Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 52 of 216
Found at i:15140236 original size:26 final size:27
Alignment explanation
Indices: 15140174--15140238 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
15140164 CCAAACCCCA
*
15140174 ATAAAATTTTGACAATTTTACCCTTTG
1 ATAAAATTTTGACAATTTTACCCTTCG
**
15140201 ATAAAATTTTGATGATTTTACCC-TCG
1 ATAAAATTTTGACAATTTTACCCTTCG
*
15140227 ATAAGATTTTGA
1 ATAAAATTTTGA
15140239 GAAAATTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (27 bp):
ATAAAATTTTGACAATTTTACCCTTCG
Found at i:15143873 original size:6 final size:6
Alignment explanation
Indices: 15143862--15143904 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
15143852 ACAATAGAAT
*
15143862 TTTTTA TTTTTA -TTTTA TTTTTA -TTTTA TTTTCA -TTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
15143905 CGGATATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 14 0.44
6 18 0.56
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:15143877 original size:5 final size:5
Alignment explanation
Indices: 15143863--15143904 Score: 57
Period size: 5 Copynumber: 7.8 Consensus size: 5
15143853 CAATAGAATT
15143863 TTTTA TTTTTA TTTTA TTTTTA TTTTA TTTTCA TTTTA TTTT
1 TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTT-A TTTTA TTTT
15143905 CGGATATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 19 0.56
6 15 0.44
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:15143879 original size:11 final size:11
Alignment explanation
Indices: 15143863--15143904 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
15143853 CAATAGAATT
15143863 TTTTATTTTTA
1 TTTTATTTTTA
15143874 TTTTATTTTTA
1 TTTTATTTTTA
*
15143885 TTTTATTTTCA
1 TTTTATTTTTA
15143896 TTTTATTTT
1 TTTTATTTT
15143905 CGGATATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:15145050 original size:3 final size:3
Alignment explanation
Indices: 15145044--15145095 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
15145034 TAGCGTTGTT
* * * *
15145044 TTA TTA TTA ATA TTA TTA GTA TTA TTG TTA TTA TTT TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15145091 TTA TT
1 TTA TT
15145096 GTTTTTGCTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:15151568 original size:21 final size:21
Alignment explanation
Indices: 15151542--15151581 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
15151532 CTAGCGTTGC
15151542 AGTGGAATA-GATTAAAGCTGA
1 AGTGGAA-AGGATTAAAGCTGA
15151563 AGTGGAAAGGATTAAAGCT
1 AGTGGAAAGGATTAAAGCT
15151582 AAAGACAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.42, C:0.05, G:0.30, T:0.23
Consensus pattern (21 bp):
AGTGGAAAGGATTAAAGCTGA
Found at i:15151643 original size:51 final size:51
Alignment explanation
Indices: 15151563--15151710 Score: 181
Period size: 51 Copynumber: 2.9 Consensus size: 51
15151553 TTAAAGCTGA
* * * *
15151563 AGTGGAA-AGGATTAAAGCTAAAGACAGCGAATCCTATCTCCTTGGCATTAC
1 AGTGGAACA-GATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGCATTAC
* * * *
15151614 AGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGC
1 AGTGGAACAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGCATTAC
* * *
15151665 AGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTAGC
1 AGTGGAACAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGC
15151711 GTTAAAGCTG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 81 0.99
52 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (51 bp):
AGTGGAACAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGCATTAC
Found at i:15151659 original size:123 final size:123
Alignment explanation
Indices: 15151460--15151892 Score: 438
Period size: 123 Copynumber: 3.4 Consensus size: 123
15151450 GAGCAGACTG
* * *
15151460 AAAG-CAGCGAATCTTATTTCCTTGGCATTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAATC
1 AAAGACAGCGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATC
* *
15151524 TTGTTTCACTAGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAAAGGATTAAAGCT
66 TTGTTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAAAGGATTAAAGCT
15151582 AAAGACAGCGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATC
1 AAAGACAGCGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATC
* ** *
15151647 TTGTTTCCCTAGCATTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTAGCG
66 TTGTTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTGAA-G-TG-G-A----A-------AG-G
15151712 -TTAAAGCT
115 ATTAAAGCT
* *** * * * * * *
15151720 GAAGACAATAAATCTTATTTCCCTGGCTTTATAGTGGAACAGATTAAAGCTAAAGGTAACGAATC
1 AAAGACAGCGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATC
* * * * **
15151785 TTGTTTCCTTGGCATTGTAGTGGAATAGATTAAAGCTGAAGTTGAGCGGATTAAAGCT
66 TTGTTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAAAGGATTAAAGCT
* * * * *
15151843 GAAGGCAGCGAATCCTATCTCATTGGCGTTACAGTGGAACAGATTGAAGC
1 AAAGACAGCGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTAAAGC
15151893 CACTAGTCTT
Statistics
Matches: 253, Mismatches: 40, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
122 5 0.02
123 140 0.55
124 1 0.00
125 1 0.00
126 1 0.00
127 1 0.00
131 1 0.00
134 1 0.00
135 1 0.00
137 1 0.00
138 99 0.39
139 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (123 bp):
AAAGACAGCGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATC
TTGTTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAAAGGATTAAAGCT
Found at i:15151995 original size:89 final size:88
Alignment explanation
Indices: 15151897--15152279 Score: 325
Period size: 89 Copynumber: 4.3 Consensus size: 88
15151887 TGAAGCCACT
* *
15151897 AGTCTTATCTCCCTGTAGTTGCAATGGAGCAGGCTGAAGATAGCAAATCTTATCTCTCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATA-CAAATCTTATCTCTCTGAAGTT
* * *
15151962 GTAGTAGAGTAGATTAAAGCTATA
65 GCACTAGAGTAGAATAAAGCTATA
* * *
15151986 AGTCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATAATAAATCTTATCTCTCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAT-ACAAATCTTATCTCTCTGAAGTT
15152051 GCACTAGAGTAGAATAAAGCTATA
65 GCACTAGAGTAGAATAAAGCTATA
** * * * * * * *
15152075 AACCTTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGACACAAGTCTTATCTCTATGAAGTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATACAAATCTTATCTCTCTGAAGTTG
* * * * * ** *
15152140 CAGTGGAGCAGACTGAAGAAACA
66 CACTAGAGTAGAATAAAGCTATA
* * * * ** * * * * * *
15152163 AATCTTATTTCCCTGAAATTGCAGTGGAGTAGATTGAAGTTGCAAGTCTTATCTCCCTAAAGTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATACAAATCTTATCTCTCTGAAGTTG
* * * * * *
15152228 CAGTGGATTAGACTGAAGATATGA
66 CACTAGAGTAGAATAAAGCTAT-A
** *
15152252 AAACTTATTTCCCTGAAGTTGCAGTGGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGA
15152280 ACAAATTGAA
Statistics
Matches: 245, Mismatches: 47, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
88 105 0.43
89 139 0.57
90 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (88 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATACAAATCTTATCTCTCTGAAGTTG
CACTAGAGTAGAATAAAGCTATA
Found at i:15152002 original size:44 final size:44
Alignment explanation
Indices: 15151941--15152276 Score: 188
Period size: 44 Copynumber: 7.6 Consensus size: 44
15151931 TGAAGATAGC
* * *
15151941 AAATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATTAAAGCTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAATAAAGCTAT
* ** ** * *
15151985 AAGTCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAATAAAGCT-AT
* *
15152030 AAATCTTATCTCTCTGAAGTTGCACTAGAGTAGAATAAAGCTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAATAAAGCTAT
* * * * * ** * *
15152074 AAACCTTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGAC-AC
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAATAAAG-CTAT
* ** * * * * * ** *
15152118 AAGTCTTATCTCTATGAAGTTACAGTGGAGCAGACTGAAGAAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAATAAAGCTAT
* * * * * * **
15152162 AAATCTTATTTCCCTGAAATTGCAGTGGAGTAGATTGAAGTTGC
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAATAAAGCTAT
* * * * * * * *
15152206 AAGTCTTATCTCCCTAAAGTTACAGTGGATTAGACTGAAGATAT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAATAAAGCTAT
* *
15152250 GAAAACTTATTTCCCTGAAGTTGCAGT
1 -AAATCTTATCTCCCTGAAGTTGCAGT
15152277 GGAACAAATT
Statistics
Matches: 223, Mismatches: 65, Indels: 7
0.76 0.22 0.02
Matches are distributed among these distances:
44 166 0.74
45 57 0.26
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAATAAAGCTAT
Found at i:15152085 original size:133 final size:132
Alignment explanation
Indices: 15151945--15152231 Score: 288
Period size: 133 Copynumber: 2.2 Consensus size: 132
15151935 GATAGCAAAT
* * * * * * *
15151945 CTTATCTCTCTGAAGTTGTAGTAGAGTAGATTAAAG-CTATAAGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGAC-ACAAGTCTTATCTCCATGAAGTTACA
* * * *
15152009 GTAGAACAGGCTGAAGATAATAAATCTTATCTCTCTGAAGTTGCACTAGAGTAGAATAAAGCTAT
65 GTAGAACAGACTGAAGA-AACAAATCTTATCTCCCTGAAATTGCACTAGAGTAGAATAAAGCTAT
15152074 AAAC
129 AAAC
* * * * *
15152078 CTTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGACACAAGTCTTATCTCTATGAAGTTACAG
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGACACAAGTCTTATCTCCATGAAGTTACAG
* * * * * * * * **
15152143 TGGAGCAGACTGAAGAAACAAATCTTATTTCCCTGAAATTGCAGTGGAGTAGATTGAAGTTGCAA
66 TAGAACAGACTGAAGAAACAAATCTTATCTCCCTGAAATTGCACTAGAGTAGAATAAAGCTATAA
**
15152208 GT
131 AC
*
15152210 CTTATCTCCCTAAAGTTACAGT
1 CTTATCTCCCTAAAGTTGCAGT
15152232 GGATTAGACT
Statistics
Matches: 124, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
132 59 0.48
133 64 0.52
134 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (132 bp):
CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGACACAAGTCTTATCTCCATGAAGTTACAG
TAGAACAGACTGAAGAAACAAATCTTATCTCCCTGAAATTGCACTAGAGTAGAATAAAGCTATAA
AC
Found at i:15152176 original size:88 final size:89
Alignment explanation
Indices: 15151899--15152386 Score: 286
Period size: 89 Copynumber: 5.4 Consensus size: 89
15151889 AAGCCACTAG
* ** * ** * * * **
15151899 TCTTATCTCCCTGTAGTTGCAATGGAGCAGGCTGAAGATAGCAAATCTTATCTCTCTGAAGTTGT
1 TCTTATTTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACA-CAAGTCTTATCTCTATGAAGTTAC
* * * * * *
15151964 AGTAGAGTAGATTAAAGCTAT-AAG
65 AGTGGAGCAGACTGAAGATATCAAA
* * * * ** * * * * *
15151988 TCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATAATAAATCTTATCTCTCTGAAGTTGC
1 TCTTATTTCCCTAAAGTTGCAGTGGAGCAGATTGAAGA-CACAAGTCTTATCTCTATGAAGTTAC
* * * * * *
15152053 ACTAGAGTAGAATAAAGCTAT-AAA
65 AGTGGAGCAGACTGAAGATATCAAA
* * * *
15152077 CCTTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGACACAAGTCTTATCTCTATGAAGTTACA
1 TCTTATTTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAGTCTTATCTCTATGAAGTTACA
*
15152142 GTGGAGCAGACTGAAGA-AACAAA
66 GTGGAGCAGACTGAAGATATCAAA
* *** ** *
15152165 TCTTATTTCCCTGAAA-TTGCAGTGGAGTAGATTGAAGTTGCAAGTCTTATCTCCCTAAAGTTAC
1 TCTTATTTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGACACAAGTCTTATCTCTATGAAGTTAC
** *
15152229 AGTGGATTAGACTGAAGATATGAAA
65 AGTGGAGCAGACTGAAGATATCAAA
* * * * * *
15152254 ACTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAA-ACTATAAATTACAGATCTCATCTCTCA-
1 TCTTATTTCCCTAAAGTTGCAGTGGAGCAGATTGAAGAC-----A-CA-AG-TCTTATCTCT-AT
*
15152317 GAAGTTGCAGTGGAGCAGACTGAAGATATCAAA
57 GAAGTTACAGTGGAGCAGACTGAAGATATCAAA
* * * *
15152350 TCTTATTTCCCTGAAGTTGCAGTAGAACAAATTGAAG
