Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 44 of 240
Found at i:15145998 original size:44 final size:44
Alignment explanation
Indices: 15145944--15146089 Score: 107
Period size: 44 Copynumber: 3.2 Consensus size: 44
15145934 TGGAGCAAAA
*
15145944 TGAAGCTACAAATATTATATCCCTAAAATTGCAGTAGAATGGAT
1 TGAAACTACAAATATTATATCCCTAAAATTGCAGTAGAATGGAT
* * * *** *
15145988 TGAAACTACAACAACAAATCTTATCTCCCTAAGGA-TGCAGT-GAAAAAAAA
1 TGAAACT------ACAAATATTATATCCCTAA-AATTGCAGTAG-AATGGAT
* * *
15146038 TGAAACTAAAAATATTCTATCCCTGAAATTGCAGTAGAATGGAT
1 TGAAACTACAAATATTATATCCCTAAAATTGCAGTAGAATGGAT
15146082 TGAAACTA
1 TGAAACTA
15146090 TAACAACAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
43 1 0.01
44 37 0.50
45 1 0.01
49 1 0.01
50 33 0.45
51 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (44 bp):
TGAAACTACAAATATTATATCCCTAAAATTGCAGTAGAATGGAT
Found at i:15146027 original size:50 final size:48
Alignment explanation
Indices: 15145951--15146109 Score: 134
Period size: 50 Copynumber: 3.3 Consensus size: 48
15145941 AAATGAAGCT
* *
15145951 ACAAATATTATATCCCTAAAATTGCAGTAGAATGGATTGAAACTACAACA
1 ACAAATCTTATCTCCCT-AAATTGCAGTAGAATGGATTGAAACTA-AACA
*** *
15146001 ACAAATCTTATCTCCCTAAGGA-TGCAGT-GAAAAAAAATGAAACTAAA-A
1 ACAAATCTTATCTCCCTAA--ATTGCAGTAG-AATGGATTGAAACTAAACA
* *
15146049 A-TATTC-TA--TCCCTGAAATTGCAGTAGAATGGATTGAAACTATAACA
1 ACAAATCTTATCTCCCT-AAATTGCAGTAGAATGGATTGAAACTA-AACA
15146095 ACAAATCTTATCTCC
1 ACAAATCTTATCTCC
15146110 TTAATGTTGA
Statistics
Matches: 83, Mismatches: 14, Indels: 24
0.69 0.12 0.20
Matches are distributed among these distances:
43 1 0.01
44 22 0.27
45 5 0.06
46 4 0.05
47 6 0.07
48 4 0.05
49 5 0.06
50 35 0.42
51 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (48 bp):
ACAAATCTTATCTCCCTAAATTGCAGTAGAATGGATTGAAACTAAACA
Found at i:15146138 original size:94 final size:94
Alignment explanation
Indices: 15145910--15146113 Score: 327
Period size: 94 Copynumber: 2.2 Consensus size: 94
15145900 TACCATGGCG
* *
15145910 AATCTTATCTCCTTAAGGATGCAGTGGAGCAAAATGAAGCTACAAATATTATATCCCTAAAATTG
1 AATCTTATCTCCTTAAGGATGCAGTGGAGCAAAATGAAACTAAAAATATTATATCCCTAAAATTG
15145975 CAGTAGAATGGATTGAAACTACAACAACA
66 CAGTAGAATGGATTGAAACTACAACAACA
* * ** * *
15146004 AATCTTATCTCCCTAAGGATGCAGTGAAAAAAAATGAAACTAAAAATATTCTATCCCTGAAATTG
1 AATCTTATCTCCTTAAGGATGCAGTGGAGCAAAATGAAACTAAAAATATTATATCCCTAAAATTG
*
15146069 CAGTAGAATGGATTGAAACTATAACAACA
66 CAGTAGAATGGATTGAAACTACAACAACA
15146098 AATCTTATCTCCTTAA
1 AATCTTATCTCCTTAA
15146114 TGTTGAAATG
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 100 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (94 bp):
AATCTTATCTCCTTAAGGATGCAGTGGAGCAAAATGAAACTAAAAATATTATATCCCTAAAATTG
CAGTAGAATGGATTGAAACTACAACAACA
Found at i:15147643 original size:19 final size:18
Alignment explanation
Indices: 15147610--15147646 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
15147600 GTCCTTTGCC
*
15147610 TATTTTTTGTTATTTTAT
1 TATTTTTTATTATTTTAT
15147628 TATTTTATTATTATTTTAT
1 TATTTT-TTATTATTTTAT
15147647 ATCCAACACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
TATTTTTTATTATTTTAT
Found at i:15149137 original size:30 final size:31
Alignment explanation
Indices: 15149084--15149150 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
15149074 AATCTAAATT
15149084 TTAAAAAATATAAAGATTAAAATT-AACCAAA
1 TTAAAAAATATAAAGATTAAAATTGAA-CAAA
* * * *
15149115 TTAAAAAGTA-AATGATTGAAATTGAAGAAA
1 TTAAAAAATATAAAGATTAAAATTGAACAAA
15149145 TTAAAA
1 TTAAAA
15149151 TAAGATACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.27
Consensus pattern (31 bp):
TTAAAAAATATAAAGATTAAAATTGAACAAA
Found at i:15151158 original size:21 final size:21
Alignment explanation
Indices: 15151134--15151177 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
15151124 CTCTTCAATT
15151134 GACACTCACAGCAGACTCAAA
1 GACACTCACAGCAGACTCAAA
15151155 GACACTCACAGCAGACTCAAA
1 GACACTCACAGCAGACTCAAA
15151176 GA
1 GA
15151178 AGCTCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.32, G:0.16, T:0.09
Consensus pattern (21 bp):
GACACTCACAGCAGACTCAAA
Found at i:15154167 original size:378 final size:378
Alignment explanation
Indices: 15153472--15154214 Score: 1443
Period size: 378 Copynumber: 2.0 Consensus size: 378
15153462 GCATTCAATA
*
15153472 GCAATAAATTATAATGAGAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
1 GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
15153537 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
66 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
15153602 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAACTAAA
131 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAACTAAA
15153667 TCAACAACAAGAAGGAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGTT
196 TCAACAACAAGAAGGAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGTT
15153732 GCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTCC
261 GCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTCC
*
15153797 TCAATTTTGACCCAAATTTCCCCATTCATCTTATTTCTAAGAAACTTACAAAT
326 TCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAAGAAACTTACAAAT
15153850 GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
1 GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
15153915 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATG-AAAAAAGCGAAGAAAGCACAAATTAA
66 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
*
15153979 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAATTAAA
131 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAACTAAA
15154044 TCAACAACAAGAAGGAAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
196 TCAACAACAAGAAGG-AAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
15154109 TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
260 TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
15154174 CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAA
325 CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAA
15154215 TCATTTTATT
Statistics
Matches: 361, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
377 105 0.29
378 256 0.71
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (378 bp):
GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAACTAAA
TCAACAACAAGAAGGAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGTT
GCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTCC
TCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAAGAAACTTACAAAT
Found at i:15154218 original size:15 final size:15
Alignment explanation
Indices: 15154198--15154229 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15154188 AAATTTCCCC
15154198 AATCATCTTATTTCT
1 AATCATCTTATTTCT
*
15154213 AATCATTTTATTTCT
1 AATCATCTTATTTCT
15154228 AA
1 AA
15154230 GAAACTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (15 bp):
AATCATCTTATTTCT
Found at i:15154941 original size:64 final size:64
Alignment explanation
Indices: 15154862--15155008 Score: 285
Period size: 64 Copynumber: 2.3 Consensus size: 64
15154852 TATAGTATTT
15154862 AAATTAGAGGATTCGAACTTAAGATTTTAAAATTCTCAAATTTCTAACCTTATTAATTCAATCA
1 AAATTAGAGGATTCGAACTTAAGATTTTAAAATTCTCAAATTTCTAACCTTATTAATTCAATCA
*
15154926 AAATTAAAGGATTCGAACTTAAGATTTTAAAATTCTCAAATTTCTAACCTTATTAATTCAATCA
1 AAATTAGAGGATTCGAACTTAAGATTTTAAAATTCTCAAATTTCTAACCTTATTAATTCAATCA
15154990 AAATTAGAGGATTCGAACT
1 AAATTAGAGGATTCGAACT
15155009 AATATAACAT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (64 bp):
AAATTAGAGGATTCGAACTTAAGATTTTAAAATTCTCAAATTTCTAACCTTATTAATTCAATCA
Found at i:15158601 original size:21 final size:21
Alignment explanation
Indices: 15158577--15158629 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
15158567 CATTGTTTCT
*
15158577 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
15158598 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
15158619 AATCTCACCGC
1 AATCTCACCGC
15158630 CACTGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:15159646 original size:18 final size:18
Alignment explanation
Indices: 15159623--15159662 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
15159613 TATGATTTTA
*
15159623 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
15159641 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
15159659 AAAA
1 AAAA
15159663 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:15159789 original size:30 final size:30
Alignment explanation
Indices: 15159745--15159807 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
15159735 ACTTAACAAG
*
15159745 CAAATGCCTCTAAAATAATAGCAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * *
15159775 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
15159805 CAA
1 CAA
15159808 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:15160271 original size:20 final size:20
Alignment explanation
Indices: 15160246--15160297 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
15160236 ATTAATTATT
*
15160246 TATAAAATTTAATTTAAATA
1 TATAAAATATAATTTAAATA
* *
15160266 TATAAACTATATTTTAAATA
1 TATAAAATATAATTTAAATA
15160286 T-TAAAATATAAT
1 TATAAAATATAAT
15160298 CAATCAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATAAAATATAATTTAAATA
Found at i:15171827 original size:13 final size:13
Alignment explanation
Indices: 15171811--15171837 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15171801 TTTAAACCAA
