Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 228 of 284
Found at i:75905239 original size:20 final size:20
Alignment explanation
Indices: 75905180--75905242 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
75905170 ATTGAAACGA
*
75905180 AAAGAAAGAAGAAAAGAA-GG
1 AAAGAAAGAA-AAAAAAAGGG
** *
75905200 AAAGAAAGGGAAAGAAAGGG
1 AAAGAAAGAAAAAAAAAGGG
75905220 AAAGAAAGAAAAAAAAAGGG
1 AAAGAAAGAAAAAAAAAGGG
75905240 AAA
1 AAA
75905243 ATTAGGGTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
19 5 0.14
20 30 0.86
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAAAAAAAGGG
Found at i:75905243 original size:10 final size:10
Alignment explanation
Indices: 75905198--75905242 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
75905188 AAGAAAAGAA
75905198 GGAAAGAAAG
1 GGAAAGAAAG
75905208 GGAAAGAAAG
1 GGAAAGAAAG
75905218 GGAAAGAAAG
1 GGAAAGAAAG
** *
75905228 AAAAAAAAAG
1 GGAAAGAAAG
75905238 GGAAA
1 GGAAA
75905243 ATTAGGGTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (10 bp):
GGAAAGAAAG
Found at i:75906187 original size:41 final size:43
Alignment explanation
Indices: 75906131--75906221 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 43
75906121 CCTCGAGTCT
**
75906131 ATGAGGCACTATATGTGTTGTAATATTGCTTCGGA-T-AATTCTG
1 ATGAGGCAC-ATATGTGTCATAATATTGCTTCGGATTAAATTC-G
*
75906174 ATGAGGCAC-TATGTGTCATATTATTGCTTCGGATTAAATTCG
1 ATGAGGCACATATGTGTCATAATATTGCTTCGGATTAAATTCG
75906216 ATGAGG
1 ATGAGG
75906222 TAGTAGGTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 21 0.49
42 8 0.19
43 14 0.33
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.37
Consensus pattern (43 bp):
ATGAGGCACATATGTGTCATAATATTGCTTCGGATTAAATTCG
Found at i:75910757 original size:44 final size:44
Alignment explanation
Indices: 75910694--75910781 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
75910684 CTGATATAGT
*
75910694 ACCTTATGGGTACCATTGGACATGATTTGGCGGATCTTGATTTG
1 ACCTTATGGGTACCATTGGACATGATTTGACGGATCTTGATTTG
*
75910738 ACCTTATGGGTACCATTGGACATGATTTGACGGGTCTTGATTTG
1 ACCTTATGGGTACCATTGGACATGATTTGACGGATCTTGATTTG
75910782 TACACCTCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (44 bp):
ACCTTATGGGTACCATTGGACATGATTTGACGGATCTTGATTTG
Found at i:75910938 original size:21 final size:22
Alignment explanation
Indices: 75910914--75910966 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
75910904 CAAGAAAATG
75910914 ATGATACATGACA-AATGATAT
1 ATGATACATGACATAATGATAT
* *
75910935 ATGAAAACATGAGATAATGATAT
1 ATG-ATACATGACATAATGATAT
*
75910958 TTG-TACATG
1 ATGATACATG
75910967 GACTTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.31
22 8 0.31
23 10 0.38
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.30
Consensus pattern (22 bp):
ATGATACATGACATAATGATAT
Found at i:75936315 original size:23 final size:23
Alignment explanation
Indices: 75936242--75936330 Score: 107
Period size: 21 Copynumber: 4.1 Consensus size: 23
75936232 TACCTAATCA
*
75936242 ATATACGACACAT-AAGTGCTTG
1 ATATACGACACATAAAGTGCCTG
** *
75936264 A-A-ACGACACACGAGGTGCCTG
1 ATATACGACACATAAAGTGCCTG
75936285 --ATACGACACATAAAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
75936306 ATATACGACACATAAAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
75936329 AT
1 AT
75936331 CGGCAAAGCC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 9 0.16
21 24 0.42
22 1 0.02
23 23 0.40
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (23 bp):
ATATACGACACATAAAGTGCCTG
Found at i:75936326 original size:44 final size:41
Alignment explanation
Indices: 75936244--75936330 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
75936234 CCTAATCAAT
* * *
75936244 ATACGACACATAAGTGCTTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
75936285 ATACGACACATAAAGTGCCTGATATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
75936329 AT
1 AT
75936331 CGGCAAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 11 0.28
42 9 0.23
43 1 0.03
44 18 0.46
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:75937758 original size:31 final size:32
Alignment explanation
Indices: 75937702--75937764 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
75937692 TACATTTGTC
*
75937702 ATAATTTAATTTATTTATTACATAAAAATCTT
1 ATAATATAATTTATTTATTACATAAAAATCTT
*
75937734 ATAATATAA-TTATTTAATTA-ATAAATATCTT
1 ATAATATAATTTATTT-ATTACATAAAAATCTT
75937765 TTACTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
ATAATATAATTTATTTATTACATAAAAATCTT
Found at i:75937772 original size:18 final size:19
Alignment explanation
Indices: 75937744--75937797 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
75937734 ATAATATAAT
75937744 TATTTAATTAATAAATATC
1 TATTTAATTAATAAATATC
* *
75937763 T-TTTACTTAATAATTATC
1 TATTTAATTAATAAATATC
75937781 TATTTAA-TAACTAAATA
1 TATTTAATTAA-TAAATA
75937798 CAAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTAATTAATAAATATC
Found at i:75938014 original size:20 final size:20
Alignment explanation
Indices: 75937974--75938010 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
75937964 TTACAAATGT
75937974 ATGTATAATATTTATTACAC
1 ATGTATAATATTTATTACAC
*
75937994 ATGTAT-ATTTTTATTAC
1 ATGTATAATATTTATTAC
75938011 CACACATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATGTATAATATTTATTACAC
Found at i:75941210 original size:24 final size:24
Alignment explanation
Indices: 75941183--75941232 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
75941173 TTACTTTTAT
*
75941183 TGATGGTTATTCTAAATATTGCTA
1 TGATGATTATTCTAAATATTGCTA
75941207 TGATGATTATTCTAAATATTGCTA
1 TGATGATTATTCTAAATATTGCTA
75941231 TG
1 TG
75941233 TATATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (24 bp):
TGATGATTATTCTAAATATTGCTA
Found at i:75943775 original size:20 final size:18
Alignment explanation
Indices: 75943725--75943776 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
75943715 CTACAAGATA
*
75943725 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTC
75943742 AATATTAAGA-TAATCACTTC
1 AATATTAA-ATTAAT-A-TTC
75943762 AATATTAAATTAATA
1 AATATTAAATTAATA
75943777 AAATAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 3 0.10
20 14 0.48
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (18 bp):
AATATTAAATTAATATTC
Found at i:75945701 original size:30 final size:30
Alignment explanation
Indices: 75945658--75945714 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
75945648 CAGACACTTC
*
75945658 CACACGGGTAAACCACACACCCGTGTGAGG
1 CACACGGGCAAACCACACACCCGTGTGAGG
* **
75945688 CACATGGGCAAACCACATGCCCGTGTG
1 CACACGGGCAAACCACACACCCGTGTG
75945715 TCATGGCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.33, G:0.26, T:0.12
Consensus pattern (30 bp):
CACACGGGCAAACCACACACCCGTGTGAGG
Found at i:75950380 original size:16 final size:15
Alignment explanation
Indices: 75950353--75950391 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
75950343 TCTTTCCCCC
75950353 TTCCTTTC-TTCTTT
1 TTCCTTTCTTTCTTT
75950367 TTCCTTTCTTTTCTTT
1 TTCCTTTC-TTTCTTT
75950383 TTCCTTTCT
1 TTCCTTTCT
75950392 ACCGACTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
15 1 0.04
16 14 0.61
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCCTTTCTTTCTTT
Found at i:75952122 original size:18 final size:18
Alignment explanation
Indices: 75952095--75952136 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
75952085 TTTGAGTCCC
75952095 TTTA-TTTTACTATTATT
1 TTTATTTTTACTATTATT
*
75952112 TTTATTTTTACTTTTATT
1 TTTATTTTTACTATTATT
75952130 TTTATTT
1 TTTATTT
75952137 AAACTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTTACTATTATT
Found at i:75952126 original size:7 final size:6
Alignment explanation
Indices: 75952107--75952136 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
75952097 TATTTTACTA
*
75952107 TTATTT TTATTT TTACTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
75952137 AAACTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:75952142 original size:18 final size:18
Alignment explanation
Indices: 75952107--75952143 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
75952097 TATTTTACTA
**
75952107 TTATTTTTATTTTTACTT
1 TTATTTTTATTTAAACTT
75952125 TTATTTTTATTTAAACTT
1 TTATTTTTATTTAAACTT
75952143 T
1 T
75952144 ATTGTGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTTTTATTTAAACTT
Found at i:75960455 original size:19 final size:19
Alignment explanation
Indices: 75960427--75960465 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
75960417 TGATAAGTGA
*
75960427 ATACATATGTGCTAA-TAAT
1 ATACACATGTG-TAATTAAT
75960446 ATACACATGTGTAATTAAT
1 ATACACATGTGTAATTAAT
75960465 A
1 A
75960466 AATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (19 bp):
ATACACATGTGTAATTAAT
Found at i:75960583 original size:4 final size:4
Alignment explanation
Indices: 75960576--75960615 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
75960566 AGCAGGGAAG
*
75960576 GAAA GAAA GAAA GAAA GAAA GAAA G-GA GAAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA GAAA GAAA
75960616 AAAAAGGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 2 0.06
4 28 0.88
5 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:75960623 original size:21 final size:20
Alignment explanation
Indices: 75960585--75960628 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
75960575 GGAAAGAAAG
*
