Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 278 of 433
Found at i:86489910 original size:47 final size:48
Alignment explanation
Indices: 86489849--86489977 Score: 206
Period size: 47 Copynumber: 2.7 Consensus size: 48
86489839 CTGGAGGTCT
*
86489849 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
* *
86489898 AGCCC-TTTAATAACTGGGGCATAAGCCTTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
86489945 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
86489978 GCACTTCCTC
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
47 44 0.59
48 26 0.35
49 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:86489978 original size:24 final size:24
Alignment explanation
Indices: 86489849--86489977 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
86489839 CTGGAGGTCT
*
86489849 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
86489874 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
86489898 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
86489921 AGCCTTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
86489945 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
86489969 AGCCCTTTT
1 AGCCCTTTT
86489978 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
23 22 0.22
24 73 0.74
25 4 0.04
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:86490052 original size:20 final size:20
Alignment explanation
Indices: 86490027--86490093 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
86490017 TTATGAACAC
*
86490027 ATCATGTGCATATCATAAAT
1 ATCATGTGCATATCATACAT
* *
86490047 ATCATGTGCATAGCATGCAT
1 ATCATGTGCATATCATACAT
*
86490067 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
86490087 ACCATGT
1 ATCATGT
86490094 TTACTAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:86493622 original size:30 final size:30
Alignment explanation
Indices: 86493586--86493660 Score: 141
Period size: 30 Copynumber: 2.5 Consensus size: 30
86493576 AATAGTCTAT
86493586 ATTTTTATAATTTTTAAATGATCAAATCAA
1 ATTTTTATAATTTTTAAATGATCAAATCAA
86493616 ATTTTTATAATTTTTAAATGATCAAATCAA
1 ATTTTTATAATTTTTAAATGATCAAATCAA
*
86493646 ATTTTTATTATTTTT
1 ATTTTTATAATTTTT
86493661 GGGATGACAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAATGATCAAATCAA
Found at i:86496119 original size:40 final size:40
Alignment explanation
Indices: 86495991--86496121 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
86495981 TATGCTGGAA
* * * *
86495991 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
86496031 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
86496071 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
86496111 ATTATATCCGG
1 ATTATATCCGG
86496122 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:86504048 original size:40 final size:40
Alignment explanation
Indices: 86503963--86504113 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
86503953 AATTGAATGA
* * *
86503963 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
86504003 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
86504044 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
86504083 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
86504114 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:86504127 original size:40 final size:40
Alignment explanation
Indices: 86503999--86504129 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
86503989 TATGCTGGAA
* * *
86503999 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
86504039 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
86504079 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
86504119 ATTATATCCGG
1 ATTATATCCGG
86504130 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:86509558 original size:20 final size:20
Alignment explanation
Indices: 86509533--86509572 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
86509523 AAATTCTAGA
*
86509533 ACTCAAGTTTCACAATTTAT
1 ACTCAAGTTTAACAATTTAT
86509553 ACTCAAGTTTAACAATTTAT
1 ACTCAAGTTTAACAATTTAT
86509573 TAAATTTAGT
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:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (20 bp):
ACTCAAGTTTAACAATTTAT
Found at i:86515274 original size:40 final size:40
Alignment explanation
Indices: 86515225--86515432 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
86515215 TCTTCGGAAT
* * *
86515225 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
86515264 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
86515304 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
86515344 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
86515384 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
86515424 TTAGCCCGG
1 TTAGCCCGG
86515433 GTATCATTCA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 142 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:86523390 original size:40 final size:39
Alignment explanation
Indices: 86523330--86523533 Score: 187
Period size: 40 Copynumber: 5.1 Consensus size: 39
86523320 CGGAACTTAA
* ** *
86523330 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAA-TGCCTTCGGGTCTTAGC
* *** *
86523370 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGC
86523410 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGC
* * *
86523450 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAGC
* * * *
86523490 CCGAATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAGC
86523530 CCGG
1 CCGG
86523534 GTATCATTCA
Statistics
Matches: 142, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
40 139 0.98
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGC
Found at i:86523474 original size:80 final size:78
Alignment explanation
Indices: 86523317--86523533 Score: 238
Period size: 80 Copynumber: 2.7 Consensus size: 78
86523307 AACCGAGCTT
* * * * * **
86523317 CTTCGGAACTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAAT
*
86523381 AACTTGCACAAATGC
64 AACTAGCACAAATGC
* *
86523396 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAAT
* *
86523461 CACTAGCATAAATGC
64 AACTAGCACAAATGC
* * *
86523476 CTTCGGGACTTAGCCCGAATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGGATATAA-CACTAGCA-CAATGCCTTCGGGTCTTAGCCCGG
86523534 GTATCATTCA
Statistics
Matches: 116, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
79 11 0.09
80 102 0.88
81 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAATAA
CTAGCACAAATGC
Found at i:86532604 original size:15 final size:15
Alignment explanation
Indices: 86532584--86532613 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
86532574 AAGCAAGTAA
86532584 AGAAATCCAAGATAG
1 AGAAATCCAAGATAG
*
86532599 AGAAATCCGAGATAG
1 AGAAATCCAAGATAG
86532614 GATACCATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAGATAG
Found at i:86536155 original size:46 final size:46
Alignment explanation
Indices: 86536105--86536280 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
86536095 TGGTTGAGCA
86536105 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
86536151 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
86536196 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
86536244 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
86536281 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:86536261 original size:93 final size:93
Alignment explanation
Indices: 86536102--86536273 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
86536092 GGATGGTTGA
* *
86536102 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
86536167 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
86536195 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
86536260 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
86536274 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:86543722 original size:46 final size:46
Alignment explanation
Indices: 86543672--86543847 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
86543662 TGGTTGAGCA
86543672 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
86543718 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
86543763 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
86543811 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
86543848 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:86543828 original size:93 final size:93
Alignment explanation
Indices: 86543669--86543840 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
86543659 GGATGGTTGA
* *
86543669 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
86543734 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
86543762 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
86543827 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
86543841 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:86549440 original size:2 final size:2
Alignment explanation
Indices: 86549433--86549457 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
86549423 GAGACTAGTC
86549433 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
86549458 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:86553839 original size:2 final size:2
Alignment explanation
Indices: 86553832--86553870 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
86553822 GAGACTAGTC
*
86553832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
86553871 CATGTCATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:86555157 original size:68 final size:65
Alignment explanation
Indices: 86554943--86555193 Score: 201
Period size: 66 Copynumber: 3.8 Consensus size: 65
86554933 ATATAGTTCG
* * * * *
86554943 GCTCTCTTGTAC-ACATGGTGAACACACAGTACCACCCATGTGACCTAGCCA-ATTTA-TCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCGT
86555005 A
65 A
* * * * ** *
86555006 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCATGCATGCGACCTAGCTACATATA-TCCC
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATTCTC
86555070 GTA
63 GTA
* *
86555073 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCTC
86555138 GTA
63 GTA
* * * ** *
86555141 GCTCTCTTGTAC-ACATGATGTGCAC-TAG-CCCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATA
86555194 CTATCTGTAT
Statistics
Matches: 150, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 27 0.18
65 3 0.02
66 41 0.27
67 33 0.22
68 26 0.17
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCGTA
Found at i:86555889 original size:29 final size:30
Alignment explanation
Indices: 86555855--86555911 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
86555845 TCCTTAACTC
86555855 AAAC-TTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
86555884 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTTGCAAAATTACAATTTTGCCC
86555912 TAGGCTCGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:86559292 original size:25 final size:25
Alignment explanation
Indices: 86559260--86559316 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
86559250 ACCTTTCATT
* *
86559260 TTCCTCGATCGACCTCCGAAATTTA
1 TTCCTCGACCGACCTCCAAAATTTA
86559285 TTCCTCGACCGACCTCCAAAATTTA
1 TTCCTCGACCGACCTCCAAAATTTA
86559310 TTCCTCG
1 TTCCTCG
86559317 GGGTCTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.23, C:0.35, G:0.11, T:0.32
Consensus pattern (25 bp):
TTCCTCGACCGACCTCCAAAATTTA
Found at i:86561617 original size:40 final size:40
Alignment explanation
Indices: 86561573--86561800 Score: 352
Period size: 40 Copynumber: 5.7 Consensus size: 40
86561563 GCTACTTGCC
*
86561573 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
86561613 CAAATGCCTTCGGGACTTAGTCCGGTTATAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
86561653 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
86561693 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* ** * *
86561733 CAAATGCCATCGGG-CTTAGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
86561772 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
86561801 CATCCGAATA
Statistics
Matches: 173, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 3 0.02
39 31 0.18
40 137 0.79
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:86564490 original size:40 final size:38
Alignment explanation
Indices: 86564408--86564554 Score: 147
Period size: 40 Copynumber: 3.8 Consensus size: 38
86564398 GAAATTATAA
* * *
86564408 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC-AT
1 CCGGGCTAAGA-CCGAAGGCATTTGTGCAAGT--CTACTAT
* * *
86564448 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGA-CCGAAGGCATTTGTGCAAGTC-TACTAT
*
86564488 CCGGGCTAAGACCGAA-GCATTTGTGCAAATCGTGA-TAT
1 CCGGGCTAAGACCGAAGGCATTTGTGCAAGTC-T-ACTAT
86564526 CCGGGCTAAGACCGAAGGCATTTGTGCAA
1 CCGGGCTAAGACCGAAGGCATTTGTGCAA
86564555 ATCGTGATAT
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
38 33 0.35
39 19 0.20
40 41 0.44
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.22
Consensus pattern (38 bp):
CCGGGCTAAGACCGAAGGCATTTGTGCAAGTCTACTAT
Found at i:86564558 original size:39 final size:39
Alignment explanation
Indices: 86564446--86564574 Score: 179
Period size: 39 Copynumber: 3.3 Consensus size: 39
86564436 TAGTGGCTAC
* * * * **
86564446 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGA-CCGAAGGCATTTGTGCAAATCGTGAT
86564486 ATCCGGGCTAAGACCGAA-GCATTTGTGCAAATCGTGAT
1 ATCCGGGCTAAGACCGAAGGCATTTGTGCAAATCGTGAT
86564524 ATCCGGGCTAAGACCGAAGGCATTTGTGCAAATCGTGAT
1 ATCCGGGCTAAGACCGAAGGCATTTGTGCAAATCGTGAT
*
86564563 ATCCGGGTTAAG
1 ATCCGGGCTAAG
86564575 TCCCGTAGGC
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 32 0.40
39 36 0.44
40 13 0.16
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (39 bp):
ATCCGGGCTAAGACCGAAGGCATTTGTGCAAATCGTGAT
Found at i:86570099 original size:39 final size:40
Alignment explanation
Indices: 86569922--86570145 Score: 199
Period size: 40 Copynumber: 5.7 Consensus size: 40
86569912 AGAAATTGAA
* * *
86569922 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCG
* * * * * *
86569963 T-ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
* * * * *
86570002 CT-ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
**
86570042 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
86570081 TGATATCCGGGCTAAGA-CCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
* * *
86570120 TGATATCCGGGTTAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
86570146 CTTGGTGCGG
Statistics
Matches: 151, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
37 4 0.03
38 18 0.12
39 41 0.27
40 87 0.58
41 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
Found at i:86578613 original size:40 final size:40
Alignment explanation
Indices: 86578563--86578789 Score: 352
Period size: 40 Copynumber: 5.7 Consensus size: 40
86578553 AGCTACTTGC
86578563 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
86578603 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
86578642 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
86578682 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
86578722 CAAATGCCTTCGAG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
86578761 CAAATGCCTTTGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
86578790 CATCCGAATA
Statistics
Matches: 173, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 70 0.40
40 101 0.58
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:86578661 original size:79 final size:79
Alignment explanation
Indices: 86578563--86578789 Score: 350
Period size: 79 Copynumber: 2.9 Consensus size: 79
86578553 AGCTACTTGC
86578563 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGT
*
86578628 TATAGTAACTCGGA
66 TATAGTAACTCGCA
86578642 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCG-GACTTAGCCCGG
*
86578707 ATATAGTAACTCGCA
65 TTATAGTAACTCGCA
* * * * *
86578722 CAAATGCCTTCGAG-CTTAGCCCGG-AATTAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATGCC-TTCGGACTTAGCCCG
86578785 GTTAT
64 GTTAT
86578790 CATCCGAATA
Statistics
Matches: 137, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
78 1 0.01
79 95 0.69
80 41 0.30
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGT
TATAGTAACTCGCA
Found at i:86578776 original size:119 final size:119
Alignment explanation
Indices: 86578563--86578789 Score: 359
Period size: 119 Copynumber: 1.9 Consensus size: 119
86578553 AGCTACTTGC
* * *
86578563 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGT
1 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
* *
86578628 TATAGTAACTCGGACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
66 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
86578682 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GAGCTTAGCCCGG
1 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGCCCGG
* *
86578746 A-ATTAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCGGTTAT
65 ATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
86578790 CATCCGAATA
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
118 3 0.03
119 96 0.97
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:86583776 original size:45 final size:46
Alignment explanation
Indices: 86583718--86583806 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 46
86583708 CCCTAATAAT
86583718 AACTCTTCAGAGTTACCTGTTAAG-CTC-AATAAGCTTCCTGATTAA
1 AACTCTTCAGAGTTACCTGTTAAGTC-CGAATAAGCTTCCTGATTAA
* *
86583763 AACTCTT-ATGAGTTTCCTGTTTAGTCCGAATAAGCTTCCTGATT
1 AACTCTTCA-GAGTTACCTGTTAAGTCCGAATAAGCTTCCTGATT
86583807 CATGGTTCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 1 0.03
45 21 0.54
46 17 0.44
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (46 bp):
AACTCTTCAGAGTTACCTGTTAAGTCCGAATAAGCTTCCTGATTAA
Found at i:86599623 original size:40 final size:40
Alignment explanation
Indices: 86599568--86599771 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
86599558 TGAATGATAC
* * *
86599568 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
*
86599608 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
*
86599648 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
86599688 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * *
86599728 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
86599768 CCGG
1 CCGG
86599772 CTAAATTCCG
Statistics
Matches: 147, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 145 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:86607778 original size:40 final size:40
Alignment explanation
Indices: 86607715--86607912 Score: 272
Period size: 40 Copynumber: 5.0 Consensus size: 40
86607705 ATACCCAGGC
* *
86607715 TAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGT
1 TAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGT
*
86607755 TAAGACCCGAAGGCATTTGTGCTAGTTGCTATATCCGGGT
1 TAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGT
* * *
86607795 TAAGACCCGAAGGCATTTGTGCGAGTTGTTATAACCGGGC
1 TAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGT
* * *
86607835 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGT
1 TAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGT
* * *
86607875 TAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 TAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGG
86607913 CTAAATTCTG
Statistics
Matches: 141, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 139 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGT
Found at i:86607906 original size:80 final size:80
Alignment explanation
Indices: 86607705--86607916 Score: 300
Period size: 80 Copynumber: 2.7 Consensus size: 80
86607695 CAATTGAATG
* * * * * *
86607705 ATACCCAGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
*
86607770 TTTGTGCTAGTTGCT
66 TTTGTGCGAGTTGCT
* * * *
86607785 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAACCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
86607850 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* *
86607865 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAA
86607917 ATTCTGAAGA
Statistics
Matches: 115, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 6 0.05
80 109 0.95
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:86609837 original size:24 final size:24
Alignment explanation
Indices: 86609805--86609891 Score: 113
Period size: 24 Copynumber: 3.6 Consensus size: 24
86609795 AATCTCAAAT
86609805 GCACTATGTGTGCAATTTACTATG
1 GCACTATGTGTGCAATTTACTATG
*
86609829 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCAATTTACTATG
** * *
86609853 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGC-AATTTACTATG
86609877 GCACTATGTGTGCAA
1 GCACTATGTGTGCAA
86609892 CATTCGGTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 2 0.04
24 49 0.88
25 5 0.09
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (24 bp):