1 TCTTATTTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
15152387 TTATAAATTA
Statistics
Matches: 322, Mismatches: 62, Indels: 22
0.79 0.15 0.05
Matches are distributed among these distances:
87 1 0.00
88 103 0.32
89 144 0.45
90 1 0.00
94 1 0.00
95 2 0.01
96 70 0.22
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (89 bp):
TCTTATTTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAGTCTTATCTCTATGAAGTTACA
GTGGAGCAGACTGAAGATATCAAA
Found at i:15152218 original size:132 final size:133
Alignment explanation
Indices: 15151985--15152233 Score: 311
Period size: 132 Copynumber: 1.9 Consensus size: 133
15151975 TTAAAGCTAT
* * * * * *
15151985 AAGTCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATAATAAATCTTATCTCTCTGAAGT
1 AAGTCTTATCTCCATGAAGTTACAGTAGAACAGACTGAAGATAACAAATCTTATCTCCCTGAAAT
* *
15152050 TGCACTAGAGTAGAATAAAGCTATAAACCTTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGA
66 TGCACTAGAGTAGAATAAAGCTACAAACCTTATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGA
15152115 CAC
131 CAC
* * * *
15152118 AAGTCTTATCTCTATGAAGTTACAGTGGAGCAGACTGAAGA-AACAAATCTTATTTCCCTGAAAT
1 AAGTCTTATCTCCATGAAGTTACAGTAGAACAGACTGAAGATAACAAATCTTATCTCCCTGAAAT
* * * * * * **
15152182 TGCAGTGGAGTAGATTGAAGTTGCAAGTCTTATCTCCCTAAAGTTACAGTGG
66 TGCACTAGAGTAGAATAAAGCTACAAACCTTATCTCCCTAAAGTTACAGTGG
15152234 ATTAGACTGA
Statistics
Matches: 96, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
132 61 0.64
133 35 0.36
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (133 bp):
AAGTCTTATCTCCATGAAGTTACAGTAGAACAGACTGAAGATAACAAATCTTATCTCCCTGAAAT
TGCACTAGAGTAGAATAAAGCTACAAACCTTATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGA
CAC
Found at i:15152345 original size:96 final size:96
Alignment explanation
Indices: 15152222--15152468 Score: 349
Period size: 96 Copynumber: 2.6 Consensus size: 96
15152212 TATCTCCCTA
* ** *
15152222 AAGTTACAGTGGATTAGACTGAAGATATGAAAACTTATTTCCCTGAAGTTGCAGTGGAACAAATT
1 AAGTTGCAGTGGAGCAGACTGAAGATATCAAAACTTATTTCCCTGAAGTTGCAGTGGAACAAATT
15152287 GAAACTATAAATTACAGATCTCATCTCTCAG
66 GAAACTATAAATTACAGATCTCATCTCTCAG
* *
15152318 AAGTTGCAGTGGAGCAGACTGAAGATATCAAATCTTATTTCCCTGAAGTTGCAGTAGAACAAATT
1 AAGTTGCAGTGGAGCAGACTGAAGATATCAAAACTTATTTCCCTGAAGTTGCAGTGGAACAAATT
** *
15152383 GAAGTTATAAATTACAGATCTCATCTCTCTG
66 GAAACTATAAATTACAGATCTCATCTCTCAG
* * * *
15152414 AAGTTGCAGTAGAGCAGA-T---CATATCAAACCCTATTTCCCTGAAGTTGCAGTGGAA
1 AAGTTGCAGTGGAGCAGACTGAAGATATCAAAACTTATTTCCCTGAAGTTGCAGTGGAA
15152469 TAGGTTAAAG
Statistics
Matches: 137, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
92 32 0.23
95 1 0.01
96 104 0.76
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (96 bp):
AAGTTGCAGTGGAGCAGACTGAAGATATCAAAACTTATTTCCCTGAAGTTGCAGTGGAACAAATT
GAAACTATAAATTACAGATCTCATCTCTCAG
Found at i:15154027 original size:3 final size:3
Alignment explanation
Indices: 15154021--15154072 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
15154011 TAGCGTTGTT
* * * *
15154021 TTA TTA TTA ATA TTA TTA GTA TTA TTG TTA TTA TTT TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15154068 TTA TT
1 TTA TT
15154073 GTTTTTGCTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:15156239 original size:9 final size:9
Alignment explanation
Indices: 15156225--15156255 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15156215 GTTAAACGAA
15156225 TCGAGTTAT
1 TCGAGTTAT
*
15156234 TCGAGTTAA
1 TCGAGTTAT
15156243 TCGAGTTAT
1 TCGAGTTAT
15156252 TCGA
1 TCGA
15156256 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15156326 original size:9 final size:9
Alignment explanation
Indices: 15156309--15156345 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15156299 TGAGTTTTCG
15156309 AATTCGAAT
1 AATTCGAAT
*
15156318 AACTCGAAT
1 AATTCGAAT
15156327 AATTCGAAT
1 AATTCGAAT
15156336 AATTCGAAT
1 AATTCGAAT
15156345 A
1 A
15156346 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15162555 original size:20 final size:20
Alignment explanation
Indices: 15162526--15162565 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15162516 TTCACCTCGT
*
15162526 GCATCGCATCATATGCATTA
1 GCATCACATCATATGCATTA
15162546 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
15162566 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:15174981 original size:22 final size:22
Alignment explanation
Indices: 15174914--15174981 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
15174904 AATTTTTTAA
* *
15174914 AAATTATAAAAATATAAATTATT
1 AAATTA-AAAATTATAATTTATT
*
15174937 AAATTAATAAAATTATATTTTTATT
1 AAATT-A-AAAATTATA-ATTTATT
*
15174962 ATATTAAAAATTATAATTTA
1 AAATTAAAAATTATAATTTA
15174982 ATTTTGACCC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
22 4 0.11
23 14 0.37
24 11 0.29
25 9 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTAAAAATTATAATTTATT
Found at i:15176125 original size:42 final size:42
Alignment explanation
Indices: 15176078--15176161 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
15176068 AAACCAAGAG
15176078 ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
1 ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
**
15176120 ATACAATTATCATTTTTCACTCAATAATTATTTTCCAACAAT
1 ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
15176162 GGTTCTTCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.40
Consensus pattern (42 bp):
ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
Found at i:15176455 original size:13 final size:13
Alignment explanation
Indices: 15176434--15176464 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15176424 CAAAAAACAG
15176434 ATAAAAATAATAA
1 ATAAAAATAATAA
*
15176447 ATAATAATAATAA
1 ATAAAAATAATAA
15176460 ATAAA
1 ATAAA
15176465 GGTCCAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
ATAAAAATAATAA
Found at i:15176919 original size:18 final size:18
Alignment explanation
Indices: 15176871--15176920 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
15176861 CTAAGGTTGT
* *
15176871 TTTATATTCTGTTATTTA
1 TTTATATACTATTATTTA
* * *
15176889 TTTATCTATTATTATTTG
1 TTTATATACTATTATTTA
15176907 TTTATATACTATTA
1 TTTATATACTATTA
15176921 ATAAATAAGG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATATACTATTATTTA
Found at i:15189653 original size:44 final size:44
Alignment explanation
Indices: 15189542--15190049 Score: 268
Period size: 44 Copynumber: 11.7 Consensus size: 44
15189532 ACAGATCGAG
* * * *
15189542 TCTTATCTCCCTGAAGTTGCAGT-GAGGCAAACTGAAGAT-GGAAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTAAAG-TCGG-TAA
*
15189587 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTCGGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGGTAA
* * * * **
15189631 TCCTATCTCGCTGAAGTTGCAGT-GAGCGGATTAAA-ACTTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGGTA-A
* * * * *
15189674 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCACA-TC--TAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGGTAA
* *
15189714 TCTTATCTCCCT-AGAGTTGCAGTGGAGCAGATT-AAGTAGGCAA
1 TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGTCGGTAA
* * *
15189757 GTCTTATC-CTCCTGAAGTTGCAGT-GAGACAGACTGAAGAT-GGCAAA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGATTAAAG-TCGG-TAA
* * *
15189803 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGGTAA
* * ** * *
15189847 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGG--A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAA-GTCGGTAA
** * * * *** *
15189891 TCTTATCTCTTTGAAGTTGCAG-AGAGTAGA-T--CGTATTTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGGTAA
* * *
15189931 TCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGGTAA
* ** * ** * *
15189975 TCCTATCTTTCTGAAGTTACAGTGGAGTGGATTAAAACTTTGG--A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAA-GTCGGTAA
* *
15190019 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
15190050 CGTATTTAGT
Statistics
Matches: 351, Mismatches: 83, Indels: 60
0.71 0.17 0.12
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 40 0.11
41 16 0.05
42 5 0.01
43 58 0.17
44 146 0.42
45 73 0.21
46 11 0.03
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGGTAA
Found at i:15189974 original size:128 final size:128
Alignment explanation
Indices: 15189803--15190079 Score: 491
Period size: 128 Copynumber: 2.2 Consensus size: 128
15189793 AGATGGCAAA
* *
15189803 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTACA
* *
15189868 GTGGAGTGGATTAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGAGAGTAGATCGTATTTAG
66 GTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGTATTTAG
* *
15189931 TCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCCGATAATCCTATCTTTCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTACA
*
15189996 GTGGAGTGGATTAAAACTTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGTATTTAG
66 GTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGTATTTAG
15190059 TCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCA
15190080 CCAGGAGCAG
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 142 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTACA
GTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGTATTTAG
Found at i:15190351 original size:10 final size:10
Alignment explanation
Indices: 15190334--15190363 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
15190324 GCAAAAACAG
15190334 ATAA-AAATA
1 ATAATAAATA
15190343 ATAATAAATA
1 ATAATAAATA
15190353 ATAATAAATA
1 ATAATAAATA
15190363 A
1 A
15190364 AGGTCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
ATAATAAATA
Found at i:15190819 original size:18 final size:18
Alignment explanation
Indices: 15190771--15190820 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
15190761 CTAAGGTTGT
* *
15190771 TTTATATTCTGTTATTTA
1 TTTATATACTATTATTTA
* * *
15190789 TTTATCTATTATTATTTG
1 TTTATATACTATTATTTA
15190807 TTTATATACTATTA
1 TTTATATACTATTA
15190821 AGAAATAAGG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATATACTATTATTTA
Found at i:15194464 original size:9 final size:9
Alignment explanation
Indices: 15194450--15194487 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
15194440 TTACATAAAC
15194450 TTATAAATA
1 TTATAAATA
15194459 TTATAAA-A
1 TTATAAATA
* *
15194467 ATATAAGTA
1 TTATAAATA
15194476 TTATAAATA
1 TTATAAATA
15194485 TTA
1 TTA
15194488 AAAAATATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (9 bp):
TTATAAATA
Found at i:15194470 original size:11 final size:11
Alignment explanation
Indices: 15194454--15194553 Score: 54
Period size: 11 Copynumber: 9.4 Consensus size: 11
15194444 ATAAACTTAT
15194454 AAATATTATAA
1 AAATATTATAA
*
15194465 AAATATAAGTATTAT
1 AAATAT---TA-TAA
15194480 AAATATTA-AA
1 AAATATTATAA
15194490 AAATATCTA-AA
1 AAATAT-TATAA
15194501 AAA-A-TATAA
1 AAATATTATAA
* *
15194510 TAA-ATTAGAA
1 AAATATTATAA
*
15194520 AAATATTAGAA
1 AAATATTATAA
15194531 AAATATT-T--
1 AAATATTATAA
*
15194539 AAATTTTATAA
1 AAATATTATAA
15194550 AAAT
1 AAAT
15194554 GTATTAAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
8 8 0.11
9 6 0.08
10 14 0.20
11 31 0.44
12 2 0.03
14 2 0.03
15 8 0.11
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (11 bp):
AAATATTATAA
Found at i:15194471 original size:17 final size:17
Alignment explanation
Indices: 15194451--15194525 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 17
