Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 104 of 313
Found at i:34304771 original size:21 final size:21
Alignment explanation
Indices: 34304724--34304780 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
34304714 ATAATAAATC
*
34304724 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
34304744 AAA-AATATTAAAACAAATAA
1 AAATAATATTAAAACAAATAA
*
34304764 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
34304781 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 6 0.19
20 14 0.44
21 12 0.38
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:34304857 original size:15 final size:16
Alignment explanation
Indices: 34304827--34304859 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34304817 AAATGGTTAT
34304827 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
34304844 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
34304859 A
1 A
34304860 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:34314801 original size:18 final size:18
Alignment explanation
Indices: 34314756--34314800 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
34314746 TACTTGAGTC
*
34314756 GGCC-CGTTTTCTAAACG
1 GGCCTCGTTTTCTAAACA
34314773 GGCCTCGTTTTCTAAACA
1 GGCCTCGTTTTCTAAACA
34314791 GG-CTCGTTTT
1 GGCCTCGTTTT
34314801 TTGCCCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.36
Consensus pattern (18 bp):
GGCCTCGTTTTCTAAACA
Found at i:34316036 original size:35 final size:34
Alignment explanation
Indices: 34315991--34316058 Score: 118
Period size: 35 Copynumber: 2.0 Consensus size: 34
34315981 GAAAATATAT
34315991 ATTTTTTTAACTTGACTTGCAAGCAATCTCTTAG
1 ATTTTTTTAACTTGACTTGCAAGCAATCTCTTAG
*
34316025 ATTTTGTTTAACTTGACTTGCAAGCAATGTCTTA
1 ATTTT-TTTAACTTGACTTGCAAGCAATCTCTTA
34316059 AAATTTGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 5 0.16
35 27 0.84
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (34 bp):
ATTTTTTTAACTTGACTTGCAAGCAATCTCTTAG
Found at i:34327347 original size:105 final size:104
Alignment explanation
Indices: 34326805--34327357 Score: 484
Period size: 105 Copynumber: 5.3 Consensus size: 104
34326795 CAGAGTGTTG
* * * * * *
34326805 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGCCAAAAATATCTTCAGCTTCAGA
1 TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAGA
* * *
34326870 AACCATACTAATCTTGCAAAGAGAATCCATCAATATATTA
66 AACCATAC-CATCTTGCAAAGAGAATCGATCAATATACTA
* * ** ** ** * *
34326910 TACGTGATAACATTAGG-TTCAACACCTTGCTTTCTCATCGTGCCAACAATAAATTCAGCTTCAG
1 TATGTGACAACATTAGGCTT-AATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAG
* * *
34326974 AAACCATACCATTCTTGCAAAGCGAATCTATCAATGTACTA
65 AAACCATACCA-TCTTGCAAAGAGAATCGATCAATATACTA
* * * *** * * *
34327015 TACGTGACAACAGTAGG-TTCGATGCCTTGCTTTCTCATCGCGTCAACAACAACTTCGGCTTTAG
1 TATGTGACAACATTAGGCTT-AATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAG
* * * *
34327079 AAACC-TCCCCCATCTTGCAAAGAGTATCTATGAATATACTA
65 AAACCAT--ACCATCTTGCAAAGAGAATCGATCAATATACTA
* * * * * *
34327120 TATGTGACAACATCAAGCTTAATGCCTTGCTTTGTCA-TAGTGCCGACGATATTTTCGGCTTTAG
1 TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTA-TGCCAACAATATCTTCGGCTTTAG
* * * * * *
34327184 AAATCATTCCTTTCTTACAAAGAGCATCGATCAATATGCTA
65 AAACCATACC-ATCTTGCAAAGAGAATCGATCAATATACTA
* *
34327225 TATGTGACAACATTAGGCTTAATGCCTTGCTTTGTCATTATGCCAACAATATCTTCGGCTTTGGA
1 TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAGA
* * * * * *
34327290 TATCATTCCCTGCTTGCAAAGCGCATCGATCAATATACTA
66 AACCATACCAT-CTTGCAAAGAGAATCGATCAATATACTA
* *
34327330 TATGTGACGACATTAGGCTTACTGCCTT
1 TATGTGACAACATTAGGCTTAATGCCTT
34327358 TTTTTATCAT
Statistics
Matches: 370, Mismatches: 68, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
104 6 0.02
105 356 0.96
106 8 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (104 bp):
TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAGA
AACCATACCATCTTGCAAAGAGAATCGATCAATATACTA
Found at i:34328260 original size:4 final size:4
Alignment explanation
Indices: 34328253--34328277 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
34328243 TAGGGTGGGT
34328253 TTTG TTTG TTTG TTTG TTTG TTTG T
1 TTTG TTTG TTTG TTTG TTTG TTTG T
34328278 GCTCCTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TTTG
Found at i:34330423 original size:34 final size:34
Alignment explanation
Indices: 34330379--34330458 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
34330369 ATTAGAGTTT
* *
34330379 TAAATAAATTAAACTAGGATT-TATGGTGTT-TAAA
1 TAAATTAATTAAACTAGGGTTATA-GG-GTTCTAAA
*
34330413 TAAATTAATTAAATTAGGGTTATAGGGTTCTAAA
1 TAAATTAATTAAACTAGGGTTATAGGGTTCTAAA
34330447 TAAATTATATTA
1 TAAATTA-ATTA
34330459 GGGTTTAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 3 0.08
34 31 0.77
35 6 0.15
ACGTcount: A:0.44, C:0.03, G:0.14, T:0.40
Consensus pattern (34 bp):
TAAATTAATTAAACTAGGGTTATAGGGTTCTAAA
Found at i:34330447 original size:30 final size:31
Alignment explanation
Indices: 34330413--34330500 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 31
34330403 GGTGTTTAAA
34330413 TAAATTAATTAAATTAGGG-TTATAGGGTT-C
1 TAAATTAATTAAATTAGGGTTTA-AGGGTTGC
* * *
34330443 TAAATAAATTATATTAGGGTTTAAGGTTTAGGGC
1 TAAATTAATTAAATTAGGGTTTAAGGGTT---GC
34330477 TAAAATTAATTAAATTAGGGTTTA
1 T-AAATTAATTAAATTAGGGTTTA
34330501 GTTTTTTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
30 22 0.47
31 3 0.06
34 2 0.04
35 20 0.43
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.40
Consensus pattern (31 bp):
TAAATTAATTAAATTAGGGTTTAAGGGTTGC
Found at i:34334816 original size:7 final size:7
Alignment explanation
Indices: 34334806--34334837 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
34334796 TTATATACAT
34334806 AATACTA
1 AATACTA
34334813 AATACTA
1 AATACTA
34334820 AATACTA
1 AATACTA
*
34334827 AGTACTA
1 AATACTA
34334834 AATA
1 AATA
34334838 TGAAACGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:34335778 original size:24 final size:23
Alignment explanation
Indices: 34335685--34335779 Score: 57
Period size: 25 Copynumber: 3.7 Consensus size: 23
34335675 CTGTTATAGA
*
34335685 AAATTATA-AAATACAAATTAATT
1 AAATTACATAAATA-AAATTAATT
**
34335708 AAAATTACATAAATGAAAAAAATATT
1 -AAATTACATAAAT-AAAATTA-ATT
*
34335734 AAATAATATTCAAAAATTAAAATTAATT
1 AAAT--TA--CATAAA-TAAAATTAATT
34335762 AAGATTACATAAATAAAA
1 AA-ATTACATAAATAAAA
34335780 AAATATTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
24 12 0.22
25 17 0.31
26 4 0.07
27 4 0.07
28 5 0.09
29 12 0.22
30 1 0.02
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATTACATAAATAAAATTAATT
Found at i:34335807 original size:53 final size:54
Alignment explanation
Indices: 34335699--34335809 Score: 179
Period size: 53 Copynumber: 2.1 Consensus size: 54
34335689 TATAAAATAC
34335699 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
* * * *
34335753 AAATTAATTAAGATTACATAAAT-AAAAAAATATTAAATAATTTTCAACATTTA
1 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
34335806 AAAT
1 AAAT
34335810 AAACCGTTAC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 31 0.58
54 22 0.42
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (54 bp):
AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
Found at i:34335984 original size:132 final size:132
Alignment explanation
Indices: 34335845--34336109 Score: 521
Period size: 132 Copynumber: 2.0 Consensus size: 132
34335835 GACGGAGATA
34335845 TGTTTATGATCGAGACGAATTAATTTTCCGGTTATTGCTAACACAATCAAATATTTTTGAAATTA
1 TGTTTATGATCGAGACGAATTAATTTTCCGGTTATTGCTAACACAATCAAATATTTTTGAAATTA
34335910 TAAAAAAATATATTATTAATTTTAAAAAATAAAGTAAATAACTAATTATAAAGAGCTTTGAGAAA
66 TAAAAAAATATATTATTAATTTTAAAAAATAAAGTAAATAACTAATTATAAAGAGCTTTGAGAAA
34335975 TT
131 TT
*
34335977 TGTTTATGATCGAGACTAATTAATTTTCCGGTTATTGCTAACACAATCAAATATTTTTGAAATTA
1 TGTTTATGATCGAGACGAATTAATTTTCCGGTTATTGCTAACACAATCAAATATTTTTGAAATTA
34336042 TAAAAAAATATATTATTAATTTTAAAAAATAAAGTAAATAACTAATTATAAAGAGCTTTGAGAAA
66 TAAAAAAATATATTATTAATTTTAAAAAATAAAGTAAATAACTAATTATAAAGAGCTTTGAGAAA
34336107 TT
131 TT
34336109 T
1 T
34336110 AATGAGAAAT
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.38
Consensus pattern (132 bp):
TGTTTATGATCGAGACGAATTAATTTTCCGGTTATTGCTAACACAATCAAATATTTTTGAAATTA
TAAAAAAATATATTATTAATTTTAAAAAATAAAGTAAATAACTAATTATAAAGAGCTTTGAGAAA
TT
Found at i:34336726 original size:10 final size:10
Alignment explanation
Indices: 34336711--34336778 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
34336701 AATTTTCTAA
34336711 AAAAAATATT
1 AAAAAATATT
34336721 AAAAAAATCATT
1 -AAAAAAT-ATT
*
34336733 -AAAAATCATA
1 AAAAAAT-ATT
34336743 AAAAAATATT
1 AAAAAATATT
** *
34336753 AAAATTTTATA
1 AAAA-AATATT
34336764 AAAAAATATT
1 AAAAAATATT
34336774 AAAAA
1 AAAAA
34336779 TTATGGTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
10 23 0.50
11 20 0.43
12 3 0.07
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAAAATATT
Found at i:34336726 original size:11 final size:11
Alignment explanation
Indices: 34336710--34336778 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
34336700 CAATTTTCTA
34336710 AAAAAAATATT
1 AAAAAAATATT
34336721 AAAAAAATCATT
1 AAAAAAAT-ATT
34336733 --AAAAATCA-T
1 AAAAAAAT-ATT
34336742 AAAAAAATATT
1 AAAAAAATATT
***
34336753 AAAATTTTA-T
1 AAAAAAATATT
34336763 AAAAAAATATT
1 AAAAAAATATT
34336774 AAAAA
1 AAAAA
34336779 TTATGGTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
9 1 0.02
10 16 0.34
11 27 0.57
12 3 0.06
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAAAAATATT
Found at i:34336737 original size:21 final size:20
Alignment explanation
Indices: 34336712--34336779 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 20
34336702 ATTTTCTAAA
34336712 AAAAATATTAAAAAAATCATT
1 AAAAATATTAAAAAAAT-ATT
34336733 AAAAATCA-TAAAAAAATATT
1 AAAAAT-ATTAAAAAAATATT
* *
34336753 AAAATTTTATAAAAAAATATT
1 AAAAATAT-TAAAAAAATATT
34336774 AAAAAT
1 AAAAAT
34336780 TATGGTTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.20
21 32 0.78
22 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATATTAAAAAAATATT
Found at i:34336782 original size:20 final size:20
Alignment explanation
Indices: 34336720--34336782 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 20
34336710 AAAAAAATAT
*
34336720 TAAAAAAATCATTAAAAATCA
1 TAAAAAAAT-ATTAAAAATTA
*
34336741 TAAAAAAATATTAAAATTTTA
1 TAAAAAAATATTAAAA-ATTA
34336762 TAAAAAAATATTAAAAATTA
1 TAAAAAAATATTAAAAATTA
34336782 T
1 T
34336783 GGTTAAGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.29
21 27 0.71
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAAATATTAAAAATTA
Found at i:34343329 original size:16 final size:16
Alignment explanation
Indices: 34343308--34343338 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34343298 TTCACTATTA
*
34343308 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
34343324 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
34343339 GCATGCACAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:34344437 original size:13 final size:13
Alignment explanation
Indices: 34344419--34344443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34344409 GGATTGTTCA
34344419 ATTAAAGAATTTG
1 ATTAAAGAATTTG
34344432 ATTAAAGAATTT
1 ATTAAAGAATTT
34344444 TCTCAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAAAGAATTTG
Found at i:34346154 original size:20 final size:20
Alignment explanation
Indices: 34346126--34346183 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
34346116 TAAAAAAAAT
*
34346126 AATCAATTGAAACCAAGAAC
1 AATCGATTGAAACCAAGAAC
*
34346146 AAAT-GATTGAAACCAAGAGC
1 -AATCGATTGAAACCAAGAAC
*
34346166 AATCGATTAAAACCAAGA
1 AATCGATTGAAACCAAGA
34346184 GTAAAAAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.16
Consensus pattern (20 bp):
AATCGATTGAAACCAAGAAC
Found at i:34346292 original size:20 final size:20
Alignment explanation
Indices: 34346267--34346305 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34346257 AGTAGCTTGC
34346267 TAAACAAACTTAAGAACTGG
1 TAAACAAACTTAAGAACTGG
*
34346287 TAAACAAACTTAATAACTG
1 TAAACAAACTTAAGAACTG
34346306 CCTAACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.23
Consensus pattern (20 bp):
TAAACAAACTTAAGAACTGG
Found at i:34347241 original size:45 final size:45
Alignment explanation
Indices: 34347177--34347268 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
34347167 AAGTTTAAGA
*
34347177 TTACTGAAGATTGCTCACAAAGCATAATGTAAAACAATTGCTCTT
1 TTACTGAAGATTGCTCACAAAGCATAATATAAAACAATTGCTCTT
*
34347222 TTACTGAAGATTGCTCACAAAGCATAATATGAAACAATTGCTCTT
1 TTACTGAAGATTGCTCACAAAGCATAATATAAAACAATTGCTCTT
34347267 TT
1 TT
34347269 GTTTGGCAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (45 bp):
TTACTGAAGATTGCTCACAAAGCATAATATAAAACAATTGCTCTT
Found at i:34350025 original size:15 final size:15
Alignment explanation
Indices: 34350005--34350034 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34349995 AAACAAAACA
34350005 TGATTTCTACTAATC
1 TGATTTCTACTAATC
*
34350020 TGATTTTTACTAATC
1 TGATTTCTACTAATC
34350035 CAGTTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (15 bp):
TGATTTCTACTAATC
Found at i:34358560 original size:18 final size:16
Alignment explanation
Indices: 34358523--34358577 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
34358513 GTTTTTTATA
34358523 TTTTTTATATATT-AT
1 TTTTTTATATATTAAT
* *
34358538 TTTTTATAAATTTTAAT
1 TTTTT-TATATATTAAT
34358555 TTTTTTATATATTAAT
1 TTTTTTATATATTAAT
34358571 TTTTTTA
1 TTTTTTA
34358578 CATTTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.15
16 22 0.65
17 7 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTATATATTAAT
Found at i:34358593 original size:34 final size:33
Alignment explanation
Indices: 34358516--34358605 Score: 100
Period size: 32 Copynumber: 2.8 Consensus size: 33
34358506 TATTATAGTT
*
34358516 TTTTATATTTTTTATATATT-ATTTTTTATAAA
1 TTTTAAATTTTTTATATATTAATTTTTTATAAA
* *
34358548 TTTTAATTTTTTTATATATTAATTTTTT-TACAT
1 TTTTAAATTTTTTATATATTAATTTTTTATA-AA
34358581 TTTTAAAATTTTTT-TA-A-TAATTTTT
1 TTTT-AAATTTTTTATATATTAATTTTT
34358606 GAGATGTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
31 8 0.16
32 21 0.41
33 14 0.27
34 8 0.16
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (33 bp):
TTTTAAATTTTTTATATATTAATTTTTTATAAA
Found at i:34359033 original size:17 final size:18
Alignment explanation
Indices: 34358992--34359034 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
34358982 TGTATTTACT
34358992 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
34359010 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
34359027 TATTATAT
1 TATTATAT
34359035 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:34359045 original size:18 final size:17
Alignment explanation
Indices: 34359022--34359058 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
34359012 ATATAAAGTA
*
34359022 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
34359040 AATTATAATATATTAAT
1 AATTATAATATATTAAT
34359057 AA
1 AA
34359059 AATAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:34366316 original size:17 final size:18
Alignment explanation
Indices: 34366275--34366317 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
34366265 TGTATTCACT
34366275 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
34366293 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
34366310 TATTATAT
1 TATTATAT
34366318 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:34367289 original size:6 final size:6
Alignment explanation
Indices: 34367272--34367309 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
34367262 CCTGAATATG
* *
34367272 ACTGTT AGTGTT ACTGTT ATTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
34367310 CCTACAGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.50
Consensus pattern (6 bp):
ACTGTT
Found at i:34373293 original size:36 final size:35
Alignment explanation
Indices: 34373241--34373311 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
34373231 AGCAATTGAA
34373241 TAACAAAAAGGAAAAAAAATAAAGGGAAAGAGACG
1 TAACAAAAAGGAAAAAAAATAAAGGGAAAGAGACG
* *
34373276 NTAACAAAAAGGTAAAAAAATTAAGGGAAAGAGACG
1 -TAACAAAAAGGAAAAAAAATAAAGGGAAAGAGACG
34373312 AAAAAGAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.62, C:0.06, G:0.23, T:0.08
Consensus pattern (35 bp):
TAACAAAAAGGAAAAAAAATAAAGGGAAAGAGACG
Found at i:34373330 original size:37 final size:36
Alignment explanation
Indices: 34373245--34373331 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
34373235 ATTGAATAAC
** *
34373245 AAAAAGGAAAAAAAATAAAGGGAAAGAGACGNTAAC
1 AAAAAGGAAAAAAAATAAAGGGAAAGAGACGAAAAA
* *
34373281 AAAAAGGTAAAAAAATTAAGGGAAAGAGACGAAAAA
1 AAAAAGGAAAAAAAATAAAGGGAAAGAGACGAAAAA
* *
34373317 GAAGAAGGGAAAAAA
1 -AAAAAGGAAAAAAA
34373332 GAAAATAGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 31 0.72
37 12 0.28
ACGTcount: A:0.66, C:0.03, G:0.24, T:0.06
Consensus pattern (36 bp):
AAAAAGGAAAAAAAATAAAGGGAAAGAGACGAAAAA
Found at i:34376093 original size:16 final size:16
Alignment explanation
Indices: 34376072--34376112 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
34376062 ATGAAAGCTT
*
34376072 AAAATGGTGTTTTAGC
1 AAAATGATGTTTTAGC
34376088 AAAATGATGTTTTAGC
1 AAAATGATGTTTTAGC
34376104 AAAATGATG
1 AAAATGATG
34376113 GCTAATGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (16 bp):
AAAATGATGTTTTAGC
Found at i:34376874 original size:26 final size:26
Alignment explanation
Indices: 34376845--34376952 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
34376835 TGGTACAAAT
*
34376845 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
**
34376871 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
34376897 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
34376923 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
34376949 TGAT
1 TGAT
34376953 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:34380079 original size:7 final size:7
Alignment explanation
Indices: 34380067--34380183 Score: 117
Period size: 7 Copynumber: 16.4 Consensus size: 7
34380057 ACAATTGAAG
34380067 ACCCTAA
1 ACCCTAA
34380074 ACCCTAA
1 ACCCTAA
*
34380081 ACCATAA
1 ACCCTAA
*
34380088 ACTCTAA
1 ACCCTAA
*
34380095 ACCATAA
1 ACCCTAA
*
34380102 ACCATAA
1 ACCCTAA
34380109 ACCCTAA
1 ACCCTAA
*
34380116 ACCTTAAA
1 ACCCT-AA
34380124 ACCCTAA
1 ACCCTAA
*
34380131 ACTCTAA
1 ACCCTAA
*
34380138 ACACTAAA
1 ACCCT-AA
*
34380146 ACCATAA
1 ACCCTAA
*
34380153 ACCATAA
1 ACCCTAA
*
34380160 ACTCTAA
1 ACCCTAA
*
34380167 ACCATAA
1 ACCCTAA
34380174 ACCCTAA
1 ACCCTAA
34380181 ACC
1 ACC
34380184 ATCTACCAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
7 80 0.88
8 11 0.12
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (7 bp):
ACCCTAA
Found at i:34380096 original size:21 final size:21
Alignment explanation
Indices: 34380067--34380183 Score: 144
Period size: 21 Copynumber: 5.5 Consensus size: 21
34380057 ACAATTGAAG
34380067 ACCCTAAACCCTAAACCATAA
1 ACCCTAAACCCTAAACCATAA
* *
34380088 ACTCTAAACCATAAACCATAA
