAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGGCTTACAGTCTTCC
* * *
33843379 ACCTATTCCACTGCTGGTCAAGGAACTAGGGCTTGCAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGGCTTACAGTCTTCC
* *
33843423 ACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTGCAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGGCTTACAGTCTTCC
*
33843467 ACCTATTCCACTGCTGGTCAGGGAACTAGGG
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGG
33843498 TTTATGATTT
Statistics
Matches: 308, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
43 2 0.01
44 304 0.99
45 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.28
Consensus pattern (44 bp):
ACCTATTCCACTGCTGGTCAGGGAGCTAGGGCTTACAGTCTTCC
Found at i:33855202 original size:24 final size:25
Alignment explanation
Indices: 33855148--33855202 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
33855138 AACATTAGAT
*
33855148 TTAAAACTAAAATATATTAAAGAAA
1 TTAAAACCAAAATATATTAAAGAAA
** **
33855173 ACAAAACCAAAATAT-TTAAATTAA
1 TTAAAACCAAAATATATTAAAGAAA
33855197 TTAAAA
1 TTAAAA
33855203 TGAACAAATT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (25 bp):
TTAAAACCAAAATATATTAAAGAAA
Found at i:33855289 original size:22 final size:22
Alignment explanation
Indices: 33855249--33855296 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
33855239 GCTTAATCGG
*
33855249 AAAAGAAAATAAATAAAAA-GA
1 AAAAGAAAAAAAATAAAAAGGA
*
33855270 AAAAGAAAACAAAATTAAAAGGA
1 AAAAGAAAA-AAAATAAAAAGGA
33855293 AAAA
1 AAAA
33855297 TGAAGCTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 9 0.39
22 8 0.35
23 6 0.26
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.08
Consensus pattern (22 bp):
AAAAGAAAAAAAATAAAAAGGA
Found at i:33856642 original size:71 final size:71
Alignment explanation
Indices: 33856521--33856671 Score: 203
Period size: 71 Copynumber: 2.1 Consensus size: 71
33856511 TGGGTATTAC
* ** * *
33856521 AATATAGTTCGCAGTATTTCTGTAAATACAGTTCGTAGTAATTCCACAATATATTTTGTGGCATT
1 AATATAGTTCGCAATATTTCTGTAAATACAGTTCACAGTAATTCCACAATACATTTTGCGGCATT
33856586 TCTATA
66 TCTATA
* * * * *
33856592 AATACAGTTCTCAATATTTTTGTAAATGCAGTTCACAGTAATTCTACAATACATTTTGCGGCATT
1 AATATAGTTCGCAATATTTCTGTAAATACAGTTCACAGTAATTCCACAATACATTTTGCGGCATT
*
33856657 TCTGTA
66 TCTATA
33856663 AATATAGTT
1 AATATAGTT
33856672 TGCGGTATTT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (71 bp):
AATATAGTTCGCAATATTTCTGTAAATACAGTTCACAGTAATTCCACAATACATTTTGCGGCATT
TCTATA
Found at i:33857763 original size:32 final size:32
Alignment explanation
Indices: 33857705--33857766 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
33857695 AAATTAAATT
* **
33857705 TTGAGTTAATCGAATTGAGTTGTTCGAGTTAG
1 TTGAGTTAATCGAATTAAGTAATTCGAGTTAG
33857737 TTGAGTTAACTCGAA-TAAGTAATTCGAGTT
1 TTGAGTTAA-TCGAATTAAGTAATTCGAGTT
33857767 TCGAGTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 21 0.81
33 5 0.19
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (32 bp):
TTGAGTTAATCGAATTAAGTAATTCGAGTTAG
Found at i:33857950 original size:16 final size:17
Alignment explanation
Indices: 33857929--33857960 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
33857919 ATTTATTTTA
33857929 AAAAATATA-AAAAATT
1 AAAAATATATAAAAATT
33857945 AAAAATATATAAAAAT
1 AAAAATATATAAAAAT
33857961 ATATATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAATATATAAAAATT
Found at i:33857954 original size:18 final size:17
Alignment explanation
Indices: 33857926--33857959 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
33857916 AAAATTTATT
33857926 TTAAAAAATATAAAAAA
1 TTAAAAAATATAAAAAA
33857943 TTAAAAATATATAAAAA
1 TTAAAAA-ATATAAAAA
33857960 TATATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TTAAAAAATATAAAAAA
Found at i:33865695 original size:21 final size:21
Alignment explanation
Indices: 33865669--33865711 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
33865659 TTTGGGAGGA
*
33865669 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
*
33865690 TCAGCTCTCACGAGCTTTTGT
1 TCAGCTCTCACGAGCTTCTGT
33865711 T
1 T
33865712 GGCGTATTCG
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:0.14, C:0.28, G:0.19, T:0.40
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:33873037 original size:20 final size:20
Alignment explanation
Indices: 33872990--33873046 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 20
33872980 GGGTGGATCA
33872990 ACTCTCACGAGCTTCTGTTC
1 ACTCTCACGAGCTTCTGTTC
*
33873010 AGCTCTCACGAGCTTTTGTTC
1 A-CTCTCACGAGCTTCTGTTC
*
33873031 ACTCTCATGAGCTTCT
1 ACTCTCACGAGCTTCT
33873047 ATTGGTGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.37
Consensus pattern (20 bp):
ACTCTCACGAGCTTCTGTTC
Found at i:33876240 original size:37 final size:38
Alignment explanation
Indices: 33876174--33876245 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
33876164 TGTTTAATAT
* * *
33876174 GCTCTATCGAGCCAAATCTTATTGTTATACTGAATGAA
1 GCTCAATCGAGCCAAATCATATCGTTATACTGAATGAA
*
33876212 GCTCAATCGAG-CAAGTCATATCGTTATACTGAAT
1 GCTCAATCGAGCCAAATCATATCGTTATACTGAAT
33876246 TGAGCTTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 20 0.67
38 10 0.33
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (38 bp):
GCTCAATCGAGCCAAATCATATCGTTATACTGAATGAA
Found at i:33876271 original size:37 final size:36
Alignment explanation
Indices: 33876174--33876278 Score: 97
Period size: 37 Copynumber: 2.8 Consensus size: 36
33876164 TGTTTAATAT
* *
33876174 GCTCTATCGAGCCAAATCTTATTGTTATACTGAATGAA
1 GCTCAATCGAG-C-AATCTTATCGTTATACTGAATGAA
*
33876212 GCTCAATCGAGCAAGTCATATCGTTATACTGAATTG-A
1 GCTCAATCGAGCAA-TCTTATCGTTATACTGAA-TGAA
* *
33876249 GCTTAA-CTGAGCTAATCTTATCGATATACT
1 GCTCAATC-GAGC-AATCTTATCGTTATACT
33876279 AACCGATGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
36 3 0.05
37 40 0.70
38 14 0.25
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (36 bp):
GCTCAATCGAGCAATCTTATCGTTATACTGAATGAA
Found at i:33888046 original size:39 final size:39
Alignment explanation
Indices: 33888000--33888077 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
33887990 ATTTTTTTTA
33888000 CTTAATTTATGCTTTATTTTATTTATTAATTTTTATCAC
1 CTTAATTTATGCTTTATTTTATTTATTAATTTTTATCAC
* *
33888039 CTTAATTTCTGCTTTATTTTATTTATTACTTTTTATCAC
1 CTTAATTTATGCTTTATTTTATTTATTAATTTTTATCAC
33888078 ATTTTCCTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.62
Consensus pattern (39 bp):
CTTAATTTATGCTTTATTTTATTTATTAATTTTTATCAC
Found at i:33921379 original size:30 final size:31
Alignment explanation
Indices: 33921335--33921392 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
33921325 ACAAGAAAGT
33921335 GATTTTAAACTTTAA-AAAT-TATTTAAACAC
1 GATTTTAAACTTTAATAAATGT-TTTAAACAC
**
33921365 GATTTTAATTTTTAATAAATGTTTTAAA
1 GATTTTAAACTTTAATAAATGTTTTAAA
33921393 TACGTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.54
31 10 0.42
32 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (31 bp):
GATTTTAAACTTTAATAAATGTTTTAAACAC
Found at i:33923961 original size:24 final size:26
Alignment explanation
Indices: 33923924--33923983 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
33923914 AACAATTATC
* *
33923924 GTATTAATGTTATTTA-AAT-TGAAT
1 GTATTGATATTATTTATAATGTGAAT
33923948 GTTATT-ATATTATTTATAATGTGAAT
1 G-TATTGATATTATTTATAATGTGAAT
33923974 GTATTGATAT
1 GTATTGATAT
33923984 ATAAATATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 10 0.32
25 11 0.35
26 10 0.32
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (26 bp):
GTATTGATATTATTTATAATGTGAAT
Found at i:33927194 original size:25 final size:24
Alignment explanation
Indices: 33927146--33927273 Score: 116
Period size: 25 Copynumber: 5.2 Consensus size: 24
33927136 TCATTAGGGA
* *