15194441 TACATAAACT
15194451 TATAAATATTATAAAAA
1 TATAAATATTATAAAAA
* *
15194468 TATAAGTATTATAAATAT
1 TATAAATATTATAAA-AA
* *
15194486 TAAAAAATATCTAAAAAAA
1 T-ATAAATAT-TATAAAAA
* *
15194505 TATAATAAATTAGAAAAA
1 TATAA-ATATTATAAAAA
15194523 TAT
1 TAT
15194526 TAGAAAAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
17 14 0.31
18 15 0.33
19 11 0.24
20 5 0.11
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (17 bp):
TATAAATATTATAAAAA
Found at i:15194563 original size:21 final size:20
Alignment explanation
Indices: 15194529--15194593 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
15194519 AAAATATTAG
* *
15194529 AAAAA-TATTTAAATTTTAT
1 AAAAAGTATTAAAATTATAT
*
15194548 AAAAATGTATTAAAATTCTAT
1 AAAAA-GTATTAAAATTATAT
*
15194569 AAAAAGCATTAAAATTGATAT
1 AAAAAGTATTAAAATT-ATAT
15194590 AAAA
1 AAAA
15194594 TTATAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.13
20 10 0.26
21 24 0.62
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (20 bp):
AAAAAGTATTAAAATTATAT
Found at i:15194583 original size:30 final size:30
Alignment explanation
Indices: 15194546--15194614 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
15194536 TTTAAATTTT
*
15194546 ATAAAAA-TG-TATTAAAATTCTATAAAAAGC
1 ATAAAAATTGATA-TAAAATTATA-AAAAAGC
* *
15194576 ATTAAAATTGATATAAAATTATAAAAAATC
1 ATAAAAATTGATATAAAATTATAAAAAAGC
15194606 ATAAAAATT
1 ATAAAAATT
15194615 TGAATTGGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 20 0.61
31 11 0.33
32 2 0.06
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (30 bp):
ATAAAAATTGATATAAAATTATAAAAAAGC
Found at i:15195014 original size:10 final size:10
Alignment explanation
Indices: 15194999--15195051 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
15194989 TCAGCTCAAG
*
15194999 TTTTTATGAT
1 TTTTTATAAT
15195009 TTTTTATAAT
1 TTTTTATAAT
* *
15195019 TTTATAT-TT
1 TTTTTATAAT
15195028 ATTTTTATAAT
1 -TTTTTATAAT
*
15195039 TTTTTATTAT
1 TTTTTATAAT
15195049 TTT
1 TTT
15195052 AAGAATTCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 1 0.03
10 33 0.94
11 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:15195034 original size:20 final size:19
Alignment explanation
Indices: 15195009--15195051 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
15194999 TTTTTATGAT
15195009 TTTTTATAATTTTATATTTA
1 TTTTTATAATTTTATA-TTA
*
15195029 TTTTTATAATTTTTTATTA
1 TTTTTATAATTTTATATTA
15195048 TTTT
1 TTTT
15195052 AAGAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTATAATTTTATATTA
Found at i:15195058 original size:19 final size:20
Alignment explanation
Indices: 15195016--15195058 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
15195006 GATTTTTTAT
* *
15195016 AATTTTATATTTATTTTTAT
1 AATTTTATATTTATTTTAAG
*
15195036 AATTTTTTA-TTATTTTAAG
1 AATTTTATATTTATTTTAAG
15195055 AATT
1 AATT
15195059 CTAATACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
AATTTTATATTTATTTTAAG
Found at i:15196365 original size:16 final size:16
Alignment explanation
Indices: 15196344--15196379 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
15196334 TTTGGTTCGC
15196344 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15196360 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15196376 TGTA
1 TGTA
15196380 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15196733 original size:120 final size:120
Alignment explanation
Indices: 15196593--15196953 Score: 598
Period size: 120 Copynumber: 3.0 Consensus size: 120
15196583 ATTTAATCAT
* * * *
15196593 ATTTAAACATAATTATTATTAAATAT-ATTATAATTAAAATGTATAATTTAATAATATTATTAAT
1 ATTT-AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAAT
* * * * * *
15196657 AATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
64 ATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
15196714 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
15196779 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
*
15196834 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
15196899 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
15196954 GATTAATAAT
Statistics
Matches: 228, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
120 221 0.97
121 7 0.03
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
Found at i:15196799 original size:38 final size:37
Alignment explanation
Indices: 15196752--15196935 Score: 140
Period size: 37 Copynumber: 4.7 Consensus size: 37
15196742 TTAATAAAAA
*
15196752 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
15196789 TATATGAATTTAATAAAA-TCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-TAT
* * * * ** *
15196828 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAA
1 TATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATTAT
*
15196872 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
15196909 TATATGAATTTAATAAAA-TCATAATAT
1 TATAT-AATTTAATAAAATTCTTAATAT
15196936 ATAATACTAT
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
36 2 0.02
37 36 0.32
38 32 0.28
39 7 0.06
40 5 0.04
41 6 0.05
42 7 0.06
44 11 0.10
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCTTAATATTAAATATTAT
Found at i:15196901 original size:18 final size:18
Alignment explanation
Indices: 15196735--15196888 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
15196725 TTATTATTAA
15196735 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
15196753 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
15196771 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
15196790 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
15196808 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
15196824 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
15196843 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
15196855 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
15196873 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
15196889 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:15202322 original size:13 final size:13
Alignment explanation
Indices: 15202304--15202336 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
15202294 ACCAACTCAA
15202304 AAATATATTTTTT-
1 AAATAT-TTTTTTC
15202317 AAATATTTTTTTC
1 AAATATTTTTTTC
15202330 AAATATT
1 AAATATT
15202337 AAATCTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
AAATATTTTTTTC
Found at i:15202936 original size:218 final size:218
Alignment explanation
Indices: 15202546--15202983 Score: 806
Period size: 218 Copynumber: 2.0 Consensus size: 218
15202536 AAAATGGGTT
15202546 CGGGAGTCAGTTACGTACGAAGAAGGGTTAGCCCCCTCGTAACGCCCAAAATTGGTACCTAATTG
1 CGGGAGTCAGTTACGTACGAAGAAGGGTTAGCCCCCTCGTAACGCCCAAAATTGGTACCTAATTG
15202611 ATTATTTAATGTCTTAAGGTCGAATGTAGAAAAAAGATTGAAAAGTGATTCCCCTTTTTAAAAAT
66 ATTATTTAATGTCTTAAGGTCGAATGTAGAAAAAAGATTGAAAAGTGATTCCCCTTTTTAAAAAT
15202676 ATTTATTGACATTTATTATTTCGCAAACTAAAAAAAGGTCATTTTGCTTCGATGAGATGAGAAAA
131 ATTTATTGACATTTATTATTTCGCAAACTAAAAAAAGGTCATTTTGCTTCGATGAGATGAGAAAA
*
15202741 TCGAAACCCTATAAGTTAGAGTA
196 TCGAAACCCCATAAGTTAGAGTA
*
15202764 CGGGAGTCAGTTACGTACGAAGAAGGGTTAGCCCCCTCGTAACGCCCAAAATTGGTACCTAATTT
1 CGGGAGTCAGTTACGTACGAAGAAGGGTTAGCCCCCTCGTAACGCCCAAAATTGGTACCTAATTG
15202829 ATTATTTAATGTCTTAAGGTCGAATGTAGAAAAAAGATTGAAAAGTGATTCCCC-TTTTAAAAAT
66 ATTATTTAATGTCTTAAGGTCGAATGTAGAAAAAAGATTGAAAAGTGATTCCCCTTTTTAAAAAT
* *
15202893 ATTTATTGACATTTATTATTTTGCAAACTAAAAAAAGGGTCATTTTGCTTCGATGAGATGAGGAA
131 ATTTATTGACATTTATTATTTCGCAAACTAAAAAAA-GGTCATTTTGCTTCGATGAGATGAGAAA
* *
15202958 ATCGAAACCCCGTAAGTTAGGGTA
195 ATCGAAACCCCATAAGTTAGAGTA
15202982 CG
1 CG
15202984 ATCTTTTGAA
Statistics
Matches: 213, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
217 45 0.21
218 168 0.79
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (218 bp):
CGGGAGTCAGTTACGTACGAAGAAGGGTTAGCCCCCTCGTAACGCCCAAAATTGGTACCTAATTG
ATTATTTAATGTCTTAAGGTCGAATGTAGAAAAAAGATTGAAAAGTGATTCCCCTTTTTAAAAAT
ATTTATTGACATTTATTATTTCGCAAACTAAAAAAAGGTCATTTTGCTTCGATGAGATGAGAAAA
TCGAAACCCCATAAGTTAGAGTA
Found at i:15204040 original size:3 final size:3
Alignment explanation
Indices: 15204034--15204091 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
15204024 AAATAAAACC
* * *
15204034 AAT AAT AAT AGT AAT AAT ACT AAT AAC AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
15204083 AA- AAT AAT A
1 AAT AAT AAT A
15204092 TTAAACTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:15204088 original size:15 final size:15
Alignment explanation
Indices: 15204055--15204102 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
15204045 TAATAATACT
*
15204055 AATAACAAT-AATAA
1 AATAATAATAAATAA
15204069 TAATAATAATAAATAA
1 -AATAATAATAAATAA
*
15204085 AATAATATTAAACTAA
1 AATAATAATAAA-TAA
15204101 AA
1 AA
15204103 AAATGAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAATAAATAA
Found at i:15204772 original size:6 final size:6
Alignment explanation
Indices: 15204761--15204797 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
15204751 AAAACGGTAG
*
15204761 AATAAA AATAAA AATAAA TATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A
15204798 GATTAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:15205912 original size:179 final size:179
Alignment explanation
Indices: 15205656--15206912 Score: 1140
Period size: 179 Copynumber: 7.1 Consensus size: 179
15205646 AATCTTCAAC
* * * * * * *
15205656 CTACTCCACTGCAAACTCAGAGAGGTAAGACTAGTGTTGTCGATCTGCTTCGTTGCCAGA-ACAG
1 CTACTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCAATCTGCTTCGCTGCCA-ATACAG
* * * * * * *
15205720 AAAGACTAGATCTGTTGTTTTTAGTCTGTTCCACTGCAAACTCAAGGAGGCAAGGCTGGTGTTCT
65 GAAGGCAAGATCTGCTATTTTTAGTCTGCTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTCT
* * *
15205785 TCGATTTGCTTCGCTGCCAATACAAGAAGGCAAGATATGCTATTTTCAGT
130 TCGATCTACTTCGCTGCCAATACAAGAAGGCAAGATCTGCTATTTTCAGT
*
15205835 CTGCTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCAATCTGCTTCGCTGCCAATACAGG
1 CTACTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCAATCTGCTTCGCTGCCAATACAGG
* *
15205900 AATGCAAGATCTGCTATTTTTAGTCTGCTCCACTGCAAACTCAGGGAGGCAAGACTGGTGTTCTT
66 AAGGCAAGATCTGCTATTTTTAGTCTGCTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTCTT
*
15205965 CGATCTACTTCGCTGCCAATACAAGAAGGCAGGATCTGCTATTTTCAGT
131 CGATCTACTTCGCTGCCAATACAAGAAGGCAAGATCTGCTATTTTCAGT
* * * *
15206014 CTGCTCCGCTGCAAACTCAGGGAGGCAAGACTGGTGTTTTCAATCTGCTTCGCTGCCAGTACAGG
1 CTACTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCAATCTGCTTCGCTGCCAATACAGG
*
15206079 AAGGCAAGATCTGCTATTTTTAGTCTGCTCCACTGCAAACTCAGGGAGGCAAGGTTGGTGTTCGT
66 AAGGCAAGATCTGCTATTTTTAGTCTGCTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTC-T
* ** *
15206144 T-GATCTGCTTCGCTGCCAATACAAGAATACAAGATTTGCTATTTTCAGT
130 TCGATCTACTTCGCTGCCAATACAAGAAGGCAAGATCTGCTATTTTCAGT
* * * *
15206193 CTACTCCGCTGCAAACTCAAGGAGGCAAGGCTAGTGTTTTCAATCTGCTTTGCTGCCAATACAGG
1 CTACTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCAATCTGCTTCGCTGCCAATACAGG
* * * * *
15206258 AAGGCAAAATTTGCTGTTTTTAGTCTGCTCCACTACAAACTCAGGGAGGCAAGGCTGGTGTTCGT
66 AAGGCAAGATCTGCTATTTTTAGTCTGCTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTCTT
* ** **
15206323 CGATCTACTTTGCTGCCAATACAAGAAGGCAAGATCTAATATTTTCAAC
131 CGATCTACTTCGCTGCCAATACAAGAAGGCAAGATCTGCTATTTTCAGT
* *** * ** * * * *
15206372 CTATTCCACTG-ATGTTAAGGGAGATAAGGCTGGGGTCTTCGATCTACTTCGCTGCCAATACAGG