1 ACCCTAAACCCTAAACCATAA
* *
34380109 ACCCTAAACCTTAAAACCCTAA
1 ACCCTAAACCCT-AAACCATAA
* *
34380131 ACTCTAAACACTAAAACCATAA
1 ACCCTAAACCCT-AAACCATAA
* *
34380153 ACCATAAACTCTAAACCATAA
1 ACCCTAAACCCTAAACCATAA
34380174 ACCCTAAACC
1 ACCCTAAACC
34380184 ATCTACCAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
21 46 0.57
22 35 0.43
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
ACCCTAAACCCTAAACCATAA
Found at i:34384632 original size:9 final size:9
Alignment explanation
Indices: 34384611--34384640 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34384601 TTCCCAAAAT
34384611 ATTAATT-A
1 ATTAATTAA
34384619 ATTAATTAA
1 ATTAATTAA
34384628 ATTAATTAA
1 ATTAATTAA
34384637 ATTA
1 ATTA
34384641 CCTCCTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTAATTAA
Found at i:34387424 original size:36 final size:35
Alignment explanation
Indices: 34387377--34387447 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
34387367 GCATTTGAAA
34387377 ACAAAAGGAAAAGGGAAAGACAAATCTTACATTAC
1 ACAAAAGGAAAAGGGAAAGACAAATCTTACATTAC
* * *
34387412 NACAAAAGGAAAAGGTAAAGAGAAATCTTACCTTAC
1 -ACAAAAGGAAAAGGGAAAGACAAATCTTACATTAC
34387448 GAAAACTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.15
Consensus pattern (35 bp):
ACAAAAGGAAAAGGGAAAGACAAATCTTACATTAC
Found at i:34401589 original size:22 final size:22
Alignment explanation
Indices: 34401563--34401609 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
34401553 TGTTAATTTT
*
34401563 AAATGA-CATTATAGAAAAATTA
1 AAATGATCATGATA-AAAAATTA
*
34401585 AAATGATCATGATAAAAATTTA
1 AAATGATCATGATAAAAAATTA
34401607 AAA
1 AAA
34401610 CTTTGGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.28
Consensus pattern (22 bp):
AAATGATCATGATAAAAAATTA
Found at i:34405352 original size:34 final size:34
Alignment explanation
Indices: 34405304--34405374 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
34405294 AAAAAAAATT
* * *
34405304 TAACAAACTCAGCTTCTTACTCTCATTATCAAGC
1 TAACAAACTCAGCTTCCTACTCTCACTAACAAGC
* *
34405338 TAACAAACTTAGCTTCCTACTCTTACTAACAAGC
1 TAACAAACTCAGCTTCCTACTCTCACTAACAAGC
34405372 TAA
1 TAA
34405375 TGATCTCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (34 bp):
TAACAAACTCAGCTTCCTACTCTCACTAACAAGC
Found at i:34406638 original size:13 final size:13
Alignment explanation
Indices: 34406620--34406650 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
34406610 GTGAGTAAAA
34406620 CATATAACCATAT
1 CATATAACCATAT
34406633 CATATAACCATAT
1 CATATAACCATAT
34406646 CATAT
1 CATAT
34406651 TGTAATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (13 bp):
CATATAACCATAT
Found at i:34406869 original size:34 final size:34
Alignment explanation
Indices: 34406826--34406939 Score: 122
Period size: 34 Copynumber: 3.4 Consensus size: 34
34406816 CAGATATATG
* *
34406826 AGTAACTACACCACACCAGGTTGCTCGTTAAAGC
1 AGTAACTACACCACACCAGATTGCTCGTCAAAGC
* * *
34406860 AGTAACTACACCACACCAGATTGCTTGTCAGAGT
1 AGTAACTACACCACACCAGATTGCTCGTCAAAGC
* * * * *
34406894 AATAACTACACCACACTAGATTACTC-TGACGAGC
1 AGTAACTACACCACACCAGATTGCTCGTCA-AAGC
34406928 AGTAACTACACC
1 AGTAACTACACC
34406940 TTACCAGCTC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
33 2 0.03
34 65 0.97
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (34 bp):
AGTAACTACACCACACCAGATTGCTCGTCAAAGC
Found at i:34413282 original size:17 final size:17
Alignment explanation
Indices: 34413262--34413305 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
34413252 TTCATAAGCA
34413262 TATATCATTCATTTCAT-
1 TATATCATT-ATTTCATC
*
34413279 TATATCAATATTTCATGC
1 TATATCATTATTTCAT-C
34413297 TATATCATT
1 TATATCATT
34413306 TCCATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 8 0.35
ACGTcount: A:0.32, C:0.16, G:0.02, T:0.50
Consensus pattern (17 bp):
TATATCATTATTTCATC
Found at i:34413577 original size:46 final size:46
Alignment explanation
Indices: 34413525--34413829 Score: 369
Period size: 46 Copynumber: 6.6 Consensus size: 46
34413515 TGACATAGTG
* ** *
34413525 TCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
* * *
34413571 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATAGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
* * * *
34413617 TCTTTCAACCATGGTCTTATTTATTTCCCT-TCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTT-CATGTCATGCTGCCATGGTA
* * ** * *
34413663 TCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCAATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
* * *
34413709 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
* * * *
34413755 TCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
*
34413801 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
34413830 ATCAGAGAGC
Statistics
Matches: 232, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
45 2 0.01
46 228 0.98
47 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
Found at i:34413720 original size:138 final size:138
Alignment explanation
Indices: 34413525--34413827 Score: 410
Period size: 138 Copynumber: 2.2 Consensus size: 138
34413515 TGACATAGTG
* *** *
34413525 TCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCAATGGTATCTTTCAACCATGGTCTTA
** * *** * * *
34413590 TTCATTTCATGTCACGCTGCCATAGTATCTTTCAACCATGGTCTTATTTATTTCCCT-TCATGTT
66 CACATTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACACATTT-CATATCAGGCT
34413654 GCCATGGTA
130 GCCATGGTA
* *
34413663 TCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCAATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCAATGGTATCTTTCAACCATGGTCTTA
* * *
34413728 CACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTG
66 CACATTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
34413793 CCATGGTA
131 CCATGGTA
*
34413801 TCTTTCAACCATGGTCTTACACATTTC
1 TCTTTCAACCATGGTCTTACTCATTTC
34413828 ATATCAGAGA
Statistics
Matches: 142, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
137 2 0.01
138 140 0.99
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (138 bp):
TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCAATGGTATCTTTCAACCATGGTCTTA
CACATTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
CCATGGTA
Found at i:34416007 original size:18 final size:20
Alignment explanation
Indices: 34415992--34416028 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34415982 TAATAATAAA
*
34415992 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
34416012 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
34416029 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:34420101 original size:72 final size:72
Alignment explanation
Indices: 34419980--34420383 Score: 792
Period size: 72 Copynumber: 5.6 Consensus size: 72
34419970 GCTTACAACT
*
34419980 TAAC-AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
34420044 ACTACAC
66 ACTACAC
34420051 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
34420116 ACTACAC
66 ACTACAC
34420123 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
34420188 ACTACAC
66 ACTACAC
34420195 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
34420260 ACTACAC
66 ACTACAC
34420267 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
34420332 ACTACAC
66 ACTACAC
34420339 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
34420384 AATAATAATA
Statistics
Matches: 331, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
71 4 0.01
72 327 0.99
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.27
Consensus pattern (72 bp):
TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
ACTACAC
Found at i:34420392 original size:3 final size:3
Alignment explanation
Indices: 34420384--34420418 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
34420374 ATTACATCCA
34420384 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34420419 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34430972 original size:23 final size:24
Alignment explanation
Indices: 34430940--34431011 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 24
34430930 CCATATAGCC
* * *
34430940 ACATAACAGGAAGTTCA-AACGAG
1 ACATATCAGGAAGCTCACAAAGAG
*
34430963 TCATATCAGGAAGCTCACAAAGAG
1 ACATATCAGGAAGCTCACAAAGAG
* *
34430987 ACTATATCAGGACGCTCATAAAGAG
1 AC-ATATCAGGAAGCTCACAAAGAG
34431012 CTGTGTTTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.35
24 6 0.15
25 20 0.50
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (24 bp):
ACATATCAGGAAGCTCACAAAGAG
Found at i:34433920 original size:45 final size:45
Alignment explanation
Indices: 34433870--34433959 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
34433860 ATCTTTATGA
*
34433870 TTTTAATGATTTTAAATAGAAAATACTAGTTTTGCCACGTGGCAT
1 TTTTAATGATTTTAAATAAAAAATACTAGTTTTGCCACGTGGCAT
34433915 TTTTAATGATTTTAAATAAAAAATACTAGTTTTGCCACGTGGCAT
1 TTTTAATGATTTTAAATAAAAAATACTAGTTTTGCCACGTGGCAT
34433960 AATCTTGGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (45 bp):
TTTTAATGATTTTAAATAAAAAATACTAGTTTTGCCACGTGGCAT
Found at i:34445057 original size:57 final size:57
Alignment explanation
Indices: 34444968--34445077 Score: 211
Period size: 57 Copynumber: 1.9 Consensus size: 57
34444958 ATCCGCTCAC
*
34444968 CAAAGTCACAACATTCAAGCCAGTAGCTTGAAGATGGAAGTTGATCCCAAACAATAA
1 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAATAA
34445025 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACA
1 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACA
34445078 GCAGCAAAGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (57 bp):
CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAATAA
Found at i:34445086 original size:57 final size:57
Alignment explanation
Indices: 34444968--34445099 Score: 210
Period size: 57 Copynumber: 2.3 Consensus size: 57
34444958 ATCCGCTCAC
* *
34444968 CAAAGTCACAACATTCAAGCCAGTAGCTTGAAGATGGAAGTTGATCCCAAACAATAA
1 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAACAA
* *
34445025 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAGCAG
1 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAACAA
* *
34445082 CAAAGTCGCGACATTCAA
1 CAAAGTCACAACATTCAA
34445100 CACGGTCTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.17
Consensus pattern (57 bp):
CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAACAA
Found at i:34447556 original size:16 final size:15
Alignment explanation
Indices: 34447528--34447570 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
34447518 TCAGTCATGC
34447528 AATACTCAATTCATA
1 AATACTCAATTCATA
*
34447543 AATACATCATTTCATA
1 AATAC-TCAATTCATA
*
34447559 CCATACTCAATT
1 -AATACTCAATT
34447571 TACGAGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 14 0.61
17 4 0.17
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (15 bp):
AATACTCAATTCATA
Found at i:34447892 original size:41 final size:41
Alignment explanation
Indices: 34447763--34447898 Score: 138
Period size: 41 Copynumber: 3.4 Consensus size: 41
34447753 GCTAGTTTGG
* * *
34447763 CACCCAGTGCCTCATC-AAATAATTCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
* ** * *
34447803 CACTCAGTGTCTCATCG-GCTAAACCG-A--AGTAAATTGG
1 CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
* * *
34447840 CACTCAATGTCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
34447881 CACCCAGTGTCTCATCGA
1 CACCCAGTGTCTCATCGA
34447899 CTTGAAGTCG
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 24 0.32
38 6 0.08
39 2 0.03
40 19 0.25
41 25 0.33
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (41 bp):
CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
Found at i:34458586 original size:244 final size:244
Alignment explanation
Indices: 34458157--34458644 Score: 931
Period size: 244 Copynumber: 2.0 Consensus size: 244
34458147 AGTTGTTTAC
*
34458157 AAACCGTAAGTACGATTTACTGTAAAGCTTTACTCTAGTATGCTTAGTCACCCTCACTTGTACAT
1 AAACCGTAAGTACGATTTACTGTAAAGCTTTACTCGAGTATGCTTAGTCACCCTCACTTGTACAT
34458222 GCATATATTCGAATGGATTGTTTTAGGTTAATATTCCATTAACGTATCTGTTAAATTGTTATATG
66 GCATATATTCGAATGGATTGTTTTAGGTTAATATTCCATTAACGTATCTGTTAAATTGTTATATG
*
34458287 TTTTATTTATAAATATATAATTTGTTTTAATATATGCTGAATTATTATTTAAACATATTATTATA
131 TTTTATTTATAAATATATAATTTGTTTTAATATATGCTGAATTATGATTTAAACATATTATTATA
34458352 TGAACGATATAAATCTTTATGATTCAACATTGATAATGTCATGAGCACT
196 TGAACGATATAAATCTTTATGATTCAACATTGATAATGTCATGAGCACT
* *
34458401 AAACCGTAAGTACGGTTTACTGTAAAGCTTTACTCGAGTATTCTTAGTCACCCTCACTTGTACAT
1 AAACCGTAAGTACGATTTACTGTAAAGCTTTACTCGAGTATGCTTAGTCACCCTCACTTGTACAT
34458466 GCATATATTCGAATGGATTGTTTTAGGTTAATATTCCATTAACGTATCTGTTAAATTGTTATATG
66 GCATATATTCGAATGGATTGTTTTAGGTTAATATTCCATTAACGTATCTGTTAAATTGTTATATG
34458531 TTTTATTTATAAATATATAATTTGTTTTAATATATGCTGAATTATGATTTAAACATATTATTATA
131 TTTTATTTATAAATATATAATTTGTTTTAATATATGCTGAATTATGATTTAAACATATTATTATA
*
34458596 TGAATGATATAAATCTTTATGATTCAACATTGATAATGTCATGAGCACT
196 TGAACGATATAAATCTTTATGATTCAACATTGATAATGTCATGAGCACT
34458645 GATGTATTTT
Statistics
Matches: 239, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
244 239 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (244 bp):
AAACCGTAAGTACGATTTACTGTAAAGCTTTACTCGAGTATGCTTAGTCACCCTCACTTGTACAT
GCATATATTCGAATGGATTGTTTTAGGTTAATATTCCATTAACGTATCTGTTAAATTGTTATATG
TTTTATTTATAAATATATAATTTGTTTTAATATATGCTGAATTATGATTTAAACATATTATTATA
TGAACGATATAAATCTTTATGATTCAACATTGATAATGTCATGAGCACT
Found at i:34474331 original size:31 final size:31
Alignment explanation
Indices: 34474296--34474355 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
34474286 AAGTTAATTC
*
34474296 TTAAACTTGACGATTATTCT-CATATTGGGAT
1 TTAAACTTGACAATTATT-TACATATTGGGAT
*
34474327 TTAAACTTGATAATTATTTACATATTGGG
1 TTAAACTTGACAATTATTTACATATTGGG
34474356 GTCTGAGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (31 bp):
TTAAACTTGACAATTATTTACATATTGGGAT
Found at i:34481637 original size:8 final size:8
Alignment explanation
Indices: 34481595--34481619 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34481585 ATATATACTA
34481595 AATAAAAT
1 AATAAAAT
34481603 AATAAAAT
1 AATAAAAT
34481611 AATAAAAT
1 AATAAAAT
34481619 A
1 A
34481620 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:34481643 original size:29 final size:31
Alignment explanation
Indices: 34481592--34481660 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
34481582 TATATATATA
*
34481592 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
34481621 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
34481652 CTAATTAAA
1 CTAATTAAA
34481661 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:34481940 original size:30 final size:30
Alignment explanation
Indices: 34481873--34481940 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
34481863 CACCCTTAAA
* * *
34481873 ATATTTGCACTATTAGTCCTTAAACTTTTT
1 ATATTTACACTATTAGTCCTCAAACTTTTG
34481903 ATATTTACACT-TTAGTCCCTCAAA-TTTTG
1 ATATTTACACTATTAGT-CCTCAAACTTTTG
34481932 AGTATTTAC
1 A-TATTTAC
34481941 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAGTCCTCAAACTTTTG
Found at i:34484675 original size:17 final size:18
Alignment explanation
Indices: 34484648--34484681 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
34484638 AATAAATATT
34484648 TTTATTTGCTGTAATTTA
1 TTTATTTGCTGTAATTTA
34484666 TTTA-TTGCTGTAATTT
1 TTTATTTGCTGTAATTT
34484682 GCAAACTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.62
Consensus pattern (18 bp):
TTTATTTGCTGTAATTTA
Found at i:34487412 original size:9 final size:9
Alignment explanation
Indices: 34487362--34487413 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
34487352 TTTTCTTTTT
*
34487362 GTTAATTCA
1 GTTAATTCG
* *
34487371 ATTAAATCG
1 GTTAATTCG
* *
34487380 TTTAAATCG
1 GTTAATTCG
34487389 GTTAATTCG
1 GTTAATTCG
34487398 GTTAATTCG
1 GTTAATTCG
34487407 GTTAATT
1 GTTAATT
34487414 TTTATACTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (9 bp):
GTTAATTCG
Found at i:34487920 original size:12 final size:12
Alignment explanation
Indices: 34487903--34487936 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34487893 ATACAGAAGG
34487903 AGATGCAAGAAC
1 AGATGCAAGAAC
*
34487915 AGATGCAAGCAC
1 AGATGCAAGAAC
*
34487927 AAATGCAAGA
1 AGATGCAAGA
34487937 GCAATTGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.24, T:0.09
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:34498035 original size:28 final size:28
Alignment explanation
Indices: 34497995--34498051 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
34497985 TCCCGAGAAG
34497995 CGCTTACTTATAGTCTAAGCTCGACTTA
1 CGCTTACTTATAGTCTAAGCTCGACTTA
*
34498023 CGCTTACTTATAGTCTAAGCTTGACTTA
1 CGCTTACTTATAGTCTAAGCTCGACTTA
34498051 C
1 C
34498052 CTCTCCGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (28 bp):
CGCTTACTTATAGTCTAAGCTCGACTTA
Found at i:34501430 original size:13 final size:13
Alignment explanation
Indices: 34501412--34501437 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34501402 TCACCCTATG
34501412 TCTAGGCGTGCAA
1 TCTAGGCGTGCAA
34501425 TCTAGGCGTGCAA
1 TCTAGGCGTGCAA
34501438 ACAACTCCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
TCTAGGCGTGCAA
Found at i:34504611 original size:17 final size:18
Alignment explanation
Indices: 34504589--34504622 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34504579 TAGTTGACAT
34504589 AACAAATACAA-AAATAA
1 AACAAATACAACAAATAA
*
34504606 AACAAATCCAACAAATA
1 AACAAATACAACAAATA
34504623 TATATATGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.18, G:0.00, T:0.12
Consensus pattern (18 bp):
AACAAATACAACAAATAA
Found at i:34507701 original size:44 final size:44
Alignment explanation
Indices: 34507650--34508209 Score: 292
Period size: 44 Copynumber: 12.6 Consensus size: 44
34507640 CATAGCATAC
* *
34507650 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
** * * * *
34507694 CTTATCTCTTTGAAGTT-CTAGTGGAGTAGACTAAAGATGACAAAT
1 CTTATCTCCCTGAAGTTGC-AGTGGAGTAGATTGAA-ATTACAAGT
* * * ** *
34507739 CTTATCTCCCTGAAGTTGCAGTAGAGTAAATT-ACGACCACTAA-C
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGA-AATTAC-AAGT
* * * * *
34507783 CTTATCTCTCTGAATTTGTAGTGGAGTAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
* *
34507827 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGA-TAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-ATTA-CAAGT
* * * * * * *
34507872 ATTATTTCCCTGAAGTTGCAGTAGAATAGGTTGAAGCTATAAATTATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA---AT-TA-CA-AG-T
* ** * * * * **
34507923 TTTATCTCTTTGAAGTTGCAGTAGAG-AAAATCAAA--ACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
** * * * *
34507964 CTTATCTAACTGAAATTGCAGTGGAATAGGTTGAAATTATAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
* * * * * **
34508008 CTTATCTCCTTAAAGTTGCAGTGGAGCAGACTGAAAACTACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG-AAATTACAAGT
* * * *** *
34508053 CTTATCTCTCTGAAGTTACAGTAGAGTA-AGTTGAAGCCACAAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TTGAAATTACAAGT
* * ** *
34508097 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAACACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
* * ** *