15171811 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
15171824 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
15171837 A
1 A
15171838 TTGCCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:15174004 original size:12 final size:12
Alignment explanation
Indices: 15173987--15174024 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
15173977 CAGCCCGCCC
15173987 ATATTAATTTTT
1 ATATTAATTTTT
15173999 ATATT-ATTTTT
1 ATATTAATTTTT
*
15174010 ATA-TAATTTTA
1 ATATTAATTTTT
15174021 ATAT
1 ATAT
15174025 ATATAATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 1 0.04
11 17 0.74
12 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:15175271 original size:31 final size:31
Alignment explanation
Indices: 15175217--15175297 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
15175207 AGAATATAAT
* * **
15175217 TTTTGGCCCCTAAACTTGGCAACTAGGTCCA
1 TTTTGGTCCCTAAACTTGACAACTAAATCCA
* *
15175248 TTTTGGTCCTTAAAATTGACAACTAAATCCA
1 TTTTGGTCCCTAAACTTGACAACTAAATCCA
15175279 TTTTGGTCCCTAAACTTGA
1 TTTTGGTCCCTAAACTTGA
15175298 ATTCTATCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (31 bp):
TTTTGGTCCCTAAACTTGACAACTAAATCCA
Found at i:15175788 original size:30 final size:30
Alignment explanation
Indices: 15175754--15175810 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15175744 AAATTCATGT
*
15175754 CAAAGT-AGACATAATTATCAAGTTTAATAC
1 CAAAGTCA-ACATAATTATCAAATTTAATAC
*
15175784 CAAAGTCAACTTAATTATCAAATTTAA
1 CAAAGTCAACATAATTATCAAATTTAA
15175811 AAACAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
CAAAGTCAACATAATTATCAAATTTAATAC
Found at i:15195615 original size:19 final size:19
Alignment explanation
Indices: 15195591--15195629 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15195581 TGAAGCAAGT
15195591 TCTAGAATAACAAATCAAA
1 TCTAGAATAACAAATCAAA
15195610 TCTAGAATAACAAATCAAA
1 TCTAGAATAACAAATCAAA
15195629 T
1 T
15195630 TGACACACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (19 bp):
TCTAGAATAACAAATCAAA
Found at i:15196034 original size:20 final size:21
Alignment explanation
Indices: 15196011--15196051 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
15196001 ATATATGTAC
15196011 ATATATA-AGTTAT-AAAATAA
1 ATATATAGA-TTATGAAAATAA
15196031 ATATATAGATTATGAAAATAA
1 ATATATAGATTATGAAAATAA
15196052 TGATTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
ATATATAGATTATGAAAATAA
Found at i:15204005 original size:17 final size:16
Alignment explanation
Indices: 15203985--15204053 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 16
15203975 AAAAAGCAAC
15203985 TAAAACAAAATAAATAA
1 TAAAA-AAAATAAATAA
*
15204002 TAAAGATAAATAAATAA
1 TAAA-AAAAATAAATAA
15204019 TAAAATAAAA-ATAA-AA
1 TAAAA-AAAATA-AATAA
**
15204035 CGAAAAAAATAAATAA
1 TAAAAAAAATAAATAA
15204051 TAA
1 TAA
15204054 TAAACTTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
15 6 0.15
16 11 0.27
17 23 0.56
18 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (16 bp):
TAAAAAAAATAAATAA
Found at i:15204027 original size:22 final size:21
Alignment explanation
Indices: 15203992--15204057 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
15203982 AACTAAAACA
* *
15203992 AAATAAATAATAAAGATAAAT
1 AAATAAAAAATAAAAATAAAT
15204013 AAATAATAAAATAAAAATAAA-
1 AAATAA-AAAATAAAAATAAAT
*
15204034 ACGA-AAAAAATAAATAAT-AAT
1 A-AATAAAAAATAAA-AATAAAT
15204055 AAA
1 AAA
15204058 CTTAATGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
20 11 0.30
21 13 0.35
22 13 0.35
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.20
Consensus pattern (21 bp):
AAATAAAAAATAAAAATAAAT
Found at i:15204179 original size:5 final size:5
Alignment explanation
Indices: 15204169--15204236 Score: 52
Period size: 5 Copynumber: 13.2 Consensus size: 5
15204159 GTATAAGAAT
* *
15204169 AATAA AATAA AA-AA TAGTAA AATAA AA-ATA AATAA TATAACA AATAA
1 AATAA AATAA AATAA -AATAA AATAA AATA-A AATAA AAT-A-A AATAA
15204216 TAA-AA AATAA AATAA AATAA A
1 -AATAA AATAA AATAA AATAA A
15204237 TTGGGTGGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
4 5 0.10
5 36 0.71
6 7 0.14
7 3 0.06
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:15204189 original size:15 final size:15
Alignment explanation
Indices: 15204166--15204230 Score: 71
Period size: 15 Copynumber: 4.3 Consensus size: 15
15204156 TAAGTATAAG
15204166 AATAATAAAATAAAA
1 AATAATAAAATAAAA
*
15204181 AATAGTAAAAT-AAA
1 AATAATAAAATAAAA
* *
15204195 AATAAATAATATAACA
1 AAT-AATAAAATAAAA
15204211 AATAATAAAA-AATAA
1 AATAATAAAATAA-AA
15204226 AATAA
1 AATAA
15204231 AATAAATTGG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.20
15 28 0.68
16 5 0.12
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
AATAATAAAATAAAA
Found at i:15204214 original size:30 final size:30
Alignment explanation
Indices: 15204161--15204236 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
15204151 AAATCTAAGT
* *
15204161 ATAAGAAT-AATAAAATAAAAAATAGTAAA
1 ATAAAAATAAATAAAATAAAAAATAATAAA
* *
15204190 ATAAAAATAAATAATATAACAAATAATAAA
1 ATAAAAATAAATAAAATAAAAAATAATAAA
*
15204220 AAATAAAATAAAATAAA
1 ATA-AAAAT-AAATAAA
15204237 TTGGGTGGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 7 0.18
30 20 0.53
31 5 0.13
32 6 0.16
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (30 bp):
ATAAAAATAAATAAAATAAAAAATAATAAA
Found at i:15204223 original size:22 final size:22
Alignment explanation
Indices: 15204188--15204230 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15204178 AAAAATAGTA
*
15204188 AAATAAAAATAAATAATATAAC
1 AAATAAAAATAAATAAAATAAC
15204210 AAATAATAAA-AAATAAAATAA
1 AAATAA-AAATAAATAAAATAA
15204231 AATAAATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
AAATAAAAATAAATAAAATAAC
Found at i:15204437 original size:61 final size:61
Alignment explanation
Indices: 15204321--15204437 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
15204311 GTGTCAGGCC
* * * *
15204321 ATGTGTGTTTTCCTTCGCTTCTCGCACGCCCATGTGAGATCCCACACGCCTGTGTATCCTG
1 ATGTGTGTTTTCCTTCGCTTCTCCCACACCCAAGTGAGATCCCACACGCCCGTGTATCCTG
* * *
15204382 ATGTGTGTTTTCCTTCGCTTCTCCCACACCCAAGTGGGATCCCGCATGCCCGTGTA
1 ATGTGTGTTTTCCTTCGCTTCTCCCACACCCAAGTGAGATCCCACACGCCCGTGTA
15204438 GCCAGGCCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.14, C:0.33, G:0.21, T:0.32
Consensus pattern (61 bp):
ATGTGTGTTTTCCTTCGCTTCTCCCACACCCAAGTGAGATCCCACACGCCCGTGTATCCTG
Found at i:15214692 original size:49 final size:49
Alignment explanation
Indices: 15214610--15214721 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 49
15214600 GGTTATACAA
*
15214610 TCACGGGTTTAAGTATAACTAGGGCTCCCAGTTGACGGTAGTTATGC-G
1 TCACGGGTTCAAGTATAACTAGGGCTCCCAGTTGACGGTAGTTATGCGG
* * ** *
15214658 TCCACGGGTTCAAGTATAACTTGGGC-CCTTAGTTGGTGGTGGTTATGCGG
1 T-CACGGGTTCAAGTATAACTAGGGCTCC-CAGTTGACGGTAGTTATGCGG
*
15214708 TCATGGGTTCAAGT
1 TCACGGGTTCAAGT
15214722 TTCATGCTCC
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
48 3 0.06
49 49 0.91
50 2 0.04
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (49 bp):
TCACGGGTTCAAGTATAACTAGGGCTCCCAGTTGACGGTAGTTATGCGG
Found at i:15226761 original size:44 final size:44
Alignment explanation
Indices: 15226698--15226784 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
15226688 CGCTTGGTAC
* *
15226698 GCTTCATTTTGGTCATAAAAATGGAATCATAAAGCTTATGTTTT
1 GCTTCATTTTGGTCATAAAAATGGAACCATAAAGCTTAGGTTTT
*
15226742 GCTTCATTTTGGTCATAAAATTGGAACCATAAAGCTTAGGTTT
1 GCTTCATTTTGGTCATAAAAATGGAACCATAAAGCTTAGGTTT
15226785 GGCGGTAACT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (44 bp):
GCTTCATTTTGGTCATAAAAATGGAACCATAAAGCTTAGGTTTT
Found at i:15230528 original size:51 final size:49
Alignment explanation
Indices: 15230473--15230581 Score: 116
Period size: 51 Copynumber: 2.2 Consensus size: 49
15230463 TAAAAAGCTT
15230473 TTGTGGCATATTAT-TCGAAAAGCCTTAGTGGCGAAGTTATCTGGG-AAGCCC
1 TTGTGGCATATTATCT-GAAAAGCCTTAGTGGCG-AG--ATCTGGGTAAGCCC
* * * *
15230524 TTGTGGCGA-ATTATCTGAAATGCCTTTGTGGCGAGATCTGGGTATGCCT
1 TTGTGGC-ATATTATCTGAAAAGCCTTAGTGGCGAGATCTGGGTAAGCCC
15230573 TTGTGGCAT
1 TTGTGGCAT
15230582 TTTTTAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
48 8 0.16
49 11 0.22
50 2 0.04
51 27 0.54
52 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (49 bp):
TTGTGGCATATTATCTGAAAAGCCTTAGTGGCGAGATCTGGGTAAGCCC
Found at i:15230533 original size:76 final size:76
Alignment explanation
Indices: 15230369--15230555 Score: 196
Period size: 76 Copynumber: 2.4 Consensus size: 76
15230359 ATTCGAAAAA
* * * *
15230369 CCTTAGTGGCAAATTATCTAAAAGGCCTTTATGGCGTATCATTCAGAAAGCCTTAGTGGAAAAGT
1 CCTT-GTGGCGAATTATCTAAAAAGCCTTTGTGGCATATCATTCAGAAAGCCTTAGTGGAAAAGT
15230434 TATCTAAGAAAC
65 TATCTAAGAAAC
** * * * * **
15230446 TTTTATAGCGAATTATCTAAAAAGCTTTTGTGGCATATTATTC-GAAAAGCCTTAGTGGCGAAGT
1 CCTTGTGGCGAATTATCTAAAAAGCCTTTGTGGCATATCATTCAG-AAAGCCTTAGTGGAAAAGT
** *
15230510 TATCTGGGAAGC
65 TATCTAAGAAAC
* *
15230522 CCTTGTGGCGAATTATCTGAAATGCCTTTGTGGC
1 CCTTGTGGCGAATTATCTAAAAAGCCTTTGTGGC
15230556 GAGATCTGGG
Statistics
Matches: 87, Mismatches: 22, Indels: 3
0.78 0.20 0.03
Matches are distributed among these distances:
75 1 0.01
76 84 0.97
77 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (76 bp):
CCTTGTGGCGAATTATCTAAAAAGCCTTTGTGGCATATCATTCAGAAAGCCTTAGTGGAAAAGTT
ATCTAAGAAAC
Found at i:15230552 original size:25 final size:26