1 CTACTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCAATCTGCTTCGCTGCCAATACAGG
* * * * * ** * * ** *
15206436 AAGACAAGATCTGTTATTTTTAATATACTCCACTGC-TGCCCAGAGAGATAAGGCTGG-GGTCTT
66 AAGGCAAGATCTGCTATTTTTAGTCTGCTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTCTT
* * * * **
15206499 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATTTTTAAC
131 CGATCTACTTCGCTGCCAATACAAGAAGGCAAGATCTGCTATTTTCAGT
* ** ** * * * ** *
15206548 CTACTCTACTGC-TGCTCAGGGAGATAAGGCTTGCTATCTTT-GATCTATTTCGCTGCCAATACG
1 CTACTCCACTGCAAACTCAGGGAGGCAAGGC-TGGTGT-TTTCAATCTGCTTCGCTGCCAATACA
* * * * ** * * *** * **
15206611 GGAAGACAAGGTTTGCTATTTTCAACCTACTCCACTAC-TGTTCAAGGAGATAAGGCT--TGCTA
64 GGAAGGCAAGATCTGCTATTTTTAGTCTGCTCCACTGCAAACTCAGGGAGGCAAGGCTGGTG-T-
* * ** * **
15206673 TCTTCGATCTACTTCACTGCCAATACAGGAAGATAAGATATGCTATTTTCAAC
127 TCTTCGATCTACTTCGCTGCCAATACAAGAAGGCAAGATCTGCTATTTTCAGT
* * ** ** * * * * *
15206726 CTACTACACTAC-TGCTCAGGGAGATAAGGCTAGG-GTCTTCGATCTACTTCGCTGCTAATATAG
1 CTACTCCACTGCAAACTCAGGGAGGCAAGGCT-GGTGTTTTCAATCTGCTTCGCTGCCAATACAG
* * ** * * ** * **
15206789 GAAGACAAGATCTGCTATTTTCAACCTACTCCGCTGC-TGCTCAAGGAGATAAGGCT--TGCTAT
65 GAAGGCAAGATCTGCTATTTTTAGTCTGCTCCACTGCAAACTCAGGGAGGCAAGGCTGGTG-T-T
* * * **
15206851 CTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAAC
128 CTTCGATCTACTTCGCTGCCAATACAAGAAGGCAAGATCTGCTATTTTCAGT
15206903 CTACTCCACT
1 CTACTCCACT
15206913 ACTGCTCAGG
Statistics
Matches: 930, Mismatches: 137, Indels: 24
0.85 0.13 0.02
Matches are distributed among these distances:
176 76 0.08
177 219 0.24
178 147 0.16
179 486 0.52
180 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (179 bp):
CTACTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCAATCTGCTTCGCTGCCAATACAGG
AAGGCAAGATCTGCTATTTTTAGTCTGCTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTCTT
CGATCTACTTCGCTGCCAATACAAGAAGGCAAGATCTGCTATTTTCAGT
Found at i:15205925 original size:89 final size:89
Alignment explanation
Indices: 15205659--15206898 Score: 997
Period size: 89 Copynumber: 13.9 Consensus size: 89
15205649 CTTCAACCTA
* * * * * * *
15205659 CTCCACTGCAAACTCAGAGAGGTAAGACTAGTGTTGTCGATCTGCTTCGTTGCCAGA-ACAGAAA
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCA-ATACAGGAA
* * * *
15205723 GACTAGATCTGTTGTTTTTAGTCTG
65 GGCAAGATCTGCTATTTTTAGTCTG
* * * *
15205748 TTCCACTGCAAACTCAAGGAGGCAAGGCTGGTGTTCTTCGATTTGCTTCGCTGCCAATACAAGAA
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTT-TTCGATCTGCTTCGCTGCCAATACAGGAA
* *
15205813 GGCAAGATATGCTATTTTCAGTCTG
65 GGCAAGATCTGCTATTTTTAGTCTG
* *
15205838 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCAATCTGCTTCGCTGCCAATACAGGAAT
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
15205903 GCAAGATCTGCTATTTTTAGTCTG
66 GCAAGATCTGCTATTTTTAGTCTG
* * *
15205927 CTCCACTGCAAACTCAGGGAGGCAAGACTGGTGTTCTTCGATCTACTTCGCTGCCAATACAAGAA
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTT-TTCGATCTGCTTCGCTGCCAATACAGGAA
* *
15205992 GGCAGGATCTGCTATTTTCAGTCTG
65 GGCAAGATCTGCTATTTTTAGTCTG
* * * *
15206017 CTCCGCTGCAAACTCAGGGAGGCAAGACTGGTGTTTTCAATCTGCTTCGCTGCCAGTACAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
15206082 GCAAGATCTGCTATTTTTAGTCTG
66 GCAAGATCTGCTATTTTTAGTCTG
* *
15206106 CTCCACTGCAAACTCAGGGAGGCAAGGTTGGTGTTCGTT-GATCTGCTTCGCTGCCAATACAAGA
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTT--TTCGATCTGCTTCGCTGCCAATACAGGA
** * * *
15206170 ATACAAGATTTGCTATTTTCAGTCTA
64 AGGCAAGATCTGCTATTTTTAGTCTG
* * * * *
15206196 CTCCGCTGCAAACTCAAGGAGGCAAGGCTAGTGTTTTCAATCTGCTTTGCTGCCAATACAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
* * *
15206261 GCAAAATTTGCTGTTTTTAGTCTG
66 GCAAGATCTGCTATTTTTAGTCTG
* * * * *
15206285 CTCCACTACAAACTCAGGGAGGCAAGGCTGGTGTTCGTCGATCTACTTTGCTGCCAATACAAGAA
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTT-TTCGATCTGCTTCGCTGCCAATACAGGAA
** * ** *
15206350 GGCAAGATCTAATATTTTCAACCTA
65 GGCAAGATCTGCTATTTTTAGTCTG
* *** * ** * * *
15206375 TTCCACTG-ATGTTAAGGGAGATAAGGCTGGGGTCTTCGATCTACTTCGCTGCCAATACAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
* * * * *
15206439 ACAAGATCTGTTATTTTTAATATA
66 GCAAGATCTGCTATTTTTAGTCTG
** * * ** * * *
15206463 CTCCACTGC-TGCCCAGAGAGATAAGGCTGGGGTCTTCGATCTACTTCGCTGCCAATACAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
* * ** *
15206527 ACAAGATCTACTATTTTTAACCTA
66 GCAAGATCTGCTATTTTTAGTCTG
* ** ** * * ** *
15206551 CTCTACTGC-TGCTCAGGGAGATAAGGCTTGCTATCTTT-GATCTATTTCGCTGCCAATACGGGA
1 CTCCACTGCAAACTCAGGGAGGCAAGGC-TGGTGT-TTTCGATCTGCTTCGCTGCCAATACAGGA
* * * * ** *
15206614 AGACAAGGTTTGCTATTTTCAACCTA
64 AGGCAAGATCTGCTATTTTTAGTCTG
* *** * ** * * * * *
15206640 CTCCACTAC-TGTTCAAGGAGATAAGGCTTGCTATCTTCGATCTACTTCACTGCCAATACAGGAA
1 CTCCACTGCAAACTCAGGGAGGCAAGGC-TGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAA
** * * ** *
15206704 GATAAGATATGCTATTTTCAACCTA
65 GGCAAGATCTGCTATTTTTAGTCTG
* * ** ** * * * *
15206729 CTACACTAC-TGCTCAGGGAGATAAGGCTAGG-GTCTTCGATCTACTTCGCTGCTAATATAGGAA
1 CTCCACTGCAAACTCAGGGAGGCAAGGCT-GGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAA
* * ** *
15206792 GACAAGATCTGCTATTTTCAACCTA
65 GGCAAGATCTGCTATTTTTAGTCTG
* ** * ** * * * * *
15206817 CTCCGCTGC-TGCTCAAGGAGATAAGGCTTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAA
1 CTCCACTGCAAACTCAGGGAGGCAAGGC-TGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAA
*
15206881 GACAAGATCTGCTATTTT
65 GGCAAGATCTGCTATTTT
15206899 CAACCTACTC
Statistics
Matches: 986, Mismatches: 151, Indels: 28
0.85 0.13 0.02
Matches are distributed among these distances:
88 227 0.23
89 478 0.48
90 279 0.28
91 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (89 bp):
CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
GCAAGATCTGCTATTTTTAGTCTG
Found at i:15206673 original size:44 final size:44
Alignment explanation
Indices: 15206618--15206756 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 44
15206608 ACGGGAAGAC
* * *
15206618 AAGGTTTGCTATTTTCAACCTACTCCACTACTGTTCAAGGAGAT
1 AAGGCTTGCTATTTTCAACCTACTACACTACTGATCAAGGAGAT
* * * * * **
15206662 AAGGCTTGCTATCTTCGATCTACTTCACTGCCAAT-ACAGGAAGAT
1 AAGGCTTGCTATTTTCAACCTACTACACTACTGATCA-AGG-AGAT
* * *
15206707 AA-GATATGCTATTTTCAACCTACTACACTACTGCTCAGGGAGAT
1 AAGGCT-TGCTATTTTCAACCTACTACACTACTGATCAAGGAGAT
15206751 AAGGCT
1 AAGGCT
15206757 AGGGTCTTCG
Statistics
Matches: 70, Mismatches: 20, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
43 1 0.01
44 37 0.53
45 31 0.44
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (44 bp):
AAGGCTTGCTATTTTCAACCTACTACACTACTGATCAAGGAGAT
Found at i:15206752 original size:266 final size:266
Alignment explanation
Indices: 15206322--15206934 Score: 874
Period size: 266 Copynumber: 2.3 Consensus size: 266
15206312 CTGGTGTTCG
* * ** *
15206322 TCGATCTACTTTGCTGCCAATACAAGAAGGCAAGATCTAATATTTTCAACCTATTCCACTGA-TG
1 TCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACT-ACTG
* * * *
15206386 TT-AAGGGAGATAAGGC-TGGGGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
65 TTCAA-GGAGATAAGGCTTGCGATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATATG
* * * * * *
15206449 TTATTTTTAATATACTCCACTGCTGCCCAGAGAGATAAGGCTGGGGTCTTCGATCTACTTCGCTG
129 CTATTTTCAACATACTACACTACTGCCCAGAGAGATAAGGCTAGGGTCTTCGATCTACTTCGCTG
* * *
15206514 CCAATACAGGAAGACAAGATCTACTATTTTTAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
194 CCAATACAGGAAGACAAGATCTACTATTTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCT
15206579 TGCTATCT
259 TGCTATCT
* * * *
15206587 TTGATCTA-TTTCGCTGCCAATACGGGAAGACAAGGTTTGCTATTTTCAACCTACTCCACTACTG
1 TCGATCTACTTT-GCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTG
* *
15206651 TTCAAGGAGATAAGGCTTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGATAAGATATGC
65 TTCAAGGAGATAAGGCTTGCGATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATATGC
* * *
15206716 TATTTTCAACCTACTACACTACTGCTCAGGGAGATAAGGCTAGGGTCTTCGATCTACTTCGCTGC
130 TATTTTCAACATACTACACTACTGCCCAGAGAGATAAGGCTAGGGTCTTCGATCTACTTCGCTGC
* * * *
15206781 TAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTT
195 CAATACAGGAAGACAAGATCTACTATTTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTT
15206846 GCTATCT
260 GCTATCT
*
15206853 TCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTGC
1 TCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTGT
*
15206918 TCAGGGAGATAAGGCTT
66 TCAAGGAGATAAGGCTT
15206935 TGTGGTTTCA
Statistics
Matches: 306, Mismatches: 37, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
264 4 0.01
265 62 0.20
266 237 0.77
267 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (266 bp):
TCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTGT
TCAAGGAGATAAGGCTTGCGATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATATGCT
ATTTTCAACATACTACACTACTGCCCAGAGAGATAAGGCTAGGGTCTTCGATCTACTTCGCTGCC
AATACAGGAAGACAAGATCTACTATTTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTTG
CTATCT
Found at i:15206907 original size:45 final size:45
Alignment explanation
Indices: 15206503--15206907 Score: 161
Period size: 45 Copynumber: 9.1 Consensus size: 45
15206493 GGTCTTCGAT
* * *
15206503 CTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATTTTTAAC
1 CTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATTTTCAAC
* ** * * * * *
15206548 CTAC-TCTACTGCTGCT-CAGGGAGATAAG-GCTTGCTATCTTT-GAT
1 CTACTTC-GCTGCTAATACAGGAAGACAAGATC-TGCTAT-TTTCAAC
* * * * *
15206592 CTATTTCGCTGCCAATACGGGAAGACAAGGTTTGCTATTTTCAAC
1 CTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATTTTCAAC
* * * * * * * * * *
15206637 CTACTCCACTACT-GTTCAAGG-AGATAAG-GCTTGCTATCTTCGAT
1 CTACTTCGCTGCTAATAC-AGGAAGACAAGATC-TGCTATTTTCAAC
* * * *
15206681 CTACTTCACTGCCAATACAGGAAGATAAGATATGCTATTTTCAAC
1 CTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATTTTCAAC
* * * ** * * * ** * * *
15206726 CTACTACACTACTGCT-CAGGGAGATAAG-GCTAG-GGTCTTCGAT
1 CTACTTCGCTGCTAATACAGGAAGACAAGATCT-GCTATTTTCAAC
*
15206769 CTACTTCGCTGCTAATATAGGAAGACAAGATCTGCTATTTTCAAC
1 CTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATTTTCAAC
* ** * * * * *
15206814 CTACTCCGCTGCTGCT-CAAGG-AGATAAG-GCTTGCTATCTTCGAT
1 CTACTTCGCTGCTAATAC-AGGAAGACAAGATC-TGCTATTTTCAAC
* *
15206858 CTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAAC
1 CTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATTTTCAAC
15206903 CTACT
1 CTACT
15206908 CCACTACTGC
Statistics
Matches: 247, Mismatches: 92, Indels: 42
0.65 0.24 0.11
Matches are distributed among these distances:
43 19 0.08
44 112 0.45
45 115 0.47
46 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
CTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATTTTCAAC
Found at i:15208077 original size:42 final size:42
Alignment explanation
Indices: 15208009--15208092 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
15207999 GGCATAGCAA
* * * *
15208009 GATCACCGCATGCCCCATTTTGATCAACATTTGAGTAACTCT
1 GATCACCCCATGCCCCATTCTAATCAAAATTTGAGTAACTCT
* *
15208051 GATCACCCCATGCCCTATTCTAATCAAAATTTGAGTCACTCT
1 GATCACCCCATGCCCCATTCTAATCAAAATTTGAGTAACTCT
15208093 TTTCGAGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (42 bp):
GATCACCCCATGCCCCATTCTAATCAAAATTTGAGTAACTCT
Found at i:15213650 original size:22 final size:21
Alignment explanation
Indices: 15213625--15213665 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