75960585 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAGAAAAAAAGGAGA
75960605 AAAGAAAGAAAAAAAAGGAGA
1 AAAGAAAG-AAAAAAAGGAGA
75960626 AAA
1 AAA
75960629 TTTAAGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAAAAAGGAGA
Found at i:75961659 original size:12 final size:12
Alignment explanation
Indices: 75961642--75961666 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75961632 GCTGACTATT
75961642 GTTACTGTTACC
1 GTTACTGTTACC
75961654 GTTACTGTTACC
1 GTTACTGTTACC
75961666 G
1 G
75961667 ATTCGGCACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:75961996 original size:18 final size:18
Alignment explanation
Indices: 75961965--75962079 Score: 106
Period size: 18 Copynumber: 6.3 Consensus size: 18
75961955 ACCGATCAAT
*
75961965 TGATTGATACTGAATAAC
1 TGATTGTTACTGAATAAC
* * *
75961983 TGATTATTATTGAATAAT
1 TGATTGTTACTGAATAAC
*
75962001 TGATTGTTACCGAATAAC
1 TGATTGTTACTGAATAAC
* *
75962019 TGACTGTTACTGAATAAA
1 TGATTGTTACTGAATAAC
* * *
75962037 TAATTGTT-CTGATTGAC
1 TGATTGTTACTGAATAAC
*
75962054 TGATTGTTAATGAATATTAC
1 TGATTGTTACTGAATA--AC
75962074 TGATTG
1 TGATTG
75962080 ATTAATTGCT
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
17 13 0.18
18 53 0.72
20 8 0.11
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.41
Consensus pattern (18 bp):
TGATTGTTACTGAATAAC
Found at i:75963926 original size:13 final size:13
Alignment explanation
Indices: 75963908--75963943 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
75963898 AGCACACGGG
75963908 CGTGTGACTTGAC
1 CGTGTGACTTGAC
75963921 CGTGTGACTTGAC
1 CGTGTGACTTGAC
75963934 CGTGTGACTT
1 CGTGTGACTT
75963944 CAATTTGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (13 bp):
CGTGTGACTTGAC
Found at i:75974914 original size:6 final size:6
Alignment explanation
Indices: 75974884--75974954 Score: 63
Period size: 6 Copynumber: 11.5 Consensus size: 6
75974874 GAAGCCAAAG
* * *
75974884 AAAATA AGAATTA AACAACTA AAAATA AAAATA AACATA AACAT- AAAATA
1 AAAATA A-AAATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
75974934 AAAATA AAAAGA AAAAGA AAA
1 AAAATA AAAATA AAAATA AAA
75974955 CAAATAAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
5 4 0.07
6 40 0.71
7 8 0.14
8 4 0.07
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:75974954 original size:23 final size:23
Alignment explanation
Indices: 75974905--75974954 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
75974895 TAAACAACTA
* * * *
75974905 AAAATAAAAATAAACATAAACAT
1 AAAATAAAAATAAAAAGAAAAAG
75974928 AAAATAAAAATAAAAAGAAAAAG
1 AAAATAAAAATAAAAAGAAAAAG
75974951 AAAA
1 AAAA
75974955 CAAATAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (23 bp):
AAAATAAAAATAAAAAGAAAAAG
Found at i:75975196 original size:8 final size:8
Alignment explanation
Indices: 75975176--75975282 Score: 52
Period size: 8 Copynumber: 13.0 Consensus size: 8
75975166 TACTAAATGG
75975176 AATAAATAA
1 AATAAA-AA
75975185 AATAAAAA
1 AATAAAAA
* *
75975193 AATAAGCAG
1 AATAA-AAA
*
75975202 AATAATAA
1 AATAAAAA
**
75975210 AATAATTA
1 AATAAAAA
**
75975218 AATAATTA
1 AATAAAAA
*
75975226 AATAAATTA
1 AATAAA-AA
* *
75975235 AAGAAAAT
1 AATAAAAA
*
75975243 AATAAAAT
1 AATAAAAA
*
75975251 AATAAAAT
1 AATAAAAA
* *
75975259 GATAAAAT
1 AATAAAAA
75975267 AATAAAAA
1 AATAAAAA
*
75975275 ATTAAAAA
1 AATAAAAA
75975283 TAGGGGAAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
8 63 0.77
9 19 0.23
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (8 bp):
AATAAAAA
Found at i:75975220 original size:38 final size:38
Alignment explanation
Indices: 75975178--75975258 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 38
75975168 CTAAATGGAA
*
75975178 TAAATAAAATAAA-AAAAT-AAGCAGAATAATAAAATAAT
1 TAAAT-AAATAAATAAAATAAAG-AAAATAATAAAATAAT
* *
75975216 TAAATAATTAAATAAATTAAAGAAAATAATAAAATAAT
1 TAAATAAATAAATAAAATAAAGAAAATAATAAAATAAT
*
75975254 AAAAT
1 TAAAT
75975259 GATAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 6 0.16
38 28 0.76
39 3 0.08
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (38 bp):
TAAATAAATAAATAAAATAAAGAAAATAATAAAATAAT
Found at i:75975223 original size:16 final size:16
Alignment explanation
Indices: 75975202--75975284 Score: 77
Period size: 16 Copynumber: 5.4 Consensus size: 16
75975192 AAATAAGCAG
75975202 AATAATAAAATAATTA
1 AATAATAAAATAATTA
*
75975218 AATAATTAAATAAATT-
1 AATAATAAAAT-AATTA
* *
75975234 -A-AAGAAAATAATAA
1 AATAATAAAATAATTA
* *
75975248 AATAATAAAATGATAA
1 AATAATAAAATAATTA
75975264 AATAATAAAA-AATTA
1 AATAATAAAATAATTA
75975279 AA-AATA
1 AATAATA
75975285 GGGGAAATAG
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
13 3 0.05
14 10 0.18
15 7 0.13
16 31 0.56
17 4 0.07
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AATAATAAAATAATTA
Found at i:75988058 original size:25 final size:25
Alignment explanation
Indices: 75988010--75988074 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
75988000 AATTTTTTTT
* *
75988010 GATAGTATATCCTGACACTGCTATA
1 GATAGTATATACTGACACTACTATA
*
75988035 GGTAGTATATACTG-CGACTACTATA
1 GATAGTATATACTGAC-ACTACTATA
* *
75988060 GATAGTCTGTACTGA
1 GATAGTATATACTGA
75988075 AAACACTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (25 bp):
GATAGTATATACTGACACTACTATA
Found at i:75991666 original size:47 final size:47
Alignment explanation
Indices: 75991614--75992774 Score: 2054
Period size: 47 Copynumber: 24.5 Consensus size: 47
75991604 GATAATTGTG
* * *
75991614 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75991661 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75991708 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75991755 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75991802 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75991849 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75991896 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75991943 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75991990 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75992037 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75992084 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75992131 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75992178 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
* *
75992225 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCACGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGG-C-CGATGTGATGA
*
75992274 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
*
75992323 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
*
75992372 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
*
75992421 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75992470 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75992517 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75992564 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
* *
75992611 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
75992658 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
* * * * * *
75992705 ATGTGAAAGTGTATATATGTGA-CAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATGA-GGCCTAATGGCCGATGTGATGA
*
75992752 ATGTGAAAGTGTATAAATGTGAT
1 ATGTGAAAGTGTATATATGTGAT
75992775 AAGTCCCGAA
Statistics
Matches: 1090, Mismatches: 18, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 873 0.80
48 1 0.00
49 191 0.18
50 1 0.00
51 23 0.02
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
Found at i:76001814 original size:49 final size:49
Alignment explanation
Indices: 76001700--76001836 Score: 188
Period size: 49 Copynumber: 2.8 Consensus size: 49
76001690 AGATTACTCA
*
76001700 ACAATAATGATTTTCTCAA-TCCAACCAATCTGTCA-CCTGGGTTGCTCG
1 ACAATAATGATTTTCTCAACT-CAACCAATCTGTCACCCCGGGTTGCTCG
* * *
76001748 AAAATAATGATTTTCTCAACTCAACCAATCTGTCACCCCGTGTTTCTCG
1 ACAATAATGATTTTCTCAACTCAACCAATCTGTCACCCCGGGTTGCTCG
* * *
76001797 ACAACAATGATTTTCTCAACTTAACCAATCTATCACCCCG
1 ACAATAATGATTTTCTCAACTCAACCAATCTGTCACCCCG
76001837 AGTTACTCCA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
48 32 0.41
49 47 0.59
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (49 bp):
ACAATAATGATTTTCTCAACTCAACCAATCTGTCACCCCGGGTTGCTCG
Found at i:76019853 original size:27 final size:25
Alignment explanation
Indices: 76019823--76019873 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
76019813 ATAACTCTTT
76019823 TATTCATAAAATCAAATAATAAATATG
1 TATTCATAAAAT-AAA-AATAAATATG
* *
76019850 TATTTATAAAATAAAAATATATAT
1 TATTCATAAAATAAAAATAAATAT
76019874 TTTACATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 3 0.14
27 11 0.50
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (25 bp):
TATTCATAAAATAAAAATAAATATG
Found at i:76019980 original size:13 final size:14
Alignment explanation
Indices: 76019964--76019996 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
76019954 TATATTTTTC
76019964 TTTATATAT-AATA
1 TTTATATATAAATA
76019977 TTTATATATCAAATA
1 TTTATATAT-AAATA
76019992 TTTAT
1 TTTAT
76019997 TTCTCCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATATATAAATA
Found at i:76020205 original size:22 final size:23
Alignment explanation
Indices: 76020162--76020205 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
76020152 ATTAATTAAT
* **
76020162 TGAAATATCATTAAGTTTATATG
1 TGAAATATCATTAAATACATATG
76020185 TGAAATAT-ATTAAATACATAT
1 TGAAATATCATTAAATACATAT