Alignment explanation
Indices: 15230453--15230557 Score: 94
Period size: 25 Copynumber: 4.2 Consensus size: 26
15230443 AACTTTTATA
* *
15230453 GCGAATTATCT-AAAAAGCTTTTGTG
1 GCGAATTATCTCGAAAAGCCTTTGTG
*
15230478 GC-ATATTAT-TCGAAAAGCCTTAGTG
1 GCGA-ATTATCTCGAAAAGCCTTTGTG
** *
15230503 GCGAAGTTATCT-GGGAAGCCCTTGTG
1 GCGAA-TTATCTCGAAAAGCCTTTGTG
*
15230529 GCGAATTATCT-GAAATGCCTTTGTG
1 GCGAATTATCTCGAAAAGCCTTTGTG
15230554 GCGA
1 GCGA
15230558 GATCTGGGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
24 2 0.03
25 41 0.64
26 20 0.31
27 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (26 bp):
GCGAATTATCTCGAAAAGCCTTTGTG
Found at i:15244924 original size:30 final size:28
Alignment explanation
Indices: 15244862--15244923 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
15244852 CGATTTTACG
15244862 AAAAATGGCTCATTCCGATAAATAATAA
1 AAAAATGGCTCATTCCGATAAATAATAA
* **
15244890 AAAAATCGGCTCATTTCGATAAATTTTAA
1 AAAAAT-GGCTCATTCCGATAAATAATAA
15244919 AAAAA
1 AAAAA
15244924 ACGACTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (28 bp):
AAAAATGGCTCATTCCGATAAATAATAA
Found at i:15247385 original size:22 final size:21
Alignment explanation
Indices: 15247357--15247537 Score: 92
Period size: 22 Copynumber: 8.2 Consensus size: 21
15247347 AGCAATTATC
15247357 TAACATTCAGACAACATTTAAT
1 TAACATT-AGACAACATTTAAT
*
15247379 TAACATTTGGACAACATTTAAT
1 TAACA-TTAGACAACATTTAAT
* *
15247401 CAACAATTAGACAACATTCAAT
1 TAAC-ATTAGACAACATTTAAT
* * * *
15247423 CAATATTTGGACAACATTCAAT
1 TAACA-TTAGACAACATTTAAT
* * * * *
15247445 CAACAATTGGATAGCATTAAAT
1 TAAC-ATTAGACAACATTTAAT
* * *
15247467 CAACATTTGGACAGCATTTAAT
1 TAACA-TTAGACAACATTTAAT
* * *
15247489 CAACAATTGGACAACATTCAAT
1 TAAC-ATTAGACAACATTTAAT
* * *
15247511 CAATATTTGGACAACATTTAAT
1 TAACA-TTAGACAACATTTAAT
*
15247533 CAACA
1 TAACA
15247538 ATTTTTACTT
Statistics
Matches: 135, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
21 3 0.02
22 127 0.94
23 5 0.04
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (21 bp):
TAACATTAGACAACATTTAAT
Found at i:15247417 original size:44 final size:44
Alignment explanation
Indices: 15247365--15247540 Score: 253
Period size: 44 Copynumber: 4.0 Consensus size: 44
15247355 TCTAACATTC
* *
15247365 AGACAACATTTAATTAACATTTGGACAACATTTAATCAACAATT
1 AGACAACATTCAATCAACATTTGGACAACATTTAATCAACAATT
* *
15247409 AGACAACATTCAATCAATATTTGGACAACATTCAATCAACAATT
1 AGACAACATTCAATCAACATTTGGACAACATTTAATCAACAATT
* * * * *
15247453 GGATAGCATTAAATCAACATTTGGACAGCATTTAATCAACAATT
1 AGACAACATTCAATCAACATTTGGACAACATTTAATCAACAATT
* *
15247497 GGACAACATTCAATCAATATTTGGACAACATTTAATCAACAATT
1 AGACAACATTCAATCAACATTTGGACAACATTTAATCAACAATT
15247541 TTTACTTTAA
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 116 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.30
Consensus pattern (44 bp):
AGACAACATTCAATCAACATTTGGACAACATTTAATCAACAATT
Found at i:15247487 original size:88 final size:88
Alignment explanation
Indices: 15247371--15247540 Score: 295
Period size: 88 Copynumber: 1.9 Consensus size: 88
15247361 ATTCAGACAA
* *
15247371 CATTTAATTAACATTTGGACAACATTTAATCAACAATTAGACAACATTCAATCAATATTTGGACA
1 CATTAAATCAACATTTGGACAACATTTAATCAACAATTAGACAACATTCAATCAATATTTGGACA
15247436 ACATTCAATCAACAATTGGATAG
66 ACATTCAATCAACAATTGGATAG
* *
15247459 CATTAAATCAACATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAATATTTGGACA
1 CATTAAATCAACATTTGGACAACATTTAATCAACAATTAGACAACATTCAATCAATATTTGGACA
*
15247524 ACATTTAATCAACAATT
66 ACATTCAATCAACAATT
15247541 TTTACTTTAA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.31
Consensus pattern (88 bp):
CATTAAATCAACATTTGGACAACATTTAATCAACAATTAGACAACATTCAATCAATATTTGGACA
ACATTCAATCAACAATTGGATAG
Found at i:15251585 original size:5 final size:5
Alignment explanation
Indices: 15251569--15251602 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
15251559 TAGTAAAGAC
15251569 CCTAA GCCTAA CCTAA CCTAA CCTAA CCTAA CCT
1 CCTAA -CCTAA CCTAA CCTAA CCTAA CCTAA CCT
15251603 GCAGACTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.35, C:0.41, G:0.03, T:0.21
Consensus pattern (5 bp):
CCTAA
Found at i:15252490 original size:16 final size:16
Alignment explanation
Indices: 15252469--15252501 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15252459 AACAACAAAC
15252469 ATTCGTCATATGTAGT
1 ATTCGTCATATGTAGT
15252485 ATTCGTCATATGTAGT
1 ATTCGTCATATGTAGT
15252501 A
1 A
15252502 AAAGACAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (16 bp):
ATTCGTCATATGTAGT
Found at i:15256379 original size:213 final size:213
Alignment explanation
Indices: 15256012--15256419 Score: 798
Period size: 213 Copynumber: 1.9 Consensus size: 213
15256002 GCTTATGCTA
*
15256012 TATGTGTATTTGGCTAACATATTTGGTGTACATGCTTAGGCTTTGGCTAAGTAGTGGCTAGATTA
1 TATGTGTATTTGGCTAACATATTTGGTGTACATGCTTAGGCTTTGGCCAAGTAGTGGCTAGATTA
15256077 TGCCACGTTAAATTTATAAGTTATGCATTGAAATGGTAAGTGCCTAATTGAAAATATGCTTGTGA
66 TGCCACGTTAAATTTATAAGTTATGCATTGAAATGGTAAGTGCCTAATTGAAAATATGCTTGTGA
*
15256142 TCATGAAAAGGGTGGTAAGGTTTAAATTATGTAATCTCTAGTGAAATGGTTTATCATGTGGTTGT
131 TCATGAAAAGGGTGGTAAGGTTTAAATTATGTAATCTCTAGTAAAATGGTTTATCATGTGGTTGT
15256207 ACATATTTGGTGTATGTG
196 ACATATTTGGTGTATGTG
15256225 TATGTGTATTTGGCTAACATATTTGGTGTACATGCTTAGGCTTTGGCCAAGTAGTGGCTAGATTA
1 TATGTGTATTTGGCTAACATATTTGGTGTACATGCTTAGGCTTTGGCCAAGTAGTGGCTAGATTA
15256290 TGCCACGTTAAATTTATAAGTTATGCATTGAAATGGTAAGTGCCTAATTGAAAATATGCTTGTGA
66 TGCCACGTTAAATTTATAAGTTATGCATTGAAATGGTAAGTGCCTAATTGAAAATATGCTTGTGA
15256355 TCATGAAAAGGGTGGTAAGGTTTAAATTATGTAATCTCTAGTAAAATGGTTTATCATGTGGTTGT
131 TCATGAAAAGGGTGGTAAGGTTTAAATTATGTAATCTCTAGTAAAATGGTTTATCATGTGGTTGT
15256420 TCAAAAAAAG
Statistics
Matches: 193, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 193 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (213 bp):
TATGTGTATTTGGCTAACATATTTGGTGTACATGCTTAGGCTTTGGCCAAGTAGTGGCTAGATTA
TGCCACGTTAAATTTATAAGTTATGCATTGAAATGGTAAGTGCCTAATTGAAAATATGCTTGTGA
TCATGAAAAGGGTGGTAAGGTTTAAATTATGTAATCTCTAGTAAAATGGTTTATCATGTGGTTGT
ACATATTTGGTGTATGTG
Found at i:15256752 original size:44 final size:44
Alignment explanation
Indices: 15256688--15256847 Score: 212
Period size: 44 Copynumber: 3.5 Consensus size: 44
15256678 AGTACTTCTA
*
15256688 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
1 ATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTG
*
15256732 ATCAGTGACAAGTGACAAGTGGTGGCTTTAGCTACACTTATCTG
1 ATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTG
*
15256776 ATCAGTGACAAGTAACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTG
1 ATCAGTGACAAGTGACAA--G-T--G-G-TAGCTTTAGCTACACTTATCTG
* *
15256827 ATCGGGGACAAGTGACAAGTG
1 ATCAGTGACAAGTGACAAGTG
15256848 ATAAATGTGA
Statistics
Matches: 102, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
44 59 0.58
46 2 0.02
47 1 0.01
48 1 0.01
49 2 0.02
50 1 0.01
51 36 0.35
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
ATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTG
Found at i:15256849 original size:51 final size:51
Alignment explanation
Indices: 15256735--15256851 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
15256725 TTATCTGATC
* * * *
15256735 AGTGACAAGTGACAAGTGGTGGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGGGACA
* *
15256786 AGTAACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCGGGGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGGGACA
15256837 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
15256852 ATGTGATCTG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGGGACA
Found at i:15258086 original size:44 final size:44
Alignment explanation
Indices: 15258023--15258109 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
15258013 TGAACATTGC
15258023 ACCAATGGATACATCATTTTTTACTGGTGGTGCTAACACCATAA
1 ACCAATGGATACATCATTTTTTACTGGTGGTGCTAACACCATAA
15258067 ACCAATGGATACATCATTTTTTACTGGTGGTGCTAACACCATA
1 ACCAATGGATACATCATTTTTTACTGGTGGTGCTAACACCATA
15258110 CACCCAAACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (44 bp):
ACCAATGGATACATCATTTTTTACTGGTGGTGCTAACACCATAA
Found at i:15258189 original size:91 final size:89
Alignment explanation
Indices: 15258067--15258249 Score: 294
Period size: 91 Copynumber: 2.0 Consensus size: 89
15258057 AACACCATAA
15258067 ACCAATGGATACATCATTTTTTACTGGTGGTGCTAACACCATACACCCAAACCAAATTTGGCCTA
1 ACCAATGGATACATCATTTTTTACTGGTGGTGCTAACACCATACACCCAAACCAAATTTGGCCTA
* *
15258132 AACTCGATCTATGAACACTCACTGC
66 AACCCAATCTATGAACACTCAC-GC
* * *
15258157 ACCAGTGGATACATTATTTTTTTACTGGTGGTGCTAACACCATACACCCAAACCCAATTTGGCCT
1 ACCAATGGATACATCA-TTTTTTACTGGTGGTGCTAACACCATACACCCAAACCAAATTTGGCCT
*
15258222 AAACCCAATCTATGAACGCTCACGC
65 AAACCCAATCTATGAACACTCACGC
15258247 ACC
1 ACC
15258250 CATTTAAACT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
90 19 0.22
91 67 0.78
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (89 bp):
ACCAATGGATACATCATTTTTTACTGGTGGTGCTAACACCATACACCCAAACCAAATTTGGCCTA
AACCCAATCTATGAACACTCACGC
Found at i:15286439 original size:4 final size:4
Alignment explanation
Indices: 15286430--15286458 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
15286420 ATTATGCTCC
15286430 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
15286459 ATTAAGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:15290647 original size:33 final size:33