34508140 CTCATATCCCTGAAGTTGCAGTGGAGTAGACTAAAAACTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TTGAAATTACAAGT
* *
34508185 CTTATCTCTCTGAAGTTACAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
34508210 ATGGATCGAA
Statistics
Matches: 377, Mismatches: 116, Indels: 45
0.70 0.22 0.08
Matches are distributed among these distances:
41 19 0.05
42 6 0.02
43 38 0.10
44 153 0.41
45 129 0.34
46 1 0.00
47 2 0.01
49 2 0.01
50 5 0.01
51 22 0.06
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
Found at i:34507760 original size:89 final size:88
Alignment explanation
Indices: 34507650--34507852 Score: 221
Period size: 89 Copynumber: 2.3 Consensus size: 88
34507640 CATAGCATAC
** ** * *
34507650 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGA-AATTAC-AAGTCTTATCTCTTTGAAGTTCT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAATT-ACAACCACTAA-CCTTATCTCTCTGAAGTTCT
34507713 AGTGGAGTAGACTAAAGATGACAAAT
64 AGTGGAGTAGACTAAAG-TGACAAAT
* * * * *
34507739 CTTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGACCACTAACCTTATCTCTCTGAATTTGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTACAACCACTAACCTTATCTCTCTGAAGTTCTAG
** * * *
34507804 TGGAGTAGGTTGAAGTTACAAGT
66 TGGAGTAGACTAAAGTGACAAAT
34507827 CTTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
34507853 TAGACTGAAG
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
88 32 0.34
89 61 0.64
90 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (88 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTACAACCACTAACCTTATCTCTCTGAAGTTCTAG
TGGAGTAGACTAAAGTGACAAAT
Found at i:34507814 original size:133 final size:133
Alignment explanation
Indices: 34507648--34507896 Score: 376
Period size: 133 Copynumber: 1.9 Consensus size: 133
34507638 ATCATAGCAT
**
34507648 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCTTTGAAGTT-C
1 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGC
*
34507712 TAGTGGAGTAGACTAAAGAT-GACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGAC
66 -AGTGGAGTAGACTAAAGATAG-CAAATATTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGAC
34507776 CACTA
129 CACTA
* * * * *
34507781 ACCTTATCTCTCTGAATTTGTAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGC
1 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGC
* *
34507846 AGTGGAGTAGACTGAAGATAGCAAATATTATTTCCCTGAAGTTGCAGTAGA
66 AGTGGAGTAGACTAAAGATAGCAAATATTATCTCCCTGAAGTTGCAGTAGA
34507897 ATAGGTTGAA
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
133 102 0.98
134 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (133 bp):
ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGC
AGTGGAGTAGACTAAAGATAGCAAATATTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGACCA
CTA
Found at i:34508077 original size:314 final size:312
Alignment explanation
Indices: 34507502--34508171 Score: 828
Period size: 314 Copynumber: 2.1 Consensus size: 312
34507492 GCAAGATCGA
* * * * * *
34507502 TGAATTACAAGTCTTGTCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGTTAGCAAATCTTATTTC
1 TGAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATATTATTTC
* * * **
34507567 CTTGAAGTTGCAGTGGACCAGATTGAAGCTATAATTATAGATCTTATCTCTCTGAAGTTTTAGTA
66 CCTGAAGTTGCAGTAGAACAGATTGAAGCTATAATTATAGATCTTATCTCTCTGAAGTTGCAGTA
** * * * ** * *
34507632 GAGAGGATCATAGCATACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTT
131 GAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAACAGGTTGAAATTACAAGTCTT
* * * * *
34507697 ATCTCTTTGAAGTTCTAGTGGAGTAGACTAAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTA
196 ATCTCCTTAAAGTTCTAGTGGAGCAGACTAAAGATGACAAACCTTATCTCCCTGAAGTTACAGTA
* * * * * **
34507762 GAGTAAATT-ACGACCACTAA-CCTTATCTCTCTGAATTTGTAGTGGAGTAGGT
261 GAGTAAATTGAAG-CCAC-AAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
34507814 TGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATATTATTT
1 TGAA-TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATATTATTT
* * * *
34507879 CCCTGAAGTTGCAGTAGAATAGGTTGAAGCTATAAATTATAGATTTTATCTCTTTGAAGTTGCAG
65 CCCTGAAGTTGCAGTAGAACAGATTGAAGCTAT-AATTATAGATCTTATCTCTCTGAAGTTGCAG
* *
34507944 TAGAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAATAGGTTGAAATTATAAGTC
129 TAGAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAACAGGTTGAAATTACAAGTC
*
34508009 TTATCTCCTTAAAGTTGC-AGTGGAGCAGACTGAAA-ACT-ACAAACCTTATCTCTCTGAAGTTA
194 TTATCTCCTTAAAGTT-CTAGTGGAGCAGACT-AAAGA-TGACAAACCTTATCTCCCTGAAGTTA
*
34508071 CAGTAGAGTAAGTTGAAGCCACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
256 CAGTAGAGTAAATTGAAGCCACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* ** * * *
34508128 TAAAACACAAATCTCATATCCCTGAAGTTGCAGTGGAGTAGACT
1 TGAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACT
34508172 AAAAACTACA
Statistics
Matches: 305, Mismatches: 46, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
312 4 0.01
313 119 0.39
314 175 0.57
315 7 0.02
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (312 bp):
TGAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATATTATTTC
CCTGAAGTTGCAGTAGAACAGATTGAAGCTATAATTATAGATCTTATCTCTCTGAAGTTGCAGTA
GAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAACAGGTTGAAATTACAAGTCTT
ATCTCCTTAAAGTTCTAGTGGAGCAGACTAAAGATGACAAACCTTATCTCCCTGAAGTTACAGTA
GAGTAAATTGAAGCCACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
Found at i:34508208 original size:45 final size:44
Alignment explanation
Indices: 34508004--34508209 Score: 200
Period size: 45 Copynumber: 4.7 Consensus size: 44
34507994 TTGAAATTAT
* *
34508004 AAGTCTTATCTCCTTAAAGTTGCAGTGGAGCAGACTGAAAACTAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAACTAC
** * * * * * * * *
34508049 AAACCTTATCTCTCTGAAGTTACAGTAGAGTA-AGTTGAAGCCAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAACTAC
*
34508093 AAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAC-AC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACTAC
* * * *
34508136 AAATCTCATATCCCTGAAGTTGCAGTGGAGTAGACTAAAAACTAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAACTAC
* *
34508181 AAGTCTTATCTCTCTGAAGTTACAGTGGA
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGA
34508210 ATGGATCGAA
Statistics
Matches: 127, Mismatches: 30, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
43 33 0.26
44 42 0.33
45 52 0.41
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (44 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACTAC
Found at i:34508471 original size:19 final size:19
Alignment explanation
Indices: 34508447--34508483 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34508437 AACTACACCC
34508447 AAACCCAAACCCAAAACCA
1 AAACCCAAACCCAAAACCA
* *
34508466 AAACCCTAGCCCAAAACC
1 AAACCCAAACCCAAAACC
34508484 CCAATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.43, G:0.03, T:0.03
Consensus pattern (19 bp):
AAACCCAAACCCAAAACCA
Found at i:34509030 original size:3 final size:3
Alignment explanation
Indices: 34509019--34509138 Score: 109
Period size: 3 Copynumber: 40.0 Consensus size: 3
34509009 ATTATCAATT
* **
34509019 TTA TGTA TTA TTA CTA TTA TTA TTA TTA CCA TTA TTA TTA CTT- TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * * *
34509065 TTA TTT TTA TTA CTA TTA TTA TTA CTA TTT TTG TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
34509113 TT- GTA TTA TTA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
34509139 CATTTTTTTG
Statistics
Matches: 92, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
2 3 0.03
3 84 0.91
4 5 0.05
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:34509319 original size:3 final size:3
Alignment explanation
Indices: 34509298--34509353 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
34509288 CAAACTTTAG
* *
34509298 ATT ATTT ATT ATT -TGT ATT ATT GTT ATT ATT ATT ATC ATT ATT AATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
*
34509345 AGT ATT ATT
1 ATT ATT ATT
34509354 TTTAAAACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 1 0.02
3 35 0.81
4 7 0.16
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:34509518 original size:18 final size:18
Alignment explanation
Indices: 34509497--34509548 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
34509487 TGTTTTATTA
34509497 TTTTATTATTATTTACCC
1 TTTTATTATTATTTACCC
* *
34509515 TTTTTTTATT-TTTTCCC
1 TTTTATTATTATTTACCC
*
34509532 TTATTATTGTTATTTAC
1 TT-TTATTATTATTTAC
34509549 ATTATCACCC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 15 0.56
19 4 0.15
ACGTcount: A:0.17, C:0.13, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTATTATTTACCC
Found at i:34512947 original size:17 final size:16
Alignment explanation
Indices: 34512925--34512965 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
34512915 CTCAAGTATC
34512925 TTTCTTTTCTTTTCTTT
1 TTTCTTTT-TTTTCTTT
*
34512942 TTTCTTTTTTTTTTTT
1 TTTCTTTTTTTTCTTT
34512958 TTTGCTTT
1 TTT-CTTT
34512966 GAAAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTCTTTTTTTTCTTT
Found at i:34514625 original size:13 final size:13
Alignment explanation
Indices: 34514607--34514637 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34514597 ATTCGTCCGG
*
34514607 ATATTTCCAGCAA
1 ATATTTCCAACAA
34514620 ATATTTCCAACAA
1 ATATTTCCAACAA
34514633 ATATT
1 ATATT
34514638 CAAAGAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.35
Consensus pattern (13 bp):
ATATTTCCAACAA
Found at i:34523944 original size:18 final size:18
Alignment explanation
Indices: 34523923--34523963 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