15213615 AATTAGCGAA
15213625 ATATATATAAGAAATAAATTAG
1 ATATATATAA-AAATAAATTAG
* *
15213647 ATATTTATAAAGATAAATT
1 ATATATATAAAAATAAATT
15213666 TAAACAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (21 bp):
ATATATATAAAAATAAATTAG
Found at i:15213911 original size:3 final size:3
Alignment explanation
Indices: 15213905--15213976 Score: 81
Period size: 3 Copynumber: 23.3 Consensus size: 3
15213895 AAATAAAACC
* * * * *
15213905 AAT AAT AAT AGT AAT AAT ACT AAT AAC AAT AAC AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15213953 AAT AAT AAT AAT AAAT AAAT AAT A
1 AAT AAT AAT AAT -AAT -AAT AAT A
15213977 TTAAACTAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 51 0.88
4 7 0.12
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:15215242 original size:26 final size:27
Alignment explanation
Indices: 15215205--15215255 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
15215195 CTGTTTTTTA
15215205 ATTTTTGAAAAAT-AAAATAAAAAATT
1 ATTTTTGAAAAATGAAAATAAAAAATT
15215231 ATTTGTTG-AAAATGAAAATAAAAAA
1 ATTT-TTGAAAAATGAAAATAAAAAA
15215256 GTGTCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (27 bp):
ATTTTTGAAAAATGAAAATAAAAAATT
Found at i:15215509 original size:14 final size:14
Alignment explanation
Indices: 15215490--15215523 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
15215480 ATTTATTCTA
15215490 AATAAAA-TATAATT
1 AATAAAATTA-AATT
15215504 AATAAAATTAAATT
1 AATAAAATTAAATT
15215518 AATAAA
1 AATAAA
15215524 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAAATTAAATT
Found at i:15215520 original size:18 final size:19
Alignment explanation
Indices: 15215489--15215528 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
15215479 AATTTATTCT
*
15215489 AAATAAAATATAATTAATA
1 AAATAAAATATAATAAATA
*
15215508 AAATTAAAT-TAATAAATA
1 AAATAAAATATAATAAATA
15215526 AAA
1 AAA
15215529 AAATTTCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATAAAATATAATAAATA
Found at i:15220773 original size:57 final size:57
Alignment explanation
Indices: 15220664--15220833 Score: 184
Period size: 57 Copynumber: 3.0 Consensus size: 57
15220654 TAAGTACTTG
* * * * * * * *
15220664 CCACAAATGCTTTCCTTT-CAGAGTCTCGCCATAAAGAC-GTCCTTTAAGAGGTTCA
1 CCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCA
* *
15220719 CCATAAAGGCTTA-CTCTTCCAGAGTTTTGCCACAAAGGTTATCCTTTAACAGGTTCA
1 CCACAAAGGCTTACCT-TTCCAGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCA
* * * *
15220776 CCACAAAGGCTTGCCTTTCTAGAGTTTTGCCACAAAGGCTATCCTTTCACAAGTTCA
1 CCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCA
15220833 C
1 C
15220834 TGTAAACAGA
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
54 2 0.02
55 12 0.13
56 15 0.16
57 64 0.67
58 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (57 bp):
CCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCA
Found at i:15220821 original size:29 final size:29
Alignment explanation
Indices: 15220661--15220824 Score: 97
Period size: 29 Copynumber: 5.8 Consensus size: 29
15220651 CCTTAAGTAC
* * *
15220661 TTGCCACAAATGCTTTCCTTTC-AGAGTC
1 TTGCCACAAAGGCTATCCTTTCAAGAGTT
* * * * *
15220689 TCGCCATAAAGAC-GTCCTTT-AAGAGGT
1 TTGCCACAAAGGCTATCCTTTCAAGAGTT
** * * *
15220716 TCACCATAAAGGCT-TACTCTTCCAGAGTT
1 TTGCCACAAAGGCTATCCT-TTCAAGAGTT
* * *
15220745 TTGCCACAAAGGTTATCCTTT-AACAGGT
1 TTGCCACAAAGGCTATCCTTTCAAGAGTT
** *
15220773 TCACCACAAAGGCT-TGCCTTTCTAGAGTT
1 TTGCCACAAAGGCTAT-CCTTTCAAGAGTT
15220802 TTGCCACAAAGGCTATCCTTTCA
1 TTGCCACAAAGGCTATCCTTTCA
15220825 CAAGTTCACT
Statistics
Matches: 99, Mismatches: 29, Indels: 15
0.69 0.20 0.10
Matches are distributed among these distances:
27 25 0.25
28 31 0.31
29 39 0.39
30 4 0.04
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (29 bp):
TTGCCACAAAGGCTATCCTTTCAAGAGTT
Found at i:15222704 original size:57 final size:57
Alignment explanation
Indices: 15222591--15222723 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 57
15222581 GTTACATTCA
* * ** * *
15222591 CCAAAAAGGCTTACCTTTCTAAAGTTTTGCCACAAAGGTTGTCCTTAAGTAGGTTCG
1 CCAAAAAGGCTTACCTTTCCAAAGTTTTGCCACAAAGGCTACCCTTAAGCAAGTTCG
* * * * * *
15222648 CCACAAGGGCTTACCTTTCCAGAGTTTTGTCACAGAGGCTACCCTTTAGCAAGTTCG
1 CCAAAAAGGCTTACCTTTCCAAAGTTTTGCCACAAAGGCTACCCTTAAGCAAGTTCG
*
15222705 CTAAAAAGGCTTACCTTTC
1 CCAAAAAGGCTTACCTTTC
15222724 TTGGTGATTT
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (57 bp):
CCAAAAAGGCTTACCTTTCCAAAGTTTTGCCACAAAGGCTACCCTTAAGCAAGTTCG
Found at i:15232389 original size:126 final size:127
Alignment explanation
Indices: 15232148--15232394 Score: 424
Period size: 126 Copynumber: 2.0 Consensus size: 127
15232138 TGCTCATTTC
*
15232148 TGGTTATACTAAGTACAGGTTTAGGTTTGTCTACTAATGCAAGTTGTCTTTCCATACTACGATCT
1 TGGTTATACTAAGGACAGGTTTAGGTTTGTCTACTAATGCAAGTTGTCTTTCCATACTACGATCT
* *
15232213 GACCCCGTAATACCACTTAGTACTAGTTAAACATTTAGACAACAAATAAGCAACATTTTCTT
66 AACCACGTAATACCACTTAGTACTAGTTAAACATTTAGACAACAAATAAGCAACATTTTCTT
* *
15232275 TGGTTATACTAAGGACATGTTTAGGTTTGTCTACTAATGTAAGTTGTCTTTCCATAC-ACGATCT
1 TGGTTATACTAAGGACAGGTTTAGGTTTGTCTACTAATGCAAGTTGTCTTTCCATACTACGATCT
* *
15232339 AACCACGTAATACCACTTAGTATTAGTTAAACATTTAGACAACCAATAAGCAACAT
66 AACCACGTAATACCACTTAGTACTAGTTAAACATTTAGACAACAAATAAGCAACAT
15232395 GTTCCTCTAT
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
126 59 0.52
127 54 0.48
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (127 bp):
TGGTTATACTAAGGACAGGTTTAGGTTTGTCTACTAATGCAAGTTGTCTTTCCATACTACGATCT
AACCACGTAATACCACTTAGTACTAGTTAAACATTTAGACAACAAATAAGCAACATTTTCTT
Found at i:15236030 original size:25 final size:25
Alignment explanation
Indices: 15235983--15236045 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
15235973 CATGTACATG
* *
15235983 TATGCTCAT-ACGAGCTGTGAATCAA
1 TATGCTC-TCACGAGCTATAAATCAA
**
15236008 TATGCTCTCACGAGCTATAAATCGG
1 TATGCTCTCACGAGCTATAAATCAA
*
15236033 TATGCTCACACGA
1 TATGCTCTCACGA
15236046 CTTGTAAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (25 bp):
TATGCTCTCACGAGCTATAAATCAA
Found at i:15241619 original size:43 final size:43
Alignment explanation
Indices: 15241558--15241646 Score: 142
Period size: 43 Copynumber: 2.1 Consensus size: 43
15241548 GTACACAAGT
* ** *
15241558 TCTAGGGGTTTTTCGGCTCTTGTTCCTTTTTGATTAAAAGGTC
1 TCTAGGGGTTTTTCGGCTCTCGTTCCTTTAGGATTAAAAGATC
15241601 TCTAGGGGTTTTTCGGCTCTCGTTCCTTTAGGATTAAAAGATC
1 TCTAGGGGTTTTTCGGCTCTCGTTCCTTTAGGATTAAAAGATC
15241644 TCT
1 TCT
15241647 TAGTCATCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (43 bp):
TCTAGGGGTTTTTCGGCTCTCGTTCCTTTAGGATTAAAAGATC
Found at i:15249576 original size:15 final size:13
Alignment explanation
Indices: 15249545--15249570 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15249535 CTACAGGGGA
15249545 CACATGGTCGTGT
1 CACATGGTCGTGT
15249558 CACATGGTCGTGT
1 CACATGGTCGTGT
15249571 GTCACACATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
CACATGGTCGTGT
Found at i:15252258 original size:15 final size:16
Alignment explanation
Indices: 15252230--15252259 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15252220 CAACCATGCT
15252230 TTAACACAATATCAAA
1 TTAACACAATATCAAA
15252246 TTAACAC-ATATCAA
1 TTAACACAATATCAA
15252260 TAAGGCGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (16 bp):
TTAACACAATATCAAA
Found at i:15268815 original size:124 final size:124
Alignment explanation
Indices: 15268594--15268836 Score: 398
Period size: 124 Copynumber: 2.0 Consensus size: 124
15268584 AAGTACTTTG
* *
15268594 ATTCTCTGAGCAGAATACAAATAGTCATTTATGCGTATGTTTAGTATGATGTCCTTTCATGCGTA
1 ATTCTCTGAGCAGAATACAAATAGTAATTTATGCGTATGTTTAGTATGATGTCCTTTCATGCATA
* *
15268659 AGGATGTTTAGGTCACATAGGACTTTTTGGCTTGTAATGTTCTAAGGCTTAGGAATTTA
66 AGGATATTTAGGTCACATAGGACTTTTCGGCTTGTAATGTTCTAAGGCTTAGGAATTTA
**
15268718 ATTCTCTGATTAGAATACAAATAGTAATTTATGCGTATGTTTAGTATGATGT-CTATTCATGCAT
1 ATTCTCTGAGCAGAATACAAATAGTAATTTATGCGTATGTTTAGTATGATGTCCT-TTCATGCAT
* *
15268782 AAGGATATTTAGGTCACATAGGACTTTTCGGCTTGTAATGTTTTGAGGCTTAGGA
65 AAGGATATTTAGGTCACATAGGACTTTTCGGCTTGTAATGTTCTAAGGCTTAGGA
15268837 CAGGTATGAA
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
123 2 0.02
124 108 0.98
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (124 bp):
ATTCTCTGAGCAGAATACAAATAGTAATTTATGCGTATGTTTAGTATGATGTCCTTTCATGCATA
AGGATATTTAGGTCACATAGGACTTTTCGGCTTGTAATGTTCTAAGGCTTAGGAATTTA
Found at i:15274907 original size:13 final size:13
Alignment explanation
Indices: 15274889--15274916 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15274879 ATAAAATTGG
15274889 AAAGATGATAAAT
1 AAAGATGATAAAT
15274902 AAAGATGATAAAT
1 AAAGATGATAAAT
15274915 AA
1 AA
15274917 TCAAATAAAG
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:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:15276110 original size:48 final size:48
Alignment explanation
Indices: 15276047--15276158 Score: 190
Period size: 48 Copynumber: 2.3 Consensus size: 48
15276037 TTCTCGATTA
*
15276047 ATGGCTCTTCA-GAGCTACCCATTATTGGCTCGCATGAGCTTCCCATTT
1 ATGGCTCTT-ATGAGCTACCCATTATGGGCTCGCATGAGCTTCCCATTT
*
15276095 ATGGCTCTTATGAGCTACCCGTTATGGGCTCGCATGAGCTTCCCATTT
1 ATGGCTCTTATGAGCTACCCATTATGGGCTCGCATGAGCTTCCCATTT
15276143 ATGGCTCTTATGAGCT
1 ATGGCTCTTATGAGCT
15276159 TTCTATTATA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
47 1 0.02
48 60 0.98
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (48 bp):
ATGGCTCTTATGAGCTACCCATTATGGGCTCGCATGAGCTTCCCATTT
Found at i:15276159 original size:24 final size:24
Alignment explanation
Indices: 15276047--15276159 Score: 115
Period size: 24 Copynumber: 4.7 Consensus size: 24
15276037 TTCTCGATTA
*
15276047 ATGGCTCTTCA-GAGCTACCCA-TT
1 ATGGCTCTT-ATGAGCTTCCCATTT
**
15276070 ATTGGCTCGCATGAGCTTCCCATTT
1 A-TGGCTCTTATGAGCTTCCCATTT
* *
15276095 ATGGCTCTTATGAGCTACCC-GTT
1 ATGGCTCTTATGAGCTTCCCATTT
**
15276118 ATGGGCTCGCATGAGCTTCCCATTT
1 AT-GGCTCTTATGAGCTTCCCATTT
15276143 ATGGCTCTTATGAGCTT
1 ATGGCTCTTATGAGCTT
15276160 TCTATTATAA
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
23 6 0.08
24 59 0.82
25 7 0.10
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.35
Consensus pattern (24 bp):
ATGGCTCTTATGAGCTTCCCATTT
Found at i:15276199 original size:24 final size:25
Alignment explanation
Indices: 15276172--15276219 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15276162 TATTATAAAT
*
15276172 CTCAGATAAG-TTCCCGTTATATGA
1 CTCACATAAGTTTCCCGTTATATGA
*
15276196 CTCACATGAGTTTCCCGTTATATG
1 CTCACATAAGTTTCCCGTTATATG
15276220 GCTCGAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (25 bp):
CTCACATAAGTTTCCCGTTATATGA
Found at i:15278455 original size:23 final size:22
Alignment explanation
Indices: 15278412--15278455 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
15278402 TTCTAAGTCG
15278412 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
15278435 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
15278456 TTAGTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:15278564 original size:45 final size:45
Alignment explanation
Indices: 15278500--15278593 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
15278490 AACATATACT
* *
15278500 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
15278545 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
15278590 CGGT
1 CGGT