Alignment explanation
Indices: 15290605--15290672 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
15290595 GGATTCAGAA
*
15290605 TAACATTATTCACTGTGTCACATTTACAAATAC
1 TAACATTATTCACTATGTCACATTTACAAATAC
15290638 TAACATTATTCACTATGTCACATTTACAAATAC
1 TAACATTATTCACTATGTCACATTTACAAATAC
15290671 TA
1 TA
15290673 GAAGTGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (33 bp):
TAACATTATTCACTATGTCACATTTACAAATAC
Found at i:15296369 original size:21 final size:22
Alignment explanation
Indices: 15296340--15296386 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
15296330 CAGAAGGAGT
*
15296340 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
15296362 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
15296383 GAGT
1 GAGT
15296387 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:15298895 original size:20 final size:20
Alignment explanation
Indices: 15298872--15298910 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15298862 TTTAAAATTG
15298872 AGATGCAATGCCTAAATTTT
1 AGATGCAATGCCTAAATTTT
** *
15298892 AGATGTGATTCCTAAATTT
1 AGATGCAATGCCTAAATTT
15298911 ATCCATTTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (20 bp):
AGATGCAATGCCTAAATTTT
Found at i:15300238 original size:26 final size:25
Alignment explanation
Indices: 15300209--15300258 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
15300199 AATAGTGTTT
15300209 CTCTAAA-AAATACATAAAAATTAATC
1 CTCTAAATAAA-A-ATAAAAATTAATC
*
15300235 CTCTAAATTAAAATAAAAATTAAT
1 CTCTAAATAAAAATAAAAATTAAT
15300259 AATTTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 12 0.55
26 8 0.36
27 2 0.09
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (25 bp):
CTCTAAATAAAAATAAAAATTAATC
Found at i:15314531 original size:22 final size:21
Alignment explanation
Indices: 15314496--15314540 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
15314486 TACCTAATTT
*
15314496 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
15314517 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
15314539 TT
1 TT
15314541 ATTTCTTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:15314644 original size:27 final size:28
Alignment explanation
Indices: 15314606--15314681 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
15314596 AAAATAACAG
*
15314606 CATTGGCGCCTCTCAGAAT-GGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
*
15314633 CATTGGCGCCTCCCAG-GTAGGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
15314660 CATTGGCGCCTCCCAG-ATAGGC
1 CATTGGCGCCTCCCAGAATAGGC
15314682 GCCAATACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.20, C:0.38, G:0.25, T:0.17
Consensus pattern (28 bp):
CATTGGCGCCTCCCAGAATAGGCACCAC
Found at i:15315987 original size:29 final size:30
Alignment explanation
Indices: 15315943--15316001 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
15315933 TTTAATATAA
15315943 TTATAAATATATATAATTATTATT-TAACAT
1 TTATAAATATATATAA-TATTATTATAACAT
* *
15315973 TTATAATTA-ATATAATATTTTTATAACAT
1 TTATAAATATATATAATATTATTATAACAT
15316002 AATATATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.23
29 12 0.46
30 8 0.31
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (30 bp):
TTATAAATATATATAATATTATTATAACAT
Found at i:15316423 original size:22 final size:23
Alignment explanation
Indices: 15316378--15316425 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
15316368 ATGGCTAAGG
**
15316378 TTTTATTTTATAATACACGTATTT
1 TTTTATTCAATAATACACG-ATTT
15316402 TTTTATTCAATAATACAC-ATTT
1 TTTTATTCAATAATACACGATTT
15316424 TT
1 TT
15316426 CAAATTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
24 16 0.73
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTATTCAATAATACACGATTT
Found at i:15318817 original size:11 final size:11
Alignment explanation
Indices: 15318801--15318834 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
15318791 GGTAAGATTA
15318801 GATACTGTAGC
1 GATACTGTAGC
15318812 GATACTGTAGC
1 GATACTGTAGC
15318823 GATACTGTAGC
1 GATACTGTAGC
15318834 G
1 G
15318835 TGAGACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (11 bp):
GATACTGTAGC
Found at i:15320047 original size:35 final size:35
Alignment explanation
Indices: 15320001--15320095 Score: 181
Period size: 35 Copynumber: 2.7 Consensus size: 35
15319991 TATATTTTTT
*
15320001 TATTTTTATTTTTTAATTTTAAAATTCTTTTAAAA
1 TATTTTTATTTTTTATTTTTAAAATTCTTTTAAAA
15320036 TATTTTTATTTTTTATTTTTAAAATTCTTTTAAAA
1 TATTTTTATTTTTTATTTTTAAAATTCTTTTAAAA
15320071 TATTTTTATTTTTTATTTTTAAAAT
1 TATTTTTATTTTTTATTTTTAAAAT
15320096 ATTTTTTTGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (35 bp):
TATTTTTATTTTTTATTTTTAAAATTCTTTTAAAA
Found at i:15324334 original size:40 final size:41
Alignment explanation
Indices: 15324290--15324379 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
15324280 TCCTCATAGG
* *
15324290 CGCGATTTG-TGTCCACGTAAGC-AAATCGCGCTGACGTGGA
1 CGCGATTTGCTG-ACACGTAACCGAAATCGCGCTGACGTGGA
** *
15324330 CGCGATTTGCTGACACGTCCCCTGACATCGCGCTGACGTGGA
1 CGCGATTTGCTGACACGTAACC-GAAATCGCGCTGACGTGGA
15324372 CGCGATTT
1 CGCGATTT
15324380 CGAGAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 15 0.36
41 2 0.05
42 25 0.60
ACGTcount: A:0.19, C:0.29, G:0.29, T:0.23
Consensus pattern (41 bp):
CGCGATTTGCTGACACGTAACCGAAATCGCGCTGACGTGGA
Found at i:15327236 original size:15 final size:17
Alignment explanation
Indices: 15327201--15327238 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
15327191 CCATATTTGA
*
15327201 AATAAAAAATTAATCTT
1 AATATAAAATTAATCTT
15327218 AATATAAAA-TAAT-TT
1 AATATAAAATTAATCTT
15327233 AATATA
1 AATATA
15327239 TTTGATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
AATATAAAATTAATCTT
Found at i:15331782 original size:20 final size:20
Alignment explanation
Indices: 15331757--15331794 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15331747 CGTAAAATGA
*
15331757 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
15331777 TTTCTGTAAAATGATTTA
1 TTTCTGAAAAATGATTTA
15331795 TTGGAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:15331911 original size:20 final size:20
Alignment explanation
Indices: 15331886--15331937 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
15331876 GGAAAAGTTG
15331886 TTTTTACATATATT-AATAAA
1 TTTTTACATATATTAAAT-AA
* *
15331906 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAATAA
15331924 TTTTTACATATATT
1 TTTTTACATATATT
15331938 GCAATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTACATATATTAAATAA
Found at i:15333457 original size:17 final size:18
Alignment explanation
Indices: 15333435--15333476 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
15333425 ATTAAAAGTC
*
15333435 TAAAAATATATATTT-AA
1 TAAAAATACATATTTGAA
*
15333452 TAAAAA-ACATATTTGAT
1 TAAAAATACATATTTGAA
15333469 TAAAAATA
1 TAAAAATA
15333477 AAAAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 7 0.33
17 13 0.62
18 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TAAAAATACATATTTGAA
Found at i:15333481 original size:41 final size:39
Alignment explanation
Indices: 15333380--15333488 Score: 105
Period size: 39 Copynumber: 2.7 Consensus size: 39
15333370 GAGCCTGACC
* * * *
15333380 CATATTTGAATAAAAATAAATATATATATTTAATATATA
1 CATATTTGATTAAAAATAAAAATATATATTTAATAAAAA
** *
15333419 -AT-TTAAATTAAAAGTCTAAAAATATATATTTAATAAAAAA
1 CATATTTGATTAAAA--ATAAAAATATATATTTAAT-AAAAA
15333459 CATATTTGATTAAAAATAAAAAATATATAT
1 CATATTTGATTAAAAAT-AAAAATATATAT
15333489 ATTTAATATA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
37 8 0.15
38 2 0.04
39 17 0.31
40 4 0.07
41 14 0.26
42 9 0.17
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (39 bp):
CATATTTGATTAAAAATAAAAATATATATTTAATAAAAA
Found at i:15333494 original size:23 final size:21
Alignment explanation
Indices: 15333436--15333499 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 21
15333426 TTAAAAGTCT
15333436 AAAAATATATATTT--AATAA
1 AAAAATATATATTTAAAATAA
* *
15333455 AAAACATATTTGATTAAAAATAA
1 AAAA-ATATAT-ATTTAAAATAA
*
15333478 AAAATATATATATTTAATATAA
1 AAAA-ATATATATTTAAAATAA
15333500 TTCAGGCCGG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 3 0.09
22 9 0.26
23 14 0.40
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAATATATATTTAAAATAA
Found at i:15342301 original size:22 final size:24
Alignment explanation
Indices: 15342275--15342318 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
15342265 GAAAAATATT
15342275 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
15342297 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
15342319 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:15342432 original size:9 final size:9
Alignment explanation
Indices: 15342418--15342445 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
15342408 TTTTGTTACA
15342418 ACAATTAAT
1 ACAATTAAT
15342427 ACAATTAAT
1 ACAATTAAT
15342436 ACAATTAAT
1 ACAATTAAT
15342445 A
1 A
15342446 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:15342466 original size:68 final size:68
Alignment explanation
Indices: 15342388--15342588 Score: 307
Period size: 59 Copynumber: 3.1 Consensus size: 68
15342378 TCAAGTTTGT
*
15342388 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
15342453 AAA
66 AAA
15342456 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
15342512 AAA
66 AAA
15342515 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