GCACTATGTGTGCAATTTACTATG
Found at i:86614269 original size:27 final size:28
Alignment explanation
Indices: 86614192--86614293 Score: 145
Period size: 28 Copynumber: 3.7 Consensus size: 28
86614182 ATTGCATGAC
*
86614192 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
86614220 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
86614248 TATGAATGT-ATTGGG-CTCGATGGGCTA
1 TATGAATGTGATTGGGCCT-GATGGGCCA
*
86614275 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
86614294 AAAGGGGCCA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.03
27 22 0.33
28 40 0.61
29 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:86620779 original size:29 final size:29
Alignment explanation
Indices: 86620747--86620878 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
86620737 ATAGTGAATC
86620747 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
86620776 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
86620806 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
86620835 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
86620864 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
86620879 GTACAATTTT
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
29 71 0.71
30 29 0.29
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:86620839 original size:59 final size:58
Alignment explanation
Indices: 86620747--86620878 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
86620737 ATAGTGAATC
86620747 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGCT
*
86620806 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
*
86620864 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
86620879 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (58 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
Found at i:86620887 original size:88 final size:89
Alignment explanation
Indices: 86620747--86620908 Score: 254
Period size: 88 Copynumber: 1.8 Consensus size: 89
86620737 ATAGTGAATC
* * * * *
86620747 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGCTCGCAC
1 CGCACACTTAGTGCTATATATTTTCAGCTCACACACTTAGTGCTATACAATTTTTAAACCCGCAC
86620811 ACTTAGTGCTATATATTTTCAGCT
66 ACTTAGTGCTATATATTTTCAGCT
* *
86620835 CGCACACTTAGTGCTATATATTTTCAGTTCACACACTTAGTGCTGTACAATTTTTAAACCCGCAC
1 CGCACACTTAGTGCTATATATTTTCAGCTCACACACTTAGTGCTATACAATTTTTAAACCCGCAC
86620900 ACTTAGTGC
66 ACTTAGTGC
86620909 CAATCTTGTC
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
88 46 0.70
89 20 0.30
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (89 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCACACACTTAGTGCTATACAATTTTTAAACCCGCAC
ACTTAGTGCTATATATTTTCAGCT
Found at i:86622200 original size:19 final size:18
Alignment explanation
Indices: 86622176--86622211 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
86622166 CCCCCTTTTT
*
86622176 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
86622195 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
86622212 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:86632482 original size:27 final size:27
Alignment explanation
Indices: 86632452--86632726 Score: 354
Period size: 27 Copynumber: 10.2 Consensus size: 27
86632442 ATTGCCAAAG
* *
86632452 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
86632479 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
86632506 TACCCTTGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
86632533 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
86632560 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
86632587 TATCCTCGATTTACAGTATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
86632614 TACCCTCTATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
86632641 TACCATCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
86632668 TACCCTCAATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* **
86632695 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
86632722 TACCC
1 TACCC
86632727 CTAGGGTGTT
Statistics
Matches: 211, Mismatches: 35, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.00
27 210 1.00
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:86633006 original size:27 final size:26
Alignment explanation
Indices: 86632962--86633012 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
86632952 CTCACTGCAA
*
86632962 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
86632989 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
86633013 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:86633291 original size:25 final size:25
Alignment explanation
Indices: 86633238--86633300 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
86633228 ATTCACATTA
* * *
86633238 TGATTCTAATTCTGTTACCTGATAT
1 TGATTCTGATTTTGTTACCTAATAT
86633263 TGATTCTGATTTTGTTACCTAAT-T
1 TGATTCTGATTTTGTTACCTAATAT
*
86633287 CTGATTCTGGTTTT
1 -TGATTCTGATTTT
86633301 AAGTCTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.52
Consensus pattern (25 bp):
TGATTCTGATTTTGTTACCTAATAT
Found at i:86633295 original size:6 final size:6
Alignment explanation
Indices: 86633284--86633548 Score: 89
Period size: 6 Copynumber: 42.8 Consensus size: 6
86633274 TTGTTACCTA
* * * *
86633284 ATTCTG ATTCTG GTTTTA AGTCTG ATTCTG -TTACCTG ATAT-TG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG
* * * * *
86633333 ATTCTG -TTACCTA ATTCTG ATTTTG ATTTTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * * * *
86633383 ATTCTG ATTCTA ATTCTG -TTACCTG ATACTA ATTTTG GTTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * *
86633433 ATTCTA ATTCTG GTTCTG ATTTTG ATTCTG -TTGCCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * * *
86633482 ATTTTG -TTACCTA ATTCTG ATTTTG ATTTTG ATTTTG ATTCTG -TCACTTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG
86633532 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
86633549 CATTTTTATT
Statistics
Matches: 194, Mismatches: 39, Indels: 52
0.68 0.14 0.18
Matches are distributed among these distances:
5 15 0.08
6 147 0.76
7 20 0.10
8 11 0.06
9 1 0.01
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:86633353 original size:25 final size:25
Alignment explanation
Indices: 86633304--86633360 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
86633294 TGGTTTTAAG
*
86633304 TCTGATTCTGTTACCTGATATTGAT
1 TCTGATTCTGTTACCTAATATTGAT
86633329 TCTGATTCTGTTACCTAAT-TCTGAT
1 TCTGATTCTGTTACCTAATAT-TGAT
*
86633354 TTTGATT
1 TCTGATT
86633361 TTGATTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (25 bp):
TCTGATTCTGTTACCTAATATTGAT
Found at i:86633365 original size:37 final size:37
Alignment explanation
Indices: 86633319--86633391 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
86633309 TTCTGTTACC
*
86633319 TGATATTGATTCTGATTCTGTTACCTAATTCTGATTT
1 TGATATTGATTCTGATTCTGTCACCTAATTCTGATTT
* * *
86633356 TGATTTTGATTTTGATTCTGTCACCTGATTCTGATT
1 TGATATTGATTCTGATTCTGTCACCTAATTCTGATT
86633392 CTAATTCTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.19, C:0.14, G:0.15, T:0.52
Consensus pattern (37 bp):
TGATATTGATTCTGATTCTGTCACCTAATTCTGATTT
Found at i:86633384 original size:25 final size:25
Alignment explanation
Indices: 86633356--86633409 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
86633346 ATTCTGATTT
* * *
86633356 TGATTTTGATTTTGATTCTGTCACC
1 TGATTCTGATTCTAATTCTGTCACC
*
86633381 TGATTCTGATTCTAATTCTGTTACC
1 TGATTCTGATTCTAATTCTGTCACC
86633406 TGAT
1 TGAT
86633410 ACTAATTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.50
Consensus pattern (25 bp):
TGATTCTGATTCTAATTCTGTCACC
Found at i:86633390 original size:19 final size:19
Alignment explanation
Indices: 86633325--86633393 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
86633315 TACCTGATAT
*
86633325 TGATTCTGATTCTGTTACC
1 TGATTCTGATTCTGTCACC
* * **
86633344 TAATTCTGATT-T-TGATTT
1 TGATTCTGATTCTGTCA-CC
*
86633362 TGATTTTGATTCTGTCACC
1 TGATTCTGATTCTGTCACC
86633381 TGATTCTGATTCT
1 TGATTCTGATTCT
86633394 AATTCTGTTA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
17 2 0.05
18 10 0.27
19 23 0.62
20 2 0.05
ACGTcount: A:0.17, C:0.16, G:0.14, T:0.52
Consensus pattern (19 bp):
TGATTCTGATTCTGTCACC
Found at i:86633419 original size:62 final size:62
Alignment explanation
Indices: 86633246--86633406 Score: 234
Period size: 62 Copynumber: 2.6 Consensus size: 62
86633236 TATGATTCTA
* * *
86633246 ATTCTGTTACCTGATATTGATTCTGATTTTGTTACCTAATTCTGATTCTGGTTTTAAGTCTG
1 ATTCTGTTACCTGATATTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTAAGTCTG
* * *
86633308 ATTCTGTTACCTGATATTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTGATTTTG
1 ATTCTGTTACCTGATATTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTAAGTCTG
* *
86633370 ATTCTGTCACCTGAT-TCTGATTCTAATTCTGTTACCT
1 ATTCTGTTACCTGATAT-TGATTCTGATTCTGTTACCT
86633407 GATACTAATT
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
61 1 0.01
62 89 0.99
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.50
Consensus pattern (62 bp):
ATTCTGTTACCTGATATTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTAAGTCTG
Found at i:86633424 original size:25 final size:25
Alignment explanation
Indices: 86633368--86633450 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
86633358 ATTTTGATTT
* *
86633368 TGATTCTGTCACCTGATTCTGATTC
1 TGATTCTGTTACCTGATTCTAATTC
* * *
86633393 TAATTCTGTTACCTGATACTAATTT
1 TGATTCTGTTACCTGATTCTAATTC
* *
86633418 TGGTTCTGTTACCTAATTCTAATTC
1 TGATTCTGTTACCTGATTCTAATTC
*
86633443 TGGTTCTG
1 TGATTCTG
86633451 ATTTTGATTC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (25 bp):
TGATTCTGTTACCTGATTCTAATTC
Found at i:86633502 original size:149 final size:149
Alignment explanation
Indices: 86633238--86633548 Score: 487
Period size: 149 Copynumber: 2.1 Consensus size: 149
86633228 ATTCACATTA
* * * * *
86633238 TGATTCTAATTCTGTTACCTGATATTGATTCTGATTTTGTTACCTAATTCTGATTCTGGTTTTAA
1 TGATTCTAATTCTGTTACCTGATACTAATTCTGATTCTGTTACCTAATTCTAATTCTGGTTCTAA
*
86633303 GTCTGATTCTGTTACCTGATATTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTGATTT
66 GTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTGATTT
86633368 TGATTCTGTCACCTGATTC
131 TGATTCTGTCACCTGATTC
* * *
86633387 TGATTCTAATTCTGTTACCTGATACTAATTTTGGTTCTGTTACCTAATTCTAATTCTGGTTCTGA
1 TGATTCTAATTCTGTTACCTGATACTAATTCTGATTCTGTTACCTAATTCTAATTCTGGTTCTAA