76020206 ACAAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (23 bp):
TGAAATATCATTAAATACATATG
Found at i:76024340 original size:17 final size:17
Alignment explanation
Indices: 76024318--76024350 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
76024308 GAGTTTAACA
76024318 ATGTTTTTATCTCAAAT
1 ATGTTTTTATCTCAAAT
*
76024335 ATGTTTTTGTCTCAAA
1 ATGTTTTTATCTCAAA
76024351 AGTATGTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (17 bp):
ATGTTTTTATCTCAAAT
Found at i:76030590 original size:3 final size:3
Alignment explanation
Indices: 76030572--76030612 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
76030562 TATTATTATT
* *
76030572 ATC ATC ATT ATT ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
76030613 TATTGTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (3 bp):
ATC
Found at i:76031343 original size:14 final size:14
Alignment explanation
Indices: 76031324--76031351 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
76031314 GGTCGATCCC
76031324 CAACATTTACAACT
1 CAACATTTACAACT
76031338 CAACATTTACAACT
1 CAACATTTACAACT
76031352 AACTCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
CAACATTTACAACT
Found at i:76036416 original size:15 final size:15
Alignment explanation
Indices: 76036393--76036431 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
76036383 ACTGTTATAG
*
76036393 TGTGTGGCACACGAT
1 TGTGCGGCACACGAT
76036408 TGTGCGGCACACGAT
1 TGTGCGGCACACGAT
76036423 TGTGCGGCA
1 TGTGCGGCA
76036432 AACCGTGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.18, C:0.23, G:0.36, T:0.23
Consensus pattern (15 bp):
TGTGCGGCACACGAT
Found at i:76037346 original size:14 final size:13
Alignment explanation
Indices: 76037288--76037449 Score: 93
Period size: 13 Copynumber: 12.3 Consensus size: 13
76037278 CCAATGTTCC
76037288 ATTTCATA-ATCT
1 ATTTCATATATCT
*
76037300 ATTTCCATATAACT
1 ATTT-CATATATCT
* *
76037314 GA-TTCATATAACC
1 -ATTTCATATATCT
76037327 ATTTCATATATCAT
1 ATTTCATATATC-T
*
76037341 ATTTCATATAATCG
1 ATTTCATAT-ATCT
* *
76037355 A-TTCATATAACC
1 ATTTCATATATCT
76037367 ATTTCATATATCAT
1 ATTTCATATATC-T
*
76037381 TTTTCATATAAT-T
1 ATTTCATAT-ATCT
* * *
76037394 GA-TTCGTATAACC
1 -ATTTCATATATCT
*
76037407 ATTTCATATATTT
1 ATTTCATATATCT
* *
76037420 ATTTTCATATAACC
1 A-TTTCATATATCT
76037434 ATTTCATATATC-
1 ATTTCATATATCT
76037446 ATTT
1 ATTT
76037450 TTTTCACCCG
Statistics
Matches: 115, Mismatches: 22, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
12 14 0.12
13 62 0.54
14 33 0.29
15 6 0.05
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTTCATATATCT
Found at i:76037346 original size:27 final size:27
Alignment explanation
Indices: 76037316--76037447 Score: 107
Period size: 27 Copynumber: 4.9 Consensus size: 27
76037306 ATATAACTGA
76037316 TTCATATAACCATTTCATATATCATAT
1 TTCATATAACCATTTCATATATCATAT
* * *
76037343 TTCATATAATCGA-TTCATATAAC-CAT
1 TTCATATAA-CCATTTCATATATCATAT
*
76037369 TTCATAT-ATCATTTTTCATATA--AT-T
1 TTCATATAACCA--TTTCATATATCATAT
* *
76037394 GATTCGTATAACCATTTCATATAT-TTATT
1 --TTCATATAACCATTTCATATATCATA-T
76037423 TTCATATAACCATTTCATATATCAT
1 TTCATATAACCATTTCATATATCAT
76037448 TTTTTTCACC
Statistics
Matches: 82, Mismatches: 11, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
24 1 0.01
25 2 0.02
26 18 0.22
27 54 0.66
28 6 0.07
29 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (27 bp):
TTCATATAACCATTTCATATATCATAT
Found at i:76037358 original size:40 final size:40
Alignment explanation
Indices: 76037286--76037431 Score: 201
Period size: 40 Copynumber: 3.7 Consensus size: 40
76037276 ATCCAATGTT
76037286 CCATTTCATA-ATC-TATTTCCATATAA-CTGATTCATATAA
1 CCATTTCATATATCATATTT-CATATAATC-GATTCATATAA
76037325 CCATTTCATATATCATATTTCATATAATCGATTCATATAA
1 CCATTTCATATATCATATTTCATATAATCGATTCATATAA
* * *
76037365 CCATTTCATATATCATTTTTCATATAATTGATTCGTATAA
1 CCATTTCATATATCATATTTCATATAATCGATTCATATAA
*
76037405 CCATTTCATATAT-TTATTTTCATATAA
1 CCATTTCATATATCATA-TTTCATATAA
76037432 CCATTTCATA
Statistics
Matches: 98, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
39 11 0.11
40 81 0.83
41 6 0.06
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (40 bp):
CCATTTCATATATCATATTTCATATAATCGATTCATATAA
Found at i:76041575 original size:21 final size:21
Alignment explanation
Indices: 76041551--76041599 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
76041541 GCTCCCACAC
*
76041551 CCGTGTCG-CTAAGGCACATGA
1 CCGTGT-GTCTAAAGCACATGA
*
76041572 CCGTGTGTCTAAAGCACATGC
1 CCGTGTGTCTAAAGCACATGA
76041593 CCGTGTG
1 CCGTGTG
76041600 AAAAATCGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.22
Consensus pattern (21 bp):
CCGTGTGTCTAAAGCACATGA
Found at i:76042221 original size:13 final size:13
Alignment explanation
Indices: 76042203--76042242 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
76042193 TCCCTATTCC
*
76042203 AAATTAAAAATTA
1 AAATTAAAAAATA
76042216 AAATTAAATAAATA
1 AAATTAAA-AAATA
*
76042230 AAATAAAAAAATA
1 AAATTAAAAAATA
76042243 TGTATTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATTAAAAAATA
Found at i:76045943 original size:40 final size:40
Alignment explanation
Indices: 76045888--76046204 Score: 562
Period size: 40 Copynumber: 7.9 Consensus size: 40
76045878 GCATGAGCAT
76045888 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
76045928 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
76045968 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
76046008 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
76046048 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
76046088 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
76046128 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
76046168 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
76046205 TTGCGGTTAT
Statistics
Matches: 265, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 265 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:76050097 original size:57 final size:57
Alignment explanation
Indices: 76050022--76050154 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 57
76050012 GCCATTATTC
* * * * *
76050022 ACATTTTGACAGCATAAATATACGCATTAAGAGACATTATGACAACAGCTATTAATT
1 ACATTTAGACAACATAAATATACACATTAAGAGACATTATGACAACAACTATAAATT
* * * * * *
76050079 ACATTTGGACAACATAAATATGCATATTAAGAGACATTTTGATAGCAACTATAAATT
1 ACATTTAGACAACATAAATATACACATTAAGAGACATTATGACAACAACTATAAATT
* *
76050136 ATATTAAGACAACATAAAT
1 ACATTTAGACAACATAAAT
76050155 GTAGAAATAA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (57 bp):
ACATTTAGACAACATAAATATACACATTAAGAGACATTATGACAACAACTATAAATT
Found at i:76051596 original size:18 final size:18
Alignment explanation
Indices: 76051575--76051614 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
76051565 TCAAAAGGTA
76051575 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
76051593 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
76051611 TAAT
1 TAAT
76051615 CAAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:76051767 original size:20 final size:20
Alignment explanation
Indices: 76051732--76051769 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
76051722 TGACCATTTC
76051732 GTAACAAAACGATAACATAA
1 GTAACAAAACGATAACATAA
76051752 GTAACTAAAACG-TAACAT
1 GTAAC-AAAACGATAACAT
76051770 TTCAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (20 bp):
GTAACAAAACGATAACATAA
Found at i:76053531 original size:25 final size:26
Alignment explanation
Indices: 76053471--76053531 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 26
76053461 AAAAAAAATT
* * *
76053471 ATTTAAAATTTTTATAAATTATTAAA
1 ATTTATAATTTTTATAAATCATAAAA
* *
76053497 ATTAAT-ATTTTTAT-TATCATAAAA
1 ATTTATAATTTTTATAAATCATAAAA
76053521 ATTTATAATTT
1 ATTTATAATTT
76053532 AATTTTGATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 12 0.43
25 12 0.43
26 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTTATAATTTTTATAAATCATAAAA
Found at i:76055756 original size:14 final size:14
Alignment explanation
Indices: 76055739--76055768 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
76055729 TTATATAGTA
76055739 TTATTTATTTATTT
1 TTATTTATTTATTT
76055753 TTATTTATTTATTT
1 TTATTTATTTATTT
76055767 TT
1 TT
76055769 TTCTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTATTTATTT
Found at i:76068015 original size:44 final size:43
Alignment explanation
Indices: 76067908--76068326 Score: 191
Period size: 44 Copynumber: 9.6 Consensus size: 43
76067898 TGCACCAGAC
* * * *
76067908 CTTAAATCCCTAAGCAGTAGGGTAACAG-GCTGAA-TTTACAGAT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATC-GAAGATGA-AGAT
* * * *
76067951 ATTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGGT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GAT
* *
76067995 CTTAAACCCCTAAGCAGTAGGGTAACAGA-CCAA-ATTGCAGAT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGAAGAT
* * * * * *
76068037 CTT-ATCTCCTTAAGCAGTAGTGG-AGCAGATTGAAGACGAAGGGT
1 CTTAAAC-CCCTAAGCAGTAG-GGTAACAGATCGAAGATGAA-GAT
* * * *
76068081 CTTAAACCCCTAGGCAGTAGGGTAATAGA-CCAA-ATTACAGAT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGAT
* * * *
76068123 CTT-ATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGATTGACAAAC
1 CTTAAAC-CCCTAAGCAGTAG-GGTAACAGATCGAAGA-TGA-AGAT
* * * * * *