15342578 AAT
66 AAA
15342581 TTTACTAA
1 TTTACTAA
15342589 CAATTAATTT
Statistics
Matches: 122, Mismatches: 2, Indels: 20
0.85 0.01 0.14
Matches are distributed among these distances:
59 56 0.46
60 1 0.01
62 2 0.02
65 2 0.02
66 27 0.22
67 2 0.02
68 32 0.26
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:15342598 original size:16 final size:16
Alignment explanation
Indices: 15342577--15342618 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
15342567 AATAATTTGA
*
15342577 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
15342593 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
15342609 TAGTTTTAAT
1 TAATTTTAAT
15342619 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:15342602 original size:22 final size:23
Alignment explanation
Indices: 15342592--15342647 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
15342582 TTACTAACAA
* * *
15342592 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
15342614 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
15342637 TTAATTTTAAT
1 TTAATTTTAAT
15342648 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:15343357 original size:21 final size:20
Alignment explanation
Indices: 15343318--15343359 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
15343308 TTAATTTTAC
15343318 TCATATTTTAAATATAAATT
1 TCATATTTTAAATATAAATT
15343338 TCAT-TTTTAAACTCATAAATT
1 TCATATTTTAAA-T-ATAAATT
15343359 T
1 T
15343360 TTTTTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 5 0.25
21 8 0.40
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
TCATATTTTAAATATAAATT
Found at i:15343363 original size:19 final size:18
Alignment explanation
Indices: 15343323--15343364 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
15343313 TTTACTCATA
15343323 TTTTAAATATAAATTTCAT
1 TTTTAAATATAAATTT-AT
15343342 TTTTAAACTCATAAATTT-T
1 TTTTAAA-T-ATAAATTTAT
15343361 TTTT
1 TTTT
15343365 CTCAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAAATATAAATTTAT
Found at i:15346447 original size:14 final size:15
Alignment explanation
Indices: 15346428--15346456 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15346418 CTTTAATAAA
15346428 TAAAAT-TTTAAAGG
1 TAAAATATTTAAAGG
15346442 TAAAATATTTAAAGG
1 TAAAATATTTAAAGG
15346457 ATCATGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (15 bp):
TAAAATATTTAAAGG
Found at i:15352447 original size:17 final size:17
Alignment explanation
Indices: 15352408--15352450 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
15352398 GAAAAAAATC
*
15352408 AATTTAATGAATTAAAA
1 AATTTAATTAATTAAAA
*
15352425 ATTTTAATTAA-TAAACA
1 AATTTAATTAATTAAA-A
15352442 AATTTAATT
1 AATTTAATT
15352451 TAGAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AATTTAATTAATTAAAA
Found at i:15354585 original size:46 final size:46
Alignment explanation
Indices: 15354533--15354677 Score: 240
Period size: 46 Copynumber: 3.2 Consensus size: 46
15354523 TACTTATCCC
*
15354533 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
1 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCATTTTGTCACT
15354579 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCATTTTGTCACT
1 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCATTTTGTCACT
* *
15354625 TGATCTA-ATAAGTGTAGCTAAAGCTAACACTTATCATTTTGTCA-T
1 TGATC-AGATAAGTGTAGCTAAGGCTACCACTTATCATTTTGTCACT
15354670 TGATCAGA
1 TGATCAGA
15354678 AGTACTCAAA
Statistics
Matches: 94, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
44 1 0.01
45 7 0.07
46 85 0.90
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (46 bp):
TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCATTTTGTCACT
Found at i:15357733 original size:12 final size:12
Alignment explanation
Indices: 15357716--15357742 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15357706 TGAGCCTCTT
15357716 GGGGTATATGAA
1 GGGGTATATGAA
15357728 GGGGTATATGAA
1 GGGGTATATGAA
15357740 GGG
1 GGG
15357743 ATCACATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.22
Consensus pattern (12 bp):
GGGGTATATGAA
Found at i:15366858 original size:59 final size:59
Alignment explanation
Indices: 15366766--15366882 Score: 189
Period size: 59 Copynumber: 2.0 Consensus size: 59
15366756 ATATACATAT
* *
15366766 TTTTGTTTTAGTTATATTTATTGTAATCACTAACGTTATTGAAATTTAATACTCCTTCG
1 TTTTGTTTTAGTAATATTTATTGTAATCACTAACATTATTGAAATTTAATACTCCTTCG
* * *
15366825 TTTTGTTTTAGTAATTTTTATTGTAATCACTAACATTGTTTAAATTTAATACTCCTTC
1 TTTTGTTTTAGTAATATTTATTGTAATCACTAACATTATTGAAATTTAATACTCCTTC
15366883 ATTAAATCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (59 bp):
TTTTGTTTTAGTAATATTTATTGTAATCACTAACATTATTGAAATTTAATACTCCTTCG
Found at i:15367853 original size:18 final size:20
Alignment explanation
Indices: 15367816--15367859 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
15367806 AAAATAAACA
*
15367816 TTTAAATAATTATTTTTATT
1 TTTAAATAATTATTTGTATT
15367836 TTTAAAT-ATT-TTTGTATT
1 TTTAAATAATTATTTGTATT
15367854 TTTAAA
1 TTTAAA
15367860 AAGTAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.57
19 3 0.13
20 7 0.30
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTAAATAATTATTTGTATT
Found at i:15380811 original size:28 final size:28
Alignment explanation
Indices: 15380742--15380804 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
15380732 TTTTACTCTT
15380742 TCATCTCTCTATCTTTTTCTCTCGTCCC
1 TCATCTCTCTATCTTTTTCTCTCGTCCC
15380770 TCATCTCTCTATCTTTTTCTCTCGTCCC
1 TCATCTCTCTATCTTTTTCTCTCGTCCC
15380798 TCTATCT
1 TC-ATCT
15380805 TTCATCTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.08, C:0.38, G:0.03, T:0.51
Consensus pattern (28 bp):
TCATCTCTCTATCTTTTTCTCTCGTCCC
Found at i:15384514 original size:10 final size:9
Alignment explanation
Indices: 15384495--15384537 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 9
15384485 TTTTATTTTT
15384495 AAAA-ATTA
1 AAAATATTA
15384503 AAAATCATTA
1 AAAAT-ATTA
*
15384513 AAATTATTA
1 AAAATATTA
15384522 AAAATA-TA
1 AAAATATTA
15384530 AAAATATT
1 AAAATATT
15384538 TTTAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 12 0.40
9 10 0.33
10 8 0.27
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATATTA
Found at i:15384711 original size:13 final size:13
Alignment explanation
Indices: 15384693--15384724 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
15384683 GGATTAAAAT
15384693 AAATAAAGAACTA
1 AAATAAAGAACTA
15384706 AAATAAAGAACTA
1 AAATAAAGAACTA
15384719 AAATAA
1 AAATAA
15384725 TTTTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (13 bp):
AAATAAAGAACTA
Found at i:15386327 original size:49 final size:49
Alignment explanation
Indices: 15386250--15386389 Score: 165
Period size: 49 Copynumber: 2.9 Consensus size: 49
15386240 ATGAAACTCG
* * * *
15386250 AACTCGTGACCGCAAAGTCACTGTCAACTAGGG-TCCCGAGTTATACTTC
1 AACTTGTGACCGCAAAATCACCGTCAACT-GGGAGCCCGAGTTATACTTC
* *
15386299 AACTTGTGACCGCAAAATCGCCGTCAACTGGGAGCCCTAGTTATACTTC
1 AACTTGTGACCGCAAAATCACCGTCAACTGGGAGCCCGAGTTATACTTC
* * * * *
15386348 AACTTGTGACCGTATAACCACCGTGAACTGGGAGCCTGAGTT
1 AACTTGTGACCGCAAAATCACCGTCAACTGGGAGCCCGAGTT
15386390 GAAATGTGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
48 3 0.04
49 74 0.96
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (49 bp):
AACTTGTGACCGCAAAATCACCGTCAACTGGGAGCCCGAGTTATACTTC
Found at i:15387843 original size:3 final size:3
Alignment explanation
Indices: 15387835--15387868 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15387825 CTCACGCCAC
15387835 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15387869 CAAAATTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15399835 original size:642 final size:647
Alignment explanation
Indices: 15398834--15400091 Score: 1961
Period size: 642 Copynumber: 1.9 Consensus size: 647
15398824 TGAAACTGTT
* *
15398834 AAACTCTTGTTAAGTGCGCAACAACGAGATAAAATGTGGCATCGAATTTTGTAATTGTTGTTATC
1 AAACTCTTGTTAAGAGCGCAACAACAAGATAAAATGTGGCATCGAATTTTGTAATTGTTGTTATC
*
15398899 CGTATTCCTCAAATGAATTTCTTAATTATTGAGTTGTCCAAAAATAGTATATAAGACGTACCCAG
66 CGTATTCCTCAAATGAATTTCTTAATTATTGAGTTGTACAAAAATAGTATATAAGACGTACCCAG
*
15398964 TAAAATTTACAAGTAATCTAGATATAGAGATGGTAACTAAGGTTACTGTTTGTCTGTTTCTATTA
131 TAAAATTTACAAGTAATCTAGATATAGAGATGGTAACTAAAGTTA---TTTG-CTGTTTCTATTA
* *
15399029 TTATATAATTTTAAGATCACAATAGCTCTATGATAAAATTATTTATTTACAGCAAAATGATATAT
192 TTATATAATTTCAAGATCACAATAGATCTATGATAAAATTATTTATTTACAGCAAAATGATATAT
* * * * *
15399094 AAAATTAGATAAAATTGAATAGAAAATAATATTTATGGGTACACAAATCATGGATGGATAACGAC
257 AAAATCAAATAAAATTGAATACAAAATAAGATTTATGGCTACACAAATCATGGATGGATAACGAC
15399159 TTCTTTAATGGGTATCGCAATGAATTCATTTGCAATATTCTT-ATCTATTATTTTGGAGATTTAT
322 TTCTTTAATGGGTATCGCAATGAATTCATTTGCAATATT-TTAATCTATTATTTTGGAGATTTAT
*
15399223 AATTCTTCC-TTTTACTAGATAAAATTTCAATAAATTGAACAACTATTTCTAATA-TTTTTTGAG
386 AATTATTCCGTTTTACTAGATAAAATTTCAATAAATTGAACAACTATTTCTAATATTTTTTTGAG
*
15399286 TAAATTTTATTTTTTATTTTCCTTTAATTATT-A-ATTA-TTTTTTCCCTTTCATTACTTTTCTT
451 TAAATTTTATTTTTTATTTTACTTTAATTATTAATATTATTTTTTTCCCTTTCATTACTTTTCTT
15399348 -TTTTTATTTTTCACTCTTCTCTCTTTCAAGACTCTCTAGTCGTGGCGAACGCAAACGCCATCTT
516 CTTTTT-TTTTTCACTCTTCTCTCTTTCAAGACTCTCTAGTCGTGGCGAACGCAAACGCCATCTT
*
15399412 CGGTCACAACAGTCGCTGAAAACTAATGTTAAATGAACACTTGGACACAAGTTTTTTCTTTTCAC
580 CGGTCACAACAGTCACTGAAAACTAATGTTAAATGAACACTTGGACACAAGTTTTTTCTTTTCAC
15399477 TGA