* * * *
86633452 TTTTGATTCTGTTGCCTGATACTGATTCTGATTTTGTTACCTAATTCTGATTTTGATTTTGATTT
66 GTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTGATTT
*
86633517 TGATTCTGTCACTTGATTC
131 TGATTCTGTCACCTGATTC
*
86633536 TGATTCTGATTCT
1 TGATTCTAATTCT
86633549 CATTTTTATT
Statistics
Matches: 147, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
149 147 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (149 bp):
TGATTCTAATTCTGTTACCTGATACTAATTCTGATTCTGTTACCTAATTCTAATTCTGGTTCTAA
GTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTGATTT
TGATTCTGTCACCTGATTC
Found at i:86633505 original size:87 final size:87
Alignment explanation
Indices: 86633304--86633509 Score: 270
Period size: 87 Copynumber: 2.4 Consensus size: 87
86633294 TGGTTTTAAG
* * * *
86633304 TCTGATTCTGTTACCTGATAT-TGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTGATTT
1 TCTGATTCTGTTACCTGAT-TCTGATTTTGATTCTGTTACCTAATTCTAATTCTGATTCTGATTT
*
86633368 TGATTCTGTCACCTGATTCTGAT
65 TGATTCTGTCACCTGATACTGAT
* * * * *
86633391 TCTAATTCTGTTACCTGATACTAATTTTGGTTCTGTTACCTAATTCTAATTCTGGTTCTGATTTT
1 TCTGATTCTGTTACCTGATTCTGATTTTGATTCTGTTACCTAATTCTAATTCTGATTCTGATTTT
**
86633456 GATTCTGTTGCCTGATACTGAT
66 GATTCTGTCACCTGATACTGAT
* *
86633478 TCTGATTTTGTTACCTAATTCTGATTTTGATT
1 TCTGATTCTGTTACCTGATTCTGATTTTGATT
86633510 TTGATTTTGA
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
87 100 1.00
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (87 bp):
TCTGATTCTGTTACCTGATTCTGATTTTGATTCTGTTACCTAATTCTAATTCTGATTCTGATTTT
GATTCTGTCACCTGATACTGAT
Found at i:86633510 original size:25 final size:25
Alignment explanation
Indices: 86633446--86633512 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
86633436 CTAATTCTGG
* * *
86633446 TTCTGATTTTGATTCTGTTGCCTGA
1 TTCTGATTTTGATTTTGTTACCTAA
* *
86633471 TACTGATTCTGATTTTGTTACCTAA
1 TTCTGATTTTGATTTTGTTACCTAA
86633496 TTCTGATTTTGATTTTG
1 TTCTGATTTTGATTTTG
86633513 ATTTTGATTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.54
Consensus pattern (25 bp):
TTCTGATTTTGATTTTGTTACCTAA
Found at i:86633515 original size:37 final size:37
Alignment explanation
Indices: 86633474--86633546 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
86633464 TGCCTGATAC
* * *
86633474 TGATTCTGATTTTGTTACCTAATTCTGATTTTGATTT
1 TGATTCTGATTCTGTCACCTAATTCTGATTCTGATTT
* * *
86633511 TGATTTTGATTCTGTCACTTGATTCTGATTCTGATT
1 TGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
86633547 CTCATTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.55
Consensus pattern (37 bp):
TGATTCTGATTCTGTCACCTAATTCTGATTCTGATTT
Found at i:86633515 original size:62 final size:62
Alignment explanation
Indices: 86633380--86633548 Score: 212
Period size: 62 Copynumber: 2.7 Consensus size: 62
86633370 ATTCTGTCAC
* * * * *
86633380 CTGATTCTGATTCTAATTCTGTTACCTGATACTAATTTTGGTTCTGTTACCTAATTCTAATT
1 CTGATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATT
* * * *
86633442 CTGGTTCTGATTTTGATTCTGTTGCCTGATACTGATTCTGATTTTGTTACCTAATTCTGATT
1 CTGATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATT
* * * * *
86633504 TTGATTTTGATTTTGATTCTGTCACTTGATTCTGATTCTGATTCT
1 CTGATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCT
86633549 CATTTTTATT
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 90 1.00
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (62 bp):
CTGATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATT
Found at i:86642483 original size:39 final size:39
Alignment explanation
Indices: 86642436--86642561 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
86642426 CCGAACATAT
* *
86642436 TTCCAGCACGTAGCCTGCGGACCTTAAGTCTGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
* **
86642475 TTCTAGCACATAGCCTATGGACCTTAAGTCTGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
* * * *
86642514 TTCCAGCACATAGCTTGCGAACCTTAAATCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
86642553 TTCCAGCAC
1 TTCCAGCAC
86642562 TGAGTGTCAT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
Found at i:86645137 original size:16 final size:16
Alignment explanation
Indices: 86645116--86645151 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
86645106 GACCATCTAA
86645116 ACGATAGAATTTCTTC
1 ACGATAGAATTTCTTC
*
86645132 ACGATAGGATTTCTTC
1 ACGATAGAATTTCTTC
86645148 ACGA
1 ACGA
86645152 AATTTTCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (16 bp):
ACGATAGAATTTCTTC
Found at i:86651317 original size:21 final size:21
Alignment explanation
Indices: 86651286--86651333 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
86651276 AACAATGATA
*
86651286 GTCTGTCGTATAGCACGGTTTT
1 GTCTGTCGTAT-GCACAGTTTT
*
86651308 GTCTG-CGTATGCATAGTTTT
1 GTCTGTCGTATGCACAGTTTT
86651328 GTCTGT
1 GTCTGT
86651334 TTTGCACGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 13 0.57
21 5 0.22
22 5 0.22
ACGTcount: A:0.12, C:0.17, G:0.27, T:0.44
Consensus pattern (21 bp):
GTCTGTCGTATGCACAGTTTT
Found at i:86655444 original size:40 final size:41
Alignment explanation
Indices: 86655400--86655478 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
86655390 GTTATAAATA
86655400 GCACTAAGTGTGC-AAAATGTA-ATAGCTTTGGCTATATGAG
1 GCACTAAGTGTGCGAAAATG-AGATAGCTTTGGCTATATGAG
* * *
86655440 GCACTAAGTGTGCGATACTGAGGTAGCTTTGGCTATATG
1 GCACTAAGTGTGCGAAAATGAGATAGCTTTGGCTATATG
86655479 GTTTCATGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 14 0.41
41 20 0.59
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (41 bp):
GCACTAAGTGTGCGAAAATGAGATAGCTTTGGCTATATGAG
Found at i:86657685 original size:93 final size:93
Alignment explanation
Indices: 86657573--86657744 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
86657563 CGCCCATAAG
* *
86657573 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
86657638 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
86657666 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
86657731 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
86657745 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:86657741 original size:46 final size:46
Alignment explanation
Indices: 86657566--86657741 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
86657556 TGTAACCCGC
* * *
86657566 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
86657612 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
86657662 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
86657705 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
86657742 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:86661330 original size:43 final size:42
Alignment explanation
Indices: 86661277--86661385 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 42
86661267 CCAGCATTTC
* * *
86661277 GCCTGCTAGGCTTGAAGCCCGATATCATTTCGCCGAAATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATCATCTCACCG-AATTATA
* * * * * * *
86661320 GCCTACTAGGCCCAAAGCCCGACATTATCTCACTGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATCATCTCACCGAATTATA
86661362 GCCTGCTAGGCTCGAAGCCCGATA
1 GCCTGCTAGGCTCGAAGCCCGATA
86661386 ATATTATTCA
Statistics
Matches: 52, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (42 bp):
GCCTGCTAGGCTCGAAGCCCGATATCATCTCACCGAATTATA
Found at i:86668871 original size:40 final size:40
Alignment explanation
Indices: 86668646--86668843 Score: 278
Period size: 40 Copynumber: 5.0 Consensus size: 40
86668636 TCGAATGATG
* *
86668646 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
86668686 TCCAGACTAAGATCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
86668726 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
86668766 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
86668806 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
86668844 TAACCGGGCT
Statistics
Matches: 145, Mismatches: 9, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 134 0.92
41 10 0.07
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:86668885 original size:40 final size:40
Alignment explanation
Indices: 86668779--86668890 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 40
86668769 GGACTAAGAT
** *
86668779 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
86668819 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
86668859 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
86668891 TTAAACTCTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
39 2 0.03
40 59 0.94
41 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:86668890 original size:80 final size:80
Alignment explanation
Indices: 86668646--86668878 Score: 269
Period size: 80 Copynumber: 2.9 Consensus size: 80
86668636 TCGAATGATG
* * * *
86668646 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATCCAGACTAAGATCCGAAGGCAAT
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-AAGCTACTAAATCCGGACTAAGATCCGAAGGCATT
**
86668710 TGTGCGAGTTACTAAA
65 TGAACGAGTTACTAAA
*
86668726 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCAAGCTACTAAATCCGGACTAAGATCCGAAGGCAT
**
86668789 TTGTGCGAGTTACTAAA
64 TTGAACGAGTTACTAAA
* * * *
86668806 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTAT
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCAAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCAT
86668869 TTGAACGAGT
64 TTGAACGAGT
86668879 AGCTATATCC
Statistics
Matches: 136, Mismatches: 10, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.03
80 119 0.88
81 13 0.10
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (80 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCAAGCTACTAAATCCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAA
Found at i:86668890 original size:120 final size:120
Alignment explanation
Indices: 86668646--86668874 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 120
86668636 TCGAATGATG
*
86668646 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAAATCCAGACTAAGATCCGAAGGCAATT
1 TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAAATCCAGACTAAGATCCGAAGGCAATT
* **
86668711 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAA
66 GTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACAAGTTACTAAA
* *
86668766 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGC
1 TCCGGACTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAATCC-AGACTAAGAT-CCGAAGGC
* * * *
