Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 250 of 333
Found at i:82420309 original size:4 final size:4
Alignment explanation
Indices: 82420300--82420346 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
82420290 TTATAGTTGT
82420300 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
82420347 GATATTACCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:82421235 original size:77 final size:76
Alignment explanation
Indices: 82420975--82421243 Score: 237
Period size: 77 Copynumber: 3.6 Consensus size: 76
82420965 TTTCTTAACG
* * * *
82420975 GTTACTTAAAACTTTAAAAT-A-TCTTTAAAAAATTAAGTAATTCCTAAATTAATGGAAAATTAT
1 GTTACTTAAAACCTT--AATCAGTCTTTAAAAAATTAAGTAATTCCTAAACT-ATGGGAAATTAC
*
82421038 TTAAATTT-TTTAAC
63 TT-AATTTCTTTAAT
* * ** * * * * *
82421052 ATTACTTAAAA-CTTTATTTGTTCTTTAAGAAATTAAGCAAATCCTAAACAATGGG--A-TAGTT
1 GTTACTTAAAACCTTAATCAG-TCTTTAAAAAATTAAGTAATTCCTAAACTATGGGAAATTACTT
*
82421113 AATTTCTTTTAT
65 AATTTCTTTAAT
* * ** *
82421125 GCTACTTAAAACCTTAACCAACCTTTAAGAAATTAAGTAATTCCTAAACTATGGGAAAGTTACTT
1 GTTACTTAAAACCTTAATCAGTCTTTAAAAAATTAAGTAATTCCTAAACTATGGGAAA-TTACTT
*
82421190 AATTTCTTTGAT
65 AATTTCTTTAAT
*
82421202 GTTACTTAAAACCTTAATCAGTCTTTAAAAAATTTAGTAATT
1 GTTACTTAAAACCTTAATCAGTCTTTAAAAAATTAAGTAATT
82421244 TACTTACTTT
Statistics
Matches: 151, Mismatches: 32, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
72 5 0.03
73 47 0.31
74 7 0.05
75 1 0.01
76 6 0.04
77 85 0.56
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (76 bp):
GTTACTTAAAACCTTAATCAGTCTTTAAAAAATTAAGTAATTCCTAAACTATGGGAAATTACTTA
ATTTCTTTAAT
Found at i:82425845 original size:17 final size:18
Alignment explanation
Indices: 82425823--82425856 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
82425813 ATATGTACAT
82425823 TTTAAA-ATGAATAATAG
1 TTTAAATATGAATAATAG
*
82425840 TTTAAATATGTATAATA
1 TTTAAATATGAATAATA
82425857 TGTGAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TTTAAATATGAATAATAG
Found at i:82426787 original size:17 final size:16
Alignment explanation
Indices: 82426767--82426819 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
82426757 AAAGATTTAT
82426767 AAAATAAATAAAACAAA
1 AAAATAAA-AAAACAAA
*
82426784 AAAATATCAAAAACGAAA
1 AAAATA-AAAAAAC-AAA
* *
82426802 AATATAAAAAAAGAAA
1 AAAATAAAAAAACAAA
82426818 AA
1 AA
82426820 GAAAATAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.17
17 16 0.53
18 9 0.30
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (16 bp):
AAAATAAAAAAACAAA
Found at i:82426802 original size:16 final size:16
Alignment explanation
Indices: 82426774--82426819 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
82426764 TATAAAATAA
*
82426774 ATAAAACAA-AAAAAT
1 ATAAAAAAAGAAAAAT
* *
82426789 ATCAAAAACGAAAAAT
1 ATAAAAAAAGAAAAAT
82426805 ATAAAAAAAGAAAAA
1 ATAAAAAAAGAAAAA
82426820 GAAAATAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (16 bp):
ATAAAAAAAGAAAAAT
Found at i:82427715 original size:90 final size:90
Alignment explanation
Indices: 82427530--82427728 Score: 258
Period size: 90 Copynumber: 2.2 Consensus size: 90
82427520 CTACAACATG
* * * *
82427530 CTCCACTGCAACTTCAAGGAGATAAGGTGTGTTTTGATGTGCTCTACTGCAACTTCAGAGAGACA
1 CTCCACTACAACTTCAGGGAAATAAGGTGTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGACA
* * * *
82427595 GGATCTGTAATTTAGCTTCAATCTG
66 CGATCTATAATTTAGCTTCAACCTA
* *
82427620 TTCCACTACAACTTCAGGGAAATAATGTGTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGACA
1 CTCCACTACAACTTCAGGGAAATAAGGTGTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGACA
** *
82427685 CGATCTATAAATTT-TTTTTAACCTA
66 CGATCTAT-AATTTAGCTTCAACCTA
82427710 CTCCACTACAACTT-AGGGA
1 CTCCACTACAACTTCAGGGA
82427729 GATAGGATGG
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
89 5 0.05
90 84 0.89
91 5 0.05
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (90 bp):
CTCCACTACAACTTCAGGGAAATAAGGTGTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGACA
CGATCTATAATTTAGCTTCAACCTA
Found at i:82427902 original size:133 final size:133
Alignment explanation
Indices: 82427652--82427996 Score: 424
Period size: 133 Copynumber: 2.6 Consensus size: 133
82427642 TAATGTGTGT
* * * * * * *
82427652 TTTGATCTGCTCTACTGCAACTTCAGAGAGACACGATCTATAAATTTTTTTTAACCTACTCCACT
1 TTTGATCTACTCTACTGCAACTTCAGGGAGACAAGATCTA-CAA---TCTTTAGCCTGCTCCACT
* * *
82427717 ACAAC-TTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGAAAGACAAGATT
62 ACAACTTTAGAGAGATAGGATGGCGGCTTAAATCTGCTTCACTACAACTTCAGAAAGACAAGATT
* *
82427781 CGCTGTC
127 CACCGTC
* *
82427788 TTTGATCTACTCTACTGCAACTTTAGGGAGACAAGATCTACAATCTTTAGCCTGCTCCGCTACAA
1 TTTGATCTACTCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTGCTCCACTACAA
* * *
82427853 CTTTAGAGAGATAGGATGGCGGTTTAAATCTGCTTCACTACAATTTCAGAAAGGCAAGATTCACC
66 CTTTAGAGAGATAGGATGGCGGCTTAAATCTGCTTCACTACAACTTCAGAAAGACAAGATTCACC
82427918 GTC
131 GTC
* * * * * *
82427921 TTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATTTACAATC-TTCGATCTGCTCCACTGCA
1 TTTGATCTACTCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAG-CCTGCTCCACTACA
82427985 ACTTTAGAGAGA
65 ACTTTAGAGAGA
82427997 CAAGATCTAA
Statistics
Matches: 182, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
132 22 0.12
133 122 0.67
135 2 0.01
136 36 0.20
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (133 bp):
TTTGATCTACTCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTGCTCCACTACAA
CTTTAGAGAGATAGGATGGCGGCTTAAATCTGCTTCACTACAACTTCAGAAAGACAAGATTCACC
GTC
Found at i:82427968 original size:45 final size:45
Alignment explanation
Indices: 82427907--82428268 Score: 166
Period size: 45 Copynumber: 8.1 Consensus size: 45
82427897 TTCAGAAAGG
* *
82427907 CAAGATTCACCGTCTTCGATCTACTCCACTGCAACTTCAGGGAGA