76068168 CTTAACCCCCTAAACAGTAGGGTAACAGGTTGAA-TTCACAGAT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGAT
* * * * *
76068211 CTT-AACGCTCTAAGCAGTAGGGAAACAGATCAAAGGTGACA-AGC
1 CTTAAAC-CCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGA-T
* * *
76068255 CTTAAACCCCTAAACAGTAGGGTAACAG-GCTGAAGATTGACGAAT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGAAG-AT
* * * *
76068300 CTTAACCCCCTAAACATTAGGGAAACA
1 CTTAAACCCCTAAGCAGTAGGGTAACA
76068327 TAGCAGAAGT
Statistics
Matches: 279, Mismatches: 70, Indels: 52
0.70 0.17 0.13
Matches are distributed among these distances:
41 4 0.01
42 48 0.17
43 81 0.29
44 83 0.30
45 60 0.22
46 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (43 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
Found at i:76068251 original size:87 final size:86
Alignment explanation
Indices: 76067907--76068384 Score: 385
Period size: 86 Copynumber: 5.5 Consensus size: 86
76067897 ATGCACCAGA
* * *
76067907 CCTTAAATCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATATTAACCCCCTAAGCAGTAG-
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA-TTACAGATCTTAACTCCCTAAGCAGTAGT
*
76067971 GGAAACAGATCGAAGATGAAGGG
65 GG-AACAGATCGAAGATGAAGAG
* * ** * * *
76067994 TCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCTTAAGCAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACTCCCTAAGCAGTAGTG
* * * *
76068059 GAGCAGATTGAAGACGAAGGG
66 GAACAGATCGAAGATGAAGAG
* * * * ** *
76068080 TCTTAAACCCCTAGGCAGTAGGGTAATAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACTCCCTAAGCAGTAGTG
* *
76068145 GAGCAGATCGAAGATTGACA-AA
66 GAACAGATCGAAGA-TGA-AGAG
* * * * *
76068167 CCTTAACCCCCTAAACAGTAGGGTAACAGGTTGAATTCACAGATCTTAACGCTCTAAGCAGTAG-
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATT-ACAGATCTTAACTCCCTAAGCAGTAGT
* *
76068231 GGAAACAGATCAAAGGTGACA-AG
65 GG-AACAGATCGAAGATGA-AGAG
* * * *
76068254 CCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAAGATTGAC-GAATCTTAACCCCCTAAACATT
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG-A-ATT-ACAG-ATCTTAACTCCCTAAGCAGT
* * * *
76068318 AG-GGAAACATAGCAGAAG-TGATGGG
62 AGTGG-AACAGATC-GAAGATGAAGAG
* * * *
76068343 CCTTAAACTCCTAAGCAATAGGGTCATAGGCTGGAAATTACA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-G-AATTACA
76068385 AATTTGTTCT
Statistics
Matches: 325, Mismatches: 54, Indels: 22
0.81 0.13 0.05
Matches are distributed among these distances:
86 114 0.35
87 101 0.31
88 38 0.12
89 66 0.20
90 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (86 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACTCCCTAAGCAGTAGTG
GAACAGATCGAAGATGAAGAG
Found at i:76068321 original size:45 final size:43
Alignment explanation
Indices: 76068158--76068326 Score: 144
Period size: 43 Copynumber: 3.8 Consensus size: 43
76068148 CAGATCGAAG
* *
76068158 ATTGACAAACCTTAACCCCCTAAACAGTAGGGTAACAGGTTG-A
1 ATTGAC-AACCTTAACCCCCTAAACAGTAGGGAAACAGGATGAA
* * * * * *
76068201 ATTCACAGATCTTAACGCTCTAAGCAGTAGGGAAACA-GATCAA
1 ATTGACA-ACCTTAACCCCCTAAACAGTAGGGAAACAGGATGAA
* * * *
76068244 AGGTGACAAGCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAA
1 A-TTGACAA-CCTTAACCCCCTAAACAGTAGGGAAACAGGATGAA
* *
76068289 GATTGACGAATCTTAACCCCCTAAACATTAGGGAAACA
1 -ATTGAC-AACCTTAACCCCCTAAACAGTAGGGAAACA
76068327 TAGCAGAAGT
Statistics
Matches: 96, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
42 3 0.03
43 32 0.33
44 26 0.27
45 32 0.33
46 3 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (43 bp):
ATTGACAACCTTAACCCCCTAAACAGTAGGGAAACAGGATGAA
Found at i:76068833 original size:14 final size:15
Alignment explanation
Indices: 76068816--76068856 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
76068806 AATCACCTAA
*
76068816 CCCAAAC-CTAAAAC
1 CCCAAACACAAAAAC
76068830 CCCAAACACAAAAAC
1 CCCAAACACAAAAAC
*
76068845 ACCAAACA-AAAA
1 CCCAAACACAAAA
76068857 CTACAAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.61, C:0.37, G:0.00, T:0.02
Consensus pattern (15 bp):
CCCAAACACAAAAAC
Found at i:76076780 original size:38 final size:38
Alignment explanation
Indices: 76076719--76076805 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
76076709 GTACATAGAT
* *
76076719 AAAATAAA-ACTAAGAAATCAAATAA-AACTTTATATA-AA
1 AAAATAAATA-TAA-AAATAAAATAAGAA-TATATATATAA
76076757 AAAATTAAATATAAAAATAAAATAAGAATATATATATAA
1 AAAA-TAAATATAAAAATAAAATAAGAATATATATATAA
76076796 AAAATAAATA
1 AAAATAAATA
76076806 AATAAATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
38 27 0.63
39 15 0.35
40 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.25
Consensus pattern (38 bp):
AAAATAAATATAAAAATAAAATAAGAATATATATATAA
Found at i:76076786 original size:11 final size:12
Alignment explanation
Indices: 76076756--76076822 Score: 50
Period size: 13 Copynumber: 5.4 Consensus size: 12
76076746 CTTTATATAA
76076756 AAAAATTAAATAT
1 AAAAA-TAAATAT
76076769 AAAAATAAA-AT
1 AAAAATAAATAT
*
76076780 AAGAATATATATAT
1 AA-AA-ATAAATAT
76076794 AAAAAATAAATA-
1 -AAAAATAAATAT
*
76076806 AATAAAT-GATAT
1 AA-AAATAAATAT
76076818 AAAAA
1 AAAAA
76076823 ATAACTAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
11 12 0.27
12 12 0.27
13 15 0.33
14 4 0.09
15 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (12 bp):
AAAAATAAATAT
Found at i:76076798 original size:26 final size:25
Alignment explanation
Indices: 76076765--76076826 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
76076755 AAAAAATTAA
*
76076765 ATAT-AAAAATAAAATAAGAATATAT-
1 ATATAAAAAATAAAAT-A-AATAAATG
76076790 ATATAAAAAAT-AAATAAATAAATG
1 ATATAAAAAATAAAATAAATAAATG
76076814 ATATAAAAAATAA
1 ATATAAAAAATAA
76076827 CTAACAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.18
24 12 0.36
25 9 0.27
26 6 0.18
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (25 bp):
ATATAAAAAATAAAATAAATAAATG
Found at i:76077092 original size:19 final size:21
Alignment explanation
Indices: 76077065--76077113 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
76077055 AAAATAACCT
76077065 AATGTAAATAA-TTAATAAAA
1 AATGTAAATAATTTAATAAAA
*
76077085 AATG-AAATAATTTAATATAA
1 AATGTAAATAATTTAATAAAA
76077105 AATAGTAAA
1 AAT-GTAAA
76077114 ATAAATAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 1 0.04
22 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
AATGTAAATAATTTAATAAAA
Found at i:76079893 original size:93 final size:93
Alignment explanation
Indices: 76079786--76079956 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
76079776 GCCCCTAAGT
* * *
76079786 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
76079851 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
76079879 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAAATCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
76079944 CGAGTTCGGATGC
66 CGAGTTCGGATGC
76079957 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:76079953 original size:46 final size:46
Alignment explanation
Indices: 76079781--76079953 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
76079771 AACCCGCCCC
* * * *
76079781 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
76079827 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
76079875 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
76079920 TAAGTGAACTCGGACTCAAATCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
76079954 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:76080161 original size:125 final size:125
Alignment explanation
Indices: 76079907--76080161 Score: 449
Period size: 125 Copynumber: 2.0 Consensus size: 125
76079897 ACGAGTTCGG
*
76079907 ACATTTGCATCCATAAGTGAACTCGGACTCAAATCAACGAGTTCGGATGCTCAACCATCCTATGA
1 ACATTCGCATCCATAAGTGAACTCGGACTCAAATCAACGAGTTCGGATGCTCAACCATCCTATGA
*
76079972 CATGTCACTTGTATCCTAACCTACTCCTAAGGTTCAAACGGGCTTTTTCCCTCGATCTGG
66 CATGTCACTTGTATCCTAACCTACTCCTAAGGTTCAAACGGGCTTTTTCCCTCGATCTGC
*
76080032 ACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTG
1 ACATTCGCATCCATAAGTGAACTCGGACTCAAATCAACGAGTTCGGATGCTCAACCATCCTA-TG
* *
76080097 ACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCTTTTTCCCTCGATCT-C
65 ACATGTCACTTGTATCCTAACCTACTCCTAAGGTTCAAACGGGCTTTTTCCCTCGATCTGC
76080157 ACATT
1 ACATT
76080162 TGTCGTCTTC
Statistics
Matches: 124, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
125 65 0.52
126 59 0.48
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (125 bp):
ACATTCGCATCCATAAGTGAACTCGGACTCAAATCAACGAGTTCGGATGCTCAACCATCCTATGA
CATGTCACTTGTATCCTAACCTACTCCTAAGGTTCAAACGGGCTTTTTCCCTCGATCTGC
Found at i:76091216 original size:56 final size:56
Alignment explanation
Indices: 76091130--76091249 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
76091120 ACAAGGGATG
76091130 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
76091186 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
76091242 ATGGGCAA
1 ATGGGCAA
76091250 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:76092514 original size:79 final size:81
Alignment explanation
Indices: 76092378--76092560 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
76092368 TCGAATGATG
* *
76092378 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
76092442 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
76092457 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
76092519 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
76092537 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