86668827 ATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAAC
62 AATTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAAC
86668875 GAGTAGCTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
119 2 0.02
120 79 0.85
121 12 0.13
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (120 bp):
TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAAATCCAGACTAAGATCCGAAGGCAATT
GTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACAAGTTACTAAA
Found at i:86673784 original size:12 final size:12
Alignment explanation
Indices: 86673767--86673791 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86673757 CTCTTGCACA
86673767 TATATATATATG
1 TATATATATATG
86673779 TATATATATATG
1 TATATATATATG
86673791 T
1 T
86673792 TTCATATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:86674723 original size:40 final size:40
Alignment explanation
Indices: 86674500--86674695 Score: 285
Period size: 40 Copynumber: 5.0 Consensus size: 40
86674490 TCGAATGATG
* *
86674500 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
86674540 TCCGGACTAAGATCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
86674580 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
86674620 TCCGGACTAAGATCCGAAGGCATTTGTGC-AGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
86674659 TCCGG-GTAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
86674696 TAACCGGGCT
Statistics
Matches: 146, Mismatches: 6, Indels: 9
0.91 0.04 0.06
Matches are distributed among these distances:
37 1 0.01
38 20 0.14
39 22 0.15
40 96 0.66
41 7 0.05
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:86674737 original size:40 final size:39
Alignment explanation
Indices: 86674593--86674742 Score: 103
Period size: 40 Copynumber: 3.8 Consensus size: 39
86674583 GGACTAAGAT
** * *
86674593 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGG-GTAAG-TC
** *
86674633 CCGAAGGCATTTGTGC-AGTTACTA-AATCCGGGTAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGTAAGTC
** *
86674671 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGG-TAAGTC
* *
86674711 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
86674743 TTAAACTCCG
Statistics
Matches: 98, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
37 1 0.01
38 20 0.20
39 29 0.30
40 48 0.49
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGTAAGTC
Found at i:86674742 original size:118 final size:119
Alignment explanation
Indices: 86674500--86674730 Score: 285
Period size: 118 Copynumber: 1.9 Consensus size: 119
86674490 TCGAATGATG
*
86674500 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATT
1 TCCGGACTAAGTCCCGAAGGCTTTGTGC-AAGTTACTAAATCCGGACTAAGATCCGAAGGCAATT
* **
86674565 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
65 GTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
* *
86674620 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AGTTACTAAATCCGG-GTAAG-TCCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGC-TTTGTGCAAGTTACTAAATCCGGACTAAGAT-CCGAAGGCAA
* * *
86674681 TTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGT
63 TTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
86674731 AGCTATATCC
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
117 2 0.02
118 52 0.54
119 17 0.18
120 18 0.19
121 8 0.08
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (119 bp):
TCCGGACTAAGTCCCGAAGGCTTTGTGCAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTG
TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:86681563 original size:92 final size:93
Alignment explanation
Indices: 86681452--86681621 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
86681442 GCCCATAAGC
* *
86681452 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
86681517 CGAG-TCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
*
86681544 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
86681609 CGAGTTCGGATGC
66 CGAGTTCGGATGC
86681622 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 66 0.89
93 8 0.11
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:86681618 original size:46 final size:46
Alignment explanation
Indices: 86681444--86681618 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
86681434 TGTAACCCGC
* * * *
86681444 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
86681490 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
86681539 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
86681582 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
86681619 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 6 0.05
46 84 0.75
47 7 0.06
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:86684171 original size:50 final size:49
Alignment explanation
Indices: 86684058--86684233 Score: 201
Period size: 50 Copynumber: 3.5 Consensus size: 49
86684048 CTGGTACGCA
* *
86684058 TAGTAGCCTGCACATAGTACTACACATA-CGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACA-AGTGACCAATTATCCGATACACG
** *
86684107 TAGTAGCCTGCACTTAGTACTACACAAGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACAAGTGACC-AATTATCCGATACACG
* * * * * * *
86684157 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACAAGTGA-CCAA-TTATCCGATACACG
86684208 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
86684234 TGCGACCTCA
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 29 0.27
50 44 0.41
51 34 0.31
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACAAGTGACCAATTATCCGATACACG
Found at i:86688886 original size:40 final size:40
Alignment explanation
Indices: 86688803--86688982 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
86688793 TTCAATGATG
* * * *
86688803 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAA
* *
86688843 TCCGGACTAGGAT-CCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTATGCGAGTTACTAAA
*
86688883 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
* *
86688923 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTA-AA
*
86688964 -CCGGGCTATGT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
86688983 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 9 0.07
40 106 0.85
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
Found at i:86694268 original size:40 final size:40
Alignment explanation
Indices: 86694138--86694264 Score: 202
Period size: 40 Copynumber: 3.2 Consensus size: 40
86694128 ACAATTTATG
86694138 CGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCC
1 CGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCC
86694178 CGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCC
1 CGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCC
* * * *
86694218 CGAAGGCGTTTATGCGAGTTGCTATAA-CCGGGCTATGTCC
1 CGAAGGCATTTATGCGAGTTACTA-AATCCGGGTTAAGTCC
86694258 CGAAGGC
1 CGAAGGC
86694265 GTTTGAACGA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 80 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCC
Found at i:86694276 original size:80 final size:79
Alignment explanation
Indices: 86694138--86694302 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 79
86694128 ACAATTTATG
* *
86694138 CGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTA-CTA
1 CGAAGGCATTTATGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTATACGAG-TAGCTA
*
86694202 AATCCGGGTTAAGTCC
65 AATCC-GGTTAAATCC
* * * *
86694218 CGAAGGCGTTTATGCGAGTTGCTATAA-CCGGGCTATGTCCCGAAGGCGTTTGA-ACGAGTAGCT
1 CGAAGGCATTTATGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTT-ATACGAGTAGCT
* *
86694281 ATATCCGGTTAAATTC
64 AAATCCGGTTAAATCC
86694297 CGAAGG
1 CGAAGG
86694303 TACGTGATTC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 16 0.22
80 54 0.74
81 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CGAAGGCATTTATGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTATACGAGTAGCTAA
ATCCGGTTAAATCC
Found at i:86694282 original size:40 final size:40
Alignment explanation
Indices: 86694138--86694288 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
86694128 ACAATTTATG
* * *
86694138 CGAAGGCATTTATGCGAGTTA-CTA-AATCCGGGTTAAGTCC
1 CGAAGGCGTTTATACGAG-TAGCTATAA-CCGGGCTAAGTCC
* * *
86694178 CGAAGGCATTTATGCGAGTTA-CTA-AATCCGGGTTAAGTCC
1 CGAAGGCGTTTATACGAG-TAGCTATAA-CCGGGCTAAGTCC
* * *
86694218 CGAAGGCGTTTATGCGAGTTGCTATAACCGGGCTATGTCC
1 CGAAGGCGTTTATACGAGTAGCTATAACCGGGCTAAGTCC
*
86694258 CGAAGGCGTTTGA-ACGAGTAGCTATATCCGG
1 CGAAGGCGTTT-ATACGAGTAGCTATAACCGG
86694289 TTAAATTCCG
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 97 0.96
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCGTTTATACGAGTAGCTATAACCGGGCTAAGTCC
Found at i:86697825 original size:40 final size:40
Alignment explanation
Indices: 86697717--86697926 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
86697707 CGGGATTTAA
* * * * *
86697717 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
86697757 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
86697797 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
86697837 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
86697877 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
86697917 CCGGATATAT
1 CCGGATATAT
86697927 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:86705957 original size:40 final size:40
Alignment explanation
Indices: 86705849--86706058 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
86705839 CGGGATTTAA
* * * * *
86705849 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
86705889 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
86705929 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
86705969 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
86706009 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
86706049 CCGGATATAT
1 CCGGATATAT
86706059 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:86707950 original size:40 final size:40
Alignment explanation
Indices: 86707820--86707946 Score: 193
Period size: 40 Copynumber: 3.2 Consensus size: 40
86707810 GGCTGTCACA
*
86707820 CGAAGGCATTTATGCAAGTTACTAAATCCGGGTTAAGTCC
1 CGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCC
86707860 CGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCC
1 CGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCC
* * * *
86707900 CGAAGGCGTTTATGCGAGTTGCTATAA-CCGGGCTATGTCC
1 CGAAGGCATTTATGCGAGTTACTA-AATCCGGGTTAAGTCC
86707940 CGAAGGC