1 CAAGATTTACAGTCTTCGATCTACTCCACTGCAACTTCAGGGAGA
* * * *
82427952 CAAGATTTACAATCTTCGATCTGCTCCACTGCAACTTTAGAGAGA
1 CAAGATTTACAGTCTTCGATCTACTCCACTGCAACTTCAGGGAGA
* * * * * * *
82427997 CAAGATCTAAAATCTTC-AGCCTACTCCACTACAATTTTAGGGAGA
1 CAAGATTTACAGTCTTCGA-TCTACTCCACTGCAACTTCAGGGAGA
* * * * ** * * * *
82428042 TAGGATGGT--GGT-TTAAATCTGA-TTCATTGCAACTTCAGGAAAA
1 CAAGAT-TTACAGTCTTCGATCT-ACTCCACTGCAACTTCAGGGAGA
* * * * ** *
82428085 CAAAATTTGCTGTTTTCGATCTGTTCTACTGCAACTTCAGGGAGA
1 CAAGATTTACAGTCTTCGATCTACTCCACTGCAACTTCAGGGAGA
* * * * *
82428130 CAAGATCTACAATCTTC-AGCCTACTCCACTACAACTTTAGGGAGA
1 CAAGATTTACAGTCTTCGA-TCTACTCCACTGCAACTTCAGGGAGA
* * * * ** * * * *
82428175 TAGGATGGT---GGCTTAAATTTGCTTCACTGCAACTTCAGGAAGA
1 CAAGAT-TTACAGTCTTCGATCTACTCCACTGCAACTTCAGGGAGA
** * * *
82428218 CAAGATTCGCCGTCTTCGATCTGCTCCACTGTAACTTCAGGGAGA
1 CAAGATTTACAGTCTTCGATCTACTCCACTGCAACTTCAGGGAGA
82428263 CAAGAT
1 CAAGAT
82428269 CTGTAGAATC
Statistics
Matches: 227, Mismatches: 76, Indels: 28
0.69 0.23 0.08
Matches are distributed among these distances:
42 1 0.00
43 47 0.21
44 8 0.04
45 169 0.74
46 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (45 bp):
CAAGATTTACAGTCTTCGATCTACTCCACTGCAACTTCAGGGAGA
Found at i:82428057 original size:178 final size:178
Alignment explanation
Indices: 82427755--82428174 Score: 511
Period size: 178 Copynumber: 2.4 Consensus size: 178
82427745 AAATCTGCTT
** ** ** * *
82427755 CACTGCAACTTCAGAAAGACAAGATTCGCTGTCTTTGATCTACTCTACTGCAACTTTAGGGAGAC
1 CACTGCAACTTCAGGGAGACAAGATTTACAATCTTCGATCTACTCCACTGCAACTTTAGGGAGAC
* * * *
82427820 AAGATCTACAATCTTTAGCCTGCTCCGCTACAACTTTAGAGAGATAGGATGGCGGTTTAAATCTG
66 AAGATCTAAAATCTTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGGCGGTTTAAATCTG
* * * *
82427885 CTTCACTACAATTTCA-GAAAGGCAAGATTCACCGTCTTCGATCTACTC
131 ATTCACTACAACTTCAGGAAA-ACAAAATTCACCGTCTTCGATCTACTC
* *
82427933 CACTGCAACTTCAGGGAGACAAGATTTACAATCTTCGATCTGCTCCACTGCAACTTTAGAGAGAC
1 CACTGCAACTTCAGGGAGACAAGATTTACAATCTTCGATCTACTCCACTGCAACTTTAGGGAGAC
* * *
82427998 AAGATCTAAAATCTTCAGCCTACTCCACTACAATTTTAGGGAGATAGGATGGTGGTTTAAATCTG
66 AAGATCTAAAATCTTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGGCGGTTTAAATCTG
* * ** * * **
82428063 ATTCATTGCAACTTCAGGAAAACAAAATTTGCTGTTTTCGATCTGTTC
131 ATTCACTACAACTTCAGGAAAACAAAATTCACCGTCTTCGATCTACTC
* * * *
82428111 TACTGCAACTTCAGGGAGACAAGATCTACAATCTTC-AGCCTACTCCACTACAACTTTAGGGAGA
1 CACTGCAACTTCAGGGAGACAAGATTTACAATCTTCGA-TCTACTCCACTGCAACTTTAGGGAGA
82428175 TAGGATGGTG
Statistics
Matches: 205, Mismatches: 35, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
177 1 0.00
178 200 0.98
179 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (178 bp):
CACTGCAACTTCAGGGAGACAAGATTTACAATCTTCGATCTACTCCACTGCAACTTTAGGGAGAC
AAGATCTAAAATCTTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGGCGGTTTAAATCTG
ATTCACTACAACTTCAGGAAAACAAAATTCACCGTCTTCGATCTACTC
Found at i:82428061 original size:311 final size:312
Alignment explanation
Indices: 82427655--82428268 Score: 894
Period size: 311 Copynumber: 2.0 Consensus size: 312
82427645 TGTGTGTTTT
* * * *
82427655 GATCTGCTCTACTGCAACTTCAGAGAGACACGATCTATAAATTTTTTTTAACCTACTCCACTACA
1 GATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTATAAA--TTCTTCAACCTACTCCACTACA
* *
82427720 ACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCA-GAAAGACAAGATTCGC
64 ACTTAGGGAGATAGGATGGTGGCTTAAATCTGATTCACTGCAACTTCAGGAAA-ACAAAATTCGC
* * * *
82427784 TGTCTTT-GATCTACTCTACTGCAACTTTAGGGAGACAAGATCTACAATCTTTAGCCTGCTCCGC
128 TGT-TTTCGATCTACTCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCAC
* * *
82427848 TACAACTTTAGAGAGATAGGATGGCGGTTTAAATCTGCTTCACTACAATTTCAGAAAGGCAAGAT
192 TACAACTTTAGAGAGATAGGATGGCGGCTTAAATCTGCTTCACTACAACTTCAGAAAGACAAGAT
82427913 TCACCGTCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATTTACAATCTTC
257 TCACCGTCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATTTACAATCTTC
* *
82427969 GATCTGCTCCACTGCAACTTTAGAGAGACAAGATCTA-AAA-TCTTCAGCCTACTCCACTACAAT
1 GATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTATAAATTCTTCAACCTACTCCACTACAA-
* * * *
82428032 TTTAGGGAGATAGGATGGTGGTTTAAATCTGATTCATTGCAACTTCAGGAAAACAAAATTTGCTG
65 CTTAGGGAGATAGGATGGTGGCTTAAATCTGATTCACTGCAACTTCAGGAAAACAAAATTCGCTG
**
82428097 TTTTCGATCTGTTCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
130 TTTTCGATCTACTCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
* * * * * *
82428162 AACTTTAGGGAGATAGGATGGTGGCTTAAATTTGCTTCACTGCAACTTCAGGAAGACAAGATTCG
195 AACTTTAGAGAGATAGGATGGCGGCTTAAATCTGCTTCACTACAACTTCAGAAAGACAAGATTCA
* *
82428227 CCGTCTTCGATCTGCTCCACTGTAACTTCAGGGAGACAAGAT
260 CCGTCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGAT
82428269 CTGTAGAATC
Statistics
Matches: 268, Mismatches: 29, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
310 22 0.08
311 205 0.76
312 4 0.01
313 3 0.01
314 34 0.13
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (312 bp):
GATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTATAAATTCTTCAACCTACTCCACTACAAC
TTAGGGAGATAGGATGGTGGCTTAAATCTGATTCACTGCAACTTCAGGAAAACAAAATTCGCTGT
TTTCGATCTACTCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACA
ACTTTAGAGAGATAGGATGGCGGCTTAAATCTGCTTCACTACAACTTCAGAAAGACAAGATTCAC
CGTCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATTTACAATCTTC
Found at i:82428073 original size:133 final size:133
Alignment explanation
Indices: 82427933--82428270 Score: 496
Period size: 133 Copynumber: 2.5 Consensus size: 133
82427923 CGATCTACTC
* * * * *
82427933 CACTGCAACTTCAGGGAGACAAGATTTACAATCTTCGATCTGCTCCACTGCAACTTTAGAGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTTGCAGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
* *
82427998 AAGATCTAAAATCTTCAGCCTACTCCACTACAATTTTAGGGAGATAGGATGGTGGTTTAAATCTG