645 TGA
15399480 AAACTCTTGTTAAGAGCGCAACAACAAGATAAAATGTGGCATCGAATTTTGTAATT-TTCGTTAT
1 AAACTCTTGTTAAGAGCGCAACAACAAGATAAAATGTGGCATCGAATTTTGTAATTGTT-GTTAT
*
15399544 CCGTATTCCTCAAATGGATTTCTTAATTATTGAGAGAGTTGTACAAAAATAGTATATAAGACGTA
65 CCGTATTCCTCAAATGAATTTCTTAATTATT----GAGTTGTACAAAAATAGTATATAAGACGTA
* * *
15399609 CTCAGTAAAATTTACAAGTAA-CTTAGATATAGAGATGGTGATTAAAGTTA-TTG-T-TTTC-AT
126 CCCAGTAAAATTTACAAGTAATC-TAGATATAGAGATGGTAACTAAAGTTATTTGCTGTTTCTAT
* * * * **
15399669 TATTATATAATTTCAAGATCATAATGGATCTATGATAAGATTGTTTATTTACAGTGAAATGATAT
190 TATTATATAATTTCAAGATCACAATAGATCTATGATAAAATTATTTATTTACAGCAAAATGATAT
* *
15399734 ATAAAATCAAATAAAACTT-AATACAAAATAAGATTTATGGCTATACAAATCGTGGATGGATAAC
255 ATAAAATCAAATAAAA-TTGAATACAAAATAAGATTTATGGCTACACAAATCATGGATGGATAAC
* * *
15399798 GAC-TCGTTTGATGGGTGTCGCAATGACTTCATTTGCAATATTTTAATCTATTATTTTGGAGATT
319 GACTTC-TTTAATGGGTATCGCAATGAATTCATTTGCAATATTTTAATCTATTATTTTGGAGATT
* *
15399862 TATAATTATTCCGTTTTATTAGATAAAATTTCAATAAATTGCACAACTATTTCTAATATTTTTTT
383 TATAATTATTCCGTTTTACTAGATAAAATTTCAATAAATTGAACAACTATTTCTAATATTTTTTT
*
15399927 GAGTAAATTTTATTTTTTATTTTATTTTAATTATTAATTATTATTTTTTTCCCTTTCATTACTTT
448 GAGTAAATTTTATTTTTTATTTTACTTTAATTATTAA-TATTATTTTTTTCCCTTTCATTACTTT
**
15399992 TCTTCTTTTTTTTTTCACTCTTCTCTCTTTCAAGACTCTCTAGTCGTGGCGAACGTGAACGCCAT
512 TCTTCTTTTTTTTTTCACTCTTCTCTCTTTCAAGACTCTCTAGTCGTGGCGAACGCAAACGCCAT
*
15400057 CTTCGGTCACAACAGTCACTGAAAACTGATGTTAA
577 CTTCGGTCACAACAGTCACTGAAAACTAATGTTAA
15400092 GGGCCAGTTC
Statistics
Matches: 561, Mismatches: 35, Indels: 30
0.90 0.06 0.05
Matches are distributed among these distances:
641 4 0.01
642 179 0.32
643 49 0.09
644 40 0.07
645 3 0.01
646 92 0.16
647 4 0.01
648 111 0.20
649 6 0.01
650 73 0.13
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (647 bp):
AAACTCTTGTTAAGAGCGCAACAACAAGATAAAATGTGGCATCGAATTTTGTAATTGTTGTTATC
CGTATTCCTCAAATGAATTTCTTAATTATTGAGTTGTACAAAAATAGTATATAAGACGTACCCAG
TAAAATTTACAAGTAATCTAGATATAGAGATGGTAACTAAAGTTATTTGCTGTTTCTATTATTAT
ATAATTTCAAGATCACAATAGATCTATGATAAAATTATTTATTTACAGCAAAATGATATATAAAA
TCAAATAAAATTGAATACAAAATAAGATTTATGGCTACACAAATCATGGATGGATAACGACTTCT
TTAATGGGTATCGCAATGAATTCATTTGCAATATTTTAATCTATTATTTTGGAGATTTATAATTA
TTCCGTTTTACTAGATAAAATTTCAATAAATTGAACAACTATTTCTAATATTTTTTTGAGTAAAT
TTTATTTTTTATTTTACTTTAATTATTAATATTATTTTTTTCCCTTTCATTACTTTTCTTCTTTT
TTTTTTCACTCTTCTCTCTTTCAAGACTCTCTAGTCGTGGCGAACGCAAACGCCATCTTCGGTCA
CAACAGTCACTGAAAACTAATGTTAAATGAACACTTGGACACAAGTTTTTTCTTTTCACTGA
Found at i:15400130 original size:13 final size:13
Alignment explanation
Indices: 15400107--15400159 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
15400097 AGTTCTTCAT
15400107 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
15400120 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
15400133 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
15400146 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
15400159 T
1 T
15400160 TTAATTTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:15412321 original size:18 final size:17
Alignment explanation
Indices: 15412295--15412329 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15412285 TTTCTCAACA
15412295 AAAATTTTAAAAAAATT
1 AAAATTTTAAAAAAATT
*
15412312 AAAATATTTATAAAAATT
1 AAAAT-TTTAAAAAAATT
15412330 TTAAATCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTTTAAAAAAATT
Found at i:15427253 original size:26 final size:25
Alignment explanation
Indices: 15427224--15427273 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
15427214 TAAAAGAATA
*
15427224 TTAACAAAATAAAATGACTAAATTTC
1 TTAA-AAAATAAAAGGACTAAATTTC
*
15427250 TTAAGAAATAAAAGGACTAAATTT
1 TTAAAAAATAAAAGGACTAAATTT
15427274 TAAATATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (25 bp):
TTAAAAAATAAAAGGACTAAATTTC
Found at i:15434430 original size:22 final size:22
Alignment explanation
Indices: 15434405--15434447 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15434395 TTAAAAATAA
15434405 TATTT-ATATTATTTTAATTTAG
1 TATTTAATATT-TTTTAATTTAG
*
15434427 TATTTAATATTTTTTTATTTA
1 TATTTAATATTTTTTAATTTA
15434448 TTAGAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTTAATATTTTTTAATTTAG
Found at i:15435603 original size:7 final size:7
Alignment explanation
Indices: 15435591--15435634 Score: 52
Period size: 7 Copynumber: 5.7 Consensus size: 7
15435581 ATTTTATTTT
15435591 AAAAATA
1 AAAAATA
15435598 AAAAATA
1 AAAAATA
15435605 AAAAATA
1 AAAAATA
15435612 TTTTAAAAATA
1 ----AAAAATA
15435623 AAAAATA
1 AAAAATA
15435630 AAAAA
1 AAAAA
15435635 AATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 26 0.79
11 7 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AAAAATA
Found at i:15435613 original size:25 final size:25
Alignment explanation
Indices: 15435585--15435634 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
15435575 ACCAAAATTT
15435585 TATTTTAAAAATAAAAAATAAAAAA
1 TATTTTAAAAATAAAAAATAAAAAA
15435610 TATTTTAAAAATAAAAAATAAAAAA
1 TATTTTAAAAATAAAAAATAAAAAA
15435635 AATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (25 bp):
TATTTTAAAAATAAAAAATAAAAAA
Found at i:15439476 original size:20 final size:19
Alignment explanation
Indices: 15439453--15439508 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
15439443 TTAACAGTTG
*
15439453 AATATAAATTTTAAAATAA
1 AATATAAAATTTAAAATAA
*
15439472 AA-ATAAAAATATAGAAATAA
1 AATAT-AAAATTTA-AAATAA
*
15439492 AATTTAAAATTTAAAAT
1 AATATAAAATTTAAAAT
15439509 TTTTAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.07
19 12 0.40
20 15 0.50
21 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AATATAAAATTTAAAATAA
Found at i:15440884 original size:19 final size:19
Alignment explanation
Indices: 15440855--15440908 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
15440845 AATCTTCAGG
*
15440855 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
15440874 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
15440893 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
15440909 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:15440934 original size:22 final size:21
Alignment explanation
Indices: 15440855--15440934 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 21
15440845 AATCTTCAGG
*
15440855 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
15440874 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
15440893 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
15440915 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
15440935 TTAATTTGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 28 0.55
22 12 0.24
23 11 0.22
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:15448058 original size:132 final size:132
Alignment explanation
Indices: 15447871--15448369 Score: 804
Period size: 132 Copynumber: 3.8 Consensus size: 132
15447861 TTGACAGCGA
*
15447871 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
15447936 TCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
15448001 GG
131 GG
* * *
15448003 AGCAGATCGAAGATGGCGGATTTTACCTCCATGTGGTTATAGTGGAGTATATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * * *
15448068 TCTACTTCTCTGGAAAATAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCTTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
15448133 GG
131 GG
* *
15448135 AGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
15448200 TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTACT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
15448265 GG
131 GG
15448267 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
15448331 TCATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
15448370 GTAAGTCCTA
Statistics
Matches: 340, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
131 3 0.01
132 337 0.99
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:15448718 original size:19 final size:19
Alignment explanation
Indices: 15448694--15448766 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
15448684 AATCTTCAGG
15448694 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15448713 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
** *
15448732 GATATATAATATTAGATAT
1 GATATGCAATCTTAGATAT
15448751 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
15448767 AGATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:15448802 original size:21 final size:23
Alignment explanation
Indices: 15448745--15448802 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
15448735 ATATAATATT
* *
15448745 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
15448767 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
15448789 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
15448803 GATACCCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.27
22 12 0.40
23 10 0.33
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:15455146 original size:197 final size:195
Alignment explanation
Indices: 15454821--15455349 Score: 711
Period size: 197 Copynumber: 2.7 Consensus size: 195
15454811 CTGGTGAATG
* * * *
15454821 CTTTACATATGATCAACAATGCTTTAA-GTCTCTTGAACAAGCTAATAAATTACTATAGATTGGA
1 CTTTATATAAGATCAAGAATGCTTTAAGGT-TCTTGAACAAGCTAATAAAGTAC--TAGATTGGA
* * * * *
15454885 GCTACAATTTAGTTTCCAAGCTACAAAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAA
63 GATACAA-TTAGTTTCCATGATATAGAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAA
*
15454950 AATCCCATAAAGCATACTAATCTAACCACAAATTC-GAAGTAGTTTCAACCTCTAAAATTCCAGA
127 AATCCCATAAAGCATACCAATCTAACCACAAATTCAG-AGTAGTTTCAACCTCTAAAATTCCAGA
15455014 CAGTC
191 CAGTC
* * * *
15455019 CTTTATATAAGATCAAGAATGCTTGAAGGTTCTTGAACAAACTAATAAAGAACTAGGTTGGAGAT
1 CTTTATATAAGATCAAGAATGCTTTAAGGTTCTTGAACAAGCTAATAAAGTACTAGATTGGAGAT
15455084 ACCAATTAGTTTCCATGGATATAGAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAAA
66 A-CAATTAGTTTCCAT-GATATAGAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAAA
* ** * * *
15455149 TTCCATATTGCATACCAATCTAACCGCAAATTCAGAGTAGTTTCAACCTTTAAAATTCCAGAGAG
129 TCCCATAAAGCATACCAATCTAACCACAAATTCAGAGTAGTTTCAACCTCTAAAATTCCAGACAG
15455214 TC
194 TC
* * * *
15455216 CATTATATAAGATTAAGAATGCTTTAAGGATCTTGAACAGGCTAATAAAGTACTAGATTGGAGAT
1 CTTTATATAAGATCAAGAATGCTTTAAGGTTCTTGAACAAGCTAATAAAGTACTAGATTGGAGAT
** * *
15455281 AACAATTAGTTTCCACTGATATAGAATGGGATTTAATTTCACAAAGGGCAAAGAGTGCAACAAAA
66 -ACAATTAGTTTCCA-TGATATAGAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAAA
15455346 TCCC
129 TCCC
15455350 GAACACATAA
Statistics
Matches: 292, Mismatches: 33, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
196 21 0.07
197 223 0.76
198 46 0.16
199 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (195 bp):
CTTTATATAAGATCAAGAATGCTTTAAGGTTCTTGAACAAGCTAATAAAGTACTAGATTGGAGAT
ACAATTAGTTTCCATGATATAGAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAAATC
CCATAAAGCATACCAATCTAACCACAAATTCAGAGTAGTTTCAACCTCTAAAATTCCAGACAGTC
Found at i:15460900 original size:15 final size:15
Alignment explanation
Indices: 15460880--15460910 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15460870 CTTAACGTGA
15460880 AATAATAATAATAAG
1 AATAATAATAATAAG
15460895 AATAATAATAATAAG
1 AATAATAATAATAAG
15460910 A
1 A
15460911 CGTATCCCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AATAATAATAATAAG
Found at i:15464698 original size:15 final size:15
Alignment explanation
Indices: 15464674--15464706 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15464664 ACCACCAAGG
*
15464674 CCACCGCCATACATT
1 CCACCACCATACATT
15464689 CCACCACCATACATT
1 CCACCACCATACATT
15464704 CCA
1 CCA
15464707 GAGTTCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.48, G:0.03, T:0.18
Consensus pattern (15 bp):
CCACCACCATACATT
Found at i:15468096 original size:25 final size:23
Alignment explanation
Indices: 15468019--15468122 Score: 113
Period size: 22 Copynumber: 4.4 Consensus size: 23
15468009 TGCACAAATA
*
15468019 AACAGAGAGCACTAAAGTGCTAT
1 AACAGAGAGCACTAACGTGCTAT
* *
15468042 -ACAGAGAGCACAAATGTGCTA-
1 AACAGAGAGCACTAACGTGCTAT
*
15468063 AACAGAGAGCACTGACGTGCTAGT
1 AACAGAGAGCACTAACGTGCTA-T
*
15468087 AATCAGAGAGCACTAACGTGCCAAT
1 AA-CAGAGAGCACTAACGTG-CTAT
15468112 AATCAGAGAGC
1 AA-CAGAGAGC
15468123 GCGCTAGGGT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
22 37 0.54
24 2 0.03
25 28 0.41
26 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.15
Consensus pattern (23 bp):
AACAGAGAGCACTAACGTGCTAT
Found at i:15470182 original size:31 final size:31
Alignment explanation
Indices: 15470137--15470195 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
15470127 AATATTTATA
* *
15470137 GGAAATATATATAATATA-TTCATAAATATTT
1 GGAAAGATAAATAATATATTTC-TAAATATTT
15470168 GGAAAGATAAATAATATATTTCTAAATA
1 GGAAAGATAAATAATATATTTCTAAATA
15470196 GAGGTGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.37
Consensus pattern (31 bp):
GGAAAGATAAATAATATATTTCTAAATATTT
Found at i:15470605 original size:22 final size:22
Alignment explanation
Indices: 15470580--15470622 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15470570 TATCCAAACA
15470580 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
15470602 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
15470623 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:15472292 original size:18 final size:19
Alignment explanation
Indices: 15472260--15472296 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15472250 TTTCAGCTCA
15472260 TTTTCAAAAAGCACTTCTG
1 TTTTCAAAAAGCACTTCTG
15472279 TTTTCAAAAA-CACTTCTG
1 TTTTCAAAAAGCACTTCTG
15472297 AAAAGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (19 bp):
TTTTCAAAAAGCACTTCTG
Found at i:15479784 original size:18 final size:18
Alignment explanation
Indices: 15479761--15479795 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15479751 TGATTAAATC
*
15479761 AATTTTTAATATTTTATA
1 AATTTTTAATAATTTATA
15479779 AATTTTTAATAATTTAT
1 AATTTTTAATAATTTAT
15479796 TTAATCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTTTTAATAATTTATA
Found at i:15484768 original size:47 final size:46
Alignment explanation
Indices: 15484715--15484881 Score: 170
Period size: 44 Copynumber: 3.7 Consensus size: 46
15484705 TCATATAAGA
*
15484715 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAATAATTTTATGAAATTATATAT-ATTATTAAATT
* *
15484762 ATATTTAATATTAATTA-TTT-T-AAATTATATATATTCATATAAGA--
1 ATATTTATTATTAATAATTTTATGAAATTATATATATT-AT-TAA-ATT
* *
15484806 ATATTTATTATCAATAATTTTATGAAATTATATATTATTACTAAATT
1 ATATTTATTATTAATAATTTTATGAAATTATATA-TATTATTAAATT
* *
15484853 ATATTTA--A-TAATAATTATATTAAATTATA
1 ATATTTATTATTAATAATTTTATGAAATTATA
15484882 CAAATTCATA
Statistics
Matches: 101, Mismatches: 10, Indels: 21
0.77 0.08 0.16
Matches are distributed among these distances:
43 3 0.03
44 45 0.45
45 9 0.09
46 8 0.08
47 32 0.32
48 4 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (46 bp):
ATATTTATTATTAATAATTTTATGAAATTATATATATTATTAAATT
Found at i:15484810 original size:44 final size:44
Alignment explanation
Indices: 15484703--15484925 Score: 159
Period size: 47 Copynumber: 4.9 Consensus size: 44
15484693 ATTTTAGTAA
* **
15484703 ATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATAT
1 ATTCATATAAGAATATTTAATATTAATTA-TTT-T-AAATTATATAT
15484750 CATT-AT-TAA-ATTATATTTAATATTAATTATTTTAAATTATATAT
1 -ATTCATATAAGA--ATATTTAATATTAATTATTTTAAATTATATAT
* * *
15484794 ATTCATATAAGAATATTTATTATCAATAATTTTATGAAATTATATATT
1 ATTCATATAAGAATATTTAATATTAATTA-TTT-T-AAATTATATA-T
** * * * *
15484842 ATT-ACTA-AATTATATTTAATAATAATTATATTAAATTATACAA
1 ATTCA-TATAAGAATATTTAATATTAATTATTTTAAATTATATAT
* *
15484885 ATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATT
1 ATTCATATAAGAATATTTA--A-TATTAATTATTTTAAATT
15484926 TTATTAAATC
Statistics
Matches: 141, Mismatches: 19, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
43 8 0.06
44 45 0.32
45 9 0.06
46 11 0.08
47 59 0.42
48 9 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (44 bp):
ATTCATATAAGAATATTTAATATTAATTATTTTAAATTATATAT
Found at i:15484810 original size:91 final size:91
Alignment explanation
Indices: 15484701--15484915 Score: 340
Period size: 91 Copynumber: 2.4 Consensus size: 91
15484691 TGATTTTAGT
* *
15484701 AAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AAATTCATATAAGAATATTTATTATTAATAATTTTATGAAATTATATATCATTACTAAATTATAT
* * *
15484766 TTAATATTAATTATTTTAAATTATAT
66 TTAATAATAATTATATTAAATTATAC
* * *
15484792 ATATTCATATAAGAATATTTATTATCAATAATTTTATGAAATTATATATTATTACTAAATTATAT
1 AAATTCATATAAGAATATTTATTATTAATAATTTTATGAAATTATATATCATTACTAAATTATAT
15484857 TTAATAATAATTATATTAAATTATAC
66 TTAATAATAATTATATTAAATTATAC
* *
15484883 AAATTCATATAAGAAAATTTATTAGTAATAATT
1 AAATTCATATAAGAATATTTATTATTAATAATT
15484916 ATTTTAAATT
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 112 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTCATATAAGAATATTTATTATTAATAATTTTATGAAATTATATATCATTACTAAATTATAT
TTAATAATAATTATATTAAATTATAC
Found at i:15485198 original size:120 final size:120
Alignment explanation
Indices: 15484922--15485331 Score: 736
Period size: 120 Copynumber: 3.4 Consensus size: 120
15484912 AATTATTTTA
* *
15484922 AATTTTATTAAATCATATATTTTAATTAAAATATAGTTAATAATAATTATTTCAAATTATATTAT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
15484987 ATAGTATCATATATTATGATTTTAAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTT-AGTAAATTCATATAAGAATATTGATTATTAAG
15485043 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
15485108 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
15485163 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
*
15485227 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
15485283 AATTTTATTAAATTATATAATTTT-ATTAAAAT-TATTTAATAATAATTAT
1 AATTTTATTAAATCATAT-ATTTTAATTAAAATATATTTAATAATAATTAT
15485332 GTTAAAATAT
Statistics
Matches: 283, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
119 17 0.06
120 173 0.61
121 93 0.33
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:15485300 original size:59 final size:59
Alignment explanation
Indices: 15484996--15485300 Score: 197
Period size: 57 Copynumber: 5.1 Consensus size: 59
15484986 TATAGTATCA
15484996 TATATTATGATTTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 TATATTATGA-TTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * * * * *
15485056 CATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATT-TCAAATTATATTTTA-TAGTA
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAAT-ATTGATTAT-TAA-GA-ATTTTATTA-AA
15485114 T
59 T
*
15485115 CATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * * * * *
15485176 CATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATGT-TAAATTATATTTTA-TAGTA