76092561 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:76092576 original size:40 final size:40
Alignment explanation
Indices: 76092379--76092562 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
76092369 CGAATGATGT
* * * *
76092379 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
76092419 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
76092459 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
76092497 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
76092538 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
76092563 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:76092584 original size:79 final size:79
Alignment explanation
Indices: 76092431--76092595 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
76092421 GGACTAAGAT
* **
76092431 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
76092496 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
76092510 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
76092573 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
76092589 CCGAAGG
1 CCGAAGG
76092596 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:76103071 original size:16 final size:16
Alignment explanation
Indices: 76103050--76103081 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
76103040 TGTTGTTTTA
76103050 ATATAAATGAATCAAT
1 ATATAAATGAATCAAT
*
76103066 ATATAAATGTATCAAT
1 ATATAAATGAATCAAT
76103082 GCTATGATGA
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:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (16 bp):
ATATAAATGAATCAAT
Found at i:76106114 original size:27 final size:26
Alignment explanation
Indices: 76106077--76106191 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
76106067 AGCATGGCTG
* *
76106077 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
76106103 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
76106131 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
76106158 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
76106185 CCAGAAC
1 CCAGAAC
76106192 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:76106136 original size:54 final size:54
Alignment explanation
Indices: 76106077--76106191 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
76106067 AGCATGGCTG
*
76106077 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
76106131 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
76106185 CCAGAAC
1 CCAGAAC
76106192 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:76114370 original size:13 final size:13
Alignment explanation
Indices: 76114352--76114379 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
76114342 ATTTAATTAT
76114352 TAAAAGATATTTA
1 TAAAAGATATTTA
76114365 TAAAAGATATTTA
1 TAAAAGATATTTA
76114378 TA
1 TA
76114380 TGATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (13 bp):
TAAAAGATATTTA
Found at i:76133563 original size:26 final size:26
Alignment explanation
Indices: 76133534--76133586 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
76133524 CTGTCTATTG
*
76133534 TTTCATCAGATGTGATTGGAATGCTT
1 TTTCATCAAATGTGATTGGAATGCTT
76133560 TTTCATCAAATGTGATTGGAATGCTT
1 TTTCATCAAATGTGATTGGAATGCTT
76133586 T
1 T
76133587 CCTTGGTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (26 bp):
TTTCATCAAATGTGATTGGAATGCTT
Found at i:76139996 original size:79 final size:79
Alignment explanation
Indices: 76139903--76140059 Score: 296
Period size: 79 Copynumber: 2.0 Consensus size: 79
76139893 TCTTTCATCG
76139903 TCACCGTATGCTGTGGTCGAGAAAGCCCCTTGTCAGAGTCATTGGAAGTTCATATTTCCTTTTAT
1 TCACCGTATGCTGTGGTCGAGAAAGCCCCTTGTCAGAGTCATTGGAAGTTCATATTTCCTTTTAT
76139968 ATTAGGAGATTTCT
66 ATTAGGAGATTTCT
* *
76139982 TCACCGTATGCTGTGGTCGAGAAAGCCCCTTGTCAGCGTCATTGGAAGTTCATATTTCCTTTTGT
1 TCACCGTATGCTGTGGTCGAGAAAGCCCCTTGTCAGAGTCATTGGAAGTTCATATTTCCTTTTAT
76140047 ATTAGGAGATTTC
66 ATTAGGAGATTTC
76140060 CAGTGCAATA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (79 bp):
TCACCGTATGCTGTGGTCGAGAAAGCCCCTTGTCAGAGTCATTGGAAGTTCATATTTCCTTTTAT
ATTAGGAGATTTCT
Found at i:76146954 original size:50 final size:50
Alignment explanation
Indices: 76146879--76146978 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
76146869 ATCACGATGT
76146879 AGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCAAGACCAGATTG
1 AGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCAAGACCAGATTG
76146929 AGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCAAGACCAGATTG
1 AGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCAAGACCAGATTG
76146979 TCAAACCCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (50 bp):
AGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCAAGACCAGATTG
Found at i:76148336 original size:43 final size:43
Alignment explanation
Indices: 76148288--76148453 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
76148278 GTTACCGAGA
* *
76148288 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
76148331 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * * *
76148375 T-CGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
76148416 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
76148454 TGTACAAGCT
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 93 0.89
44 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:76150360 original size:19 final size:19
Alignment explanation
Indices: 76150336--76150381 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
76150326 CAGGACTAAA
* *
76150336 TCAGAAATTTAGAGAATTT
1 TCAGAAACTTAGAAAATTT
*
76150355 TCAGAAACTTATAAAATTT
1 TCAGAAACTTAGAAAATTT
76150374 TCA-AAACT
1 TCAGAAACT
76150382 GCAGGGGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (19 bp):
TCAGAAACTTAGAAAATTT
Found at i:76151850 original size:25 final size:25
Alignment explanation
Indices: 76151822--76151869 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
76151812 AAGCTCCTCC
*
76151822 GAGCTGAATAATGGTAAGCTCATGT
1 GAGCTGAATAATAGTAAGCTCATGT
* *
76151847 GAGCTGATTATTAGTAAGCTCAT
1 GAGCTGAATAATAGTAAGCTCAT
76151870 ACGATCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (25 bp):
GAGCTGAATAATAGTAAGCTCATGT
Found at i:76157657 original size:25 final size:26
Alignment explanation
Indices: 76157621--76157685 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
76157611 TTGTATTCTT
* *
76157621 TGAAGCTAGTGTTAACAGCA-TCGTAC
1 TGAAGCTAGTGTTAACAACATTAGT-C
*
76157647 T-AAGCTAGTGTTAGCAACATTAGTC
1 TGAAGCTAGTGTTAACAACATTAGTC
76157672 TGAAGCTAGTGTTA
1 TGAAGCTAGTGTTA
76157686 GCAATCTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 18 0.53
26 16 0.47
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (26 bp):
TGAAGCTAGTGTTAACAACATTAGTC
Found at i:76157684 original size:26 final size:26
Alignment explanation
Indices: 76157621--76157689 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
76157611 TTGTATTCTT
* * *
76157621 TGAAGCTAGTGTTAACAGCATCGTAC
1 TGAAGCTAGTGTTAGCAACATAGTAC
76157647 T-AAGCTAGTGTTAGCAACATTAGT-C
1 TGAAGCTAGTGTTAGCAACA-TAGTAC
76157672 TGAAGCTAGTGTTAGCAA
1 TGAAGCTAGTGTTAGCAA
76157690 TCTGAATATG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 18 0.47
26 20 0.53
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (26 bp):
TGAAGCTAGTGTTAGCAACATAGTAC
Found at i:76160267 original size:28 final size:28
Alignment explanation
Indices: 76160236--76160305 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
76160226 TCAATGCCTT
*
76160236 GCACATTAAGTGTCATACTCGATATCTC
1 GCACATTAAGTGTCACACTCGATATCTC
*
76160264 GCAC-TCTAAGTGCCACACTCGATATCTC
1 GCACAT-TAAGTGTCACACTCGATATCTC
* *
76160292 GCACACTGAGTGTC
1 GCACATTAAGTGTC
76160306 GGACATAGCC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (28 bp):
GCACATTAAGTGTCACACTCGATATCTC
Found at i:76160354 original size:40 final size:40
Alignment explanation
Indices: 76160310--76160386 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
76160300 AGTGTCGGAC
76160310 ATAGCCAAAGCTATCTCAAATCGCACACTAAGTGCCATAT
1 ATAGCCAAAGCTATCTCAAATCGCACACTAAGTGCCATAT
* * * ** *
76160350 ATAGCCGAAGTTATGTTGACTCGCACACTAAGTGCCA
1 ATAGCCAAAGCTATCTCAAATCGCACACTAAGTGCCA
76160387 CAAATAGTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (40 bp):
ATAGCCAAAGCTATCTCAAATCGCACACTAAGTGCCATAT
Found at i:76166158 original size:39 final size:39
Alignment explanation
Indices: 76166118--76166291 Score: 233
Period size: 39 Copynumber: 4.5 Consensus size: 39
76166108 ATTCACTTTT
* * * *
76166118 AAGCATATGTCACATTACACATATAA-CTACGTAACATTT
1 AAGCATATATCACAATACACATATAATC-ACATAACATTC
*
76166157 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* **
76166196 AAGCATATATCACAACATTCATATAATCACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* * *
76166235 AAGTATATATCACAACACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
76166274 AAGCATATATCACAATAC
1 AAGCATATATCACAATAC
76166292 TTAAAGTCAT
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 122 0.99
40 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACATAACATTC
Found at i:76166209 original size:22 final size:22
Alignment explanation
Indices: 76166176--76166287 Score: 109
Period size: 22 Copynumber: 5.5 Consensus size: 22
76166166 TCACAATACT
76166176 CATATAATCACATAACATTCAAG
1 CATAT-ATCACATAACATTCAAG
76166199 CATATATCAC--AACATTC-A-
1 CATATATCACATAACATTCAAG