1 CGAAGGC
86707947 GTTTGAACGA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 79 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCC
Found at i:86707958 original size:40 final size:40
Alignment explanation
Indices: 86707820--86707984 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
86707810 GGCTGTCACA
* * *
86707820 CGAAGGCATTTATGCAAGTTACTA-AATCCGGGTTAAGTCC
1 CGAAGGCGTTTATGCGAGTTGCTATAA-CCGGGTTAAGTCC
* *
86707860 CGAAGGCATTTATGCGAGTTACTA-AATCCGGGTTAAGTCC
1 CGAAGGCGTTTATGCGAGTTGCTATAA-CCGGGTTAAGTCC
* *
86707900 CGAAGGCGTTTATGCGAGTTGCTATAACCGGGCTATGTCC
1 CGAAGGCGTTTATGCGAGTTGCTATAACCGGGTTAAGTCC
* * * * *
86707940 CGAAGGCGTTTGA-ACGAGTAGCTATATCC-GGTTAAATTC
1 CGAAGGCGTTT-ATGCGAGTTGCTATAACCGGGTTAAGTCC
86707979 CGAAGG
1 CGAAGG
86707985 TACGTGATTC
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 12 0.11
40 96 0.86
41 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGGCGTTTATGCGAGTTGCTATAACCGGGTTAAGTCC
Found at i:86713072 original size:58 final size:58
Alignment explanation
Indices: 86712982--86713093 Score: 224
Period size: 58 Copynumber: 1.9 Consensus size: 58
86712972 TCTGAGATGG
86712982 ATCAATCAGCTTCCTTGGAGTAATTCCTTACTCCTTATTCTGTGTGTCCCTTTTCTTT
1 ATCAATCAGCTTCCTTGGAGTAATTCCTTACTCCTTATTCTGTGTGTCCCTTTTCTTT
86713040 ATCAATCAGCTTCCTTGGAGTAATTCCTTACTCCTTATTCTGTGTGTCCCTTTT
1 ATCAATCAGCTTCCTTGGAGTAATTCCTTACTCCTTATTCTGTGTGTCCCTTTT
86713094 TTTTCTCCTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.16, C:0.26, G:0.12, T:0.46
Consensus pattern (58 bp):
ATCAATCAGCTTCCTTGGAGTAATTCCTTACTCCTTATTCTGTGTGTCCCTTTTCTTT
Found at i:86732157 original size:40 final size:40
Alignment explanation
Indices: 86731920--86732143 Score: 335
Period size: 40 Copynumber: 5.6 Consensus size: 40
86731910 CGCCCGGTTA
* **
86731920 TAGTAACTAGCACAAATGCCTTCGGGA-CTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATT
*
86731960 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGTATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
86732000 TAGTAACTCGCACAAACGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
86732040 TAGTAACTCGCACAAACGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
86732080 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
86732120 TAGTCACTTAGCACAAA-GCCTTCG
1 TAGTAAC-TCGCACAAATGCCTTCG
86732144 AGACTCAGCC
Statistics
Matches: 172, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 3 0.02
40 161 0.94
41 8 0.05
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:86732157 original size:80 final size:80
Alignment explanation
Indices: 86731892--86732157 Score: 319
Period size: 80 Copynumber: 3.3 Consensus size: 80
86731882 GCTACTCGTT
* **
86731892 CAAATGCCTTCGGGA-CATC-GCCCGG-TTATAGTAACTAGCACAAATGCCTTCGGGA-CTTAAC
1 CAAATGCCTTC-GGATC-TCAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
86731953 CCGGATTTAGTAACTCGCA
62 CCGGATTTAGTAACTCGCA
* * * *
86731972 CAAATGCCTTCGGATCTTAGTCCGTATTTAGTAACTCGCACAAACGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGATCTCAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
86732037 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* * *
86732052 CAAACGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGATCTCAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
* * *
86732117 ATATAGTCACTTAGCA
66 ATTTAGTAAC-TCGCA
86732133 CAAA-GCCTTCGAGA-CTCAGCCCGGA
1 CAAATGCCTTCG-GATCTCAGCCCGGA
86732158 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
79 7 0.04
80 146 0.88
81 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTCAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
ATTTAGTAACTCGCA
Found at i:86732157 original size:120 final size:120
Alignment explanation
Indices: 86731892--86732157 Score: 344
Period size: 120 Copynumber: 2.2 Consensus size: 120
86731882 GCTACTCGTT
* *
86731892 CAAATGCCTTCGGGACATC-GCCCGG-TTATAGTAACTAGCACAAATGCCTTCGGGACTTAACCC
1 CAAACGCCTTC-GGAC-TCAGCCCGGATTATAGTAACTAGCACAAACGCCTTCGGGACTTAACCC
* * *
86731955 GGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGTATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTAGCA
* * * **
86732012 CAAACGCCTTCGGATCTTAGTCCGGATT-TAGTAACTCGCACAAACGCCTTC-GGATCTTAGTCC
1 CAAACGCCTTCGGA-CTCAGCCCGGATTATAGTAACTAGCACAAACGCCTTCGGGA-CTTAACCC
*
86732075 GGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
64 GGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTAAC-TAGCA
86732133 CAAA-GCCTTCGAGACTCAGCCCGGA
1 CAAACGCCTTCG-GACTCAGCCCGGA
86732158 CATCATTCGA
Statistics
Matches: 127, Mismatches: 13, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
119 7 0.06
120 108 0.85
121 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (120 bp):
CAAACGCCTTCGGACTCAGCCCGGATTATAGTAACTAGCACAAACGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTAGCA
Found at i:86740174 original size:40 final size:40
Alignment explanation
Indices: 86740130--86740309 Score: 186
Period size: 40 Copynumber: 4.5 Consensus size: 40
86740120 GGATATAGCT
* **
86740130 ACTCGTTCAAATGCCTTCGGGACATCGCCCGG-TTATAGTA
1 ACTCGCTCAAATGCCTTCGGGACATAACCCGGATT-TAGTA
* *
86740170 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGCTCAAATGCCTTCGGGACATAACCCGGATTTAGTA
* **
86740210 ACTCGCTCAAATGCCTTC-GGATCTTAGTCCGGATTTAGTA
1 ACTCGCTCAAATGCCTTCGGGA-CATAACCCGGATTTAGTA
* * * **
86740250 ACTCGCACAAACGCCTTC-GGATCTTAGTCCGGATTTAGTA
1 ACTCGCTCAAATGCCTTCGGGA-CATAACCCGGATTTAGTA
*
86740290 ACTCGCACAAATGCCTTCGG
1 ACTCGCTCAAATGCCTTCGG
86740310 ATCTTAGTTC
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 120 0.95
41 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
ACTCGCTCAAATGCCTTCGGGACATAACCCGGATTTAGTA
Found at i:86740249 original size:80 final size:79
Alignment explanation
Indices: 86740104--86740328 Score: 260
Period size: 80 Copynumber: 2.8 Consensus size: 79
86740094 AAATCACGTA
* * * * * * *
86740104 CCTTCGGAATTTAACCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGA-CATCGCCCGG-TTAT
1 CCTTCGGGACTTAACCGGATTTAG-TAACTCGCTCAAATGCCTTC-GGATCTTAGTCCGGATT-T
*
86740166 AGTAACTCGCACAAATG
63 AGTAACTCGCACAAACG
86740183 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCTCAAATGCCTTCGGATCTTAGTCCGGATTTAG
1 CCTTCGGGACTTAA-CCGGATTTAGTAACTCGCTCAAATGCCTTCGGATCTTAGTCCGGATTTAG
86740248 TAACTCGCACAAACG
65 TAACTCGCACAAACG
* * * *
86740263 CCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTTCGGATATA
1 CCTTCGGGA-CTTA-ACCGGATTTAGTAACTCGCTCAAATGCCTTCGGATCTTAGTCCGGATTTA
86740327 GT
64 GT
86740329 CACTTAGCAT
Statistics
Matches: 128, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
79 19 0.15
80 107 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (79 bp):
CCTTCGGGACTTAACCGGATTTAGTAACTCGCTCAAATGCCTTCGGATCTTAGTCCGGATTTAGT
AACTCGCACAAACG
Found at i:86740310 original size:40 final size:40
Alignment explanation
Indices: 86740165--86740328 Score: 258
Period size: 40 Copynumber: 4.1 Consensus size: 40
86740155 CGCCCGGTTA
**
86740165 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATT
*
86740205 TAGTAACTCGCTCAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
86740245 TAGTAACTCGCACAAACGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
86740285 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTTCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
86740325 TAGT
1 TAGT
86740329 CACTTAGCAT
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 3 0.03
40 112 0.97
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:86740362 original size:80 final size:80
Alignment explanation
Indices: 86740158--86740362 Score: 261
Period size: 80 Copynumber: 2.6 Consensus size: 80
86740148 GGGACATCGC
* * * * *
86740158 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCTCAAATG
1 CCGGATATAGTAACTAGCACAAACGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
86740223 CCTTCGGATCTTAGT
66 CCTTCGGATCTTAGT
* * *
86740238 CCGGATTTAGTAACTCGCACAAACGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACAAAT
1 CCGGATATAGTAACTAGCACAAACGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAAT
86740302 GCCTTCGGATCTTAGT
65 GCCTTCGGATCTTAGT
* * * * *
86740318 TCGGATATAGTCACTTAGCATAAA-GTCTTCGGGACTCAGCCCGGA
1 CCGGATATAGTAAC-TAGCACAAACGCCTTCGGGACTTAGCCCGGA
86740363 CATCATTCGA
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.03
80 95 0.88
81 10 0.09
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (80 bp):
CCGGATATAGTAACTAGCACAAACGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
CCTTCGGATCTTAGT
Found at i:86748624 original size:39 final size:39
Alignment explanation
Indices: 86748571--86748687 Score: 166
Period size: 39 Copynumber: 3.0 Consensus size: 39
86748561 ATGCTCATTT
* *
86748571 GAGCA-ACTTTTAGTAGAATTAGTAGTTATGTCTCAATA
1 GAGCATACTTTTAGTAGAATCAGTAGTTATGGCTCAATA
* * *
86748609 GAGCATACTTTTAGTAGAATCCGTAGGTATGGCTCCATA
1 GAGCATACTTTTAGTAGAATCAGTAGTTATGGCTCAATA
86748648 GAGCATACTTTTAGTAGAATCAGTAGGTT-TGGCTCAATA
1 GAGCATACTTTTAGTAGAATCAGTA-GTTATGGCTCAATA
86748687 G
1 G
86748688 CGTATACATT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
38 5 0.07
39 62 0.90
40 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (39 bp):
GAGCATACTTTTAGTAGAATCAGTAGTTATGGCTCAATA
Found at i:86748726 original size:40 final size:40
Alignment explanation
Indices: 86748632--86748760 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
86748622 GTAGAATCCG
* * * * *
86748632 TAGGTATGGCTCCATAGAGCATAC-TTTTAGTAGAA-TCAG
1 TAGGTATGGCTCAATAGAACATACATTTCAATA-AATTCAA
* ***
86748671 TAGGTTTGGCTCAATAGCGTATACATTTCAATAAATTCAA
1 TAGGTATGGCTCAATAGAACATACATTTCAATAAATTCAA
* * * *
86748711 TAGGTATGGTTCAATATAACATACATTTCAATAGATTCAG
1 TAGGTATGGCTCAATAGAACATACATTTCAATAAATTCAA
86748751 TAGGTATGGC
1 TAGGTATGGC
86748761 ATAATAACGC
Statistics
Matches: 72, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
39 22 0.31
40 50 0.69
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (40 bp):
TAGGTATGGCTCAATAGAACATACATTTCAATAAATTCAA
Found at i:86749938 original size:55 final size:55
Alignment explanation
Indices: 86749879--86749986 Score: 121
Period size: 55 Copynumber: 2.0 Consensus size: 55
86749869 GCTGCCAGAT
* * *
86749879 ACAGA-AAATGTGACAGAGTCACTAGATACAGATATTTTATGGCAGT-GCCACCATA
1 ACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTATGGCA-TAGCCACCATA
* * * *