66 AAGATCTAAAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTG
82428063 ATT
131 ATT
* * * * * * *
82428066 CATTGCAACTTCAGGAAAACAAAATTTGCTGTTTTCGATCTGTTCTACTGCAACTTCAGGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTTGCAGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
* *
82428131 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATTTG
66 AAGATCTAAAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTG
*
82428196 CTT
131 ATT
* * *
82428199 CACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTGTAACTTCAGGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTTGCAGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
82428264 AAGATCT
66 AAGATCT
82428271 GTAGAATCAG
Statistics
Matches: 179, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 179 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (133 bp):
CACTGCAACTTCAGGAAGACAAGATTTGCAGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
AAGATCTAAAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTG
ATT
Found at i:82429585 original size:17 final size:17
Alignment explanation
Indices: 82429556--82429590 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
82429546 CCTTAGCCTC
82429556 TCTTTTTTATTTTATTT
1 TCTTTTTTATTTTATTT
82429573 TCTTTCTTT-TTTTATTT
1 TCTTT-TTTATTTTATTT
82429590 T
1 T
82429591 TACCATCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (17 bp):
TCTTTTTTATTTTATTT
Found at i:82440811 original size:18 final size:18
Alignment explanation
Indices: 82440788--82440822 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
82440778 GTACCTGCTC
82440788 AACTCTAGCAACAGGCTT
1 AACTCTAGCAACAGGCTT
* *
82440806 AACTCTGGCAACTGGCT
1 AACTCTAGCAACAGGCT
82440823 CTGCCTCATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (18 bp):
AACTCTAGCAACAGGCTT
Found at i:82446443 original size:17 final size:18
Alignment explanation
Indices: 82446421--82446467 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
82446411 TAAAATTGTA
82446421 ATATTATATAATTTAT-C
1 ATATTATATAATTTATAC
*
82446438 ATATTAT-TAA-ATATAC
1 ATATTATATAATTTATAC
82446454 ATATTTATATAATT
1 ATA-TTATATAATT
82446468 ATTTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 11 0.46
18 3 0.12
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTATATAATTTATAC
Found at i:82446903 original size:37 final size:37
Alignment explanation
Indices: 82446852--82446926 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
82446842 TTTGTTCTTG
* * *
82446852 ACAGGGAATAACTCCTATTCATTTTTGTTTTTGCTCT
1 ACAGAGAATAACTCCTATTCATTTCTGTCTTTGCTCT
* *
82446889 ACAGAGAATCACTCCTGTTCATTTCTGTCTTTGCTCT
1 ACAGAGAATAACTCCTATTCATTTCTGTCTTTGCTCT
82446926 A
1 A
82446927 TAGGAAATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (37 bp):
ACAGAGAATAACTCCTATTCATTTCTGTCTTTGCTCT
Found at i:82450176 original size:17 final size:18
Alignment explanation
Indices: 82450154--82450188 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
82450144 AATAGAAATG
82450154 AAATTGG-AAAATTAATT
1 AAATTGGCAAAATTAATT
82450171 AAATTGGCTAAAATTAAT
1 AAATTGGC-AAAATTAAT
82450189 GAAAAGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATTGGCAAAATTAATT
Found at i:82451359 original size:153 final size:153
Alignment explanation
Indices: 82450988--82451411 Score: 640
Period size: 154 Copynumber: 2.8 Consensus size: 153
82450978 ACTCTATTTC
* * * *
82450988 GAAATAGTTAAAAAAAATAAAAATTTTGTTTTAAAATTTTAAACTTTTCTTTAAAATGACTTAAA
1 GAAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAAA
* *
82451053 AAAACATATTTTTATTTTTCAAAATCTAAACTTTCTCTCTCTTTT--AAAAAAAACACTATTTTT
66 AAAATAAATTTTTATTTTTCAAAATCTAAACTTTCTCTCT-TTTTAAAAAAAAAACACTATTTTT
*
82451116 CTTAAAGATTAAAGCTTTTATTTT
130 CTTAAAGATTAAAGCTTTTACTTT
* *
82451140 GAAGTAGTTGAAAAAAAAATCAAAACTTTGTTTTAAAATTTTAAAATTTCCTTTAAAATGACTAA
1 GAAATAGTT--AAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAA
*
82451205 AAAAAATAGATTTTTATTTTTCAAAATCTAAACTTTCTC-CTTTTTAAAAATAAAAACACTATTT
64 AAAAAATAAATTTTTATTTTTCAAAATCTAAACTTTCTCTCTTTTTAAAAA-AAAAACACTATTT
82451269 TTCTTAAAGATTAAAGCTTTTACTTT
128 TTCTTAAAGATTAAAGCTTTTACTTT
* *
82451295 GAAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAATTTTGAACTTTCCTTTAAAATAACTAAAA
1 GAAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAAA
* *
82451360 ATAAATAAATTTTTATTTGTT-AAAATCTAAAATTTCTCTTTTTTTAAAAAAA
66 A-AAATAAATTTTTATTT-TTCAAAATCTAAACTTTCTCTCTTTTTAAAAAAA
82451412 TAAAAAATTC
Statistics
Matches: 248, Mismatches: 16, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
152 12 0.05
153 56 0.23
154 122 0.49
155 58 0.23
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (153 bp):
GAAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAAA
AAAATAAATTTTTATTTTTCAAAATCTAAACTTTCTCTCTTTTTAAAAAAAAAACACTATTTTTC
TTAAAGATTAAAGCTTTTACTTT
Found at i:82454262 original size:43 final size:43
Alignment explanation
Indices: 82454200--82454411 Score: 193
Period size: 43 Copynumber: 5.0 Consensus size: 43
82454190 ATGTGACATT
* * *
82454200 GATATGTGATTACGAGTAAGACCACGTTTGGGACGTTGGCGTC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
82454243 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * * *
82454286 GATATGT-AGTTACGTGTAAGACCATGTCTAGGACATCGGTATC
1 GATATGTGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * **
82454329 G-TATTTGATT-CATGTAAGACC-CTGTCTGGGACAG-CAGCATC
1 GATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC
** * * *
82454370 GATATAAGA-TAGCATGTAAGACCACGTCTAGGACATTGGCAT
1 GATATGTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
82454412 TGTACGATAT
Statistics
Matches: 139, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
41 25 0.18
42 12 0.09
43 101 0.73