33927146 TTACTGATTTTAGCTCGTGAGAGC
1 TTACCGATTTCAGCTCGTGAGAGC
33927170 TTACCGATTCTCAGCTCGT-ATGAGC
1 TTACCGATT-TCAGCTCGTGA-GAGC
* *
33927195 TTATCGATTTTAGCTCGTGAGAGC
1 TTACCGATTTCAGCTCGTGAGAGC
* * *
33927219 TTATCGATTCTCAGTTCAT-ATGAGC
1 TTACCGATT-TCAGCTCGTGA-GAGC
*
33927244 TTACCGATTTACAGCTCGTGAAAGC
1 TTACCGATTT-CAGCTCGTGAGAGC
*
33927269 ATACC
1 TTACC
33927274 AATTCATAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
24 32 0.38
25 52 0.61
26 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (24 bp):
TTACCGATTTCAGCTCGTGAGAGC
Found at i:33927227 original size:49 final size:49
Alignment explanation
Indices: 33927146--33927293 Score: 190
Period size: 49 Copynumber: 3.0 Consensus size: 49
33927136 TCATTAGGGA
* *
33927146 TTACTGATTTTAGCTCGTGAGAGCTTACCGATTCTCAGCTCGTATGAGC
1 TTACCGATTTTAGCTCGTGAGAGCTTACCGATTCTCAGCTCATATGAGC
* * *
33927195 TTATCGATTTTAGCTCGTGAGAGCTTATCGATTCTCAGTTCATATGAGC
1 TTACCGATTTTAGCTCGTGAGAGCTTACCGATTCTCAGCTCATATGAGC
* * * *
33927244 TTACCGATTTACAGCTCGTGAAAGCATACCAATTCAT-AGCTCATATGAGC
1 TTACCGATTT-TAGCTCGTGAGAGCTTACCGATTC-TCAGCTCATATGAGC
33927294 ATACATGTAC
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 53 0.62
50 31 0.36
51 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (49 bp):
TTACCGATTTTAGCTCGTGAGAGCTTACCGATTCTCAGCTCATATGAGC
Found at i:33931842 original size:43 final size:43
Alignment explanation
Indices: 33931781--33931883 Score: 161
Period size: 43 Copynumber: 2.4 Consensus size: 43
33931771 GCGTCGTATA
33931781 TAATTACATGTAAGACCCTGTCTAGGATAGTGGCATCATTATC
1 TAATTACATGTAAGACCCTGTCTAGGATAGTGGCATCATTATC
* * * *
33931824 TAATTACGTTTAAGACCCTGTCTAGGATAGTGGCATCGTTATT
1 TAATTACATGTAAGACCCTGTCTAGGATAGTGGCATCATTATC
*
33931867 TGATTACATGTAAGACC
1 TAATTACATGTAAGACC
33931884 ACGTTTGGGA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (43 bp):
TAATTACATGTAAGACCCTGTCTAGGATAGTGGCATCATTATC
Found at i:33931901 original size:43 final size:42
Alignment explanation
Indices: 33931703--33931902 Score: 120
Period size: 43 Copynumber: 4.7 Consensus size: 42
33931693 TGTGATTTTG
* **
33931703 TGTAAGACCACGAT-TGGGACGTTGGCATCG-ATTTCAGATTTATG
1 TGTAAGACCACG-TCTGGGACATTGGCATCGTATTT-A-A-TTACA
* * * * *
33931747 TGTAAGACAAAGTCTGAGACATTGGCGTCGTATATAATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTAATTACA
* * * * * *
33931789 TGTAAGACC-CTGTCTAGGATAGTGGCATCATTATCTAATTACG
1 TGTAAGACCAC-GTCTGGGACATTGGCATC-GTATTTAATTACA
* * * * *
33931832 TTTAAGACC-CTGTCTAGGATAGTGGCATCGTTATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTAATTACA
*
33931875 TGTAAGACCACGTTTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
33931903 TGTACGAACT
Statistics
Matches: 122, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
42 24 0.20
43 70 0.57
44 25 0.20
45 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATTTAATTACA
Found at i:33939383 original size:42 final size:42
Alignment explanation
Indices: 33939280--33939481 Score: 183
Period size: 43 Copynumber: 4.7 Consensus size: 42
33939270 ATTGTGACTT
* **
33939280 CGTGTAAGACCACGTCTGGGATGTTGGCAT--TAATTTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGT-ATTT-A-A-TTA
* * *
33939324 CGTGTAAGACCAGGTCTGGGACATTGGCGTCGTATATAATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTAATTA
* *
33939366 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGTTATTTAATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTAATTA
* * * * * *
33939409 CGTGTAAAACCCTGTCTGGGACAATGGCTTCATTATTTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATC-GTATTTAATTA
* * *
33939452 CATGTAAGACCAAGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
33939482 TGTACGAAAT
Statistics
Matches: 132, Mismatches: 22, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
42 31 0.23
43 70 0.53
44 27 0.20
45 3 0.02
46 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTAATTA
Found at i:33939452 original size:86 final size:85
Alignment explanation
Indices: 33939282--33939481 Score: 208
Period size: 86 Copynumber: 2.3 Consensus size: 85
33939272 TGTGACTTCG
* * * *
33939282 TGTAAGACCACGTCTGGGATGTTGGCAT--TAATTTGAGATTTACGTGTAAGACCAGGTCTGGGA
1 TGTAAGACCAAGTCTGGGACGTTGGCATCGTTATTT-A-A-TTACGTGTAAAACCAGGTCTGGGA
* *
33939345 CATTGGCGTCGTATATAATTACG
63 CAATGGCGTCGTATATAATTACA
** **
33939368 TGTAAGACCCTGTCTGGGACAG-TGGCATCGTTATTTAATTACGTGTAAAACCCTGTCTGGGACA
1 TGTAAGACCAAGTCTGGGAC-GTTGGCATCGTTATTTAATTACGTGTAAAACCAGGTCTGGGACA
* * * *
33939432 ATGGCTTCATTATTTGATTACA
65 ATGGCGTC-GTATATAATTACA
33939454 TGTAAGACCAAGTCTGGGACGTTGGCAT
1 TGTAAGACCAAGTCTGGGACGTTGGCAT
33939482 TGTACGAAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
85 30 0.32
86 57 0.61
87 2 0.02
88 5 0.05
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (85 bp):
TGTAAGACCAAGTCTGGGACGTTGGCATCGTTATTTAATTACGTGTAAAACCAGGTCTGGGACAA
TGGCGTCGTATATAATTACA
Found at i:33943810 original size:60 final size:61
Alignment explanation
Indices: 33943726--33943920 Score: 248
Period size: 60 Copynumber: 3.0 Consensus size: 61
33943716 CATTCTTGAG
*
33943726 TAATAGAAATTACTTAGCATTTACTCTGGCTTCTCTTGTC-TTTTTACTGTTCTTGCATTT
1 TAATAGAAATTACTTAGCATTTACTCTGGCTTCTCTTGTCTTTTTTACTATTCTTGCATTT
*
33943786 TAATAGAAATTACTTAGCAATTACTCTGGCTTCTCTTGTCTTTTTTTACTATTCTTGCATTTTAA
1 TAATAGAAATTACTTAGCATTTACTCTGGCTTCTCTTGTC-TTTTTTACTATTCTTGC------A
33943851 TTCTT
59 -T-TT
*
33943856 GAGTAATAGAAATTACTTAGCATTTACTCTGGCTTCTCTTGTCTTTTTTACTTTTCTTGCATTT
1 ---TAATAGAAATTACTTAGCATTTACTCTGGCTTCTCTTGTCTTTTTTACTATTCTTGCATTT
33943920 T
1 T
33943921 TATCTTTGTA
Statistics
Matches: 118, Mismatches: 4, Indels: 25
0.80 0.03 0.17
Matches are distributed among these distances:
60 39 0.33
61 1 0.01
62 15 0.13
64 2 0.02
65 1 0.01
66 1 0.01
68 1 0.01
69 1 0.01
70 2 0.02
72 16 0.14
73 39 0.33
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (61 bp):
TAATAGAAATTACTTAGCATTTACTCTGGCTTCTCTTGTCTTTTTTACTATTCTTGCATTT
Found at i:33943922 original size:73 final size:73
Alignment explanation
Indices: 33943786--33943920 Score: 245
Period size: 73 Copynumber: 1.9 Consensus size: 73
33943776 TCTTGCATTT
33943786 TAATAGAAATTACTTAGCAATTACTCTGGCTTCTCTTGTCTTTTTTTACTATTCTTGCATTTTAA
1 TAATAGAAATTACTTAGCAATTACTCTGGCTTCTCTTGTCTTTTTTTACTATTCTTGCATTTTAA
33943851 TTCTTGAG
66 TTCTTGAG
* *
33943859 TAATAGAAATTACTTAGCATTTACTCTGGCTTCTCTTGTC-TTTTTTACTTTTCTTGCATTTT
1 TAATAGAAATTACTTAGCAATTACTCTGGCTTCTCTTGTCTTTTTTTACTATTCTTGCATTTT
33943921 TATCTTTGTA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
72 21 0.35
73 39 0.65
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.51
Consensus pattern (73 bp):
TAATAGAAATTACTTAGCAATTACTCTGGCTTCTCTTGTCTTTTTTTACTATTCTTGCATTTTAA
TTCTTGAG
Found at i:33956479 original size:20 final size:20
Alignment explanation
Indices: 33956454--33956498 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33956444 GTCCAAATCC
33956454 AATTAATTAGGTCTTAGTTT
1 AATTAATTAGGTCTTAGTTT
** *
33956474 AATTAATTTTGTCTTATTTT
1 AATTAATTAGGTCTTAGTTT
33956494 AATTA
1 AATTA
33956499 TGTGAACTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.56
Consensus pattern (20 bp):
AATTAATTAGGTCTTAGTTT
Found at i:33973641 original size:9 final size:9
Alignment explanation
Indices: 33973617--33973662 Score: 74
Period size: 10 Copynumber: 4.9 Consensus size: 9
33973607 ATTTATTAGC
33973617 AAACACATT
1 AAACACATT
33973626 AAAACACATT
1 -AAACACATT
33973636 AAACACATT
1 AAACACATT
33973645 AAACACATTT
1 AAACACA-TT
33973655 AAACACAT
1 AAACACAT
33973663 ATGTTCAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
9 17 0.49
10 18 0.51
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
AAACACATT
Found at i:33973641 original size:19 final size:19
Alignment explanation