34523913 AATCAGCAAT
* * *
34523923 CAGTAACGGTAGCATTAA
1 CAGTAACAGTAACAATAA
34523941 CAGTAACAGTAACAATAA
1 CAGTAACAGTAACAATAA
34523959 CAGTA
1 CAGTA
34523964 TTCAACACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (18 bp):
CAGTAACAGTAACAATAA
Found at i:34524065 original size:45 final size:45
Alignment explanation
Indices: 34523941--34524053 Score: 190
Period size: 45 Copynumber: 2.5 Consensus size: 45
34523931 GTAGCATTAA
* * *
34523941 CAGTAACAGTAACAATAACAGTATTCAACACACAAAGTGTTGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
*
34523986 CTGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
34524031 CAGTAACAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTAACAGTA
34524054 GTTGGCACAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
Found at i:34524298 original size:19 final size:19
Alignment explanation
Indices: 34524276--34524340 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
34524266 TAGTTCAATG
34524276 CAGTATACATAACAATATT
1 CAGTATACATAACAATATT
* *
34524295 CAGTA-ACTTCACAATTCAATT
1 CAGTATACATAACAA-T--ATT
*
34524316 CAGTACT-CAAAACAATATT
1 CAGTA-TACATAACAATATT
34524335 CAGTAT
1 CAGTAT
34524341 TCCATAATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 11
0.69 0.10 0.21
Matches are distributed among these distances:
18 8 0.22
19 14 0.39
21 9 0.25
22 5 0.14
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (19 bp):
CAGTATACATAACAATATT
Found at i:34524299 original size:40 final size:40
Alignment explanation
Indices: 34524253--34524339 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
34524243 AATTCATTAC
* * * *
34524253 TTCAGTAATTTCATAGTTCAATGCAGTA-TACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACT-CAAAACAATA
*
34524293 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
34524333 TTCAGTA
1 TTCAGTA
34524340 TTCCATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
Found at i:34525107 original size:9 final size:9
Alignment explanation
Indices: 34525093--34525126 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
34525083 GCTTCTGCTG
34525093 TTCTTTTTT
1 TTCTTTTTT
34525102 TTCTTTTTT
1 TTCTTTTTT
34525111 TT-TTTTTGT
1 TTCTTTTT-T
34525120 TTCTTTT
1 TTCTTTT
34525127 CAACACAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 14 0.61
10 4 0.17
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:34526860 original size:31 final size:29
Alignment explanation
Indices: 34526825--34526899 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
34526815 CGGCTCAAGA
34526825 ACTAAAATGTTACAACATATT-AACATAAGTG
1 ACTAAAATGTT--AACAT-TTAAACATAAGTG
*
34526856 ACTAAAATG-TAATATTTCAAACATAAGTG
1 ACTAAAATGTTAACATTT-AAACATAAGTG
34526885 ACTAAAATG-TAACAT
1 ACTAAAATGTTAACAT
34526900 GAGGTAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 2 0.05
28 4 0.10
29 24 0.60
30 1 0.03
31 9 0.22
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.29
Consensus pattern (29 bp):
ACTAAAATGTTAACATTTAAACATAAGTG
Found at i:34533602 original size:5 final size:5
Alignment explanation
Indices: 34533592--34533618 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34533582 GGTACCAAGG
34533592 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
34533619 ATAAAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:34534685 original size:25 final size:25
Alignment explanation
Indices: 34534649--34534701 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
34534639 AGGCAAAACC
*
34534649 ATTATATTGTTTATGTTGTTAAATA
1 ATTATATCGTTTATGTTGTTAAATA
34534674 ATTATATCGTTTATGTTGTTAAATA
1 ATTATATCGTTTATGTTGTTAAATA
34534699 ATT
1 ATT
34534702 TTATACTTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (25 bp):
ATTATATCGTTTATGTTGTTAAATA
Found at i:34536881 original size:14 final size:14
Alignment explanation
Indices: 34536862--34536890 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34536852 AACCCCTAGA
34536862 ATTTTATTTTTATC
1 ATTTTATTTTTATC
34536876 ATTTTATTTTTATC
1 ATTTTATTTTTATC
34536890 A
1 A
34536891 ACAATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTATTTTTATC
Found at i:34551688 original size:49 final size:48
Alignment explanation
Indices: 34551614--34551710 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 48
34551604 TTGGAATCTA
* * *
34551614 TTGGCCAGCATTCTGACGCTATTCATTTTCATGTTTTGAAGTTGTCCC
1 TTGGCCAGCATTCTGACGCCATTCATTTCCATGTTTTAAAGTTGTCCC
*
34551662 NTTGGCCAGCATTCTGACGCCCTTCATTTCCATGTTTTAAAGTTGTCCC
1 -TTGGCCAGCATTCTGACGCCATTCATTTCCATGTTTTAAAGTTGTCCC
34551711 ACCAAAATGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.39
Consensus pattern (48 bp):
TTGGCCAGCATTCTGACGCCATTCATTTCCATGTTTTAAAGTTGTCCC
Found at i:34553219 original size:21 final size:22
Alignment explanation
Indices: 34553193--34553235 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
34553183 TATGCAAAAG
34553193 TTTTTTTA-AAAAAATCATAAA
1 TTTTTTTATAAAAAATCATAAA
* *
34553214 TTTTTTTATCAAATATCATAAA
1 TTTTTTTATAAAAAATCATAAA
34553236 AGTTATTACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTTTTTATAAAAAATCATAAA
Found at i:34553746 original size:12 final size:13
Alignment explanation
Indices: 34553720--34553744 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34553710 GAATTTTTTC
34553720 TTAATTTTAAAAA
1 TTAATTTTAAAAA
34553733 TTAATTTTAAAA
1 TTAATTTTAAAA
34553745 TTTTAGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATTTTAAAAA
Found at i:34555719 original size:199 final size:200
Alignment explanation
Indices: 34555378--34555772 Score: 684
Period size: 199 Copynumber: 2.0 Consensus size: 200
34555368 GAATAGTCTC
* *
34555378 TTACATTTATTCATATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTGCATGAGTATG
1 TTACATTTATTCAAATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTACATGAGTATG
* *
34555443 ATCTGAATTGTTATTTTTGTATACGCATATTTGACATATGTTAAATCTGCATCTACATTGGGTTG
66 ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTG
*
34555508 GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACTGAACTTAGTGGCTAAGCCACAA
131 GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCCACAA
34555573 ATCTG
196 ATCTG
* * *
34555578 TTACATTTATTTAAATAGTTAACATGAAATCTGATAAGTAACTATGACAACCTTACATGAGTAT-
1 TTACATTTATTCAAATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTACATGAGTATG
34555642 ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTG
66 ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTG
* * *
34555707 GGATTGTGAAAAATAGGAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCTACAA
131 GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCCACAA
34555772 A
196 A
34555773 CTTATATTTG
Statistics
Matches: 184, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
199 125 0.68
200 59 0.32
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.34
Consensus pattern (200 bp):
TTACATTTATTCAAATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTACATGAGTATG
ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTG
GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCCACAA
ATCTG
Found at i:34556639 original size:18 final size:20
Alignment explanation
Indices: 34556616--34556659 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
34556606 AAACATTTAG
*
34556616 AAAAATTAT-AA-AAAATCT
1 AAAAATTATAAAGAAAATAT
*
34556634 AAAAATTTTAAAGAAAATAT
1 AAAAATTATAAAGAAAATAT
34556654 AAAAAT
1 AAAAAT
34556660 AAAATTCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 2 0.09
20 12 0.55
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAATTATAAAGAAAATAT
Found at i:34557451 original size:91 final size:91
Alignment explanation
Indices: 34557352--34557540 Score: 265
Period size: 91 Copynumber: 2.1 Consensus size: 91
34557342 TTGATGCATT
*
34557352 AAAAAAAAT-CAGGGGTTTAATTGCTATT-TTTGAAAAAGTTTGAAGACCTTTTTAATACATTTT
1 AAAAAAAATACAGGGGCTTAATTGCT-TTCTTTGAAAAAGTTTGAAGACC-TTTTAATACATTTT
* *
34557415 GAAAGTTCAAGTACTCAATTGAGTGCAA
64 GAAAGGTCAAGTACCCAATTGAGTGCAA
* * * * *
34557443 AAAAAAAATAGAGGGGCTTAATTGCTTTCTTTGAAAAAGTTTGAAGGCCTTTTGATGCATTTTTA
1 AAAAAAAATACAGGGGCTTAATTGCTTTCTTTGAAAAAGTTTGAAGACCTTTTAATACATTTTGA
*
34557508 AAGGTCAAGTACCCAATTGAGTGCCA
66 AAGGTCAAGTACCCAATTGAGTGCAA
34557534 AAAAAAA
1 AAAAAAA
34557541 GGAGCTTAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
91 54 0.62
92 33 0.38
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (91 bp):
AAAAAAAATACAGGGGCTTAATTGCTTTCTTTGAAAAAGTTTGAAGACCTTTTAATACATTTTGA
AAGGTCAAGTACCCAATTGAGTGCAA
Found at i:34561219 original size:3 final size:3
Alignment explanation
Indices: 34561211--34561254 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
34561201 TTTTATGCAT
* * * *
34561211 TTA TTA TTA TTA TTG TTG TTG TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34561255 CATGTTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34562511 original size:13 final size:13
Alignment explanation
Indices: 34562493--34562528 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
34562483 GCCTGGGACA
*
34562493 TGCCCGTGTGGCC
1 TGCCCGTGGGGCC
34562506 TGCCCGTGGGGCC
1 TGCCCGTGGGGCC
*
34562519 AGCCCGTGGG
1 TGCCCGTGGG
34562529 CAAATCTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.03, C:0.36, G:0.44, T:0.17
Consensus pattern (13 bp):
TGCCCGTGGGGCC
Found at i:34563473 original size:52 final size:52
Alignment explanation
Indices: 34563343--34563509 Score: 178
Period size: 52 Copynumber: 3.2 Consensus size: 52
34563333 TCTTACACGG
** *
34563343 ATCACATAACATACCGATGTCATATTCCAGA-TATGGTCTTATACGGAATCACATT