15278594 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:15278660 original size:51 final size:50
Alignment explanation
Indices: 15278599--15278785 Score: 173
Period size: 51 Copynumber: 3.7 Consensus size: 50
15278589 TCGGTTCACA
*
15278599 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCTATACAAG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCTATACAAG
* * * ** * * *
15278650 TATTAGCCTGCACATGGTACTACACACATGATTGAAACTATCCGGTATTC-A-
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCC--TATACAAG
* * * ** *
15278701 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCTATACAAG
15278751 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
15278786 CAATTTCACT
Statistics
Matches: 104, Mismatches: 25, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
48 2 0.02
49 2 0.02
50 34 0.33
51 60 0.58
52 2 0.02
53 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCTATACAAG
Found at i:15290228 original size:16 final size:16
Alignment explanation
Indices: 15290201--15290265 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
15290191 TTCGCTGTAT
*
15290201 TGGAATATAGGCGTAA
1 TGGAATAGAGGCGTAA
*
15290217 TGAAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
15290233 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
15290249 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
15290265 T
1 T
15290266 AGCAAATCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.38, C:0.05, G:0.34, T:0.23
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:15290303 original size:45 final size:44
Alignment explanation
Indices: 15290244--15290334 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
15290234 GGAATAGAGG
*
15290244 TGTAATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAAGTGTTTGGTTGAA
* **
15290289 TGTAATGGAATAGAGGCGTAATAGTAATCTCGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAAGTGTTTGGTTGAA
15290333 TG
1 TG
15290335 GAATAGAGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 18 0.43
45 24 0.57
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAAGTGTTTGGTTGAA
Found at i:15290579 original size:61 final size:61
Alignment explanation
Indices: 15290514--15290701 Score: 185
Period size: 61 Copynumber: 3.1 Consensus size: 61
15290504 TTATAATTAA
15290514 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
* * * * * * *
15290575 AATATATGATACTATAA-AAGATAAT-TTAA-CA-TAATTATTGTTAAATATATTT--T--AATT
1 AATATAT-A-A-TTTAATAA-A-ATTCTTAATAATTAA-TATTCTTATATAAATTTACTCAAATC
*
15290632 AA
60 AT
*
15290634 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
15290695 AATATAT
1 AATATAT
15290702 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
55 2 0.02
56 9 0.09
57 17 0.18
58 4 0.04
59 12 0.12
61 19 0.20
62 4 0.04
63 18 0.19
64 9 0.09
65 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
Found at i:15290623 original size:120 final size:120
Alignment explanation
Indices: 15290477--15290774 Score: 524
Period size: 120 Copynumber: 2.5 Consensus size: 120
15290467 ATTTAATCAC
* *
15290477 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
15290542 ATTAATATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAAGATA
65 ATTAATATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
15290598 ATTTAACATAATTATTGTTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
15290663 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 TTAATATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
15290718 AATTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
15290775 TAAAATAATT
Statistics
Matches: 169, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
120 165 0.98
121 4 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:15290638 original size:59 final size:58
Alignment explanation
Indices: 15290575--15290786 Score: 163
Period size: 54 Copynumber: 3.6 Consensus size: 58
15290565 CTCAAATCAT
*
15290575 AATATATGATACTATAAAAGATAATTTAACATAATTATTGTTAAATATATTTTAATTAA
1 AATATATGATACTATAAAA-ATAATTTAACATAATTATTATTAAATATATTTTAATTAA
* * * * ** *
15290634 AATATAT-A-A-TTTAATAA-AATTCTTA-ATAATTAATATTCTTATATGAATTTACTCAAATCA
1 AATATATGATACTATAAAAATAATT-TAACATAATTATTATT-AAATAT--ATTT--T--AATTA
*
15290694 T
58 A
*
15290695 AATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAA-ATAATTTAACATAATTATTATTAAATATATTTTAATTAA
* *
15290754 AATATATGAT--T-TAATAA-AATTTAAAATAATTAT
1 AATATATGATACTATAAAAATAATTTAACATAATTAT
15290787 AACTAAAAAT
Statistics
Matches: 118, Mismatches: 21, Indels: 33
0.69 0.12 0.19
Matches are distributed among these distances:
54 28 0.24
55 8 0.07
56 9 0.08
57 6 0.05
58 1 0.01
59 22 0.19
61 12 0.10
62 1 0.01
63 5 0.04
64 5 0.04
65 7 0.06
66 14 0.12
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (58 bp):
AATATATGATACTATAAAAATAATTTAACATAATTATTATTAAATATATTTTAATTAA
Found at i:15290646 original size:18 final size:17
Alignment explanation
Indices: 15290619--15290653 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15290609 TTATTGTTAA
*
15290619 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15290637 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15290654 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15290760 original size:18 final size:17
Alignment explanation
Indices: 15290737--15290773 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
15290727 AATTATTATT
15290737 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
15290753 AAATATATGATTTAATA
1 AAATATATGATTTAATA
15290770 AAAT
1 AAAT
15290774 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:15290844 original size:26 final size:28
Alignment explanation
Indices: 15290814--15290874 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
15290804 TATGAATTTG
*
15290814 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
15290840 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
15290868 TAAAATT
1 TATAATT
15290875 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:15290894 original size:91 final size:91
Alignment explanation
Indices: 15290793--15291087 Score: 500
Period size: 91 Copynumber: 3.2 Consensus size: 91
15290783 TTATAACTAA
* * * * *
15290793 AAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 AAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
15290858 TATAATTTCATAAAATTCTTGATAAT
66 TATAATTTCATAAAATTCTTGATAAT
*
15290884 AAATTTTCTTATATGAATTTATACAATTTAAAATTATTAATATTAAATATAATTTAATAATGATA
1 AAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
15290949 TATAATTTCATAAAATTCTTGATAAT
66 TATAATTTCATAAAATTCTTGATAAT
*
15290975 AAATTTTCTTATAAGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 AAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
*
15291040 TATAATTTCATAAAATTCTTAATAAT
66 TATAATTTCATAAAATTCTTGATAAT
*
15291066 AAAATGTTCTTATATGAATTTA
1 -AAATTTTCTTATATGAATTTA
15291088 CTAAAATCAA
Statistics
Matches: 192, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
91 173 0.90
92 19 0.10
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
AAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
TATAATTTCATAAAATTCTTGATAAT
Found at i:15296177 original size:12 final size:12
Alignment explanation
Indices: 15296160--15296186 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15296150 AGTGGATTTC
15296160 GGGTAAAGAAAT
1 GGGTAAAGAAAT
15296172 GGGTAAAGAAAT
1 GGGTAAAGAAAT
15296184 GGG
1 GGG
15296187 AGACCGAGAG
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:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (12 bp):
GGGTAAAGAAAT
Found at i:15299373 original size:16 final size:17
Alignment explanation
Indices: 15299352--15299385 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15299342 TATACTATTT
*
15299352 AAAATA-ATATTTTTTA
1 AAAATATATATATTTTA
15299368 AAAATATATATATTTTA
1 AAAATATATATATTTTA
15299385 A
1 A
15299386 TTTTATCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATATATATATTTTA
Found at i:15305164 original size:22 final size:20
Alignment explanation
Indices: 15305150--15305188 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15305140 AAATAAATTT
*
15305150 ATAATTATA-TTTAAATAAA
1 ATAATAATAGTTTAAATAAA
15305169 ATAATAATAGTTTAAATAAA
1 ATAATAATAGTTTAAATAAA
15305189 GCAATTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
ATAATAATAGTTTAAATAAA
Found at i:15316550 original size:12 final size:12
Alignment explanation
Indices: 15316513--15316563 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
15316503 ATTAGAATCT
15316513 TTACTTGCTT-C
1 TTACTTGCTTAC
* *
15316524 TTTACTTACTCAC
1 -TTACTTGCTTAC
*
15316537 TTACTTGTTTAC
1 TTACTTGCTTAC
15316549 TTACTTGCTTAC
1 TTACTTGCTTAC
15316561 TTA
1 TTA
15316564 AATTACTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 31 0.97
13 1 0.03
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.53
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:15316880 original size:50 final size:50
Alignment explanation
Indices: 15316812--15317054 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
15316802 TTTTCTGTAC
* * * * ** *
15316812 TGCCAATGCCATATCCCAGATATGATCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
15316862 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
15316912 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
15316962 TGCCAACGCCATGTCCCAGACATGGTCCTACATGAGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* *
15317018 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
15317055 TCTCATTCCC
Statistics
Matches: 167, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 128 0.77
53 5 0.03
56 34 0.20
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:15325475 original size:48 final size:48
Alignment explanation
Indices: 15325404--15325500 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
15325394 TTTATGTTAG
15325404 TTAACTTTTTCTTCCAATATAGGGTATTTGCTAAAAATGTGAAATGTA
1 TTAACTTTTTCTTCCAATATAGGGTATTTGCTAAAAATGTGAAATGTA
15325452 TTAACTTTTTCTTCCAATATAGGGTATTTGCTAAAAATGTGAAATGTA
1 TTAACTTTTTCTTCCAATATAGGGTATTTGCTAAAAATGTGAAATGTA
15325500 T
1 T
15325501 GCTTTATACA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.42
Consensus pattern (48 bp):
TTAACTTTTTCTTCCAATATAGGGTATTTGCTAAAAATGTGAAATGTA
Found at i:15327911 original size:36 final size:37
Alignment explanation
Indices: 15327866--15327948 Score: 159
Period size: 37 Copynumber: 2.3 Consensus size: 37
15327856 TAATAAATAT
15327866 CAAACAATTCCTCTTGAT-ATTGGCATTGATGAAGAA
1 CAAACAATTCCTCTTGATAATTGGCATTGATGAAGAA
15327902 CAAACAATTCCTCTTGATAATTGGCATTGATGAAGAA
1 CAAACAATTCCTCTTGATAATTGGCATTGATGAAGAA
15327939 CAAACAATTC
1 CAAACAATTC
15327949 ATTCTTTGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 18 0.39
37 28 0.61
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (37 bp):
CAAACAATTCCTCTTGATAATTGGCATTGATGAAGAA
Found at i:15334660 original size:91 final size:91
Alignment explanation
Indices: 15334540--15334721 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
15334530 CGAGTTACAA
15334540 AATTTCATCCGAATTAAAAATTTCAAATTTTTAATGTGCTTTTATAATTCTTTACAACATATCCT
1 AATTTCATCCGAATTAAAAATTTCAAATTTTTAATGTGCTTTTATAATTCTTTACAACATATCCT
15334605 CGAAATATTATATTCATAACAAATAG
66 CGAAATATTATATTCATAACAAATAG
15334631 AATTTCATCCGAATTAAAAATTTCAAATTTTTAATGTGCTTTTATAATTCTTTACAACATATCCT
1 AATTTCATCCGAATTAAAAATTTCAAATTTTTAATGTGCTTTTATAATTCTTTACAACATATCCT
15334696 CGAAATATTATATTCATAACAAATAG
66 CGAAATATTATATTCATAACAAATAG