Indices: 33973617--33973662 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
33973607 ATTTATTAGC
33973617 AAACACATTAAAACACA-TT
1 AAACACATT-AAACACATTT
33973636 AAACACATTAAACACATTT
1 AAACACATTAAACACATTT
33973655 AAACACAT
1 AAACACAT
33973663 ATGTTCAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (19 bp):
AAACACATTAAACACATTT
Found at i:33973770 original size:19 final size:19
Alignment explanation
Indices: 33973746--33973838 Score: 86
Period size: 19 Copynumber: 5.1 Consensus size: 19
33973736 AATAAATTAC
*
33973746 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
33973765 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* * * *
33973784 T-A-CTGGAATAAATT-A-C
1 TCATCT-TAGTTAATTAAGT
33973800 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* *
33973819 TCTTCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
33973838 T
1 T
33973839 GCTGAAATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
16 1 0.02
17 10 0.17
18 10 0.17
19 37 0.64
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:33973796 original size:54 final size:54
Alignment explanation
Indices: 33973727--33973848 Score: 199
Period size: 54 Copynumber: 2.3 Consensus size: 54
33973717 ATAAGTATTT
*
33973727 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
* * *
33973781 AGTTACTGGAATAAATTACTCATCTTAGTTAATTAAGTTCTTCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
*
33973835 AGTTGCTGAAATAA
1 AGTTGCTGGAATAA
33973849 TTTATTGTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.43
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:33973964 original size:9 final size:9
Alignment explanation
Indices: 33973941--33973977 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
33973931 TAAGTCTAAT
33973941 ATGTGTTTAA
1 ATGTGTTT-A
33973951 ATGTGTTTA
1 ATGTGTTTA
33973960 ATGTGTTTTA
1 ATGTG-TTTA
33973970 ATGTGTTT
1 ATGTGTTT
33973978 GTTAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:33973965 original size:19 final size:19
Alignment explanation
Indices: 33973941--33973977 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33973931 TAAGTCTAAT
33973941 ATGTGTTTAAATGTGTTTA
1 ATGTGTTTAAATGTGTTTA
*
33973960 ATGTGTTTTAATGTGTTT
1 ATGTGTTTAAATGTGTTT
33973978 GTTAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (19 bp):
ATGTGTTTAAATGTGTTTA
Found at i:33974193 original size:24 final size:24
Alignment explanation
Indices: 33974166--33974237 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
33974156 GGGCTATTAA
33974166 ATCAATTAAAGGAAAGCATTATAC
1 ATCAATTAAAGGAAAGCATTATAC
33974190 ATC-ATTCAAAGG--AGC-TGT-TAC
1 ATCAATT-AAAGGAAAGCAT-TATAC
* * *
33974211 ATTATTTAAAGGAAAGTATTATAC
1 ATCAATTAAAGGAAAGCATTATAC
33974235 ATC
1 ATC
33974238 CTTTAAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
21 11 0.30
22 6 0.16
23 6 0.16
24 14 0.38
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (24 bp):
ATCAATTAAAGGAAAGCATTATAC
Found at i:33978920 original size:12 final size:13
Alignment explanation
Indices: 33978893--33978921 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
33978883 GTGAGGCTAC
33978893 TATAGCCAAGGTA
1 TATAGCCAAGGTA
33978906 TATAGCCAA-GTA
1 TATAGCCAAGGTA
33978918 TATA
1 TATA
33978922 ATGGAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (13 bp):
TATAGCCAAGGTA
Found at i:33984027 original size:24 final size:24
Alignment explanation
Indices: 33983999--33984045 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33983989 TATATATACC
33983999 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATACTAAA-TCAATA
33984023 AATTCATCACATACTAAATCAAT
1 AATTCATCACATACTAAATCAAT
33984046 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCATCACATACTAAATCAATA
Found at i:33984815 original size:13 final size:12
Alignment explanation
Indices: 33984791--33984821 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
33984781 GTTTTATTAT
33984791 TATATAATATAA
1 TATATAATATAA
33984803 TATATATATATAA
1 TATATA-ATATAA
33984816 TATATA
1 TATATA
33984822 CTTAAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATAATATAA
Found at i:33997428 original size:34 final size:34
Alignment explanation
Indices: 33997390--33997457 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
33997380 AATTAGTTTT
33997390 AGGTCAAATTATCTACAGTATTCTAGTTCGATTC
1 AGGTCAAATTATCTACAGTATTCTAGTTCGATTC
*
33997424 AGGTCAAATTATCTATAGTATTCTAGTTCGATTC
1 AGGTCAAATTATCTACAGTATTCTAGTTCGATTC
33997458 TAACTAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (34 bp):
AGGTCAAATTATCTACAGTATTCTAGTTCGATTC
Found at i:33999603 original size:76 final size:77
Alignment explanation
Indices: 33999514--33999656 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 77
33999504 CAATACAAAA
* *
33999514 ACTTATACATGTATATACATACATATTCGAAATTACATATACATACATA-ACATTCATACCTTTA
1 ACTTATACATGTATATACATACATATTCCAAATCACATATACATACATAGACATTCATACCTTTA
33999578 AATATATTCAAG
66 AATATATTCAAG
* * * * *
33999590 ACTTATTCATGTATATACATATATGTTCCAACTCACATATACATATATATGACATTCATACCTTT
1 ACTTATACATGTATATACATACATATTCCAAATCACATATACATACATA-GACATTCATACCTTT
33999655 AA
65 AA
33999657 CCAAGTCCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
76 42 0.72
78 16 0.28
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (77 bp):
ACTTATACATGTATATACATACATATTCCAAATCACATATACATACATAGACATTCATACCTTTA
AATATATTCAAG
Found at i:33999721 original size:2 final size:2
Alignment explanation
Indices: 33999709--33999757 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
33999699 GGACCTTATG
* *
33999709 TA TA CA TA TA TA TC T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33999750 TA TA TA TA
1 TA TA TA TA
33999758 CCTTTTATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:33999725 original size:19 final size:19
Alignment explanation
Indices: 33999703--33999757 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
33999693 ATATTCGGAC
*
33999703 CTTATGTATACATATATAT
1 CTTATATATACATATATAT
*
33999722 CTTATATATATATATATAT
1 CTTATATATACATATATAT
* *
33999741 -ATATATATATATATATA
1 CTTATATATACATATATA
33999758 CCTTTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (19 bp):
CTTATATATACATATATAT
Found at i:34002260 original size:33 final size:32
Alignment explanation
Indices: 34002188--34002264 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
34002178 TAGATACATG
* * **
34002188 TGTAATACCATAGCTGGGTTATGGCATTCTGA
1 TGTAAGACCATAGCTGGGTTATGGCATACAAA
34002220 TGATAAGACCATCA-CTGGGTTATGGCACTACAAA
1 TG-TAAGACCAT-AGCTGGGTTATGGCA-TACAAA
34002254 TGTAAGACCAT
1 TGTAAGACCAT
34002265 GGCAGGGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 2 0.05
33 30 0.79
34 6 0.16
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (32 bp):
TGTAAGACCATAGCTGGGTTATGGCATACAAA
Found at i:34002276 original size:105 final size:105
Alignment explanation
Indices: 34002083--34002312 Score: 258
Period size: 105 Copynumber: 2.2 Consensus size: 105
34002073 AATGTTTAAA
* * **
34002083 TGTAAGACCATAGCTGGGCTATGGCATTTTAATGAAAAGACCATAATTGAGTTATGGCACCTTGA
1 TGTAAGACCATAGCTGGGCTATGGCATTCTAATGAAAAGACCATAACTGAGTTATGGCACCTCAA
**
34002148 ATGTAAGACCATGGTTGGACCATGGTAGTATAGATACATG
66 ATGTAAGACCATGGCAGGACCATGGTAGTATAGATACATG
* * * * * *
34002188 TGTAATACCATAGCTGGGTTATGGCATTCTGATGATAAGACCATCACTGGGTTATGGCA-CTACA
1 TGTAAGACCATAGCTGGGCTATGGCATTCTAATGAAAAGACCATAACTGAGTTATGGCACCT-CA
* *
34002252 AATGTAAGACCATGGCAGGGCCATGGCA--AT-G---CATG
65 AATGTAAGACCATGGCAGGACCATGGTAGTATAGATACATG
* *
34002287 TGTAAGACCATAGTTGGACTATGGCA
1 TGTAAGACCATAGCTGGGCTATGGCA
34002313 CAAAAAAGAA
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
99 26 0.25
102 1 0.01
103 2 0.02
104 2 0.02
105 75 0.71