1 ATCACAT--CATACCGATGTCATAGCCCA-ACTATGGTCTTATACGGAAGCACA-T
* * *
34563398 ATCACATCACACTGATGCCATAGCCCAACTATGGTCTTATACAGGAA-CACGA-
1 ATCACATCATACCGATGTCATAGCCCAACTATGGTCTTATAC-GGAAGCAC-AT
** *
34563450 ATCACATTGTACCGATGTCATAGCCCAGCTATGGTCTTATACGGAAGCACAT
1 ATCACATCATACCGATGTCATAGCCCAACTATGGTCTTATACGGAAGCACAT
34563502 ATCACATC
1 ATCACATC
34563510 TTTTCCGTCA
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
51 5 0.05
52 47 0.49
53 31 0.33
54 5 0.05
55 7 0.07
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (52 bp):
ATCACATCATACCGATGTCATAGCCCAACTATGGTCTTATACGGAAGCACAT
Found at i:34564396 original size:14 final size:15
Alignment explanation
Indices: 34564361--34564398 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
34564351 CAATTACATC
34564361 ATATTTTACTATTAA
1 ATATTTTACTATTAA
*
34564376 ATTTTTTACTATTAA
1 ATATTTTACTATTAA
34564391 A-ATTTTAC
1 ATATTTTAC
34564399 CCTATTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTTTACTATTAA
Found at i:34566560 original size:28 final size:28
Alignment explanation
Indices: 34566497--34566560 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 28
34566487 AAAAACTCAA
** *
34566497 AAAATTTAATTAATTACATAAATAACTT
1 AAAATTTAATTAAACACATAAATAACCT
*** *
34566525 ATTTTTTAATTAAACACATAAATGACCT
1 AAAATTTAATTAAACACATAAATAACCT
34566553 AAAATTTA
1 AAAATTTA
34566561 CTGTGAAAGT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (28 bp):
AAAATTTAATTAAACACATAAATAACCT
Found at i:34571176 original size:15 final size:15
Alignment explanation
Indices: 34571156--34571185 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34571146 AAGGAAGAAG
34571156 CGGTGGCGATAGTTT
1 CGGTGGCGATAGTTT
34571171 CGGTGGCGATAGTTT
1 CGGTGGCGATAGTTT
34571186 TTAGCAGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.40, T:0.33
Consensus pattern (15 bp):
CGGTGGCGATAGTTT
Found at i:34573514 original size:23 final size:24
Alignment explanation
Indices: 34573469--34573523 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
34573459 ATAATTTTAA
*
34573469 TAAATAAAAAAATTATTAAA-TTT
1 TAAATAAAAAAATTATAAAATTTT
*
34573492 TAAATAAAAGAA-TATAAATATTTT
1 TAAATAAAAAAATTATAAA-ATTTT
34573516 TAAA-AAAA
1 TAAATAAAA
34573524 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 5 0.18
23 16 0.57
24 7 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAATAAAAAAATTATAAAATTTT
Found at i:34573788 original size:4 final size:4
Alignment explanation
Indices: 34573779--34573803 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
34573769 TAATTTATCC
34573779 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
34573804 GTGGGGCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:34584022 original size:195 final size:195
Alignment explanation
Indices: 34583690--34584084 Score: 781
Period size: 195 Copynumber: 2.0 Consensus size: 195
34583680 ATAGGGAACA
34583690 AGAAGCAAATCCGGTGTTTCTCCGTGGCTTGACTAGTTGCTCCGTTCTTCGTTCTTCGTTGCCCT
1 AGAAGCAAATCCGGTGTTTCTCCGTGGCTTGACTAGTTGCTCCGTTCTTCGTTCTTCGTTGCCCT
*
34583755 CGGCTATCAAGGTGGCTAATGAACATTTAATTGCTGCTCTAAAATGGCTGATGAGAGCTTCTTTC
66 CGGCTATCAAGGTGGCGAATGAACATTTAATTGCTGCTCTAAAATGGCTGATGAGAGCTTCTTTC
34583820 CCAAGAGAAGAAATTGGCACTTGAACAATAAGGGAAATGGGATGGAAAAATGAGAGAAAAGTGAG
131 CCAAGAGAAGAAATTGGCACTTGAACAATAAGGGAAATGGGATGGAAAAATGAGAGAAAAGTGAG
34583885 AGAAGCAAATCCGGTGTTTCTCCGTGGCTTGACTAGTTGCTCCGTTCTTCGTTCTTCGTTGCCCT
1 AGAAGCAAATCCGGTGTTTCTCCGTGGCTTGACTAGTTGCTCCGTTCTTCGTTCTTCGTTGCCCT
34583950 CGGCTATCAAGGTGGCGAATGAACATTTAATTGCTGCTCTAAAATGGCTGATGAGAGCTTCTTTC
66 CGGCTATCAAGGTGGCGAATGAACATTTAATTGCTGCTCTAAAATGGCTGATGAGAGCTTCTTTC
34584015 CCAAGAGAAGAAATTGGCACTTGAACAATAAGGGAAATGGGATGGAAAAATGAGAGAAAAGTGAG
131 CCAAGAGAAGAAATTGGCACTTGAACAATAAGGGAAATGGGATGGAAAAATGAGAGAAAAGTGAG
34584080 AGAAG
1 AGAAG
34584085 GAATGAGAGA
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
195 199 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (195 bp):
AGAAGCAAATCCGGTGTTTCTCCGTGGCTTGACTAGTTGCTCCGTTCTTCGTTCTTCGTTGCCCT
CGGCTATCAAGGTGGCGAATGAACATTTAATTGCTGCTCTAAAATGGCTGATGAGAGCTTCTTTC
CCAAGAGAAGAAATTGGCACTTGAACAATAAGGGAAATGGGATGGAAAAATGAGAGAAAAGTGAG
Found at i:34593006 original size:19 final size:20
Alignment explanation
Indices: 34592984--34593054 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
34592974 TTTAAAAAAA
34592984 TATAA-ATTTTGAATTTTTT
1 TATAATATTTTGAATTTTTT
34593003 TATAAATATTTTGAA-TTTTT
1 TAT-AATATTTTGAATTTTTT
* * *
34593023 AAAAATTATTTTGAATTATTT
1 TATAA-TATTTTGAATTTTTT
34593044 TATAAT-TTTTG
1 TATAATATTTTG
34593055 TTGAGAGGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 10 0.23
20 18 0.42
21 15 0.35
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
TATAATATTTTGAATTTTTT
Found at i:34593015 original size:21 final size:22
Alignment explanation
Indices: 34592989--34593048 Score: 81
Period size: 19 Copynumber: 2.9 Consensus size: 22
34592979 AAAAATATAA
34592989 ATTTTGAATTTTTTTATAAA-T
1 ATTTTGAATTTTTTTATAAATT
*
34593010 ATTTTGAA--TTTTTAAAAATT
1 ATTTTGAATTTTTTTATAAATT
*
34593030 ATTTTGAATTATTTTATAA
1 ATTTTGAATTTTTTTATAA
34593049 TTTTTGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 9 0.27
20 9 0.27
21 8 0.24
22 7 0.21
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
ATTTTGAATTTTTTTATAAATT
Found at i:34594916 original size:22 final size:20
Alignment explanation
Indices: 34594867--34594918 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
34594857 GGAAATTGGA
*
34594867 GGTCAAGTCTTGAGACCTAG
1 GGTCAAGTCTTGAGACATAG
*
34594887 GGTTAAGTCTTGAGACATAGAG
1 GGTCAAGTCTTGAGACAT--AG
34594909 GGTCAAGTCT
1 GGTCAAGTCT
34594919 CGGGACTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 16 0.59
22 11 0.41
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (20 bp):
GGTCAAGTCTTGAGACATAG
Found at i:34595765 original size:42 final size:42
Alignment explanation
Indices: 34595706--34595786 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
34595696 CTCTAGGGAC
* *
34595706 TGTAACCTTCGAACTAGGGACACACGGCCATGTCTCAGCTCG
1 TGTAACCTTCAAACTAGGGACACACGGCCATGTCCCAGCTCG
* * *
34595748 TGTAACCTTTAAACTAGGGACACATGGCCGTGTCCCAGC
1 TGTAACCTTCAAACTAGGGACACACGGCCATGTCCCAGC
34595787 CTATGTCCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (42 bp):
TGTAACCTTCAAACTAGGGACACACGGCCATGTCCCAGCTCG
Found at i:34597624 original size:29 final size:29
Alignment explanation
Indices: 34597588--34597649 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
34597578 TAAAATTCCG
34597588 CTAA-CTATTGGAATGGTCTAATTACCAT
1 CTAAGCTATTGGAATGGTCTAATTACCAT
34597616 CTAAGCTATTGGAATGGTCTAATTACCAT
1 CTAAGCTATTGGAATGGTCTAATTACCAT
34597645 CTAAG
1 CTAAG
34597650 TCCCCCCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (29 bp):
CTAAGCTATTGGAATGGTCTAATTACCAT
Found at i:34598422 original size:57 final size:57
Alignment explanation
Indices: 34598359--34598531 Score: 337
Period size: 57 Copynumber: 3.0 Consensus size: 57
34598349 ATAGGTATAG
34598359 GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCGGTTATTGTGA
1 GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCGGTTATTGTGA
34598416 GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCGGTTATTGTGA
1 GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCGGTTATTGTGA
*
34598473 GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCTGTTATTGTGA
1 GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCGGTTATTGTGA
34598530 GT
1 GT
34598532 GCATTGAGAG
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 115 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (57 bp):
GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCGGTTATTGTGA
Found at i:34605800 original size:28 final size:28
Alignment explanation
Indices: 34605769--34605831 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
34605759 TCCCATATTA
34605769 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
34605797 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
34605825 ATGGGGT
1 ATGGGGT
34605832 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:34616261 original size:28 final size:28
Alignment explanation
Indices: 34616227--34616289 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
34616217 TCTCATATTA
34616227 ATGGGGTATAGAAAAAGTCTCATAACTT
1 ATGGGGTATAGAAAAAGTCTCATAACTT
* * * *
34616255 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGAAAAAGTCTCATAACTT
34616283 ATGGGGT
1 ATGGGGT
34616290 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGAAAAAGTCTCATAACTT
Found at i:34629738 original size:24 final size:24
Alignment explanation
Indices: 34629711--34629756 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
34629701 TTGAATAAAG
34629711 TCACAATAAAGAATAAATATATGT
1 TCACAATAAAGAATAAATATATGT
* *
34629735 TCACAATAAAGAGTAGATATAT
1 TCACAATAAAGAATAAATATAT
34629757 ATTGCCCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (24 bp):
TCACAATAAAGAATAAATATATGT
Found at i:34637960 original size:16 final size:16
Alignment explanation
Indices: 34637935--34637966 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34637925 ACGAAACTGC
34637935 TTAAAAAAAAGTTAAA
1 TTAAAAAAAAGTTAAA
*
34637951 TTAAACAAAAGTTAAA
1 TTAAAAAAAAGTTAAA
34637967 ACAATAAAAC
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:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (16 bp):
TTAAAAAAAAGTTAAA
Found at i:34639792 original size:20 final size:21
Alignment explanation
Indices: 34639767--34639806 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34639757 CTCTTAAAAC