*
76166217 TATA-ATCACATAACATTCAAG
1 CATATATCACATAACATTCAAG
* *
76166238 TATATATCAC--AACACTC-A-
1 CATATATCACATAACATTCAAG
*
76166256 TATA-ATCACATAACATTCAAG
1 CATATATCACATAACATTCAAG
76166277 CATATATCACA
1 CATATATCACA
76166288 ATACTTAAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
17 10 0.13
18 7 0.09
19 15 0.20
20 15 0.20
21 7 0.09
22 16 0.21
23 5 0.07
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (22 bp):
CATATATCACATAACATTCAAG
Found at i:76166226 original size:17 final size:17
Alignment explanation
Indices: 76166160--76166265 Score: 79
Period size: 17 Copynumber: 5.7 Consensus size: 17
76166150 AACATTTAAG
* *
76166160 CATAT-ATCACAATACT
1 CATATAATCACAACATT
76166176 CATATAATCACATAACATT
1 CATATAATCAC--AACATT
*
76166195 CAAGCATATATCACAACATT
1 C-A-TATA-ATCACAACATT
76166215 CATATAATCACATAACATT
1 CATATAATCAC--AACATT
*
76166234 CAAGTATATATCACAACACT
1 C-A-TATA-ATCACAACATT
76166254 CATATAATCACA
1 CATATAATCACA
76166266 TAACATTCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
16 5 0.07
17 16 0.22
18 7 0.09
19 14 0.19
20 15 0.20
21 7 0.09
22 10 0.14
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.28
Consensus pattern (17 bp):
CATATAATCACAACATT
Found at i:76166233 original size:19 final size:19
Alignment explanation
Indices: 76166175--76166274 Score: 100
Period size: 19 Copynumber: 5.2 Consensus size: 19
76166165 ATCACAATAC
76166175 TCATATAATCACATAACAT
1 TCATATAATCACATAACAT
*
76166194 TCAAGCATATATCAC--AACAT
1 TC-A-TATA-ATCACATAACAT
76166214 TCATATAATCACATAACAT
1 TCATATAATCACATAACAT
*
76166233 TCAAGTATATATCAC--AACAC
1 TC-A-TATA-ATCACATAACAT
76166253 TCATATAATCACATAACAT
1 TCATATAATCACATAACAT
76166272 TCA
1 TCA
76166275 AGCATATATC
Statistics
Matches: 67, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
17 10 0.15
18 7 0.10
19 18 0.27
20 15 0.22
21 7 0.10
22 10 0.15
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (19 bp):
TCATATAATCACATAACAT
Found at i:76166831 original size:167 final size:167
Alignment explanation
Indices: 76166539--76166878 Score: 536
Period size: 167 Copynumber: 2.0 Consensus size: 167
76166529 AAATCATATA
* * *
76166539 ACATATAAGTAAGAACTCACAATCCTATAGCGTGCCAACTATATCCAACAGTTTCAAGAATCACA
1 ACATATAAGTAAGAACTCAAAATCCTATAGCGTACCAACTATATCCAACAGTTTCAAGAATCAAA
*
76166604 AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCGATTTAGCATTCACTATCACTGC
66 AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCAATTTAGCATTCACTATCACTGC
*
76166669 ATAATTATCATTGTCACTTGGCATGTTTGACATGCCT
131 ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
* * * *
76166706 ACATATAAGTGAGGACTCAAAATTCTATAGCGTACCAGCTATATCCAACAGTTTCAAGAATCAAA
1 ACATATAAGTAAGAACTCAAAATCCTATAGCGTACCAACTATATCCAACAGTTTCAAGAATCAAA
* * * * * * *
76166771 AGGCCAAAATATCTTTCATTAAGCATACATATATTACTTACCAATTTATCGTTTACTATCATTGC
66 AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCAATTTAGCATTCACTATCACTGC
76166836 ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
131 ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
76166873 ACATAT
1 ACATAT
76166879 GCACTTTCAC
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
167 157 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.31
Consensus pattern (167 bp):
ACATATAAGTAAGAACTCAAAATCCTATAGCGTACCAACTATATCCAACAGTTTCAAGAATCAAA
AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCAATTTAGCATTCACTATCACTGC
ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
Found at i:76168376 original size:21 final size:21
Alignment explanation
Indices: 76168334--76168387 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
76168324 GAAGACCTAG
76168334 GTATCAATACCT-TGAGGCAT
1 GTATCAATACCTCTGAGGCAT
*
76168354 GTATAAATACCTCT-AGAGCAT
1 GTATCAATACCTCTGAG-GCAT
76168375 GTATCAATACCTC
1 GTATCAATACCTC
76168388 ATGAACAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (21 bp):
GTATCAATACCTCTGAGGCAT
Found at i:76170987 original size:39 final size:39
Alignment explanation
Indices: 76170944--76171894 Score: 1807
Period size: 39 Copynumber: 24.3 Consensus size: 39
76170934 GGACTAAGAT
76170944 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76170983 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171022 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171061 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171100 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171139 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171178 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171217 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171256 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171295 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171334 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171373 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171412 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171451 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171490 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171529 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171568 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171607 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171646 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171685 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171724 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
76171763 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
76171802 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* *
76171842 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
76171882 CCGAAGGCATTTG
1 CCGAAGGCATTTG
76171895 AACGAGGAGC
Statistics
Matches: 901, Mismatches: 8, Indels: 5
0.99 0.01 0.01
Matches are distributed among these distances:
39 855 0.95
40 46 0.05
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:76173157 original size:187 final size:187
Alignment explanation
Indices: 76172842--76173214 Score: 701
Period size: 187 Copynumber: 2.0 Consensus size: 187
76172832 TATAAATTAA
76172842 CCAGAGATAATTAGGAGTCATACCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATAGAA
1 CCAGAGATAATTAGGAGTCATACCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATAGAA
76172907 ACAAACGGCATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAGGTCGTAATGCGCAAAGGTCAG
66 ACAAACGGCATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAGGTCGTAATGCGCAAAGGTCAG
76172972 TGTAGTCGATCCCTGTAACATGGGAGAATTTGACTAATAAACTGTACTAATTGGCCC
131 TGTAGTCGATCCCTGTAACATGGGAGAATTTGACTAATAAACTGTACTAATTGGCCC
*
76173029 CCAGAGATAATTAGGAGTCATACCATATATTTATAGATTCCTCTCTGAGTCTAGTTTCTATAGAA
1 CCAGAGATAATTAGGAGTCATACCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATAGAA
* *
76173094 ACAAACGGCATCAGTATTGAAGCTCTGTGGAGGGAGATATCCGGGTCGTAATGCGCAAAGGTCAG
66 ACAAACGGCATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAGGTCGTAATGCGCAAAGGTCAG
* *
76173159 TGTAGTCGATCCCTGTAACATGGGAGACTTTTACTAATAAACTGTACTAATTGGCC
131 TGTAGTCGATCCCTGTAACATGGGAGAATTTGACTAATAAACTGTACTAATTGGCC
76173215 AAATCATACG
Statistics
Matches: 181, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
187 181 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (187 bp):
CCAGAGATAATTAGGAGTCATACCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATAGAA
ACAAACGGCATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAGGTCGTAATGCGCAAAGGTCAG
TGTAGTCGATCCCTGTAACATGGGAGAATTTGACTAATAAACTGTACTAATTGGCCC
Found at i:76173566 original size:50 final size:50
Alignment explanation
Indices: 76173491--76173589 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
76173481 GACTAATAAA
*
76173491 CTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAAATATGTAGATGGG
1 CTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAAATATGTAGATGGG
76173541 CTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAAATATGTAGATGG
1 CTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAAATATGTAGATGG
76173590 ACATATGAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.24
Consensus pattern (50 bp):
CTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAAATATGTAGATGGG
Found at i:76174457 original size:105 final size:105
Alignment explanation
Indices: 76174275--76174483 Score: 409
Period size: 105 Copynumber: 2.0 Consensus size: 105
76174265 GACAACACTA
76174275 TCCGGGTACTCGATGAGCTATCTTGTACACCCGATGAATGCCTAAAGTGTACTATCTCCTTGCTA
1 TCCGGGTACTCGATGAGCTATCTTGTACACCCGATGAATGCCTAAAGTGTACTATCTCCTTGCTA
76174340 CGTGATTCTGCCTACTATTGGTGGAGTACTCTGACTTCTG
66 CGTGATTCTGCCTACTATTGGTGGAGTACTCTGACTTCTG
*
76174380 TCCGGGTACTCGATGAGCTATCTTGTACACCCGATGAATGCCTAAAGTGTGCTATCTCCTTGCTA
1 TCCGGGTACTCGATGAGCTATCTTGTACACCCGATGAATGCCTAAAGTGTACTATCTCCTTGCTA
76174445 CGTGATTCTGCCTACTATTGGTGGAGTACTCTGACTTCT
66 CGTGATTCTGCCTACTATTGGTGGAGTACTCTGACTTCT
76174484 ATTGTGCCCC
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (105 bp):
TCCGGGTACTCGATGAGCTATCTTGTACACCCGATGAATGCCTAAAGTGTACTATCTCCTTGCTA
CGTGATTCTGCCTACTATTGGTGGAGTACTCTGACTTCTG
Found at i:76183029 original size:66 final size:67
Alignment explanation
Indices: 76182923--76183055 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 67
76182913 TGCGTAAGGA
76182923 CCTATTAGTGCATGTGGAAAAAAGGGGGGACTTGCATGTCAAATT-CCCCCTAATAAGTAGTGTC
1 CCTATTAGTGCATGTGGAAAAAAGGGGGGACTTGCATGTCAAATTCCCCCCTAATAAGTAGTGTC