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:82454355 original size:41 final size:43
Alignment explanation
Indices: 82454300--82454405 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 43
82454290 TGTAGTTACG
* * * ** *
82454300 TGTAAGACCATGTCTAGGACATCGGTATCG-TATTTGAT-TCA
1 TGTAAGACCCTGTCTAGGACATCAGCATCGATATAAGATAGCA
* *
82454341 TGTAAGACCCTGTCTGGGACAGCAGCATCGATATAAGATAGCA
1 TGTAAGACCCTGTCTAGGACATCAGCATCGATATAAGATAGCA
82454384 TGTAAGACCAC-GTCTAGGACAT
1 TGTAAGACC-CTGTCTAGGACAT
82454406 TGGCATTGTA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 25 0.48
42 6 0.12
43 20 0.38
44 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (43 bp):
TGTAAGACCCTGTCTAGGACATCAGCATCGATATAAGATAGCA
Found at i:82457421 original size:26 final size:26
Alignment explanation
Indices: 82457392--82457444 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
82457382 TTTACAGTTT
*
82457392 TACCCCTAAGAGATAAATT-ACCGAAA
1 TACCCCTAAG-GATAAATTGACCCAAA
*
82457418 TACCCCTAAGGTTAAATTGACCCAAA
1 TACCCCTAAGGATAAATTGACCCAAA
82457444 T
1 T
82457445 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.23
Consensus pattern (26 bp):
TACCCCTAAGGATAAATTGACCCAAA
Found at i:82466836 original size:19 final size:19
Alignment explanation
Indices: 82466797--82466838 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
82466787 TCTAATTGAA
*
82466797 ATTTATTATTTATTATAAT
1 ATTTATTATTTATTAAAAT
82466816 ATTTATT-TTTATTAAATAT
1 ATTTATTATTTATTAAA-AT
82466835 ATTT
1 ATTT
82466839 GGATAGATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTATTATTTATTAAAAT
Found at i:82467583 original size:55 final size:54
Alignment explanation
Indices: 82467504--82467618 Score: 194
Period size: 55 Copynumber: 2.1 Consensus size: 54
82467494 TTTTTGTTGT
* * *
82467504 TTCTTTTTTTTTCTATATTTTCTATACTTGAGCTTTTTATAATATTTTGAAATA
1 TTCTTTTTTTTTCTATATTCTCTATACTTGAGATTTTTATAATATTCTGAAATA
82467558 TTCTTTTTCTTTTCTATATTCTCTATACTTGAGATTTTTATAATATTCTGAAATA
1 TTCTTTTT-TTTTCTATATTCTCTATACTTGAGATTTTTATAATATTCTGAAATA
82467613 TTCTTT
1 TTCTTT
82467619 CTCCTATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 8 0.14
55 49 0.86
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.60
Consensus pattern (54 bp):
TTCTTTTTTTTTCTATATTCTCTATACTTGAGATTTTTATAATATTCTGAAATA
Found at i:82475183 original size:37 final size:37
Alignment explanation
Indices: 82475131--82475215 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
82475121 TGTGAGTACG
* * * **
82475131 TGTAAGACCACAACTGGGCTATGGCATCGTAATGGCA
1 TGTAAGACCATAACTGAGATATGGCATCGTAATCCCA
* *
82475168 TGTAAGACCATAACTGAGATATGGCATTGTGATCCCA
1 TGTAAGACCATAACTGAGATATGGCATCGTAATCCCA
82475205 TGTAAGACCAT
1 TGTAAGACCAT
82475216 GTCTGGGACA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (37 bp):
TGTAAGACCATAACTGAGATATGGCATCGTAATCCCA
Found at i:82475255 original size:48 final size:48
Alignment explanation
Indices: 82475195--82475423 Score: 298
Period size: 48 Copynumber: 4.8 Consensus size: 48
82475185 GATATGGCAT
* *
82475195 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATA
1 TGTGATCACATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
82475243 TGTGATCACATGTAAGACCATGTTTGGGACATGGCATTAGCATCAATA
1 TGTGATCACATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
82475291 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCTATA
1 TGTGATCACATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
82475339 TGTGAT-ACCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
1 TGTGATCA-CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
** * * * *
82475387 TGTGATTTCGTTTAAGACTATGTTTGGGACATGGCAT
1 TGTGATCACATGTAAGACCATGTCTGGGACATGGCAT
82475424 CGATATGAGA
Statistics
Matches: 157, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
48 157 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (48 bp):
TGTGATCACATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:82477063 original size:40 final size:40
Alignment explanation
Indices: 82476993--82477086 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
82476983 CCAACTCCGT
* * *
82476993 CCAACCCAACACACC--ATGTGGGGATAAAATCGACCCAC
1 CCAACCCTACACACCAAATATGGGAATAAAATCGACCCAC
* *
82477031 CCATCCCTACACACCAAATATGGGAATAAAATCGACCCAT
1 CCAACCCTACACACCAAATATGGGAATAAAATCGACCCAC
*
82477071 CCAACCTTACACACCA
1 CCAACCCTACACACCA
82477087 TAAAGTACCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 13 0.28
40 34 0.72
ACGTcount: A:0.38, C:0.37, G:0.11, T:0.14
Consensus pattern (40 bp):
CCAACCCTACACACCAAATATGGGAATAAAATCGACCCAC
Found at i:82512888 original size:14 final size:14
Alignment explanation
Indices: 82512869--82512923 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
82512859 CTTAAAAACT
*
82512869 TGCGAACCCTTAAG
1 TGCGAACCCTTATG
*
82512883 TGCGAACCC-TACTTT
1 TGCGAACCCTTA--TG
82512898 TGCGAACCCTTATG
1 TGCGAACCCTTATG
*
82512912 TGCAAACCCTTA
1 TGCGAACCCTTA
82512924 GGTGTGAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.06
14 21 0.62
15 9 0.26
16 2 0.06
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (14 bp):
TGCGAACCCTTATG
Found at i:82517913 original size:39 final size:39
Alignment explanation
Indices: 82517870--82517948 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
82517860 GATTTCGTAA
*
82517870 GTGGTTTACCTCTAAGTCTCATTAGGAAGGATTCAGCGT
1 GTGGTTTACCTCTAAATCTCATTAGGAAGGATTCAGCGT
*
82517909 GTGGTTTACCTCTAAATCTCTTTAGGAAGGATTCAGCGT
1 GTGGTTTACCTCTAAATCTCATTAGGAAGGATTCAGCGT
82517948 G
1 G
82517949 GGTGATTGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (39 bp):
GTGGTTTACCTCTAAATCTCATTAGGAAGGATTCAGCGT
Found at i:82519792 original size:31 final size:30
Alignment explanation
Indices: 82519741--82519828 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 30
82519731 GTGAGACCCC
* **