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (105 bp):
TGTAAGACCATAGCTGGGCTATGGCATTCTAATGAAAAGACCATAACTGAGTTATGGCACCTCAA
ATGTAAGACCATGGCAGGACCATGGTAGTATAGATACATG
Found at i:34007922 original size:126 final size:126
Alignment explanation
Indices: 34007764--34008288 Score: 705
Period size: 126 Copynumber: 4.2 Consensus size: 126
34007754 TAAGGCCAAG
*
34007764 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGCAC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTAC
* * *
34007829 TTCCTGCTTGACGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT
* * * * * *
34007890 TAGGAACTACTGTAGAAAAAAAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTACTGACGGTGA
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGT-A
** * *
34007955 -ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAATTGTCTTCTCAAAGTGATTTTTT
65 CATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT
*
34008016 CAGGAACT-CTGTAGAAAAAGAGTC-TCCACGTGGGAGCTTTTTTTTTAGTAATTTTGCTAACAG
1 CAGGAACTACTGTAGAAAAAGAG-CGTCCACGTGGGAGC--TTTTTTCAGTAATTTTGCTAACAG
* * * *
34008079 TGCATCCTGCTTGAAGCGTTTTTGACACTAGTTTTTCAGAACTGTCTTCTCAAAATTATTTTTT
63 TACATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT
* ** * * * *
34008143 CAGGAACTACTTTAGAAAAAGATTGTCCACATGGGAGCTTTTTTCAATAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTAC
* * * *
34008208 ATCCTGCTTGAAGTGTTTTTGACATTATCTTTTCAAAACCGTCTTCTCAAAATTAATTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT
* *
34008269 CTGAAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
34008289 AAAGTAAAAT
Statistics
Matches: 348, Mismatches: 44, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
125 25 0.07
126 213 0.61
127 86 0.25
128 24 0.07
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTAC
ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT
Found at i:34008219 original size:253 final size:252
Alignment explanation
Indices: 34007764--34008288 Score: 757
Period size: 253 Copynumber: 2.1 Consensus size: 252
34007754 TAAGGCCAAG
34007764 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGCAC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGCAC
* * * *
34007829 TTCCTGCTTGACGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTTAGG
66 ATCCTGCTTGAAGCGTTTTTGACACTAGTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGG
* * *
34007894 AACTACTGTAGAAAAAAAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTACTGACGGTGAATCC
131 AACTACTGTAGAAAAAAAGCGTCCACATGGAAGCTTTTTTCAATAATTTTACTGACAGTGAATCC
* ** * *
34007959 TGCTTGAAGCGTTTTTGACACTATTTTTTCAAAATTGTCTTCTCAAAGTGATTTTTT
196 TGCTTGAAGCGTTTTTGACACTATCTTTTCAAAACCGTCTTCTCAAAATGAATTTTT
*
34008016 CAGGAACT-CTGTAGAAAAAGAGTC-TCCACGTGGGAGCTTTTTTTTTAGTAATTTTGCTAACAG
1 CAGGAACTACTGTAGAAAAAGAG-CGTCCACGTGGGAGC--TTTTTTCAGTAATTTTGCTAACAG
** *
34008079 TGCATCCTGCTTGAAGCGTTTTTGACACTAGTTTTTCAGAACTGTCTTCTCAAAATTATTTTTTC
63 CACATCCTGCTTGAAGCGTTTTTGACACTAGTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTC
* * ** * * *
34008144 AGGAACTACTTTAGAAAAAGATTGTCCACATGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCA
128 AGGAACTACTGTAGAAAAAAAGCGTCCACATGGAAGCTTTTTTCAATAATTTTACTGACAGTGAA
* * *
34008209 TCCTGCTTGAAGTGTTTTTGACATTATCTTTTCAAAACCGTCTTCTCAAAATTAATTTTT
193 TCCTGCTTGAAGCGTTTTTGACACTATCTTTTCAAAACCGTCTTCTCAAAATGAATTTTT
* *
34008269 CTGAAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
34008289 AAAGTAAAAT
Statistics
Matches: 241, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
251 27 0.11
252 9 0.04
253 194 0.80
254 11 0.05
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (252 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGCAC
ATCCTGCTTGAAGCGTTTTTGACACTAGTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGG
AACTACTGTAGAAAAAAAGCGTCCACATGGAAGCTTTTTTCAATAATTTTACTGACAGTGAATCC
TGCTTGAAGCGTTTTTGACACTATCTTTTCAAAACCGTCTTCTCAAAATGAATTTTT
Found at i:34008461 original size:34 final size:34
Alignment explanation
Indices: 34008390--34008501 Score: 117
Period size: 34 Copynumber: 3.4 Consensus size: 34
34008380 TTAAAAAAAT
* *
34008390 TAAACCCTAATTTAATTAATTTTCTTAAAAACTC
1 TAAACCCTAATTTAATTAATTATCTTAAAAACCC
* *
34008424 TAAACCCTAATTTAATTAATATAT-TTGAAATCCC
1 TAAACCCTAATTTAATTAAT-TATCTTAAAAACCC
* * *
34008458 TAAAACCTAATTTAATT-A-T-T-TAAAAAACTC
1 TAAACCCTAATTTAATTAATTATCTTAAAAACCC
34008488 TAAACCCTAATTTA
1 TAAACCCTAATTTA
34008502 TTTTTTAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
30 20 0.30
31 1 0.01
33 1 0.01
34 43 0.64
35 2 0.03
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.38
Consensus pattern (34 bp):
TAAACCCTAATTTAATTAATTATCTTAAAAACCC
Found at i:34008477 original size:29 final size:31
Alignment explanation
Indices: 34008439--34008501 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
34008429 CCTAATTTAA
* *
34008439 TTAATATATTT-GAAATCCCTAAAACCTAAT
1 TTAATATATTTAAAAAACCCTAAAACCTAAT
* *
34008469 TTAAT-TATTTAAAAAACTCTAAACCCTAAT
1 TTAATATATTTAAAAAACCCTAAAACCTAAT
34008499 TTA
1 TTA
34008502 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (31 bp):
TTAATATATTTAAAAAACCCTAAAACCTAAT
Found at i:34008491 original size:30 final size:30
Alignment explanation
Indices: 34008373--34008511 Score: 111
Period size: 34 Copynumber: 4.4 Consensus size: 30
34008363 TAAACACAAA
*
34008373 AATTATTTTAAAAAAAT-TAAACCCTAATTT
1 AATTA-TTTAAAAAACTCTAAACCCTAATTT
*
34008403 AATTAATTTTCTTAAAAACTCTAAACCCTAATTT
1 AATT-A--TT-TAAAAAACTCTAAACCCTAATTT
** * * *
34008437 AATTAATATATTTGAAATCCCTAAAACCTAATTT
1 AA-T--TAT-TTAAAAAACTCTAAACCCTAATTT
34008471 AATTATTTAAAAAACTCTAAACCCTAATTT
1 AATTATTTAAAAAACTCTAAACCCTAATTT
*
34008501 -ATTTTTTAAAA
1 AATTATTTAAAA
34008512 TTATTAAACC
Statistics
Matches: 89, Mismatches: 12, Indels: 17
0.75 0.10 0.14
Matches are distributed among these distances:
29 10 0.11
30 23 0.26
31 4 0.04
32 3 0.03
33 8 0.09
34 37 0.42
35 2 0.02
36 1 0.01
37 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (30 bp):
AATTATTTAAAAAACTCTAAACCCTAATTT
Found at i:34009178 original size:10 final size:10
Alignment explanation
Indices: 34009165--34009228 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
34009155 AAAAATCATT
34009165 AAAATTATAAA
1 AAAATTAT-AA
*
34009176 AAAATTATAG
1 AAAATTATAA
* * *
34009186 AAACTCATAG
1 AAAATTATAA
34009196 AAAATTATAA
1 AAAATTATAA
34009206 AAATATT-T-A
1 AAA-ATTATAA
34009215 AAAATATATAA
1 AAAAT-TATAA
34009226 AAA
1 AAA
34009229 TATATGAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 2 0.05
9 5 0.12
10 21 0.49
11 15 0.35
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (10 bp):
AAAATTATAA
Found at i:34009229 original size:10 final size:10
Alignment explanation
Indices: 34009196--34009233 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
34009186 AAACTCATAG
34009196 AAAAT-TATA
1 AAAATATATA
*
34009205 AAAATATTTA
1 AAAATATATA
34009215 AAAATATATA
1 AAAATATATA
34009225 AAAATATAT
1 AAAATATAT
34009234 GAAAGTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 5 0.19
10 21 0.81
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATATATA
Found at i:34012762 original size:9 final size:9
Alignment explanation
Indices: 34012748--34012814 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
34012738 TTTGGTTAAA
34012748 AATTAACCG
1 AATTAACCG
*
34012757 AATTAACCA
1 AATTAACCG
*
34012766 AATTAATCG
1 AATTAACCG
*
34012775 AATTAATCG
1 AATTAACCG
*
34012784 AATT-ACCTT
1 AATTAACC-G
34012793 AATT-ACCTG
1 AATTAACC-G
*
34012802 AATTAGCCG
1 AATTAACCG
34012811 AATT
1 AATT
34012815 GAATCACTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
8 2 0.04
9 45 0.92
10 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (9 bp):
AATTAACCG