76182987 CG
66 CG
76182989 CCTATTAGTGCATGTGGAAAAAAGGGGGGACTTGCATGTCAAATTCCCCCCCTAATAAGTAGTGT
1 CCTATTAGTGCATGTGGAAAAAAGGGGGGACTTGCATGTCAAATT-CCCCCCTAATAAGTAGTGT
76183054 CC
65 CC
76183056 AGCCATGCTA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 45 0.69
68 20 0.31
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (67 bp):
CCTATTAGTGCATGTGGAAAAAAGGGGGGACTTGCATGTCAAATTCCCCCCTAATAAGTAGTGTC
CG
Found at i:76183797 original size:21 final size:23
Alignment explanation
Indices: 76183766--76183807 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
76183756 CGGCAATTTC
76183766 AATTCATACTT-TTCAACCATGA
1 AATTCATACTTATTCAACCATGA
76183788 AATTC-TACTTATTCAACCAT
1 AATTCATACTTATTCAACCAT
76183808 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (23 bp):
AATTCATACTTATTCAACCATGA
Found at i:76190206 original size:39 final size:39
Alignment explanation
Indices: 76190152--76190272 Score: 181
Period size: 39 Copynumber: 3.1 Consensus size: 39
76190142 CCCGGGTACC
*
76190152 ATTT-CAGCACGTAGCCTGCGGACTTCAAGTCCGGATAT
1 ATTTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATAT
76190190 ATTTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATAT
1 ATTTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATAT
* * * * *
76190229 ATTTCCAACATATAGCCTGTGGACCTCATGTCCGGATAT
1 ATTTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATAT
76190268 ATTTC
1 ATTTC
76190273 AAATACCATG
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 4 0.05
39 72 0.95
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (39 bp):
ATTTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATAT
Found at i:76191571 original size:21 final size:23
Alignment explanation
Indices: 76191540--76191581 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
76191530 CGGCAATTTC
76191540 AATTCATACTT-TTCAACCATGA
1 AATTCATACTTATTCAACCATGA
76191562 AATTC-TACTTATTCAACCAT
1 AATTCATACTTATTCAACCAT
76191582 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (23 bp):
AATTCATACTTATTCAACCATGA
Found at i:76200377 original size:39 final size:39
Alignment explanation
Indices: 76200323--76200442 Score: 177
Period size: 39 Copynumber: 3.1 Consensus size: 39
76200313 CCGGGTACCA
*
76200323 TTCCAGCACGTAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
76200362 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
** * * * *
76200401 TTTTAGCATATAGCCTGCGGACCTCATGTCCAGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
76200440 TTC
1 TTC
76200443 AAATACCATG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
Found at i:76217064 original size:16 final size:17
Alignment explanation
Indices: 76217032--76217064 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
76217022 CTATAATTCA
*
76217032 AATTTCATCCTTTATAC
1 AATTTAATCCTTTATAC
76217049 AATTTAATCC-TTATAC
1 AATTTAATCCTTTATAC
76217065 CTAATTACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTTAATCCTTTATAC
Found at i:76217561 original size:21 final size:20
Alignment explanation
Indices: 76217535--76217586 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
76217525 AGCGGTGGCG
76217535 GTGAGATTAATTACTATAACA
1 GTGAGATTAA-TACTATAACA
* * *
76217556 GTGAGATTAGATACTGTAGCG
1 GTGAGATTA-ATACTATAACA
76217577 GTGAGATTAA
1 GTGAGATTAA
76217587 AAACAATGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.31
Consensus pattern (20 bp):
GTGAGATTAATACTATAACA
Found at i:76219142 original size:17 final size:17
Alignment explanation
Indices: 76219120--76219152 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
76219110 AACTATTGAA
76219120 AGATGTGATTATTATAG
1 AGATGTGATTATTATAG
76219137 AGATGTGATTATTATA
1 AGATGTGATTATTATA
76219153 CATTCTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.42
Consensus pattern (17 bp):
AGATGTGATTATTATAG
Found at i:76236248 original size:16 final size:16
Alignment explanation
Indices: 76236227--76236258 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
76236217 GATTACATTA
*
76236227 ATTAAAATTTTTAATT
1 ATTAAAATTGTTAATT
76236243 ATTAAAATTGTTAATT
1 ATTAAAATTGTTAATT
76236259 TAAACATTAA
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:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATTAAAATTGTTAATT
Found at i:76240931 original size:18 final size:18
Alignment explanation
Indices: 76240908--76240952 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
76240898 GCCAATATGT
* * *
76240908 GGCCCAATACCATTCTTC
1 GGCCCAATACCACTATTA
*
76240926 GGCCCAACACCACTATTA
1 GGCCCAATACCACTATTA
76240944 GGCCCAATA
1 GGCCCAATA
76240953 GTACCATCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (18 bp):
GGCCCAATACCACTATTA
Found at i:76241138 original size:18 final size:17
Alignment explanation
Indices: 76241115--76241160 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
76241105 AGCATACCAC
*
76241115 TTTTGACCACAATCATAA
1 TTTTGACCACAA-AATAA
76241133 TTTTGACCAGCAAAATAA
1 TTTTGACCA-CAAAATAA
*
76241151 TTCTGACCAC
1 TTTTGACCAC
76241161 TTCCATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (17 bp):
TTTTGACCACAAAATAA
Found at i:76241192 original size:21 final size:21
Alignment explanation
Indices: 76241143--76241202 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
76241133 TTTTGACCAG
* *
76241143 CAAAATAATTCTGACCACTTC
1 CAAAATAATTTTGACCATTTC
** *
76241164 CATTATAATTTTGACCATTTT
1 CAAAATAATTTTGACCATTTC
76241185 CAAAATAATTTTGACCAT
1 CAAAATAATTTTGACCAT
76241203 GGTTAGAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (21 bp):
CAAAATAATTTTGACCATTTC
Found at i:76248141 original size:2 final size:2
Alignment explanation
Indices: 76248136--76248160 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
76248126 AAGAGAGCTT
76248136 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
76248161 GTAGAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:76258527 original size:4 final size:4
Alignment explanation
Indices: 76258518--76258568 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
76258508 GGTAAATGCA
76258518 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
76258566 TTT
1 TTT
76258569 TTTGGTTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:76259083 original size:22 final size:22
Alignment explanation
Indices: 76259051--76259103 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
76259041 AAATAAATCC
76259051 TTTCTCT-AATTTCCTCTC-AA
1 TTTCTCTCAATTTCCTCTCAAA
76259071 TTTGCTCTCAATTTCCTCTCAAA
1 TTT-CTCTCAATTTCCTCTCAAA
76259094 TTTCTCTCAA
1 TTTCTCTCAA
76259104 ATCCCTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.10
21 4 0.13
22 18 0.60
23 5 0.17
ACGTcount: A:0.21, C:0.30, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTCTCTCAATTTCCTCTCAAA
Found at i:76259105 original size:11 final size:11
Alignment explanation
Indices: 76259053--76259103 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
76259043 ATAAATCCTT
76259053 TCTCTAATTTCC
1 TCTC-AATTTCC
*
76259065 TCTCAATTTGC
1 TCTCAATTTCC
76259076 TCTCAATTTCC
1 TCTCAATTTCC
76259087 TCTCAAATTT-C
1 TCTC-AATTTCC
76259098 TCTCAA
1 TCTCAA
76259104 ATCCCTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
10 2 0.06
11 25 0.69
12 9 0.25
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.45
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:76260975 original size:18 final size:18
Alignment explanation
Indices: 76260952--76260994 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
76260942 TGTCAGGTGC
* *
76260952 GTATCCTAACTCTTTTAT
1 GTATCCTAACCCTTATAT
76260970 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
76260988 GTTTCCT
1 GTATCCT
76260995 TTTTCGAGTC
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:0.21, C:0.26, G:0.07, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:76264369 original size:30 final size:31
Alignment explanation
Indices: 76264319--76264378 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
76264309 CAACCTAAGA
76264319 ACTTAAATAAAATCTTTTGAATAGCTCAACG
1 ACTTAAATAAAATCTTTTGAATAGCTCAACG
*
76264350 ACTTAAATAAAAT-TTTTGAATAGTTCAAC
1 ACTTAAATAAAATCTTTTGAATAGCTCAAC
76264379 AATTACTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.35
Consensus pattern (31 bp):
ACTTAAATAAAATCTTTTGAATAGCTCAACG
Found at i:76271326 original size:25 final size:25
Alignment explanation
Indices: 76271218--76271419 Score: 91
Period size: 25 Copynumber: 8.2 Consensus size: 25
76271208 ATTCGGGCTT
* **
76271218 TATAACGGGAAGCTCATAAGAGCCA
1 TATATCGGGAAGCTCCGAAGAGCCA
** * *
76271243 TA-ATTAGGAAGCTCATG-CGAGCCA
1 TATATCGGGAAGCTC-CGAAGAGCCA
* * * *
76271267 -ATAACGGGTAGCTCCGGATAGCCA
1 TATATCGGGAAGCTCCGAAGAGCCA
* *
76271291 T-TAATCAGGAAGCTCCGGAGAGCCA
1 TAT-ATCGGGAAGCTCCGAAGAGCCA
*
76271316 TATATCGGGAAG-TTC-AAGCGAGCC-
1 TATATCGGGAAGCTCCGAA--GAGCCA
*
76271340 -ATATCGGGAAGCTCCGAAGAGTCA
1 TATATCGGGAAGCTCCGAAGAGCCA
* *
76271364 TA-AACGAGGAAGCTCACAAAGAGCC-
1 TATATCG-GGAAGCTC-CGAAGAGCCA
* *
76271389 TTTAATCGGAAAGCTCACGAAGAGCCA
1 TAT-ATCGGGAAGCTC-CGAAGAGCCA
76271416 TATA
1 TATA
76271420 CAGGATGCTC
Statistics
Matches: 130, Mismatches: 30, Indels: 33
0.67 0.16 0.17
Matches are distributed among these distances:
23 18 0.14
24 36 0.28
25 46 0.35
26 25 0.19
27 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (25 bp):
TATATCGGGAAGCTCCGAAGAGCCA
Found at i:76271374 original size:73 final size:73