82519741 TTGCATGTGAGACCACATAGGCGAACCCTCT
1 TTGCATGTGAAACCTTATAGGCGAACCCT-T
* *
82519772 TTGCATGTGAAACCTTATAGGC-TAGCCTT
1 TTGCATGTGAAACCTTATAGGCGAACCCTT
* * * *
82519801 TGGTATGCGAACCCTTATAGGCGAACCC
1 TTGCATGTGAAACCTTATAGGCGAACCC
82519829 CAATTGTGAA
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
29 19 0.42
30 7 0.16
31 19 0.42
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (30 bp):
TTGCATGTGAAACCTTATAGGCGAACCCTT
Found at i:82524368 original size:15 final size:16
Alignment explanation
Indices: 82524350--82524392 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
82524340 ACATATTGAA
*
82524350 TATTTTTATAT-TATT
1 TATTTTTATATATAAT
82524365 TATTTTTAATATAATAAT
1 TATTTTT-ATAT-ATAAT
82524383 TATTTTTATA
1 TATTTTTATA
82524393 CTTTTACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
17 3 0.12
18 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTATATATAAT
Found at i:82524951 original size:17 final size:17
Alignment explanation
Indices: 82524921--82524954 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
82524911 AATAATAATG
82524921 CTAATAAATTTAAAAAA
1 CTAATAAATTTAAAAAA
82524938 CTAA-AAATTATAAAAAA
1 CTAATAAATT-TAAAAAA
82524955 ATCTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
CTAATAAATTTAAAAAA
Found at i:82525497 original size:14 final size:16
Alignment explanation
Indices: 82525480--82525518 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
82525470 TAAAACATGT
82525480 AAAATA-ATTTT-TTA
1 AAAATATATTTTGTTA
*
82525494 AAAATATATTTTGTTT
1 AAAATATATTTTGTTA
82525510 AAAATATAT
1 AAAATATAT
82525519 ATATATAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AAAATATATTTTGTTA
Found at i:82526806 original size:21 final size:21
Alignment explanation
Indices: 82526781--82526849 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
82526771 CAAACATGGA
82526781 CGTGTGGCTACCCCACACGCC
1 CGTGTGGCTACCCCACACGCC
* *
82526802 CGTGTGGCTACCCCACATGCT
1 CGTGTGGCTACCCCACACGCC
* * * *
82526823 CATGTGGCTACTCTACACGTC
1 CGTGTGGCTACCCCACACGCC
82526844 CGTGTG
1 CGTGTG
82526850 CTCAGACCAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.14, C:0.38, G:0.25, T:0.23
Consensus pattern (21 bp):
CGTGTGGCTACCCCACACGCC
Found at i:82537379 original size:15 final size:17
Alignment explanation
Indices: 82537359--82537391 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
82537349 TCATACTCAC
82537359 AATAA-TAG-TTTTCAA
1 AATAATTAGATTTTCAA
82537374 AATAATTAGATTTTCAA
1 AATAATTAGATTTTCAA
82537391 A
1 A
82537392 CTTTCCCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 3 0.19
17 8 0.50
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AATAATTAGATTTTCAA
Found at i:82538099 original size:19 final size:18
Alignment explanation
Indices: 82538050--82538101 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
82538040 ACAAAGGTAG
82538050 CATATAATAATT-ATAATT
1 CATATAAT-ATTCATAATT
*
82538068 CATATACTATTCATAATT
1 CATATAATATTCATAATT
*
82538086 CATGTAAATATTCATA
1 CATAT-AATATTCATA
82538102 TATATATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 3 0.10
18 17 0.59
19 9 0.31
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (18 bp):
CATATAATATTCATAATT
Found at i:82541086 original size:3 final size:3
Alignment explanation
Indices: 82541078--82541118 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
82541068 ATCACATGTT
82541078 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
82541119 TGGATGCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:82545457 original size:3 final size:3
Alignment explanation
Indices: 82545449--82545489 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
82545439 ATCACATGTT
82545449 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
82545490 TGGATGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:82545571 original size:72 final size:72
Alignment explanation
Indices: 82545490--82545673 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
82545480 TATTATTATT
82545490 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
82545555 TTTTAAG
66 TTTTAAG
82545562 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
82545627 TTTTAAG
66 TTTTAAG
*
82545634 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
82545674 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:82548587 original size:22 final size:24
Alignment explanation
Indices: 82548534--82548589 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
82548524 TCTTCCAAAG
*
82548534 TTTTATTTCACTTTCATTTGTAGT
1 TTTTATTTCACTTTCATTTGTAAT
** *
82548558 TTAGATTTCTC-TT-ATTTGTAAT
1 TTTTATTTCACTTTCATTTGTAAT
82548580 TTTTATTTCA
1 TTTTATTTCA
82548590 GTTTTTATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
22 15 0.60
23 2 0.08
24 8 0.32
ACGTcount: A:0.20, C:0.11, G:0.07, T:0.62
Consensus pattern (24 bp):
TTTTATTTCACTTTCATTTGTAAT
Found at i:82567272 original size:28 final size:28
Alignment explanation
Indices: 82567240--82567295 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
82567230 AATAAAAGTT
*
82567240 AGCCAGATTCTTCAACAATTCATCTATA
1 AGCCAAATTCTTCAACAATTCATCTATA
82567268 AGCCAAATTCTTCAACAATTCATCTATA
1 AGCCAAATTCTTCAACAATTCATCTATA
82567296 CATCCTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (28 bp):
AGCCAAATTCTTCAACAATTCATCTATA
Found at i:82570913 original size:41 final size:41
Alignment explanation
Indices: 82570860--82570940 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
82570850 AAGCAGTTTA
* ** * *
82570860 GGCCTTAGCCCATTTCAGTTTCAGTATTAGATATGCATTAG
1 GGCCTTAGCCCATTACAGTAACAGTATCAGATATACATTAG
82570901 GGCCTTAGCCCATTACAGTAACAGTATCAGATATACATTA
1 GGCCTTAGCCCATTACAGTAACAGTATCAGATATACATTA
82570941 ATCAGTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (41 bp):