15334722 GGCCTACGAG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (91 bp):
AATTTCATCCGAATTAAAAATTTCAAATTTTTAATGTGCTTTTATAATTCTTTACAACATATCCT
CGAAATATTATATTCATAACAAATAG
Found at i:15339523 original size:17 final size:17
Alignment explanation
Indices: 15339501--15339536 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
15339491 ATCCTAACCA
15339501 CCCACTAAC-CATCAAAT
1 CCCACTAACTCA-CAAAT
15339518 CCCACTAACTCACAAAT
1 CCCACTAACTCACAAAT
15339535 CC
1 CC
15339537 TTTAGACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (17 bp):
CCCACTAACTCACAAAT
Found at i:15346400 original size:20 final size:20
Alignment explanation
Indices: 15346377--15346463 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
15346367 GGCACAGTTA
15346377 TGCAATCAGAGGCACCAAAG
1 TGCAATCAGAGGCACCAAAG
*
15346397 TGCAAACAGAGGCA-CAAATG
1 TGCAATCAGAGGCACCAAA-G
*
15346417 TGTAATCAGAGGCACCAAAG
1 TGCAATCAGAGGCACCAAAG
*
15346437 TGCAATCAGAGGCACCGAAG
1 TGCAATCAGAGGCACCAAAG
15346457 TGCAATC
1 TGCAATC
15346464 TCGTACAAGC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
19 4 0.07
20 52 0.87
21 4 0.07
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.13
Consensus pattern (20 bp):
TGCAATCAGAGGCACCAAAG
Found at i:15346406 original size:40 final size:40
Alignment explanation
Indices: 15346343--15346451 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
15346333 AGATGCGTAA
* ** * **
15346343 CAGAGGCACCGAAGTATAGACAGAGGCACAGTTATGCAAT
1 CAGAGGCACCAAAGTGCAAACAGAGGCACAAATATGCAAT
* *
15346383 CAGAGGCACCAAAGTGCAAACAGAGGCACAAATGTGTAAT
1 CAGAGGCACCAAAGTGCAAACAGAGGCACAAATATGCAAT
*
15346423 CAGAGGCACCAAAGTGCAATCAGAGGCAC
1 CAGAGGCACCAAAGTGCAAACAGAGGCAC
15346452 CGAAGTGCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.39, C:0.22, G:0.27, T:0.12
Consensus pattern (40 bp):
CAGAGGCACCAAAGTGCAAACAGAGGCACAAATATGCAAT
Found at i:15348310 original size:44 final size:44
Alignment explanation
Indices: 15348256--15348340 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
15348246 AAAAAAATTG
* * * *
15348256 AAAAGTTGCAAAATAAGGGTCACACGGCCGTGTGCCTCACATGT
1 AAAAGTTGCAAAACAAGGGTCACACAGCCATCTGCCTCACATGT
* *
15348300 AAAATTTGCAAAACAGGGGTCACACAGCCATCTGCCTCACA
1 AAAAGTTGCAAAACAAGGGTCACACAGCCATCTGCCTCACA
15348341 CGGCTGAGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (44 bp):
AAAAGTTGCAAAACAAGGGTCACACAGCCATCTGCCTCACATGT
Found at i:15357311 original size:27 final size:27
Alignment explanation
Indices: 15357269--15357321 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
15357259 AATCATTAGG
*
15357269 GGGTAACTCACTAGAAGAGGAAGATTC
1 GGGTAACTCACCAGAAGAGGAAGATTC
15357296 GGGTAACTCACCAGAAGAGGAAGATT
1 GGGTAACTCACCAGAAGAGGAAGATT
15357322 ATTTGCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.17
Consensus pattern (27 bp):
GGGTAACTCACCAGAAGAGGAAGATTC
Found at i:15357472 original size:20 final size:18
Alignment explanation
Indices: 15357427--15357490 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
15357417 TTTTGAATAG
* *
15357427 TAGTCTCCCCTTGAGCAA
1 TAGTTTCCCCTTGAACAA
15357445 TAGTTTCCCCTTGAACAA
1 TAGTTTCCCCTTGAACAA
*
15357463 TGATGTTT--CCTGGAACAA
1 T-A-GTTTCCCCTTGAACAA
*
15357481 TAGTCTCCCC
1 TAGTTTCCCC
15357491 CTAAATAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 3 0.08
17 1 0.03
18 29 0.76
19 1 0.03
20 4 0.11
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (18 bp):
TAGTTTCCCCTTGAACAA
Found at i:15363168 original size:20 final size:19
Alignment explanation
Indices: 15363141--15363182 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
15363131 ATTTCCAAAT
15363141 TTTCTTACTTT-CATATGCA
1 TTTCTTACTTTCCAT-TGCA
15363160 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
15363180 TTT
1 TTT
15363183 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.19, C:0.21, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:15392814 original size:29 final size:29
Alignment explanation
Indices: 15392781--15392874 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
15392771 AAAGGAAGCT
* * *
15392781 TTTGTGGCAATCTATTTTATAATGAA-GGC
1 TTTGTGGCAATCTCTATTATAA-GAATGCC
** *
15392810 TTTGTGGTGATCTCTGTTATAAGAATGCC
1 TTTGTGGCAATCTCTATTATAAGAATGCC
* * *
15392839 ATTGTGGCAATCTCTATTATAAGGATTCC
1 TTTGTGGCAATCTCTATTATAAGAATGCC
15392868 TTTGTGG
1 TTTGTGG
15392875 TGGTCTTTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 3 0.06
29 49 0.94
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.41
Consensus pattern (29 bp):
TTTGTGGCAATCTCTATTATAAGAATGCC
Found at i:15392958 original size:29 final size:29
Alignment explanation
Indices: 15392925--15393075 Score: 178
Period size: 29 Copynumber: 5.2 Consensus size: 29
15392915 ATAAGGCAGT
** *
15392925 CTTTGTGGCAATCTTTGTGAAATGGAAGC
1 CTTTGTGGTGATCTTTGTTAAATGGAAGC
* * * *
15392954 CTTTG-GGTGATCTCTATTAAATTGAAGA
1 CTTTGTGGTGATCTTTGTTAAATGGAAGC
15392982 CTTTGTGGTGATCTTTGTTAAATGGAAGC
1 CTTTGTGGTGATCTTTGTTAAATGGAAGC
*** * *
15393011 CTTTGTAACGATCTCTATTAAATGGAAGC
1 CTTTGTGGTGATCTTTGTTAAATGGAAGC
*
15393040 CTTTATGGTGATCTTTGTTAAATGGAAGC
1 CTTTGTGGTGATCTTTGTTAAATGGAAGC
15393069 CTTTGTG
1 CTTTGTG
15393076 TAAATCACTG
Statistics
Matches: 98, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
28 21 0.21
29 77 0.79
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.39
Consensus pattern (29 bp):
CTTTGTGGTGATCTTTGTTAAATGGAAGC
Found at i:15392996 original size:57 final size:58
Alignment explanation
Indices: 15392925--15393074 Score: 212
Period size: 58 Copynumber: 2.6 Consensus size: 58
15392915 ATAAGGCAGT
** * *** *
15392925 CTTTGTGGCAATCTTTGTGAAATGGAAGCCTTTG-GGTGATCTCTATTAAATTGAAGA
1 CTTTGTGGTGATCTTTGTTAAATGGAAGCCTTTGTAACGATCTCTATTAAATGGAAGA
*
15392982 CTTTGTGGTGATCTTTGTTAAATGGAAGCCTTTGTAACGATCTCTATTAAATGGAAGC
1 CTTTGTGGTGATCTTTGTTAAATGGAAGCCTTTGTAACGATCTCTATTAAATGGAAGA
*
15393040 CTTTATGGTGATCTTTGTTAAATGGAAGCCTTTGT
1 CTTTGTGGTGATCTTTGTTAAATGGAAGCCTTTGT
15393075 GTAAATCACT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
57 31 0.37
58 52 0.63
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (58 bp):
CTTTGTGGTGATCTTTGTTAAATGGAAGCCTTTGTAACGATCTCTATTAAATGGAAGA
Found at i:15393087 original size:29 final size:28
Alignment explanation
Indices: 15392935--15393099 Score: 152
Period size: 29 Copynumber: 5.8 Consensus size: 28
15392925 CTTTGTGGCA
* * *
15392935 ATCTTTGTGAAATGGAAGCCTTTGGGTG
1 ATCTCTGTTAAATGGAAGCCTTTGTGTG
* * *
15392963 ATCTCTATTAAATTGAAGACTTTGTGGTG
1 ATCTCTGTTAAATGGAAGCCTTTGT-GTG
* **
15392992 ATCTTTGTTAAATGGAAGCCTTTGTAACG
1 ATCTCTGTTAAATGGAAGCCTTTGT-GTG
* *
15393021 ATCTCTATTAAATGGAAGCCTTTATGGTG
1 ATCTCTGTTAAATGGAAGCCTTTGT-GTG
* *
15393050 ATCTTTGTTAAATGGAAGCCTTTGTGTAA
1 ATCTCTGTTAAATGGAAGCCTTTGTGT-G
* *
15393079 ATCACTGTTAAA-GGATGCCTT
1 ATCTCTGTTAAATGGAAGCCTT
15393100 CGTGGCGAGA
Statistics
Matches: 109, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
28 29 0.27
29 80 0.73
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (28 bp):
ATCTCTGTTAAATGGAAGCCTTTGTGTG
Found at i:15393090 original size:58 final size:58
Alignment explanation
Indices: 15392935--15393099 Score: 203
Period size: 58 Copynumber: 2.9 Consensus size: 58
15392925 CTTTGTGGCA
* * * * * *
15392935 ATCTTTGTGAAATGGAAGCCTTTGGGT-GATCTCTATTAAATTGAAGACTTTGTGGTG
1 ATCTTTGTTAAATGGAAGCCTTTGTGTAAATCTCTATTAAATGGAAGCCTTTATGGTG
15392992 ATCTTTGTTAAATGGAAGCC-TT-TGTAACGATCTCTATTAAATGGAAGCCTTTATGGTG
1 ATCTTTGTTAAATGGAAGCCTTTGTGTAA--ATCTCTATTAAATGGAAGCCTTTATGGTG
* * *
15393050 ATCTTTGTTAAATGGAAGCCTTTGTGTAAATCACTGTTAAA-GGATGCCTT
1 ATCTTTGTTAAATGGAAGCCTTTGTGTAAATCTCTATTAAATGGAAGCCTT
15393100 CGTGGCGAGA
Statistics
Matches: 94, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
55 2 0.02
56 2 0.02
57 27 0.29
58 56 0.60
59 2 0.02
60 5 0.05
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (58 bp):
ATCTTTGTTAAATGGAAGCCTTTGTGTAAATCTCTATTAAATGGAAGCCTTTATGGTG
Found at i:15397524 original size:22 final size:22
Alignment explanation
Indices: 15397499--15397541 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15397489 GGTTAGTTCC
* *
15397499 GGTGTTATTCAGGCTTAGTGCT
1 GGTGGTATTCAAGCTTAGTGCT
15397521 GGTGGTATTCAAGCTTAGTGC
1 GGTGGTATTCAAGCTTAGTGC
15397542 CTAGCAGGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.14, G:0.33, T:0.37
Consensus pattern (22 bp):
GGTGGTATTCAAGCTTAGTGCT
Found at i:15397550 original size:38 final size:38
Alignment explanation
Indices: 15397508--15397666 Score: 158
Period size: 38 Copynumber: 4.2 Consensus size: 38
15397498 CGGTGTTATT
* *
15397508 CAGGCTTAGTGCTGGTGGTATTCAAGCTTAGTGCCTAG
1 CAGGCTTAGTGCCGGTGTTATTCAAGCTTAGTGCCTAG
* * * *
15397546 CAGGCTTGGTGCCAGTGATATTCAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCGGTGTTATTCAAGCTTAGTGCCTAG
* * *
15397584 TAGGCTTAGTGCCGATTTTATTC-AGTCTTAGTGCCTAG
1 CAGGCTTAGTGCCGGTGTTATTCAAG-CTTAGTGCCTAG
* * *** * *
15397622 TAGGATTAGTATTGGTGTTATCCAAGCTTAGTGCTTAG
1 CAGGCTTAGTGCCGGTGTTATTCAAGCTTAGTGCCTAG
15397660 CAGGCTT
1 CAGGCTT
15397667 TAAGCCACTA
Statistics
Matches: 97, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
37 1 0.01
38 94 0.97
39 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.35
Consensus pattern (38 bp):
CAGGCTTAGTGCCGGTGTTATTCAAGCTTAGTGCCTAG
Found at i:15403896 original size:50 final size:50
Alignment explanation
Indices: 15403785--15404012 Score: 237
Period size: 50 Copynumber: 4.6 Consensus size: 50
15403775 CAATCTCGTA
* * ** * *
15403785 TAAGACAATGTCTGGGACATGGCATTGACATTGATATGTGA-G--CCATTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA-TG
* *
15403833 TAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* **
15403883 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* * * * **
15403933 TAAGACCATGTCTGGGACATCGCATGGGCACCAATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* * * *
15403983 CAAGACCATATCTGAGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
15404013 GTACAGGAAA
Statistics
Matches: 153, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
48 35 0.23
49 1 0.01
50 114 0.75
51 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
Found at i:15411694 original size:9 final size:9
Alignment explanation
Indices: 15411680--15411704 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15411670 TACAATAAAT
15411680 TTTTTTTTA
1 TTTTTTTTA
15411689 TTTTTTTTA
1 TTTTTTTTA
15411698 TTTTTTT
1 TTTTTTT
15411705 CGGAATAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:15420842 original size:49 final size:49
Alignment explanation
Indices: 15420651--15420840 Score: 182
Period size: 49 Copynumber: 3.9 Consensus size: 49
15420641 CTAAACACCA
* * * * * * *
15420651 TTTGTGGACAAGCCACCACTAATTTGTAGATAATCTGCCACTGATAATAC
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTGA-AACAT
* * ** * * *
15420701 TTTGTGGACAAGCCACCACAGATATGCAGATGTATTACCACAGAAACAT
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTGAAACAT
* * * * *
15420750 TTTATGGACAAGCCACCACTGACATGCAAATATACTGCCACTTAAAGAT
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTGAAACAT
* *
15420799 TTTGTGGACAAGCCACCACTGATTTGCAAATAAACTTCCACT
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACT
15420841 TACTTCCTCC
Statistics
Matches: 113, Mismatches: 27, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
49 79 0.70
50 34 0.30