Found at i:34012947 original size:5 final size:5
Alignment explanation
Indices: 34012937--34012970 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
34012927 ATTTTTATGA
34012937 TTGGG TTGGG TTGGG TTGGG TTGGG TTGGG TTGG
1 TTGGG TTGGG TTGGG TTGGG TTGGG TTGGG TTGG
34012971 ATACTTGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.59, T:0.41
Consensus pattern (5 bp):
TTGGG
Found at i:34019598 original size:18 final size:17
Alignment explanation
Indices: 34019566--34019600 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34019556 AAATATTATA
*
34019566 TTTTAAATTTTTTGAAT
1 TTTTAAATATTTTGAAT
34019583 TTTTATAATATTTTGAAT
1 TTTTA-AATATTTTGAAT
34019601 AAATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTTAAATATTTTGAAT
Found at i:34021620 original size:16 final size:17
Alignment explanation
Indices: 34021589--34021621 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34021579 TAAAATTTTA
34021589 AAAATATTAATTTAATAT
1 AAAATATT-ATTTAATAT
34021607 AAAATATT-TTTAATA
1 AAAATATTATTTAATA
34021622 CTATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATATTATTTAATAT
Found at i:34021887 original size:5 final size:5
Alignment explanation
Indices: 34021836--34021868 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
34021826 TTACTAATAC
34021836 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
34021869 GTATTACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:34022055 original size:17 final size:16
Alignment explanation
Indices: 34022033--34022066 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
34022023 AACTAGCATA
34022033 ATAATAAATAATGATAT
1 ATAATAAATAAT-ATAT
*
34022050 ATAATAAGTAATATAT
1 ATAATAAATAATATAT
34022066 A
1 A
34022067 ATGTATGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
ATAATAAATAATATAT
Found at i:34022312 original size:16 final size:18
Alignment explanation
Indices: 34022279--34022354 Score: 65
Period size: 17 Copynumber: 4.6 Consensus size: 18
34022269 TAATATGTAA
*
34022279 TATATAATATACTTTTAT
1 TATATAATATACTATTAT
34022297 TATAT-ATA-ACTATTAT
1 TATATAATATACTATTAT
34022313 TATAT--TATA-TATTAT
1 TATATAATATACTATTAT
* * *
34022328 AATAAAATATA-TAATAT
1 TATATAATATACTATTAT
*
34022345 TACATAATAT
1 TATATAATAT
34022355 TATAATGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
15 11 0.23
16 13 0.27
17 19 0.40
18 5 0.10
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
TATATAATATACTATTAT
Found at i:34022320 original size:21 final size:20
Alignment explanation
Indices: 34022278--34022324 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
34022268 ATAATATGTA
*
34022278 ATATATAATATACTTTTATT
1 ATATATAATATACTTATATT
34022298 ATATATAACTATTA-TTATATT
1 ATATATAA-TA-TACTTATATT
34022319 ATATAT
1 ATATAT
34022325 TATAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 14 0.58
22 2 0.08
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATAATATACTTATATT
Found at i:34023192 original size:25 final size:24
Alignment explanation
Indices: 34023159--34023219 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
34023149 GTAATCATAT
* *
34023159 AAAAGTAAAATGAATTATTACATT-C
1 AAAATTAAAAT-AATTATAAC-TTAC
*
34023184 AAAATTAAAATATTTATAACTTAC
1 AAAATTAAAATAATTATAACTTAC
34023208 AAAATTCAAAAT
1 AAAATT-AAAAT
34023220 TATCTAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 2 0.06
24 14 0.45
25 15 0.48
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (24 bp):
AAAATTAAAATAATTATAACTTAC
Found at i:34031644 original size:28 final size:28
Alignment explanation
Indices: 34031583--34031644 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
34031573 ATCGTAGTTT
* *
34031583 TAATTTATTTCAAATTTTTATTTATGTA
1 TAATTTATTTCAAATTTTTATTAATATA
* *
34031611 TTATTTATTTTAAATTTATT-TTAATATA
1 TAATTTATTTCAAATTT-TTATTAATATA
34031639 TAATTT
1 TAATTT
34031645 CCTTTCTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (28 bp):
TAATTTATTTCAAATTTTTATTAATATA
Found at i:34044139 original size:44 final size:44
Alignment explanation
Indices: 34044059--34044248 Score: 166
Period size: 44 Copynumber: 4.3 Consensus size: 44
34044049 CCTGAGCAAT
* *** *
34044059 AGCGGAGCAGATCGAAGATGGTGAATCTTATCTCCCTGAGATTAC
1 AGCGGAGCAGATTGAAGCCAGT-AATCCTATCTCCCTGAGATTAC
* * * * *
34044104 GGCAGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGATATTAT
1 AGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTAC
* * * *** * *
34044148 AGTGGAGCGGATTAAAATAAAG-GATCTTATCTCCCTGAGATTAC
1 AGCGGAGCAGATT-GAAGCCAGTAATCCTATCTCCCTGAGATTAC
*
34044192 AGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
1 AGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTAC
* *
34044236 AGTGGAGCGGATT
1 AGCGGAGCAGATT
34044249 AAAATAAAGG
Statistics
Matches: 109, Mismatches: 34, Indels: 5
0.74 0.23 0.03
Matches are distributed among these distances:
43 4 0.04
44 85 0.78
45 20 0.18
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
AGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTAC
Found at i:34044200 original size:88 final size:88
Alignment explanation
Indices: 34044083--34044291 Score: 339
Period size: 88 Copynumber: 2.4 Consensus size: 88
34044073 AAGATGGTGA
* * *
34044083 ATCTTATCTCCCTGAGATTACGGCAGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGATATTAT
1 ATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
34044148 AGTGGAGCGGATTAAAATAAAGG
66 AGTGGAGCGGATTAAAATAAAGG
*
34044171 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
34044236 AGTGGAGCGGATTAAAATAAAGG
66 AGTGGAGCGGATTAAAATAAAGG
* * *
34044259 ATCTTATCTCTCTGA-ATTTACAGTAGAGTAGAT
1 ATCTTATCTCCCTGAGA-TTACAGCAGAGCAGAT
34044292 CGCATCAGGT
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
87 1 0.01
88 111 0.99
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
ATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
AGTGGAGCGGATTAAAATAAAGG
Found at i:34044280 original size:44 final size:44
Alignment explanation
Indices: 34044135--34044282 Score: 156
Period size: 44 Copynumber: 3.4 Consensus size: 44
34044125 TAATCCTATT
* *
34044135 TCCCTGATATTATAGTGGAGCGGATTAAAATAAAGGATCTTATC
1 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATC
* * * *** * * *
34044179 TCCCTGAGATTACAGCGGAGCAGATT-GAAGCCAGTAATCCTATT
1 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-GATCTTATC
34044223 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATC
1 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATC
*
34044267 TCTCTGA-ATTTACAGT
1 TCCCTGAGA-TTACAGT
34044283 AGAGTAGATC
Statistics
Matches: 80, Mismatches: 21, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
43 5 0.06
44 71 0.89
45 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATC
Found at i:34044550 original size:219 final size:219
Alignment explanation
Indices: 34044171--34044577 Score: 688
Period size: 219 Copynumber: 1.9 Consensus size: 219
34044161 AAAATAAAGG
34044171 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
* * **
34044236 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAATTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAACGGATTAAAATAAAGGATCTTACCTCTCTGAAGATACAGTAGAGTAGATCGCATCAGG
*
34044301 TCTTATCTCCCTGAGATTACACTGGAATAGACCAAAGAATTCCAGATCTTATCTCCCTAAGCAAT
131 TCTTATCTCCCTGAGATTACACTGGAATAGACCAAAGAATTACAGATCTTATCTCCCTAAGCAAT
34044366 AGTGGAGCTAATCGAAAATGGTGA
196 AGTGGAGCTAATCGAAAATGGTGA
* * * *
34044390 ATCTTATCTCCTTGAGATTATAGCGGAGCAGATTGAAGCCAGTAATCTTATTTTCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
*
34044455 AGTGGAACGGATTAAAATAAAGGATCTTACCTCTCTGAAGATACAGTAGTGTAGATCGCATCAGG
66 AGTGGAACGGATTAAAATAAAGGATCTTACCTCTCTGAAGATACAGTAGAGTAGATCGCATCAGG
* * * *
34044520 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAGATCTTATTTCCCT
131 TCTTATCTCCCTGAGATTACACTGGAATAGACCAAAGAATTACAGATCTTATCTCCCT
34044578 GACGGTGCAG
Statistics
Matches: 174, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
219 174 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (219 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
AGTGGAACGGATTAAAATAAAGGATCTTACCTCTCTGAAGATACAGTAGAGTAGATCGCATCAGG
TCTTATCTCCCTGAGATTACACTGGAATAGACCAAAGAATTACAGATCTTATCTCCCTAAGCAAT
AGTGGAGCTAATCGAAAATGGTGA
Found at i:34044939 original size:22 final size:23
Alignment explanation
Indices: 34044909--34044955 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
34044899 TGCCCGGCCC
* *
34044909 AAATCAGAAATAAATAAATAAAA
1 AAATCAGAAAAAAACAAATAAAA
*
34044932 AAAT-AGAAAAAAACAAATAGAA
1 AAATCAGAAAAAAACAAATAAAA
34044954 AA
1 AA
34044956 TAGTCCATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (23 bp):
AAATCAGAAAAAAACAAATAAAA
Found at i:34046185 original size:3 final size:3
Alignment explanation
Indices: 34046179--34046231 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
34046169 AACTATTTTT
* * * * * *
34046179 TTA TTA TTA TTG TTA TTA TTA TTA ATG TTA CTA TAA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34046227 TTA TT
1 TTA TT
34046232 TGTATTAGTT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:34050380 original size:25 final size:26
Alignment explanation
Indices: 34050352--34050409 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
34050342 TTTGAAATGC
34050352 ATAATATAT-GCAA-AACTTAAAATAA
1 ATAATATATAG-AACAACTTAAAATAA
*
34050377 ATAATA-ATAGAACAATTTAAAATAA
1 ATAATATATAGAACAACTTAAAATAA
34050402 ATAATATA
1 ATAATATA
34050410 AGTTCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.14
25 24 0.83
26 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (26 bp):
ATAATATATAGAACAACTTAAAATAA
Found at i:34051122 original size:4 final size:4
Alignment explanation
Indices: 34051113--34051155 Score: 61
Period size: 4 Copynumber: 10.5 Consensus size: 4
34051103 GTTTTCTTTG
34051113 AAAT AAAT AAAAT AAAT AAAT AAAT AAAT GAAA- AAAT AAAT AA
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AA
34051156 GCCAAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 3 0.08
4 26 0.72
5 7 0.19
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:34051424 original size:17 final size:17
Alignment explanation
Indices: 34051402--34051441 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
34051392 GAGGCTGAGC
34051402 TGCGGCGCTGGGCAGTA
1 TGCGGCGCTGGGCAGTA
34051419 TGCGGCGCTGGGCAGTA
1 TGCGGCGCTGGGCAGTA
34051436 TGCGGC
1 TGCGGC
34051442 TAGGGTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.10, C:0.25, G:0.47, T:0.17
Consensus pattern (17 bp):
TGCGGCGCTGGGCAGTA
Found at i:34060590 original size:40 final size:41
Alignment explanation
Indices: 34060527--34060614 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 41
34060517 AATTATGGAA
* * * *
34060527 TACTGAATATTGTTTTTGAGTACTGA-ATTGAATTGTGAAGT
1 TACTGAATATTGTTTATGAGTACT-ACATTGAACTATGAAAT
*
34060568 TACTGAATATTG-TTATGTGTACTACATTGAACTATGAAAT
1 TACTGAATATTGTTTATGAGTACTACATTGAACTATGAAAT
34060608 TACTGAA
1 TACTGAA
34060615 GTAATGAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.02
40 28 0.68
41 12 0.29
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (41 bp):
TACTGAATATTGTTTATGAGTACTACATTGAACTATGAAAT
Found at i:34071010 original size:16 final size:16
Alignment explanation
Indices: 34070989--34071038 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
34070979 CTGTAGATGA
34070989 TTCAATTTTTATAATT
1 TTCAATTTTTATAATT
34071005 TTCAATATTTT-TAATT
1 TTCAAT-TTTTATAATT
*
34071021 TT-GATTTTTAATAATT
1 TTCAATTTTT-ATAATT
34071037 TT
1 TT
34071039 ATTTGTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 4 0.13
15 2 0.07
16 20 0.67
17 4 0.13
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (16 bp):
TTCAATTTTTATAATT
Found at i:34073952 original size:44 final size:43
Alignment explanation
Indices: 34073881--34073974 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 43
34073871 TAGAAAAGTT
* * * *
34073881 AAAAATAAATAGTATAAATTAAGTTATTTTTTTATTAACAAACA
1 AAAAATAAATAGTATAAAATAAATTA-TTCTTTATGAACAAACA
*
34073925 AAAAATAAATAGTATAAAATAAATTATTCTTTATGAATAAACA
1 AAAAATAAATAGTATAAAATAAATTATTCTTTATGAACAAACA
34073968 AATAAAT
1 AA-AAAT
34073975 TAAGTGATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 16 0.36
44 28 0.64
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (43 bp):
AAAAATAAATAGTATAAAATAAATTATTCTTTATGAACAAACA
Found at i:34074330 original size:130 final size:128
Alignment explanation
Indices: 34074083--34074342 Score: 353
Period size: 130 Copynumber: 2.0 Consensus size: 128
34074073 TACATTAGAA
* * *
34074083 TAGTTGTCATGTAATGTAGCAACACAACTTAAGCTAATAATAGTGTTATTAAAAAAAATAAGATA
1 TAGTTGTCATGCAATGTAGCAACACAACTTAAGCCAATAATAGTGTTATGAAAAAAAATAAGATA
* * *
34074148 TCAATAAATGACACAATCTATGACAATAGTTAATTGCCTATTAGCAATAGCTATATGTAGCAT
66 TCAATAAATGACACAATCTATGACAATAATTAAGTGCCTATTAGCAAAAGCTATATGTAGCAT
* * *
34074211 TAGTTGTGACATGCAATGTAGCAACACAATTTAAGCCAATAATTA-TGTTATGAAAAGACATACA
1 TAGTTGT--CATGCAATGTAGCAACACAACTTAAGCCAATAA-TAGTGTTATGAAAAAAAATA-A
* * * *
34074275 -ATATCATTAAATGACATAATTTATGACAATAATTAAGTGCCTGTTAGCAAAAGCTATATGTAGC
62 GATATCAATAAATGACACAATCTATGACAATAATTAAGTGCCTATTAGCAAAAGCTATATGTAGC
34074339 AT
127 AT
34074341 TA
1 TA
34074343 TTTAAGAATT
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
128 7 0.06
130 105 0.91
131 3 0.03
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (128 bp):
TAGTTGTCATGCAATGTAGCAACACAACTTAAGCCAATAATAGTGTTATGAAAAAAAATAAGATA
TCAATAAATGACACAATCTATGACAATAATTAAGTGCCTATTAGCAAAAGCTATATGTAGCAT
Found at i:34084928 original size:196 final size:196
Alignment explanation
Indices: 34084517--34085050 Score: 908
Period size: 196 Copynumber: 2.8 Consensus size: 196
34084507 CAAATCTGCT
*
34084517 TATATATGGAAACTTATCTTATTGATTTAATTCCAATAAACCTGATTAAAAATTTAAATCAAATT
1 TATATATGGAAACTTATCTTATTGATTTAATTCCAATAAATCTGATTAAAAATTTAAATCAAATT
* * *
34084582 GATTTAATGGCAGATTTTGT-GATATTTTTTTT-CAAAATTCCAACACTCTCCATACCTATAAAA
66 GATTTAATGACAGATTTTGTGGATATTTTTTTTCCAAAATTCCAACACTCTCCATGCTTATAAAA
**
34084645 TACCATGATTTC--------TGAAAGGTTTTTGCACACTCATACTCTCTGATAATTTCTCTGCTT
131 GGCCATGATTTCTGAAGGGTTGAAAGGTTTTTGCACACTCATACTCTCTGATAATTTCTCTGCTT
34084702 A
196 A
34084703 TATATATGGAAACTTATCTTATTGATTTAATTCCAATAAATCTGATTAAAAATTTAAATCAAATT
1 TATATATGGAAACTTATCTTATTGATTTAATTCCAATAAATCTGATTAAAAATTTAAATCAAATT
*
34084768 GATTTAATGACAGATTTTGTGGATATTTTTTTTCCAAAATCCCAACACTCTCCATGCTTATAAAA
66 GATTTAATGACAGATTTTGTGGATATTTTTTTTCCAAAATTCCAACACTCTCCATGCTTATAAAA
34084833 GGCCATGATTTCTGAAGGGTTGAAAGGTTTTTGCACACTCATACTCTCTGATAATTTCTCTGCTT
131 GGCCATGATTTCTGAAGGGTTGAAAGGTTTTTGCACACTCATACTCTCTGATAATTTCTCTGCTT
34084898 A
196 A
34084899 TATATATGGAAACTTATCTTATTGATTTAATTCCAATAAATCTGATTAAAAATTTAAATCAAATT
1 TATATATGGAAACTTATCTTATTGATTTAATTCCAATAAATCTGATTAAAAATTTAAATCAAATT
* *
34084964 GATTTAATGACAGATTTTGTGGATATTTTTTTTTCCAAAATTTCAAAACTCTCCATGCTTATAAA
66 GATTTAATGACAGATTTTGTGGATA-TTTTTTTTCCAAAATTCCAACACTCTCCATGCTTATAAA
34085029 AGGCCATGATTTCTGAAGGGTT
130 AGGCCATGATTTCTGAAGGGTT
34085051 TTTGAACACT
Statistics
Matches: 327, Mismatches: 10, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
186 83 0.25
187 12 0.04
188 38 0.12
196 136 0.42
197 58 0.18
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (196 bp):
TATATATGGAAACTTATCTTATTGATTTAATTCCAATAAATCTGATTAAAAATTTAAATCAAATT
GATTTAATGACAGATTTTGTGGATATTTTTTTTCCAAAATTCCAACACTCTCCATGCTTATAAAA
GGCCATGATTTCTGAAGGGTTGAAAGGTTTTTGCACACTCATACTCTCTGATAATTTCTCTGCTT
A
Found at i:34087268 original size:5 final size:5
Alignment explanation