GGCCTTAGCCCATTACAGTAACAGTATCAGATATACATTAG
Found at i:82571519 original size:17 final size:19
Alignment explanation
Indices: 82571487--82571526 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
82571477 ATGTGGACTA
82571487 CCCATATGGACCCACAC-G
1 CCCATATGGACCCACACTG
*
82571505 CCCATGTGG-CCCACACTG
1 CCCATATGGACCCACACTG
82571523 CCCA
1 CCCA
82571527 GATCAGTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.23, C:0.47, G:0.17, T:0.12
Consensus pattern (19 bp):
CCCATATGGACCCACACTG
Found at i:82584826 original size:47 final size:47
Alignment explanation
Indices: 82584775--82585007 Score: 394
Period size: 47 Copynumber: 5.0 Consensus size: 47
82584765 TTAGGATTTT
82584775 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
82584822 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
82584869 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
82584916 ATGTGATGAACGTGAACATGCATATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
82584963 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
82585008 TAGTGTGAAA
Statistics
Matches: 174, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 174 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:82584828 original size:22 final size:22
Alignment explanation
Indices: 82584800--82584922 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
82584790 ACATGCATAT
82584800 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
82584822 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
*
82584846 TATGTGATAAGGCCGAATGGCCT
1 -ATGTGATAAGGCCGAATGGCCA
* * *
82584869 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
82584893 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
82584916 ATGTGAT
1 ATGTGAT
82584923 GAACGTGAAC
Statistics
Matches: 73, Mismatches: 14, Indels: 28
0.63 0.12 0.24
Matches are distributed among these distances:
22 23 0.32
23 17 0.23
24 17 0.23
25 16 0.22
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:82585228 original size:37 final size:37
Alignment explanation
Indices: 82585173--82585259 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 37
82585163 AATATATTCT
* * *
82585173 GGGTGAGACCCGATGACTATGTGTAGAGAGTATGTCC
1 GGGTAAGACCCGATGACTACGTATAGAGAGTATGTCC
* * *
82585210 GGGTAAGACCCGATGACTACGTATGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTATAGAGAGTATGTCC
82585247 GGGTAAGACCCGA
1 GGGTAAGACCCGA
82585260 AAACTTCGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.23
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTATAGAGAGTATGTCC
Found at i:82585274 original size:37 final size:37
Alignment explanation
Indices: 82585205--82585278 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
82585195 GTAGAGAGTA
**
82585205 TGTCCGGGTAAGACCCGATGACTACGTATGGAGATTT
1 TGTCCGGGTAAGACCCGAAAACTACGTATGGAGATTT
* *
82585242 TGTCCGGGTAAGACCCGAAAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGAAAACTACGTATGGAGATTT
82585279 CGTCTGAGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGAAAACTACGTATGGAGATTT
Found at i:82587355 original size:20 final size:21
Alignment explanation
Indices: 82587306--82587356 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
82587296 TTCTAGACGG
* *
82587306 AAAAAAAATTGTTTTGAAAAA
1 AAAAAAAATTGTTATCAAAAA
82587327 AATACAAAAATT-TTATCAAAAA
1 AA-A-AAAAATTGTTATCAAAAA
82587349 AAAAAAAA
1 AAAAAAAA
82587357 CACTTGTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 5 0.19
21 3 0.12
22 11 0.42
23 7 0.27
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAAAAAATTGTTATCAAAAA
Found at i:82587892 original size:19 final size:20
Alignment explanation
Indices: 82587870--82587913 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
82587860 TCAAAAACTC
* *
82587870 AAAATAATTCTTAAAATT-T
1 AAAATAATTATAAAAATTCT
*
82587889 AAAATATTTATAAAAATTCT
1 AAAATAATTATAAAAATTCT
82587909 AAAAT
1 AAAAT
82587914 TTATATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATAATTATAAAAATTCT
Found at i:82587935 original size:23 final size:24
Alignment explanation
Indices: 82587892--82587937 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
82587882 AAAATTTAAA
*
82587892 ATATTTATAAAAATTCTAAAATTT
1 ATATTTATAAAAATTCAAAAATTT
82587916 ATATTTA-AAAAATAT-AAAAATT
1 ATATTTATAAAAAT-TCAAAAATT
82587938 AAAAATTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATTTATAAAAATTCAAAAATTT
Found at i:82592043 original size:23 final size:23
Alignment explanation
Indices: 82592010--82592159 Score: 139
Period size: 23 Copynumber: 6.5 Consensus size: 23
82592000 TTTTTTACAA
* *
82592010 AGAATCCTCACTAGTTATTGTAG
1 AGAATCTTCACTAGTTATTGCAG
*
82592033 GGAATCTTCACT-GTTCATTGCAG
1 AGAATCTTCACTAGTT-ATTGCAG
* *
82592056 -GAAATCTTCACTACTTATTGCAC
1 AG-AATCTTCACTAGTTATTGCAG
* * *
82592079 AGAATCTTTAC-CGTTTATTGTAG
1 AGAATCTTCACTAG-TTATTGCAG
*
82592102 AGAATCTTCACT-GTTTATTGTAG
1 AGAATCTTCACTAG-TTATTGCAG
82592125 AGAATCTTCACTA-TTAATTGCAG
1 AGAATCTTCACTAGTT-ATTGCAG
82592148 AGAATCTTCACT
1 AGAATCTTCACT
82592160 GTTCGTCTTT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.06
23 98 0.92
24 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (23 bp):
AGAATCTTCACTAGTTATTGCAG
Found at i:82592131 original size:69 final size:69
Alignment explanation
Indices: 82592024--82592155 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 69
82592014 TCCTCACTAG
*
82592024 TTATTGTAGGGAATCTTCACTGTTCATTGCAGGAAATCTTCACTACTT-ATTGCACAGAATCTTT
1 TTATTGTAGAGAATCTTCACTGTTCATTGCAGGAAATCTTCACTA-TTAATTGCACAGAATCTTT
82592088 ACCGT
65 ACCGT
* * *
82592093 TTATTGTAGAGAATCTTCACTGTTTATTGTA-GAGAATCTTCACTATTAATTGCAGAGAATCTT
1 TTATTGTAGAGAATCTTCACTGTTCATTGCAGGA-AATCTTCACTATTAATTGCACAGAATCTT
82592156 CACTGTTCGT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
68 4 0.07
69 53 0.93