*
34639767 AGGGC-ACACGCTCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
34639787 AGGGCAACATGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
34639807 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:34640252 original size:43 final size:43
Alignment explanation
Indices: 34640203--34640289 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
34640193 TGGCCGTGTG
* *
34640203 TCACACACGACCTAAACACACTCCCGTGTGGACAATATAAGGC
1 TCACACACGACCTAAACACACTCCCGTATAGACAATATAAGGC
*
34640246 TCACACACGGCCTAAACACACTCCCGTATAGACAATATAAGGC
1 TCACACACGACCTAAACACACTCCCGTATAGACAATATAAGGC
34640289 T
1 T
34640290 ATCTACCAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.36, C:0.32, G:0.15, T:0.17
Consensus pattern (43 bp):
TCACACACGACCTAAACACACTCCCGTATAGACAATATAAGGC
Found at i:34641169 original size:50 final size:46
Alignment explanation
Indices: 34641099--34641545 Score: 260
Period size: 46 Copynumber: 9.5 Consensus size: 46
34641089 AGGTTGACGC
* * * * * *
34641099 CATGTCCTAGATATGTTCTTACATTAGCTCTCACATATCCGTGCTGATA
1 CATGTCCCAGACATGGTCTTACACT-GCT-TCACATAT-CGTGCCGATG
* * * *
34641148 CTATGTCCCAGACATGGTCTTACATTG--ACACATCTCGTAGCCGATT
1 C-ATGTCCCAGACATGGTCTTACACTGCTTCACATATCGT-GCCGATG
* * * *
34641194 CATGTCCCAGACAT-GTCTTACACTGATTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGCTTCACATATCG-TGCCGATG
* *
34641240 CATGTCCCAGACAT-GTCTTACACTAGCTCTCACATATCCCTGCCAATG
1 CATGTCCCAGACATGGTCTTACACT-GCT-TCACATAT-CGTGCCGATG
* * * *
34641288 CCATGTCCCACACATGGTCTTACACTG--ACACATTTATACGTACTGATG
1 -CATGTCCCAGACATGGTCTTACACTGCTTCACA--TAT-CGTGCCGATG
* * *
34641336 CCATGTCCCAAACATGGTCTTACACTG--ACACATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGCTTCACATATCGT-GCCGATG
* *
34641382 CATGTCCCAGACA-GGTCTTACACTGGCTT-ACATCTCAAG-GTCGATG
1 CATGTCCCAGACATGGTCTTACACT-GCTTCACATATC--GTGCCGATG
* * * * * *
34641428 CATGTCCTAGACAT-GTCTTACACTAGC-TCTCGTCTCAATACCGATG
1 CATGTCCCAGACATGGTCTTACACT-GCTTCACATATC-GTGCCGATG
* * *
34641474 CCATGTCCCAAACATGGTCTTATACTGGC-TCTCATAGT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACT-GCTTCACATA-TCGT-GCCGATG
34641522 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
34641546 AGCACACAAA
Statistics
Matches: 324, Mismatches: 49, Indels: 53
0.76 0.12 0.12
Matches are distributed among these distances:
44 21 0.06
45 34 0.10
46 117 0.36
47 28 0.09
48 75 0.23
49 18 0.06
50 31 0.10
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGCTTCACATATCGTGCCGATG
Found at i:34641277 original size:140 final size:141
Alignment explanation
Indices: 34641099--34641548 Score: 386
Period size: 140 Copynumber: 3.2 Consensus size: 141
34641089 AGGTTGACGC
* * * * ** * *
34641099 CATGTCCTAGATATGTTCTTACATTAGCTCTCACATATCCGTGCTGATACTATGTCCCAGACATG
1 CATGTCCCAGACATG-TCTTACACTAGCTCTCACATATCCCTGCCAATACCATGTCCCACACATG
* * * * *
34641164 GTCTTACATTGACACA-TCT-CGTAGCCGAT-TCATGTCCCAGACAT-GTCTTACACTGATTTAC
65 GTCTTACACTGACACATTATACGTA-CCGATGCCATGTCCCAAACATGGTCTTACACTGA--CAC
34641225 ATCTCG-AGGCCGATG
127 ATCTCGTA-GCCGATG
*
34641240 CATGTCCCAGACATGTCTTACACTAGCTCTCACATATCCCTGCCAATGCCATGTCCCACACATGG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCACATATCCCTGCCAATACCATGTCCCACACATGG
*
34641305 TCTTACACTGACACATTTATACGTACTGATGCCATGTCCCAAACATGGTCTTACACTGACACATC
66 TCTTACACTGACACA-TTATACGTACCGATGCCATGTCCCAAACATGGTCTTACACTGACACATC
34641370 TCGTAGCCGATG
130 TCGTAGCCGATG
* * * *** * * * * *
34641382 CATGTCCCAGACAGGTCTTACACTGGCT-T-ACATCTCAAGGTCGAT-GCATGTCCTAGACAT-G
1 CATGTCCCAGACATGTCTTACACTAGCTCTCACATATCCCTGCCAATACCATGTCCCACACATGG
* * * * * *
34641443 TCTTACACT-AGCTC-TCGTCT-CAATACCGATGCCATGTCCCAAACATGGTCTTATACTGGCTC
66 TCTTACACTGA-CACAT--TATAC-GTACCGATGCCATGTCCCAAACATGGTCTTACACTGACAC
* *
34641505 -TCATAGTGTGGCCGATG
127 ATC-T--CGTAGCCGATG
34641522 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
34641549 ACACAAATAA
Statistics
Matches: 259, Mismatches: 37, Indels: 27
0.80 0.11 0.08
Matches are distributed among these distances:
136 1 0.00
137 4 0.02
138 50 0.19
139 12 0.05
140 101 0.39
141 14 0.05
142 47 0.18
143 18 0.07
144 12 0.05
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (141 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCACATATCCCTGCCAATACCATGTCCCACACATGG
TCTTACACTGACACATTATACGTACCGATGCCATGTCCCAAACATGGTCTTACACTGACACATCT
CGTAGCCGATG
Found at i:34644245 original size:27 final size:27
Alignment explanation
Indices: 34644222--34644285 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
34644212 AAATATTCTC
34644222 TAAATTAAT-AAATATTAATTTATTGA
1 TAAATTAATAAAATATTAATTTATTGA
*
34644248 TAAATTAATAAAATATTTATTTATTGA
1 TAAATTAATAAAATATTAATTTATTGA
*
34644275 TAAACTAATAA
1 TAAATTAATAA
34644286 TATCGATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 9 0.26
27 26 0.74
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATTGA
Found at i:34644733 original size:23 final size:26
Alignment explanation
Indices: 34644680--34644734 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
34644670 ATACAAAACA
*
34644680 TAATTAAAAAAATATAAAAAAATTAAT
1 TAATTAAAAAAATATAAAAAAATT-AC
34644707 TAATT-AAAAAATAT-AAAAAATT-C
1 TAATTAAAAAAATATAAAAAAATTAC
34644730 TAATT
1 TAATT
34644735 GAATTGCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 5 0.19
25 8 0.30
26 9 0.33
27 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
TAATTAAAAAAATATAAAAAAATTAC
Found at i:34663402 original size:3 final size:3
Alignment explanation
Indices: 34663394--34663425 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
34663384 AGATAACGTG
34663394 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
34663426 TGACATGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:34672139 original size:207 final size:207
Alignment explanation
Indices: 34671784--34672173 Score: 699
Period size: 207 Copynumber: 1.9 Consensus size: 207
34671774 AGATATATGA
34671784 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
1 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
* * *
34671849 TTATTCATGTCTGCACCTATAGTTAGACATTGGGTTATTGTTGAACAAATTCTATGTTACTTAAA
66 TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
* * *
34671914 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGGAATAGTCGTTCCAATCTCAAGAGAT
131 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCAATCTCAAGAGAT
34671979 ATAAGATGATAG
196 ATAAGATGATAG
* *
34671991 TTGGGAAATTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCTGTGAGTATTGTCAGC
1 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
*
34672056 TTATTCACGTTTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
66 TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
34672121 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCA
131 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCA
34672174 CCTACAGTTA
Statistics
Matches: 174, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
207 174 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (207 bp):
TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCAATCTCAAGAGAT
ATAAGATGATAG
Found at i:34672211 original size:103 final size:103
Alignment explanation
Indices: 34672069--34672261 Score: 298
Period size: 103 Copynumber: 1.9 Consensus size: 103
34672059 TTCACGTTTG
* * **
34672069 CACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAAAGGAGCTTTAGGA
1 CACCTACAGTTAAACATTGGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGGA
*
34672134 TTGGGAATATCATACAACAATCATAGAAATACTCATTC
66 CTGGGAATATCATACAACAATCATAGAAATACTCATTC
* *
34672172 CACCTACAGTTAAACATTGGGC-AATTGTTGAATAGATTCTATGTTACCCAAAAGGAGCTTTAGG
1 CACCTACAGTTAAACATT-GGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGG
*
34672236 GCTGGGAATATCATACAACAATCATA
65 ACTGGGAATATCATACAACAATCATA
34672262 TGACTAATCG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 78 0.96
104 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (103 bp):
CACCTACAGTTAAACATTGGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGGA
CTGGGAATATCATACAACAATCATAGAAATACTCATTC
Found at i:34676679 original size:30 final size:31
Alignment explanation
Indices: 34676643--34676702 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
34676633 CTTTATTTTT
*
34676643 TAAAAAA-ATTTAACAAATCAGTGATTTAAA
1 TAAAAAATATTTAACAAATCAGTAATTTAAA
* * *
34676673 TAAAAAATTTTTAATAATTCAGTAATTTAA
1 TAAAAAATATTTAACAAATCAGTAATTTAA
34676703 GTGAACTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (31 bp):
TAAAAAATATTTAACAAATCAGTAATTTAAA
Found at i:34677803 original size:47 final size:47
Alignment explanation
Indices: 34677728--34677819 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
34677718 TAAATAAAAC
*
34677728 AATTAAAGGAGAAAAAAAACATGAAGAAAACTTAACCAAATTCAAAT
1 AATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTCAAAT
*
34677775 AATTAAAGGAGAAAAAAAACACGGAGAAAACTTAACCAAATTCAA
1 AATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTCAA
34677820 CTTCTTCTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.61, C:0.12, G:0.12, T:0.15
Consensus pattern (47 bp):
AATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTCAAAT
Found at i:34678360 original size:12 final size:12
Alignment explanation
Indices: 34678343--34678367 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34678333 TTATTGAAAA
34678343 AAATAATTTTTT
1 AAATAATTTTTT
34678355 AAATAATTTTTT
1 AAATAATTTTTT
34678367 A
1 A
34678368 TTTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAATAATTTTTT
Done.