86749934 ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCACCA
1 ACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCACCA
86749987 GGACGCTTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
54 1 0.02
55 27 0.61
56 16 0.36
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (55 bp):
ACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCACCATA
Found at i:86749955 original size:27 final size:28
Alignment explanation
Indices: 86749873--86749987 Score: 92
Period size: 27 Copynumber: 4.1 Consensus size: 28
86749863 AGCATGGCTG
* *
86749873 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGA-ACAGATAATATGTGGCAGAGCCA
* * * * *
86749900 CTAGATACAGATATTTTATGGCAGTGCCA
1 CCAGA-ACAGATAATATGTGGCAGAGCCA
* *
86749929 CCATAACAGAT-ATATGTGGCAGGGCCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
* *
86749956 CCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
86749984 CCAG
1 CCAG
86749988 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 17, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
27 32 0.47
28 24 0.35
29 12 0.18
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (28 bp):
CCAGAACAGATAATATGTGGCAGAGCCA
Found at i:86749983 original size:28 final size:27
Alignment explanation
Indices: 86749906--86749987 Score: 85
Period size: 28 Copynumber: 3.0 Consensus size: 27
86749896 GTCACTAGAT
* * *
86749906 ACAGATATTTTATGGCAGTGCCACCATA
1 ACAGATAATTTGTGGCA-TGCCACCAGA
* *
86749934 ACAGAT-ATATGTGGCAGGGCCACCAGA
1 ACAGATAATTTGTGGCA-TGCCACCAGA
86749961 ACAGATAATTTGTGGCATAGCCACCAG
1 ACAGATAATTTGTGGCAT-GCCACCAG
86749988 GACGCTTCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
27 22 0.49
28 23 0.51
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (27 bp):
ACAGATAATTTGTGGCATGCCACCAGA
Found at i:86750140 original size:28 final size:28
Alignment explanation
Indices: 86750096--86750157 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
86750086 TTAACCCTAG
*
86750096 GGGTATAAAGGTCATTTGGCACACATAA
1 GGGTATAAAGGTAATTTGGCACACATAA
* * * *
86750124 GGGTATAATGGTAATTTTGCATACATAG
1 GGGTATAAAGGTAATTTGGCACACATAA
86750152 GGGTAT
1 GGGTAT
86750158 TCTAGTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (28 bp):
GGGTATAAAGGTAATTTGGCACACATAA
Found at i:86750425 original size:16 final size:16
Alignment explanation
Indices: 86750404--86750447 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
86750394 CCCAAAATAC
86750404 CGATTTTTCGGCATTT
1 CGATTTTTCGGCATTT
86750420 CGATTTTTCGGCATTT
1 CGATTTTTCGGCATTT
*
86750436 CGACTTTTCGGC
1 CGATTTTTCGGC
86750448 TTTTGCCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.45
Consensus pattern (16 bp):
CGATTTTTCGGCATTT
Found at i:86765026 original size:27 final size:27
Alignment explanation
Indices: 86764806--86765028 Score: 240
Period size: 27 Copynumber: 8.3 Consensus size: 27
86764796 TGGGCCATGT
* *
86764806 TGACCGAAATACCCCCATAGGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
*
86764833 TGATTGAAATACTCCC-ATAGGGTAAAA
1 TGACTGAAATAC-CCCTATAGGGTAAAA
*
86764860 TGA-TCGAAATAACCCTATAGGGTAAAA
1 TGACT-GAAATACCCCTATAGGGTAAAA
* * *
86764887 TGACCGAAATA-CCTTCATAAGGTAAAA
1 TGACTGAAATACCCCT-ATAGGGTAAAA
*
86764914 TGA-TCGAAATACCCCCATAGGGTAAAA
1 TGACT-GAAATACCCCTATAGGGTAAAA
* *
86764941 TGACCGAAATACCCCTATAAGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
* *
86764968 TGACT-ATAATACCCCTGTAGGGTAGAA
1 TGACTGA-AATACCCCTATAGGGTAAAA
* *
86764995 TGACTGTAATACCCCTATAAGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
86765022 TGACTGA
1 TGACTGA
86765029 TTTGCCTTAC
Statistics
Matches: 164, Mismatches: 22, Indels: 20
0.80 0.11 0.10
Matches are distributed among these distances:
26 8 0.05
27 151 0.92
28 5 0.03
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (27 bp):
TGACTGAAATACCCCTATAGGGTAAAA
Found at i:86765026 original size:54 final size:54
Alignment explanation
Indices: 86764810--86765024 Score: 274
Period size: 54 Copynumber: 4.0 Consensus size: 54
86764800 CCATGTTGAC
** *
86764810 CGAAATACCCCCATAGGGTAAAATGATTGAAATACTCCC-ATAGGGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGACCGAAATAC-CCCTATAAGGTAAAATGAT
* * *
86764864 CGAAATAACCCTATAGGGTAAAATGACCGAAATA-CCTTCATAAGGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCT-ATAAGGTAAAATGAT
86764918 CGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGA-
1 CGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGAT
* ** * * *
86764971 CTATAATACCCCTGTAGGGTAGAATGACTGTAATACCCCTATAAGGTAAAATGA
1 CGA-AATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGA
86765025 CTGATTTGCC
Statistics
Matches: 142, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.01
53 2 0.01
54 135 0.95
55 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (54 bp):
CGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGAT
Found at i:86769556 original size:40 final size:40
Alignment explanation
Indices: 86769501--86769688 Score: 288
Period size: 40 Copynumber: 4.7 Consensus size: 40
86769491 ATAACCACAA
* *
86769501 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
86769541 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
86769581 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
86769621 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGTC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAG-CAACTC
* * *
86769661 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
86769689 GTATCATTCA
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 136 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:86772788 original size:16 final size:16
Alignment explanation
Indices: 86772767--86772797 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
86772757 CCGTAGCCCA
86772767 ATTTTGACTTTTCGGT
1 ATTTTGACTTTTCGGT
86772783 ATTTTGACTTTTCGG
1 ATTTTGACTTTTCGG
86772798 CTTTCGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.19, T:0.55
Consensus pattern (16 bp):
ATTTTGACTTTTCGGT
Found at i:86772820 original size:16 final size:16
Alignment explanation
Indices: 86772776--86772824 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
86772766 AATTTTGACT
* * *
86772776 TTTCGGTATTTTGACT
1 TTTCGGCATTTCGACA
86772792 TTTCGGC-TTTCGACA
1 TTTCGGCATTTCGACA
86772807 TTTCGGCATTTCGA-A
1 TTTCGGCATTTCGACA
86772822 TTT
1 TTT
86772825 TGCTGATTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.49
Consensus pattern (16 bp):
TTTCGGCATTTCGACA
Found at i:86774456 original size:37 final size:36
Alignment explanation
Indices: 86774406--86774492 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
86774396 TGCGAAGTCT
86774406 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
86774442 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
86774479 TCACCCGGAACATA
1 T-ACCCGG-ACATA
86774493 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:86774622 original size:49 final size:49
Alignment explanation
Indices: 86774563--86774850 Score: 431
Period size: 49 Copynumber: 6.1 Consensus size: 49
86774553 TGCCACATAT
* * *
86774563 ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
86774612 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
86774661 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
86774710 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
*
86774759 ATATACACACTTTCACATTCATCACAT----C----GGCC--A-CACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
* *
86774797 ATACACAC--TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
86774844 ATATACA
1 ATATACA
86774851 TCTCATACAT
Statistics
Matches: 222, Mismatches: 6, Indels: 24
0.88 0.02 0.10
Matches are distributed among these distances:
36 17 0.08
38 11 0.05
39 1 0.00
40 1 0.00
41 4 0.02
44 4 0.02
45 1 0.00
46 1 0.00
47 11 0.05
49 171 0.77
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (49 bp):
ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
Found at i:86774795 original size:36 final size:36
Alignment explanation
Indices: 86774754--86774827 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
86774744 TAGGCCTTAT
86774754 CACACATATACACACTTTCACATTCATCACATCGGC
1 CACACATATACACACTTTCACATTCATCACATCGGC
86774790 CACACATATACACACTTTCACATTCATCACATCGGC
1 CACACATATACACACTTTCACATTCATCACATCGGC
86774826 CA
1 CA
86774828 TTAGGCCTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.34, C:0.36, G:0.05, T:0.24
Consensus pattern (36 bp):
CACACATATACACACTTTCACATTCATCACATCGGC
Found at i:86777667 original size:40 final size:41
Alignment explanation
Indices: 86777623--86777720 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
86777613 TCGATTGTCC
* * **
86777623 TCGGGACATAGCCCGG-TTATAGTGA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
86777663 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
86777704 TCGGGACTTAGCCCGGA
1 TCGGGACATAGCCCGGA
86777721 CACCATTCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.39
41 29 0.59
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:86778511 original size:40 final size:40
Alignment explanation
Indices: 86778462--86778693 Score: 374
Period size: 40 Copynumber: 5.8 Consensus size: 40
86778452 ACCACGCGAT
* * * *
86778462 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
86778502 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
86778542 TGCTCCTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
86778582 TGCTCCTCGGAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
86778622 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
86778662 TGCTCTTCGGAACTTAGCCCGGATACATCACT
1 TGCTCCTCGGAACTTAGTCCGGATACATCACT
86778694 CTCAATTCTC
Statistics
Matches: 180, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:86780621 original size:37 final size:36
Alignment explanation
Indices: 86780571--86780657 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
86780561 TGCGAAGTCT
86780571 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
86780607 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
86780644 TCACCCGGAACATA
1 T-ACCCGG-ACATA
86780658 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:86780834 original size:56 final size:49
Alignment explanation
Indices: 86780733--86781021 Score: 379
Period size: 49 Copynumber: 6.0 Consensus size: 49
86780723 CATATATATT
* *
86780733 ACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