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (49 bp):
TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTGAAACAT
Found at i:15422911 original size:27 final size:26
Alignment explanation
Indices: 15422838--15422913 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
15422828 ATCTAGACCA
** *
15422838 AAATACACCCATAGGGTAAAATGGCTG
1 AAATAC-CCCATAGGGTAAAATAACCG
* * *
15422865 AAAAACCCCAATTGGATAAAATAACCG
1 AAATACCCC-ATAGGGTAAAATAACCG
15422892 AAATACCCGCATAGGGTAAAAT
1 AAATACCC-CATAGGGTAAAAT
15422914 GACTGTTATA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (26 bp):
AAATACCCCATAGGGTAAAATAACCG
Found at i:15429627 original size:19 final size:19
Alignment explanation
Indices: 15429587--15429631 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
15429577 AAGTCTAAAA
**
15429587 AAAACAGTCCAAAATGTTC
1 AAAACAGTCCAAAATGACC
15429606 AAAACAGTCCAACAAT-ACC
1 AAAACAGTCCAA-AATGACC
15429625 AAAACAG
1 AAAACAG
15429632 AACAAACTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.53, C:0.24, G:0.09, T:0.13
Consensus pattern (19 bp):
AAAACAGTCCAAAATGACC
Found at i:15434479 original size:19 final size:19
Alignment explanation
Indices: 15434426--15434479 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
15434416 TTTCATCATC
*
15434426 AATTTCAAATTTAGTTAAAT
1 AATTTCAAATTGA-TTAAAT
* *
15434446 AATTTGCAAAATGATTGAAT
1 AATTT-CAAATTGATTAAAT
15434466 AATTTCAAATTGAT
1 AATTTCAAATTGAT
15434480 GAACTATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 8 0.28
20 15 0.52
21 6 0.21
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTTCAAATTGATTAAAT
Found at i:15434482 original size:18 final size:20
Alignment explanation
Indices: 15434443--15434479 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
15434433 AATTTAGTTA
15434443 AATAATTTGCAAAATGATTG
1 AATAATTTGCAAAATGATTG
*
15434463 AATAATTT-CAAATTGAT
1 AATAATTTGCAAAATGAT
15434480 GAACTATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (20 bp):
AATAATTTGCAAAATGATTG
Found at i:15437874 original size:67 final size:67
Alignment explanation
Indices: 15437803--15438015 Score: 171
Period size: 67 Copynumber: 3.1 Consensus size: 67
15437793 TCAAAATTAC
* *
15437803 TTAATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATTA
1 TTAATATAATTATTTATATTAATAAATTAGGTAAAATATATACAATTAATATTTTGTATGAATTA
15437868 AA
66 AA
* * * ** * * * * * * * *
15437870 TTAATAT-ATTAATTATATTATTTCCAAAATAAAATTAATTTTCATGTC-TTTTATATTTTGAAC
1 TTAATATAATTATTTATATTA-AT---AAATTAGGTAAAATAT-AT-ACAATTAATATTTTGTAT
15437933 GAAATT-AA
60 G-AATTAAA
* * *
15437941 TTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCA
1 TTAATATAATTATTTATATTAATAAATTAGGTAAAATATATACAATTAATATTTTGTATGAATTA
15438006 AA
66 AA
*
15438008 TTCATATA
1 TTAATATA
15438016 TTCATTATAT
Statistics
Matches: 104, Mismatches: 32, Indels: 20
0.67 0.21 0.13
Matches are distributed among these distances:
66 15 0.14
67 31 0.30
68 9 0.09
70 9 0.09
71 24 0.23
72 16 0.15
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.46
Consensus pattern (67 bp):
TTAATATAATTATTTATATTAATAAATTAGGTAAAATATATACAATTAATATTTTGTATGAATTA
AA
Found at i:15437990 original size:138 final size:138
Alignment explanation
Indices: 15437742--15438163 Score: 641
Period size: 138 Copynumber: 3.1 Consensus size: 138
15437732 TACAAAAAGG
* * * *
15437742 AATTATATTCTTTCC-AAATGAAAAATAATTTCAATGTCTTTTATATTTTGATCAAAATTACTTA
1 AATTATATTATTTCCAAAAT-AAAATTAATTTCAATGTCTTTTATATTTTGAACAAAATTAATTA
* * *
15437806 ATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATTAAAT
65 ATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
*
15437871 TAATATATT
130 TCATATATT
*
15437880 AATTATATTATTTCCAAAATAAAATTAATTTTC-ATGTCTTTTATATTTTGAACGAAATTAATTA
1 AATTATATTATTTCCAAAATAAAATTAA-TTTCAATGTCTTTTATATTTTGAACAAAATTAATTA
*
15437944 ATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
15438009 TCATATATT
130 TCATATATT
* * * * * *
15438018 CATTATATTTTTTCCAAAAGAATATTAATTTCAATTTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTATTTCCAAAATAAAATTAATTTCAATGTCTTTTATATTTTGAACAAAATTAATTAA
* **
15438083 TATAACAGTTTATATTAATAAATTCATTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
15438148 CATATATT
131 CATATATT
15438156 AATTATAT
1 AATTATAT
15438164 CTATGTTCTC
Statistics
Matches: 259, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
137 4 0.02
138 247 0.95
139 8 0.03
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (138 bp):
AATTATATTATTTCCAAAATAAAATTAATTTCAATGTCTTTTATATTTTGAACAAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:15438009 original size:71 final size:70
Alignment explanation
Indices: 15437796--15438009 Score: 162
Period size: 71 Copynumber: 3.1 Consensus size: 70
15437786 ATTTTGATCA
* *
15437796 AAATTACTTAATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTA
1 AAATTAATTAATATAATTATTTATATTAATAAA-TTGGTAAAATATATACAATTAATATTTTGTA
*
15437861 TGAATT
65 TGAATC
* * * * **
15437867 AAATTAA-T-ATATTAATTATATTAT-TTCCA-AAA----TAAAATTAATTTTCATGTCTTTTAT
1 AAATTAATTAATA-TAATTAT-TTATATT-AATAAATTGGTAAAA-T-ATATACA-AT-TAATAT
*
15437924 ATT-T-TGAA-C
59 TTTGTATGAATC
*
15437933 GAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGT
1 -AAATTAATTAATATAATTATTTATATTAATAAATT-GGTAAAATATATACAATTAATATTTTGT
15437998 ATGAATC
64 ATGAATC
15438005 AAATT
1 AAATT
15438010 CATATATTCA
Statistics
Matches: 105, Mismatches: 18, Indels: 40
0.64 0.11 0.25
Matches are distributed among these distances:
65 5 0.05
66 1 0.01
67 21 0.20
68 14 0.13
69 18 0.17
70 14 0.13
71 25 0.24
72 2 0.02
73 5 0.05
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (70 bp):
AAATTAATTAATATAATTATTTATATTAATAAATTGGTAAAATATATACAATTAATATTTTGTAT
GAATC
Found at i:15443749 original size:39 final size:39
Alignment explanation
Indices: 15443693--15443986 Score: 304
Period size: 39 Copynumber: 7.5 Consensus size: 39
15443683 TATAATTATA
* * *
15443693 TCCTGATTGCACGTACGTGCCCCTATTGTACTTCGGTAC
1 TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTAC
* * **
15443732 TCCTAATCGCATATACGTGCCCCTGCCGTACTTCGGTAC
1 TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTAC
*
15443771 TCCTGATCGCACATACGTGCCCCTGTTGTACTCCGGTA-
1 TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTAC
* * **
15443809 TCCCTGATCCCACATACGTGCCCCTGTAGTACTTCAATAC
1 T-CCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTAC
** * * **
15443849 TCCTGATCATACATATGTGCCCCTATCCTACTTCGGTAC
1 TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTAC
* * * * * *
15443888 CCCTAATCTCACATACGTGCCCTTATTGTACTTTGGTAC
1 TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTAC
* *
15443927 TCTTGATCGCACATATGTGCCCCTGTTGTACTTCGGTAC
1 TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTAC
* *
15443966 CCCTGA-CTGCACTTACGTGCC
1 TCCTGATC-GCACATACGTGCC
15443987 TTGTTTACAT
Statistics
Matches: 206, Mismatches: 46, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
38 2 0.01
39 203 0.99
40 1 0.00
ACGTcount: A:0.18, C:0.34, G:0.17, T:0.31
Consensus pattern (39 bp):
TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTAC
Found at i:15461807 original size:16 final size:17
Alignment explanation
Indices: 15461786--15461820 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15461776 TCGGTACTTA
15461786 TTTTG-AAATTTTAAAT
1 TTTTGAAAATTTTAAAT
*
15461802 TTTTGAAAATTTTCAAT
1 TTTTGAAAATTTTAAAT
15461819 TT
1 TT
15461821 GGCCCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (17 bp):
TTTTGAAAATTTTAAAT
Found at i:15477916 original size:22 final size:22
Alignment explanation
Indices: 15477888--15477946 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
15477878 TGATAAAGGT
**
15477888 GATATCGTGATACCCGGAAGAG
1 GATATCGTGATACCAAGAAGAG
15477910 GATATCGTGATACCAAGAAGAG
1 GATATCGTGATACCAAGAAGAG
*
15477932 GATATCGCGATACCA
1 GATATCGTGATACCA
15477947 CTAAAGGGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (22 bp):
GATATCGTGATACCAAGAAGAG
Found at i:15478580 original size:85 final size:86
Alignment explanation
Indices: 15478426--15478594 Score: 216
Period size: 85 Copynumber: 2.0 Consensus size: 86
15478416 AGATAAAAAC
* * * * * * *
15478426 ATTTGTAATTACTGCCACTTGTTGTGAGTGCACAACATGGTTGCAGATTAAATAAATTGTC-GTT
1 ATTTGTAATTACTACCACTTGTTGTGAGTGCACAACATGATTGCAGATTAAACAAACTGCCACTA
*
15478490 GGGTTTGTGGACGAGCCACAT
66 GGTTTTGTGGACGAGCCACAT
* *
15478511 ATTTGTAGTTACTATCACTTGTTGTGAGTGCACAACAT-ATTCGCAGATTAAACAAACTGCCACT
1 ATTTGTAATTACTACCACTTGTTGTGAGTGCACAACATGATT-GCAGATTAAACAAACTGCCACT
*
15478575 AGGTTTTGTGGATGAGCCAC
65 AGGTTTTGTGGACGAGCCAC
15478595 CACTTCTTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
84 2 0.03
85 51 0.72
86 18 0.25
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (86 bp):
ATTTGTAATTACTACCACTTGTTGTGAGTGCACAACATGATTGCAGATTAAACAAACTGCCACTA
GGTTTTGTGGACGAGCCACAT
Found at i:15481928 original size:12 final size:11
Alignment explanation
Indices: 15481911--15481967 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
15481901 AACAAATCCT
15481911 CTCTCATATTTC
1 CTCTCA-ATTTC
15481923 CTCTCAA-TTC
1 CTCTCAATTTC
15481933 CTCTCAATTTC
1 CTCTCAATTTC
*
15481944 CT-TCCAAAATT-
1 CTCT-C-AATTTC
15481955 CTCTCAATTTC
1 CTCTCAATTTC
15481966 CT
1 CT
15481968 TCCAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 15 0.39
11 12 0.32
12 11 0.29
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:15481958 original size:22 final size:22
Alignment explanation
Indices: 15481928--15481983 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
15481918 ATTTCCTCTC
15481928 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
15481951 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
15481973 AATTCTCTCAA
1 AATTCTCTCAA
15481984 ATCCATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:15483075 original size:7 final size:7
Alignment explanation
Indices: 15483065--15483089 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15483055 ATTCGATTGA
15483065 TATTTAG
1 TATTTAG
15483072 TATTTAG
1 TATTTAG
15483079 TATTTAG
1 TATTTAG
15483086 TATT
1 TATT
15483090 ATGTATATAA
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:15483764 original size:18 final size:18
Alignment explanation
Indices: 15483738--15483772 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15483728 AGGTGCGTTT
*
15483738 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
15483756 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
15483773 TCCTTTTCCG
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:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:15484234 original size:43 final size:45
Alignment explanation
Indices: 15484185--15484365 Score: 154
Period size: 45 Copynumber: 4.0 Consensus size: 45
15484175 AAATTTTGAA
*
15484185 TATTTTGATATTATTTTATG-AAAAAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
* *
15484228 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA-GT
*** * * * *
15484274 AATAAAATAAAAGTTTATTTGATGTAATAAAATA-AAA-TAACTTTCGAGT
1 --TATTTTGATA--TTATTTGATGTAAAAAAATAGAAATTTA-TTT-GAGT
* * *
15484323 TATTTTGATTTTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
15484366 TGTAATAAAA
Statistics
Matches: 109, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
43 19 0.17
44 14 0.13
45 27 0.25
46 7 0.06
47 6 0.06
48 7 0.06
49 7 0.06
50 22 0.20
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
Done.