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (69 bp):
TTATTGTAGAGAATCTTCACTGTTCATTGCAGGAAATCTTCACTATTAATTGCACAGAATCTTTA
CCGT
Found at i:82592160 original size:46 final size:46
Alignment explanation
Indices: 82592010--82592162 Score: 166
Period size: 46 Copynumber: 3.3 Consensus size: 46
82592000 TTTTTTACAA
* * *
82592010 AGAATCCTCACTAG-TTATTGTAGGGAATCTTCACTGTTCATTGCAG
1 AGAATCTTCACT-GTTTATTGTAGAGAATCTTCACTGTTAATTGCAG
** * * * * * *
82592056 -GAAATCTTCACTACTTATTGCACAGAATCTTTACCGTTTATTGTAG
1 AG-AATCTTCACTGTTTATTGTAGAGAATCTTCACTGTTAATTGCAG
*
82592102 AGAATCTTCACTGTTTATTGTAGAGAATCTTCACTATTAATTGCAG
1 AGAATCTTCACTGTTTATTGTAGAGAATCTTCACTGTTAATTGCAG
82592148 AGAATCTTCACTGTT
1 AGAATCTTCACTGTT
82592163 CGTCTTTGTT
Statistics
Matches: 86, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
45 1 0.01
46 84 0.98
47 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (46 bp):
AGAATCTTCACTGTTTATTGTAGAGAATCTTCACTGTTAATTGCAG
Found at i:82599946 original size:14 final size:13
Alignment explanation
Indices: 82599910--82599947 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
82599900 AAATTTAAAT
82599910 CTAAATAATTATC
1 CTAAATAATTATC
*
82599923 CTTAATAATTATC
1 CTAAATAATTATC
82599936 CTAATATAATTA
1 CTAA-ATAATTA
82599948 AACATTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:82601256 original size:21 final size:20
Alignment explanation
Indices: 82601231--82601269 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
82601221 AATTATATGG
*
82601231 GCAACAACAACCAAAACAGAA
1 GCAACAACAA-AAAAACAGAA
82601252 GCAACAACAAAAAAACAG
1 GCAACAACAAAAAAACAG
82601270 CATCTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.26, G:0.10, T:0.00
Consensus pattern (20 bp):
GCAACAACAAAAAAACAGAA
Found at i:82603374 original size:21 final size:21
Alignment explanation
Indices: 82603356--82603397 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
82603346 TAATAAATGC
*
82603356 TTAAGATAAAATTATAAATAA
1 TTAAAATAAAATTATAAATAA
* *
82603377 TTAAAATAAAATAAAAAATAA
1 TTAAAATAAAATTATAAATAA
82603398 AGAGAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TTAAAATAAAATTATAAATAA
Found at i:82616076 original size:43 final size:42
Alignment explanation
Indices: 82616010--82616120 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
82616000 AACAAGTACA
* ** *
82616010 ATGCCGACGTCCCAGAC-GTGGTCTTACATGTAATTCA-ATATCG
1 ATGCCGATGTCCCAGACAG-GGTCTTACA-CAAAATCAGATA-CG
*
82616053 ATGCCGATGTCCCAAACAGGGTCTTACACAAAATCAGATACG
1 ATGCCGATGTCCCAGACAGGGTCTTACACAAAATCAGATACG
* *
82616095 ATGACGATGTCCCAGACATGGTCTTA
1 ATGCCGATGTCCCAGACAGGGTCTTA
82616121 TAAGTAAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 30 0.52
43 27 0.47
44 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACAGGGTCTTACACAAAATCAGATACG
Found at i:82619627 original size:14 final size:13
Alignment explanation
Indices: 82619591--82619628 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
82619581 AAATTTAAAT
82619591 CTAAATAATTATC
1 CTAAATAATTATC
*
82619604 CTTAATAATTATC
1 CTAAATAATTATC
82619617 CTAATATAATTA
1 CTAA-ATAATTA
82619629 AACATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:82621158 original size:36 final size:36
Alignment explanation
Indices: 82621079--82621197 Score: 123
Period size: 36 Copynumber: 3.3 Consensus size: 36
82621069 ATTCCAACCG
***
82621079 AAACACACCAGATGCTCAAAAGAGCTAATCCATGTG
1 AAACACACCAGATGCTCAAAAGAGCTAATCCATCCA
* *
82621115 AAGCACACCAGATGCTCAAAAGAGTTAATCCATCCA
1 AAACACACCAGATGCTCAAAAGAGCTAATCCATCCA
** * * *
82621151 AAACACACCA-ATGGCTCTGAAGAGCTAGTTCAACCGA
1 AAACACACCAGAT-GCTCAAAAGAGCTAATCCATCC-A
82621188 AAACACACCA
1 AAACACACCA
82621198 AAACAAGGAG
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
35 2 0.03
36 56 0.81
37 11 0.16
ACGTcount: A:0.42, C:0.28, G:0.15, T:0.15
Consensus pattern (36 bp):
AAACACACCAGATGCTCAAAAGAGCTAATCCATCCA
Found at i:82628212 original size:27 final size:27
Alignment explanation
Indices: 82628174--82628241 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
82628164 CCATTACAGA
*
82628174 TTCAGATATAGTTTAGGCTTTAGCCCG
1 TTCAGATATAGTTTAGGCCTTAGCCCG
82628201 TTCAGATATAGTTTAGGCCTTAGCCCG
1 TTCAGATATAGTTTAGGCCTTAGCCCG
*
82628228 TTCAGATACAGTTT
1 TTCAGATATAGTTT
82628242 CAGATATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (27 bp):
TTCAGATATAGTTTAGGCCTTAGCCCG
Found at i:82633624 original size:48 final size:48
Alignment explanation
Indices: 82633553--82633729 Score: 218
Period size: 48 Copynumber: 3.7 Consensus size: 48
82633543 AGTACCAATA
* * *
82633553 CCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCGTCGATG
1 CCATGTCCCAGACATGGTCTTACATG-AGCACACATATCATCGACGATG
*
82633601 CCATGTCCCAGACATGGTCTTACATTG-GCACACATATCATCGCCGATG
1 CCATGTCCCAGACATGGTCTTACA-TGAGCACACATATCATCGACGATG
* * * *
82633649 CCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATTGACGATA
1 CCATGTCCCAGACATGGTCTTACATGA-GCACACATATCATCGACGATG
82633697 CCATGTCCCAGACATGGTCTTACAT-AGGCACAC
1 CCATGTCCCAGACATGGTCTTACATGA-GCACAC
82633730 TTCTCGAATA
Statistics
Matches: 115, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
47 1 0.01
48 112 0.97
49 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACATGAGCACACATATCATCGACGATG
Found at i:82633717 original size:96 final size:96
Alignment explanation
Indices: 82633553--82633729 Score: 257
Period size: 96 Copynumber: 1.8 Consensus size: 96
82633543 AGTACCAATA
* * * * *
82633553 CCATGTCCCCGACATGGTCTTACATGAATCCACATATCATCGTCGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACATCAAGCCACATATCATCGACGATACCATGTCCCAGACATGG
*
82633618 TCTTACATTGGCACACATATCATCGCCGATG
66 TCTTACATAGGCACACATATCATCGCCGATG
* * *