86780782 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--C--A-CAC--ATATAC
86780838 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
86780887 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
* *
86780936 ACACTTTCACATTCATCACAT----C----GGCC--A-CACATATACAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
*
86780974 AC--TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
86781021 A
1 A
86781022 TCTCATACAT
Statistics
Matches: 217, Mismatches: 5, Indels: 38
0.83 0.02 0.15
Matches are distributed among these distances:
36 17 0.08
38 11 0.05
39 1 0.00
40 1 0.00
41 4 0.02
44 4 0.02
45 1 0.00
46 1 0.00
47 11 0.05
49 113 0.52
51 4 0.02
52 1 0.00
53 1 0.00
54 3 0.01
56 44 0.20
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (49 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
Found at i:86780858 original size:27 final size:27
Alignment explanation
Indices: 86780769--86780858 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
86780759 ATTAGGCCTT
86780769 ATCACATATATACACACTTTCACATTC
1 ATCACATATATACACACTTTCACATTC
**
86780796 ATCACATCGGCCAT-TAGGC-CTTATCACA-T-
1 ATCACAT-----ATATACACACTT-TCACATTC
86780825 ATCACATATATACACACTTTCACATTC
1 ATCACATATATACACACTTTCACATTC
86780852 ATCACAT
1 ATCACAT
86780859 CGGCCATTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 20
0.67 0.05 0.27
Matches are distributed among these distances:
24 2 0.04
25 8 0.16
26 4 0.08
27 14 0.29
29 7 0.14
30 4 0.08
31 8 0.16
32 2 0.04
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.31
Consensus pattern (27 bp):
ATCACATATATACACACTTTCACATTC
Found at i:86780865 original size:105 final size:100
Alignment explanation
Indices: 86780721--86781019 Score: 403
Period size: 105 Copynumber: 3.1 Consensus size: 100
86780711 TCGGCTTTGC
* * *
86780721 CACATATATATTACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACAC
1 CACATATATA-CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACAC
86780786 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
65 TTTCACATTCATCACATCGGCCATTAGGCCTTAT--C--A
86780826 TCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACAC
1 -CACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACAC
86780891 TTTCACATTCATCACATCGGCCATTAGGCCTTATCA
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCA
86780927 CAC--ATATACACACTTTCACATTCATCACAT----C----GG-C----CACACATATACACACT
1 CACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACT
86780977 TTCACATTCATCACATCGGCCATTAGGCCTTATCA
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
86781012 CATATATA
1 CACATATA
86781020 CATCTCATAC
Statistics
Matches: 187, Mismatches: 4, Indels: 23
0.87 0.02 0.11
Matches are distributed among these distances:
85 53 0.28
87 3 0.02
89 1 0.01
90 2 0.01
94 1 0.01
98 27 0.14
100 3 0.02
101 1 0.01
103 1 0.01
105 85 0.45
106 10 0.05
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (100 bp):
CACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:86780966 original size:36 final size:36
Alignment explanation
Indices: 86780925--86780998 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
86780915 TAGGCCTTAT
86780925 CACACATATACACACTTTCACATTCATCACATCGGC
1 CACACATATACACACTTTCACATTCATCACATCGGC
86780961 CACACATATACACACTTTCACATTCATCACATCGGC
1 CACACATATACACACTTTCACATTCATCACATCGGC
86780997 CA
1 CA
86780999 TTAGGCCTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.34, C:0.36, G:0.05, T:0.24
Consensus pattern (36 bp):
CACACATATACACACTTTCACATTCATCACATCGGC
Found at i:86783837 original size:40 final size:41
Alignment explanation
Indices: 86783793--86783890 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
86783783 TCGATTGTCC
* * **
86783793 TCGGGACATAGCCCGG-TTATAGTGA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
86783833 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
86783874 TCGGGACTTAGCCCGGA
1 TCGGGACATAGCCCGGA
86783891 CACCATTCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.39
41 29 0.59
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:86784678 original size:40 final size:40
Alignment explanation
Indices: 86784621--86784825 Score: 320
Period size: 40 Copynumber: 5.1 Consensus size: 40
86784611 CGAATACACG
* * * * *
86784621 TCACCAGCACGATTGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
*
86784661 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCAGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
* *
86784701 TCACTAGCACGAATGCTCCTCGGAACTTAGTCTGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
*
86784741 TCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
*
86784781 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
86784821 TCACT
1 TCACT
86784826 CTCAATTCTC
Statistics
Matches: 153, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 153 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
Found at i:86786758 original size:37 final size:36
Alignment explanation
Indices: 86786708--86786794 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
86786698 TGCGGAGCCT
86786708 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
86786744 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
86786781 TCACCCGGAACATA
1 T-ACCCGG-ACATA
86786795 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:86786924 original size:49 final size:49
Alignment explanation
Indices: 86786865--86787214 Score: 646
Period size: 49 Copynumber: 7.1 Consensus size: 49
86786855 TGCCACATAT
* * *
86786865 ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
86786914 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
86786963 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
* *
86787012 ATATACACACTTTCACATTCATCACATCGGCCATTATGCCGTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
86787061 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
86787110 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
*
86787159 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
86787208 ATATACA
1 ATATACA
86787215 TCTCATACAT
Statistics
Matches: 293, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 293 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.29
Consensus pattern (49 bp):
ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
Found at i:86790501 original size:16 final size:16
Alignment explanation
Indices: 86790476--86790508 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
86790466 AAAAATTCAA
86790476 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
*
86790492 GATTTTGGGATTTTTG
1 GATTTCGGGATTTTTG
86790508 G
1 G
86790509 GGCATTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.33, T:0.52
Consensus pattern (16 bp):
GATTTCGGGATTTTTG
Found at i:86797459 original size:21 final size:21
Alignment explanation
Indices: 86797435--86797504 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
86797425 CACATACATC
86797435 ATGAACTCAGACCATAACTCA
1 ATGAACTCAGACCATAACTCA
* *
86797456 ATGAGCTCAAATGTCACATATA-TC-
1 ATGAACTC--A-GAC-CATA-ACTCA
86797480 ATGAACTCAGACCATAACTCA
1 ATGAACTCAGACCATAACTCA
86797501 ATGA
1 ATGA
86797505 GTTCAGATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 1 0.03
20 6 0.16
21 13 0.34
22 1 0.03
23 1 0.03
24 9 0.24
25 6 0.16
26 1 0.03
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.23
Consensus pattern (21 bp):
ATGAACTCAGACCATAACTCA
Found at i:86805942 original size:8 final size:8
Alignment explanation
Indices: 86805925--86805959 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
86805915 ATAAATCGGC
86805925 AAAAGCCG
1 AAAAGCCG
*
86805933 AAATGCCG
1 AAAAGCCG
86805941 AAAAGCCG
1 AAAAGCCG
86805949 AAAAGCCG
1 AAAAGCCG
86805957 AAA
1 AAA
86805960 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.51, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:86806229 original size:29 final size:29
Alignment explanation
Indices: 86806170--86806269 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 29
86806160 GTGAGCATGA
* * * *
86806170 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGACC
*
86806198 ATATAAATGTGATTTGGGCCTAATGGATC
1 ATATAAATGTGATTTGGGCCTAATGGACC
* *
86806227 ATATACAGGTGATTTGGGCCTAAT-GAGCC
1 ATATAAATGTGATTTGGGCCTAATGGA-CC
* *
86806256 ATATGAATATGATT
1 ATATAAATGTGATT
86806270 GGGTTTAATG
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
28 13 0.22
29 45 0.78
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGACC
Found at i:86806257 original size:58 final size:57
Alignment explanation
Indices: 86806183--86806293 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
86806173 TGAATGTGAC
* * *
86806183 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGATCATATACAGGTGATT
1 TGGGCCTAACGAGCCATATAAATATGA-TTGGGCCTAATGGATCAGATACAGGTGATT
* * ** *
86806241 TGGGCCTAATGAGCCATATGAATATGATTGGGTTTAATGGGTCAGATACAGGT
1 TGGGCCTAACGAGCCATATAAATATGATTGGGCCTAATGGATCAGATACAGGT
86806294 ATGTGAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 22 0.49
58 23 0.51
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (57 bp):
TGGGCCTAACGAGCCATATAAATATGATTGGGCCTAATGGATCAGATACAGGTGATT
Found at i:86811541 original size:34 final size:34
Alignment explanation
Indices: 86811495--86811577 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
86811485 GCAAACAGTC
* * *
86811495 TGGGCCTAAGCCC-TTAACAGTAGCATTATCAATG
1 TGGGCCTTAGCCCATT-ACAGTAACAGTATCAATG
* *
86811529 TGGGCCTTAGCCCATTACGGTAACAGTATCAGTG
1 TGGGCCTTAGCCCATTACAGTAACAGTATCAATG
*
86811563 TGGGCCATAGCCCAT
1 TGGGCCTTAGCCCAT
86811578 CTCAGTACAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 40 0.95
35 2 0.05
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTACAGTAACAGTATCAATG
Found at i:86817957 original size:29 final size:29
Alignment explanation
Indices: 86817890--86817984 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 29
86817880 AAGTCCGCAT
* *
86817890 ACATGCATATGGCCCACT-AGACCC-AATC
1 ACATTCATATGGCCCATTAAG-CCCAAATC
* * *
86817918 TCATTCATATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
* *
86817947 ATATTCGTATGGCCCATTAAGCCCAAATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
86817976 ACATTCATA
1 ACATTCATA
86817985 CGGGCCCACC
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
28 17 0.32
29 36 0.68
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAAGCCCAAATC
Done.