Alignment explanation
Indices: 76271236--76271378 Score: 164
Period size: 73 Copynumber: 2.0 Consensus size: 73
76271226 GAAGCTCATA
* * * * * *
76271236 AGAGCCATAATTAGGAAGCTCATGCGAGCCAATAACGGGTAGCTCCGGATAGCCATTAATCAGGA
1 AGAGCCATAATCAGGAAGCTCAAGCGAGCCAATAACGGGAAGCTCCGAAGAGCCATTAAACAGGA
76271301 AGCTCCGG
66 AGCTCCGG
* * * *
76271309 AGAGCCATATATCGGGAAGTTCAAGCGAGCC-ATATCGGGAAGCTCCGAAGAGTCA-TAAACGAG
1 AGAGCCATA-ATCAGGAAGCTCAAGCGAGCCAATAACGGGAAGCTCCGAAGAGCCATTAAAC-AG
76271372 GAAGCTC
64 GAAGCTC
76271379 ACAAAGAGCC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
72 4 0.07
73 37 0.64
74 17 0.29
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (73 bp):
AGAGCCATAATCAGGAAGCTCAAGCGAGCCAATAACGGGAAGCTCCGAAGAGCCATTAAACAGGA
AGCTCCGG
Found at i:76272937 original size:21 final size:22
Alignment explanation
Indices: 76272889--76272937 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
76272879 ATTTACTAAC
*
76272889 TTAATTTTATAAACAATAATTA
1 TTAATTTAATAAACAATAATTA
76272911 TT-ATTTAAT-AA-AATAAATTA
1 TTAATTTAATAAACAAT-AATTA
76272931 TTAATTT
1 TTAATTT
76272938 CCCTCCGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.12
20 9 0.38
21 10 0.42
22 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAATTTAATAAACAATAATTA
Found at i:76274005 original size:16 final size:17
Alignment explanation
Indices: 76273960--76274005 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
76273950 TTAAAAATTT
*
76273960 TAAAAAATAATATTTTC
1 TAAAAAATAATATATTC
*
76273977 TAAAAAAT-TTATATT-
1 TAAAAAATAATATATTC
*
76273992 TGAAAAATAATATA
1 TAAAAAATAATATA
76274006 ACATTTATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 7 0.29
16 9 0.38
17 8 0.33
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
TAAAAAATAATATATTC
Found at i:76274555 original size:13 final size:13
Alignment explanation
Indices: 76274537--76274561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76274527 AGTTCTTCAT
76274537 TGCTTTTGAAAAA
1 TGCTTTTGAAAAA
76274550 TGCTTTTGAAAA
1 TGCTTTTGAAAA
76274562 GTTTGGTTTA
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAA
Found at i:76276243 original size:18 final size:19
Alignment explanation
Indices: 76276222--76276264 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
76276212 AAAGAGACGA
76276222 AAAATTAAATATAT-AAAT
1 AAAATTAAATATATAAAAT
* *
76276240 AAAA-TAAATTTTTAAAAT
1 AAAATTAAATATATAAAAT
76276258 AAAATTA
1 AAAATTA
76276265 CGACAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 12 0.57
19 2 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTAAATATATAAAAT
Found at i:76276411 original size:42 final size:42
Alignment explanation
Indices: 76276354--76276445 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
76276344 ATTTTTCGGA
*
76276354 AAATCGCGTCCACGTCAGCGCGAAGTCAGGGGACGCGCCAGG
1 AAATCGCGGCCACGTCAGCGCGAAGTCAGGGGACGCGCCAGG
*
76276396 AAATCGCGGCCACGTCAGCGCGATGTCAGGGGACGCGCCAGG
1 AAATCGCGGCCACGTCAGCGCGAAGTCAGGGGACGCGCCAGG
76276438 AAATCGCG
1 AAATCGCG
76276446 CCCTCTAGGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.24, C:0.30, G:0.36, T:0.10
Consensus pattern (42 bp):
AAATCGCGGCCACGTCAGCGCGAAGTCAGGGGACGCGCCAGG
Found at i:76277865 original size:7 final size:7
Alignment explanation
Indices: 76277853--76277877 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
76277843 AGTCGATTGA
76277853 TATTTAG
1 TATTTAG
76277860 TATTTAG
1 TATTTAG
76277867 TATTTAG
1 TATTTAG
76277874 TATT
1 TATT
76277878 ATTTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:76293111 original size:169 final size:169
Alignment explanation
Indices: 76291993--76293023 Score: 1895
Period size: 169 Copynumber: 6.1 Consensus size: 169
76291983 GTTTATTATA
*
76291993 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
* * * ** *
76292058 ATTACAGCGGAGCAGATC-AAGGATAGTAATCCTATCTCCTTG-AGATTACAATGGAGCGGATTA
66 ATTACAGCGGAGCAGATCGAA-GACACT-ATCTTATCTCCCCGAAG-TTACAGTGGAGCGGATTA
76292121 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
128 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
76292163 CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
76292228 ATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAG
66 ATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAG
76292293 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
131 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
76292332 CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
76292397 ATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAG
66 ATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAG
76292462 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
131 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
76292501 CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
76292566 ATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAG
66 ATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAG
76292631 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
131 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
76292670 CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
76292735 ATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAG
66 ATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAG
76292800 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
131 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
76292839 CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
76292904 ATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAG
66 ATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAG
* * * * *
76292969 GATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCTT
131 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
* *
76293008 CAAGTCTTATTTCCCT
1 CAGGTCTTATCTCCCT
76293024 AAAGATGCAG
Statistics
Matches: 845, Mismatches: 14, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
169 755 0.89
170 88 0.10
171 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (169 bp):
CAGGTCTTATCTCCCTGATATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAG
GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
Found at i:76294118 original size:15 final size:16
Alignment explanation
Indices: 76294098--76294130 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
76294088 NNNNNNTATA
76294098 TATATATA-CATATTT
1 TATATATAGCATATTT
76294113 TATATATATGCATATTT
1 TATATATA-GCATATTT
76294130 T
1 T
76294131 TCTTCTTTAT
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:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATAGCATATTT
Found at i:76294118 original size:17 final size:17
Alignment explanation
Indices: 76294096--76294130 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
76294086 NNNNNNNNTA
76294096 TATATATATACATATTT
1 TATATATATACATATTT
*
76294113 TATATATATGCATATTT
1 TATATATATACATATTT
76294130 T
1 T
76294131 TCTTCTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (17 bp):
TATATATATACATATTT
Found at i:76296079 original size:25 final size:24
Alignment explanation
Indices: 76296051--76296244 Score: 149
Period size: 25 Copynumber: 8.3 Consensus size: 24
76296041 TATTTTGATA
*
76296051 TTATTTGATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAA-T
76296076 TTATTTGATGTAATAAAATAGAAT
1 TTATTTGATGTAATAAAATAGAAT
* * ** *
76296100 TT-TTT--T-TAGTTATTTTG-AT
1 TTATTTGATGTAATAAAATAGAAT
76296119 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAA-T
76296145 TTATTTGATGTAATAAAATAGAAT
1 TTATTTGATGTAATAAAATAGAAT
* * ** *
76296169 TT-TTT--T-TAGTTATTTTG-AT
1 TTATTTGATGTAATAAAATAGAAT
76296188 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAA-T
* *
76296214 TTATTTGATGTAATAAAGTAGAAA
1 TTATTTGATGTAATAAAATAGAAT
76296238 TT-TTTGA
1 TTATTTGA
76296245 ATATTTTGAA
Statistics
Matches: 132, Mismatches: 23, Indels: 30
0.71 0.12 0.16
Matches are distributed among these distances:
19 4 0.03
20 16 0.12
21 8 0.06
23 13 0.10
24 20 0.15
25 69 0.52
26 2 0.02
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (24 bp):
TTATTTGATGTAATAAAATAGAAT
Found at i:76296123 original size:69 final size:69
Alignment explanation
Indices: 76296041--76296242 Score: 377
Period size: 69 Copynumber: 2.9 Consensus size: 69
76296031 ATATTTTGAA
*
76296041 TATTTTGATATTATTTGATATAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATTTTTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATTTTTTT
76296106 TAGT
66 TAGT
76296110 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATTTTTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATTTTTTT
76296175 TAGT
66 TAGT
* *
76296179 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAGTAGAAATTTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATTTTTT
76296243 GAATATTTTG
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 130 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.49
Consensus pattern (69 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATTTTTTT
TAGT
Found at i:76296253 original size:9 final size:9
Alignment explanation
Indices: 76296239--76296275 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
76296229 AAGTAGAAAT
76296239 TTTTGAATA
1 TTTTGAATA
76296248 TTTTGAATA
1 TTTTGAATA
76296257 TTTTGAATA
1 TTTTGAATA
76296266 TTTTG-ATA
1 TTTTGAATA
76296274 TT
1 TT
76296276 ATTTGAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (9 bp):
TTTTGAATA
Done.