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAAT-ATTGAT-TATTAA-GA-ATTTTATTA-AA
15485234 T
59 T
*
15485235 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
15485296 TATAT
1 TATAT
15485301 AATTTTATTA
Statistics
Matches: 182, Mismatches: 31, Indels: 65
0.65 0.11 0.23
Matches are distributed among these distances:
56 12 0.07
57 34 0.19
58 18 0.10
59 27 0.15
60 3 0.02
61 22 0.12
62 21 0.12
63 34 0.19
64 11 0.06
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
Found at i:15485306 original size:18 final size:19
Alignment explanation
Indices: 15485283--15485322 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
15485273 GATTATTAAG
15485283 AATTTTATT-AAATTATAT
1 AATTTTATTAAAATTATAT
*
15485301 AATTTTATTAAAATTATTT
1 AATTTTATTAAAATTATAT
15485320 AAT
1 AAT
15485323 AATAATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTATTAAAATTATAT
Found at i:15485467 original size:18 final size:17
Alignment explanation
Indices: 15485439--15485473 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15485429 ATTATTAAGA
*
15485439 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15485456 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15485474 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15485501 original size:156 final size:156
Alignment explanation
Indices: 15485274--15485586 Score: 567
Period size: 156 Copynumber: 2.0 Consensus size: 156
15485264 AAGAATATTG
15485274 ATTATTAAGAATTTTATTAAATTATATAATTTTATTAAAATTATTTAATAATAATTATGTTAAAA
1 ATTATTAAGAATTTTATTAAATTATATAATTTTATTAAAATTATTTAATAATAATTATGTTAAAA
*
15485339 TATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTT-AATAACAATAACAATAA
66 TATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAA
15485403 TCATTTACCAAAACAAATTTATGCTA
131 TCATTTACCAAAACAAATTTATGCTA
*
15485429 ATTATTAAGAATTTTATTAAATTATAT-ATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 ATTATTAAGAATTTTATTAAATTATATAATTTT-ATTAAAAT-TATTTAATAATAATTATGTTAA
15485493 AATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
64 AATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
*
15485558 AATCATTTACCAAAACAAATTTCTGCTA
129 AATCATTTACCAAAACAAATTTATGCTA
15485586 A
1 A
15485587 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 3, Indels: 4
0.96 0.02 0.03
Matches are distributed among these distances:
154 5 0.03
155 35 0.23
156 69 0.45
157 43 0.28
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
ATTATTAAGAATTTTATTAAATTATATAATTTTATTAAAATTATTTAATAATAATTATGTTAAAA
TATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAA
TCATTTACCAAAACAAATTTATGCTA
Found at i:15485727 original size:16 final size:16
Alignment explanation
Indices: 15485706--15485744 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15485696 TTGATTTGCT
*
15485706 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
15485722 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
15485738 ATTACAC
1 ATTACAC
15485745 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:15485745 original size:16 final size:16
Alignment explanation
Indices: 15485719--15485775 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
15485709 ACACAGCTTT
* *
15485719 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
15485735 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
15485751 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
15485767 TCCAATACA
1 TCCAATACA
15485776 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:15505487 original size:3 final size:3
Alignment explanation
Indices: 15505479--15505509 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15505469 TAATGCATTC
15505479 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15505510 TTAACTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15505572 original size:21 final size:23
Alignment explanation
Indices: 15505543--15505592 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
15505533 CTTGAATTTG
*
15505543 ACATATTTTTT-T-TAATGTGAT
1 ACATGTTTTTTATCTAATGTGAT
*
15505564 ACATGTTTTTTATCTAATGTGGT
1 ACATGTTTTTTATCTAATGTGAT
15505587 ACATGT
1 ACATGT
15505593 ATTTAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.40
22 1 0.04
23 14 0.56
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.52
Consensus pattern (23 bp):
ACATGTTTTTTATCTAATGTGAT
Found at i:15506075 original size:24 final size:25
Alignment explanation
Indices: 15506038--15506088 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
15506028 TTTCAATAAT
*
15506038 AAATATGTATTACTATATATAA-ATA
1 AAATATGTAATACTATA-ATAATATA
*
15506063 AAATATG-AATACTTTAATAATATA
1 AAATATGTAATACTATAATAATATA
15506087 AA
1 AA
15506089 CATACATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 12 0.52
25 7 0.30
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (25 bp):
AAATATGTAATACTATAATAATATA
Found at i:15508546 original size:133 final size:133
Alignment explanation
Indices: 15508373--15508622 Score: 401
Period size: 133 Copynumber: 1.9 Consensus size: 133
15508363 AGTAGCAACT
* *
15508373 ACTGTAGAAATCTTCATCTAGGATGAGGAAGGCTAGCCAAAAGCTGTTTTTGGGATTCCAAATTG
1 ACTGTAGAAATCTACATCTAGGATGAGGAAGGCTAGCCAAAAGCTGTTTTTGGGATTCCAAATTA
* * * *
15508438 CCTTACATTGAACATGCATATGGAATAGGGCTTATTGAGCTCATCACTCTCACTCATCACTTTCA
66 CATTACATTAAACATGCATATGGAATAGGACATATTGAGCTCATCACTCTCACTCATCACTTTCA
15508503 TCC
131 TCC
* *
15508506 ACTGTAGAAATCTACATCTAGGATGAGGAGGGCTAGCCAAAAGCTGTTTTTGGGATTTCAAATTA
1 ACTGTAGAAATCTACATCTAGGATGAGGAAGGCTAGCCAAAAGCTGTTTTTGGGATTCCAAATTA
* * *
15508571 CATTACATTAAACATGCATTTGTAATAGGACATGTTGAGCTCATCACTCTCA
66 CATTACATTAAACATGCATATGGAATAGGACATATTGAGCTCATCACTCTCA
15508623 GCCATTTCCA
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
133 106 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (133 bp):
ACTGTAGAAATCTACATCTAGGATGAGGAAGGCTAGCCAAAAGCTGTTTTTGGGATTCCAAATTA
CATTACATTAAACATGCATATGGAATAGGACATATTGAGCTCATCACTCTCACTCATCACTTTCA
TCC
Found at i:15510806 original size:48 final size:48
Alignment explanation
Indices: 15510710--15510810 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 48
15510700 GAGGCAACAA
* * *
15510710 AGGGAAAGAGAAGAGGAAGAGAGAGAGCAAAGGAGGCGTGAAGTAGAG
1 AGGGAAAGAGAAGAGGAAGAGAGAGAACAAAGAAGGCGTGAAGAAGAG
* * *
15510758 AGGGAAAGGGAGGA-GAAGGAGAGAGAACAAAGAAGGCTTG-AGAAAGAG
1 AGGGAAAGAGAAGAGGAA-GAGAGAGAACAAAGAAGGCGTGAAG-AAGAG
15510806 AGGGA
1 AGGGA
15510811 GCGAATTAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 5 0.11
48 40 0.89
ACGTcount: A:0.47, C:0.04, G:0.46, T:0.04
Consensus pattern (48 bp):
AGGGAAAGAGAAGAGGAAGAGAGAGAACAAAGAAGGCGTGAAGAAGAG
Found at i:15512047 original size:31 final size:31
Alignment explanation
Indices: 15512012--15512073 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
15512002 TGTTAAAGTT
15512012 AACTTGTATAATTGACTCTGGAATAGTTTAC
1 AACTTGTATAATTGACTCTGGAATAGTTTAC
15512043 AACTTGTATAATTGACTCTGGAATAGTTTAC
1 AACTTGTATAATTGACTCTGGAATAGTTTAC
15512074 TCAGTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (31 bp):
AACTTGTATAATTGACTCTGGAATAGTTTAC
Found at i:15517421 original size:23 final size:22
Alignment explanation
Indices: 15517395--15517439 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
15517385 TTTAACTAAA
15517395 TTAAAAAATTAATTAAATTATTT
1 TTAAAAAATTAA-TAAATTATTT
* * *
15517418 TTAAATATTTAATAATTTATTT
1 TTAAAAAATTAATAAATTATTT
15517440 AATTGAATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAAAAAATTAATAAATTATTT
Found at i:15530436 original size:39 final size:39
Alignment explanation
Indices: 15530385--15530462 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
15530375 ACTAACATTT
15530385 TTAATTTAAATAAATTGCCATCATTATGAAGATTTCTAA
1 TTAATTTAAATAAATTGCCATCATTATGAAGATTTCTAA
15530424 TTAATTTAAATAAATTGCCATCATTATGAAGATTTCTAA
1 TTAATTTAAATAAATTGCCATCATTATGAAGATTTCTAA
15530463 CTTTGATGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (39 bp):
TTAATTTAAATAAATTGCCATCATTATGAAGATTTCTAA
Found at i:15532746 original size:26 final size:26
Alignment explanation
Indices: 15532717--15532770 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
15532707 AAAATTTTCC
15532717 AATTCATAATTGTTCTACAATTTGAA
1 AATTCATAATTGTTCTACAATTTGAA
15532743 AATTCATAATTGTTCTACAATTTGAA
1 AATTCATAATTGTTCTACAATTTGAA
15532769 AA
1 AA
15532771 ATGAATCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (26 bp):
AATTCATAATTGTTCTACAATTTGAA
Found at i:15536381 original size:29 final size:31
Alignment explanation
Indices: 15536317--15536384 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
15536307 AATATTCCAC
*
15536317 ATAAA-ATTACAAAATTATTTTAATTTTGAA
1 ATAAATATTAAAAAATTATTTTAATTTTGAA
15536347 AT-AATATTAAAAAA-TATTTTTAA-TTT-AA
1 ATAAATATTAAAAAATTA-TTTTAATTTTGAA
15536375 ATAAATATTA
1 ATAAATATTA
15536385 TTTTATACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 4 0.12
29 14 0.41
30 16 0.47
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (31 bp):
ATAAATATTAAAAAATTATTTTAATTTTGAA
Found at i:15537748 original size:21 final size:21
Alignment explanation
Indices: 15537724--15537772 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
15537714 GCAAATCGCG
*
15537724 TCCACGTAAGCGCAATTTGCT
1 TCCAAGTAAGCGCAATTTGCT
*
15537745 TCCAAGTCAGCGCAATTTGCT
1 TCCAAGTAAGCGCAATTTGCT
15537766 TCCAAGT
1 TCCAAGT
15537773 CAGCATATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (21 bp):
TCCAAGTAAGCGCAATTTGCT
Done.