Indices: 34087258--34087282 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34087248 ATAATAATCC
34087258 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
34087283 CAGATGAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:34089706 original size:17 final size:18
Alignment explanation
Indices: 34089680--34089716 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
34089670 TTTAGTAATT
34089680 ATTTCACATT-CATTTTA
1 ATTTCACATTCCATTTTA
*
34089697 ATTTCCCATTCCATTTTA
1 ATTTCACATTCCATTTTA
34089715 AT
1 AT
34089717 AATTTATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTCACATTCCATTTTA
Found at i:34090259 original size:45 final size:45
Alignment explanation
Indices: 34090197--34090447 Score: 313
Period size: 45 Copynumber: 5.3 Consensus size: 45
34090187 CAGTAATCAA
* * * * *
34090197 TAACGGTAGCAGTAACAGTATTCAACACACAAAGTGCTGAATCTG
1 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGG
* *
34090242 TAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGA
1 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGG
*
34090287 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGTCGG
1 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGG
34090332 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGTAGGTAACAGTAACAG
1 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGA--A--T--C-G-----G
*
34090389 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGA
1 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGG
34090434 TAACAGTAACAGTA
1 TAACAGTAACAGTA
34090448 GTCGGCACAT
Statistics
Matches: 182, Mismatches: 12, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
45 134 0.74
49 1 0.01
50 1 0.01
51 2 0.01
52 1 0.01
53 1 0.01
55 1 0.01
57 41 0.23
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.19
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGG
Found at i:34090387 original size:6 final size:6
Alignment explanation
Indices: 34090376--34090408 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
34090366 TGCCGAGTAG
34090376 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
34090409 TTCGACACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:34090397 original size:57 final size:57
Alignment explanation
Indices: 34090331--34090447 Score: 207
Period size: 57 Copynumber: 2.1 Consensus size: 57
34090321 TGCCGAGTCG
* *
34090331 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGTAGGTAACAGTAACA
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATAGATAACAGTAACA
*
34090388 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACAGTAACA
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATAGATAACAGTAACA
34090445 GTA
1 GTA
34090448 GTCGGCACAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.18
Consensus pattern (57 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATAGATAACAGTAACA
Found at i:34094369 original size:49 final size:51
Alignment explanation
Indices: 34094314--34094409 Score: 137
Period size: 49 Copynumber: 1.9 Consensus size: 51
34094304 TTCGTTTTCT
*
34094314 CGATGCCATAGT-CCA-ATTATGGTCTTACAC-AGAATCACAT-ATCACTTAC
1 CGATGCCATA-TCCCAGA-TATGGTCTTACACGAAAATCACATAATCACTTAC
34094363 CGATGCCATATCCCAGATATGGTCTTACACGAAAATCACATAATCAC
1 CGATGCCATATCCCAGATATGGTCTTACACGAAAATCACATAATCAC
34094410 ATTTTCACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
48 1 0.02
49 26 0.62
50 10 0.24
51 5 0.12
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.26
Consensus pattern (51 bp):
CGATGCCATATCCCAGATATGGTCTTACACGAAAATCACATAATCACTTAC
Found at i:34098114 original size:21 final size:22
Alignment explanation
Indices: 34098088--34098128 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
34098078 TTAGATGCAT
* *
34098088 ATATTT-AATTAAAATTTAAGA
1 ATATTTGAATAAAAAATTAAGA
34098109 ATATTTGAATAAAAAATTAA
1 ATATTTGAATAAAAAATTAA
34098129 TACGCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
ATATTTGAATAAAAAATTAAGA
Found at i:34101193 original size:5 final size:5
Alignment explanation
Indices: 34101183--34101248 Score: 68
Period size: 5 Copynumber: 13.6 Consensus size: 5
34101173 TAATAACTAA
*
34101183 ATTGT ATTGT ATTGT ATTGT ATTGT ATT-T -TCTGA ATTGT ATTGT ATT-T
1 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT AT-TGT ATTGT ATTGT ATTGT
*
34101231 -TCTGA ATTGT ATTGT ATT
1 AT-TGT ATTGT ATTGT ATT
34101249 TTCTTCTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 2 0.04
4 4 0.08
5 43 0.84
6 2 0.04
ACGTcount: A:0.21, C:0.03, G:0.17, T:0.59
Consensus pattern (5 bp):
ATTGT
Found at i:34101222 original size:19 final size:19
Alignment explanation
Indices: 34101198--34101252 Score: 110
Period size: 19 Copynumber: 2.9 Consensus size: 19
34101188 ATTGTATTGT
34101198 ATTGTATTGTATTTTCTGA
1 ATTGTATTGTATTTTCTGA
34101217 ATTGTATTGTATTTTCTGA
1 ATTGTATTGTATTTTCTGA
34101236 ATTGTATTGTATTTTCT
1 ATTGTATTGTATTTTCT
34101253 TCTAAAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (19 bp):
ATTGTATTGTATTTTCTGA
Found at i:34109184 original size:27 final size:27
Alignment explanation
Indices: 34109124--34109197 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
34109114 ACATCGGGAC
34109124 AATAAACATGAGATAGTCCACCGAGAT
1 AATAAACATGAGATAGTCCACCGAGAT
* * * * *
34109151 AACAAACATGGGGTAGTTCACCTAGAT
1 AATAAACATGAGATAGTCCACCGAGAT
* *
34109178 AGTAAACACG-G-TAGTCCACC
1 AATAAACATGAGATAGTCCACC
34109198 AGGACACTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
25 8 0.21
26 1 0.03
27 29 0.76
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (27 bp):
AATAAACATGAGATAGTCCACCGAGAT
Found at i:34110584 original size:21 final size:20
Alignment explanation
Indices: 34110546--34110608 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
34110536 ATTCAATTTC
34110546 TCAATCC-AAT-ATA-CATT
1 TCAATCCAAATAATATCATT
34110563 TCAATACCACAATAAT-TCATT
1 TCAAT-CCA-AATAATATCATT
*
34110584 T-AATTCAAATAATATCATT
1 TCAATCCAAATAATATCATT
34110603 TGCAAT
1 T-CAAT
34110609 TTCCATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
17 5 0.14
18 8 0.22
19 8 0.22
20 6 0.16
21 10 0.27
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TCAATCCAAATAATATCATT
Found at i:34112066 original size:23 final size:22
Alignment explanation
Indices: 34112023--34112066 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
34112013 TTCTAAGCCA
34112023 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
34112046 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
34112067 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:34112262 original size:50 final size:50
Alignment explanation
Indices: 34112205--34112385 Score: 265
Period size: 50 Copynumber: 3.6 Consensus size: 50
34112195 ATGTTTAGTT
34112205 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTA
* * * * * *
34112255 CACATAGTATCCTGCACATAGTACTACACACGTGACCGA-AACTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCCGGTA
*
34112306 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTA
*
34112356 CACGTAGTAGCCTGCACATAGTACTACACA
1 CACATAGTAGCCTGCACATAGTACTACACA
34112386 CGTAACCATC
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
49 1 0.01
50 70 0.62
51 41 0.36
52 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTA
Found at i:34112382 original size:101 final size:101
Alignment explanation
Indices: 34112207--34112388 Score: 346
Period size: 101 Copynumber: 1.8 Consensus size: 101
34112197 GTTTAGTTCA
*
34112207 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACATAGTATCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACATAGTAGCCTGCAC
34112272 ATAGTACTACACACGTGACCGAAACTATCTGGTACG
66 ATAGTACTACACACGTGACCGAAACTATCTGGTACG
*
34112308 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACATAGTAGCCTGCAC
34112373 ATAGTACTACACACGT
66 ATAGTACTACACACGT
34112389 AACCATCACT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACATAGTAGCCTGCAC
ATAGTACTACACACGTGACCGAAACTATCTGGTACG
Found at i:34117176 original size:17 final size:17
Alignment explanation
Indices: 34117154--34117194 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
34117144 AAACCACAAT
*
34117154 CATTTC-CAAATGTTTCC
1 CATTTCTCAAAT-TTTAC
34117171 CATTTCTCAAATTTTAC
1 CATTTCTCAAATTTTAC
34117188 CATTTCT
1 CATTTCT
34117195 ATCGATTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.46
Consensus pattern (17 bp):
CATTTCTCAAATTTTAC
Found at i:34149156 original size:29 final size:29
Alignment explanation
Indices: 34149101--34149156 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
34149091 GTTTGGGTTT
* *
34149101 AATATTACCAAAATACATAATTCAATAAA
1 AATATTACCAAAATACAAAAATCAATAAA
34149130 AATATTACCAAAATACACAAAAT-AATA
1 AATATTACCAAAATACA-AAAATCAATA
34149157 CCGTTTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (29 bp):
AATATTACCAAAATACAAAAATCAATAAA
Found at i:34152440 original size:9 final size:9
Alignment explanation
Indices: 34152426--34152456 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
34152416 GGATGGTTAG
34152426 ATACTTAAT
1 ATACTTAAT
34152435 ATACTTAAT
1 ATACTTAAT
34152444 ATACTTAAT
1 ATACTTAAT
34152453 ATAC
1 ATAC
34152457 ATATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (9 bp):
ATACTTAAT
Found at i:34153114 original size:20 final size:20
Alignment explanation
Indices: 34153091--34153158 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
34153081 ATATCTAATT
34153091 ATTTACCAATATTTTTAACA
1 ATTTACCAATATTTTTAACA
**
34153111 ATTTACCAATATTGGT--C-
1 ATTTACCAATATTTTTAACA
34153128 --TTACCAATATTTTTAACA
1 ATTTACCAATATTTTTAACA
*
34153146 CTTTACCAATATT
1 ATTTACCAATATT
34153159 ACTAATGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
15 12 0.31
17 1 0.03
18 1 0.03
20 25 0.64
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.44
Consensus pattern (20 bp):
ATTTACCAATATTTTTAACA
Found at i:34157417 original size:3 final size:3
Alignment explanation
Indices: 34157409--34157434 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34157399 CAGTCGGAAG
34157409 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
34157435 TACTCAGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:34158965 original size:17 final size:18
Alignment explanation
Indices: 34158937--34158976 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
34158927 TCTTTAGATG
34158937 ATTTTTTAAAAAAT-TATA
1 ATTTTTTAAAAAATATA-A
34158955 ATTTTTT-AAAAATATAA
1 ATTTTTTAAAAAATATAA
34158972 ATTTT
1 ATTTT
34158977 AGAATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTTAAAAAATATAA
Found at i:34158991 original size:19 final size:20
Alignment explanation
Indices: 34158967--34159004 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34158957 TTTTTAAAAA
34158967 TATAAAT-TTTAGAATTTTT
1 TATAAATATTTAGAATTTTT
*
34158986 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
34159005 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TATAAATATTTAGAATTTTT
Found at i:34159010 original size:18 final size:18
Alignment explanation
Indices: 34158983--34159020 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
34158973 TTTTAGAATT
*
34158983 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTT-AA
34159001 TTTTAAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
34159019 TT
1 TT
34159021 CTTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:34160836 original size:32 final size:32
Alignment explanation
Indices: 34160800--34160871 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 32
34160790 AACATTTGGG
*
34160800 TTCTTTCC-TCTCTT-TTTCTTCTTCTTTTTTTT
1 TTCTTTCCGT-TCTTCTTTCTT-TTCTTTTTCTT
34160832 TTCTTTCCGGTTCTTCTTTCTTTTCTTTTTCTT
1 TTCTTTCC-GTTCTTCTTTCTTTTCTTTTTCTT
34160865 TT-TTTCC
1 TTCTTTCC
34160872 AAATTAATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
32 13 0.36
33 16 0.44
34 7 0.19
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (32 bp):
TTCTTTCCGTTCTTCTTTCTTTTCTTTTTCTT
Found at i:34165195 original size:21 final size:21
Alignment explanation
Indices: 34165169--34165208 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34165159 AGCTTCTAAT
*
34165169 GGGGATTATGGTTGCTCCGAC
1 GGGGATTATGGTTCCTCCGAC
*
34165190 GGGGATTCTGGTTCCTCCG
1 GGGGATTATGGTTCCTCCG
34165209 GTAGGGTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.23, G:0.38, T:0.30
Consensus pattern (21 bp):
GGGGATTATGGTTCCTCCGAC
Found at i:34165491 original size:18 final size:18
Alignment explanation
Indices: 34165465--34165507 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
34165455 GACTCGAAAA
* * *
34165465 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
34165483 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
34165501 AGGATAC
1 AGGATAC
34165508 GCACCTGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:34167378 original size:22 final size:21
Alignment explanation
Indices: 34167353--34167405 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 21
34167343 AAATAGGGGT
34167353 TTGAGAGAAATTTCAAAGGAAA
1 TTGAGAGAAATTT-AAAGGAAA
34167375 TTGAGAGCAAATTTAAAGGAAA
1 TTGAGAG-AAATTTAAAGGAAA
34167397 TTGAGAGAA
1 TTGAGAGAA
34167406 TATGAGAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.07
22 22 0.73
23 6 0.20
ACGTcount: A:0.49, C:0.04, G:0.25, T:0.23
Consensus pattern (21 bp):
TTGAGAGAAATTTAAAGGAAA
Found at i:34169394 original size:31 final size:30
Alignment explanation
Indices: 34169358--34169428 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
34169348 AAATATTAAC
* *
34169358 AAGTGACTAATTTGTTACTTTTTGATAACTTT
1 AAGTGACTAATTTGTTA-TTTTTCA-AAATTT
* **
34169390 -AGTGAATGTTTTGTTATTTTTCAAAATTT
1 AAGTGACTAATTTGTTATTTTTCAAAATTT
34169419 AAGTGACTAA
1 AAGTGACTAA
34169429 ATTGAAACCA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
29 5 0.17
30 12 0.40
31 13 0.43
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (30 bp):
AAGTGACTAATTTGTTATTTTTCAAAATTT
Found at i:34170999 original size:38 final size:38
Alignment explanation
Indices: 34170937--34171013 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
34170927 TGATTTGGTT
*
34170937 ATTATATCATATTTAAAATAAAATATTTTTATTGATAAAA
1 ATTATATCATATTTAAAATAAAATA-CTTTATT-ATAAAA
* *
34170977 ATTATAT-TTATTT-AATTAAAATACTTTATTATAAAA
1 ATTATATCATATTTAAAATAAAATACTTTATTATAAAA
34171013 A
1 A
34171014 GTCTTGGACT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 7 0.21
37 6 0.18
38 9 0.26
39 5 0.15
40 7 0.21
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (38 bp):
ATTATATCATATTTAAAATAAAATACTTTATTATAAAA
Found at i:34171621 original size:22 final size:21
Alignment explanation
Indices: 34171587--34171635 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
34171577 AATTTAAATT
*
34171587 AATATTATATT-AAATTATTGA
1 AATATTAGATTAAAATT-TTGA
34171608 AATATTAGATTTAAAATTTTGA
1 AATATTAGA-TTAAAATTTTGA
34171630 AATATT
1 AATATT
34171636 TCATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 8 0.32
22 12 0.48
23 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (21 bp):
AATATTAGATTAAAATTTTGA
Found at i:34171647 original size:22 final size:23
Alignment explanation
Indices: 34171593--34171648 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
34171583 AATTAATATT
* *
34171593 ATATTAAATTATTGAAATATTAG
1 ATATAAAATTATTGAAATATTAC
* *
34171616 ATTTAAAATT-TTGAAATATTTC
1 ATATAAAATTATTGAAATATTAC
*
34171638 ATATATAATTA
1 ATATAAAATTA
34171649 ATTTTATAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (23 bp):
ATATAAAATTATTGAAATATTAC
Done.