82633649 CCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATTGACGATACCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACATCAAGC-CACATATCATCGACGATACCATGTCCCAGACATG
82633713 GTCTTACATAGGCACAC
65 GTCTTACATAGGCACAC
82633730 TTCTCGAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 2 0.03
96 69 0.97
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (96 bp):
CCATGTCCCAGACATGGTCTTACATCAAGCCACATATCATCGACGATACCATGTCCCAGACATGG
TCTTACATAGGCACACATATCATCGCCGATG
Found at i:82642370 original size:28 final size:28
Alignment explanation
Indices: 82642310--82642370 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
82642300 TGAAGTCGCA
* **
82642310 ACATTAAGTCTCTATTCCCATAGTTGTG
1 ACATTAAGCCTCTATTCCCATAGTCATG
* * *
82642338 GCATTAAGCCTCTGTTCTCATAGTCATG
1 ACATTAAGCCTCTATTCCCATAGTCATG
82642366 ACATT
1 ACATT
82642371 CCCATGTTGA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (28 bp):
ACATTAAGCCTCTATTCCCATAGTCATG
Found at i:82645324 original size:13 final size:14
Alignment explanation
Indices: 82645308--82645336 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
82645298 TTTTAAATAT
82645308 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
82645321 TTATAATGGTTTAA
1 TTATAATGGTTTAA
82645335 TT
1 TT
82645337 CGTCGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:82646191 original size:43 final size:43
Alignment explanation
Indices: 82646124--82646206 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
82646114 TAGTGGCGTT
* * * *
82646124 TTTTTTCACAAACGCTGCTTAAGAACAAT-ACTTTTAGCAGTGC
1 TTTTTTCAAAAACGCCGCTAAAGAAC-ATGACCTTTAGCAGTGC
*
82646167 TTTTTTCAAAAATGCCGCTAAAGAACATGACCTTTAGCAG
1 TTTTTTCAAAAACGCCGCTAAAGAACATGACCTTTAGCAG
82646207 CGTTTTCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.06
43 32 0.94
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (43 bp):
TTTTTTCAAAAACGCCGCTAAAGAACATGACCTTTAGCAGTGC
Found at i:82648830 original size:16 final size:17
Alignment explanation
Indices: 82648800--82648833 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
82648790 TTTAATCGAA
*
82648800 ATTTTTTTAATATTTTT
1 ATTTTTATAATATTTTT
82648817 ATTTTTATAA-ATTTTT
1 ATTTTTATAATATTTTT
82648833 A
1 A
82648834 AAATTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTATAATATTTTT
Found at i:82651090 original size:17 final size:17
Alignment explanation
Indices: 82651065--82651098 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
82651055 GGTTTAACTA
*
82651065 TTTAATTAATTTTTATT
1 TTTAATTAATTATTATT
*
82651082 TTTATTTAATTATTATT
1 TTTAATTAATTATTATT
82651099 GAATAAGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTAATTAATTATTATT
Found at i:82660957 original size:5 final size:5
Alignment explanation
Indices: 82660893--82660953 Score: 95
Period size: 5 Copynumber: 12.0 Consensus size: 5
82660883 TATCAAAAAG
*
82660893 TTGATA TTGGA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA
1 TTGA-A TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA
*
82660944 TTGAA CTGAA
1 TTGAA TTGAA
82660954 CTGATTAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 49 0.94
6 3 0.06
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.39
Consensus pattern (5 bp):
TTGAA
Found at i:82662369 original size:5 final size:5
Alignment explanation
Indices: 82662359--82662384 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
82662349 TTATATAATT
82662359 CGGGC CGGGC CGGGC CGGGC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGGC C
82662385 CAGGCCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:82673498 original size:16 final size:17
Alignment explanation
Indices: 82673468--82673500 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
82673458 TTCATAAGTA
82673468 TATATCAATTATTTCAT
1 TATATCAATTATTTCAT
82673485 TATATCAA-TATTTCAT
1 TATATCAATTATTTCAT
82673501 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATCAATTATTTCAT
Found at i:82673846 original size:46 final size:46
Alignment explanation
Indices: 82673781--82674053 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
82673771 TTATCTTTGA
* * * *
82673781 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
82673827 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * * **
82673873 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
82673919 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
82673965 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
82674011 CAGGTTG-CATGGTAACTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
82674054 ATCAGAGAGC
Statistics
Matches: 206, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
45 39 0.19
46 167 0.81
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:82674052 original size:21 final size:21
Alignment explanation
Indices: 82673982--82674052 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
82673972 CCATGGTATC
82673982 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
*
82674003 TTTCATATCA-GGTTGCATGGTA-AC-
1 TTTCA-ACCATGG-T-C-T--TACACA
82674027 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
82674048 TTTCA
1 TTTCA
82674053 TATCAGAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 13 0.33
22 5 0.13
23 5 0.13
24 8 0.21
25 2 0.05
26 2 0.05
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:82677004 original size:13 final size:13
Alignment explanation
Indices: 82676986--82677012 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
82676976 TATTTATTAA
82676986 TTTTCATATTTAC
1 TTTTCATATTTAC
82676999 TTTTCATATTTAC
1 TTTTCATATTTAC
82677012 T
1 T
82677013 CCAAACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTCATATTTAC
Found at i:82679988 original size:52 final size:52
Alignment explanation
Indices: 82679930--82680054 Score: 143
Period size: 52 Copynumber: 2.4 Consensus size: 52
82679920 CACGACACTC
* *
82679930 CAAAAAAATTTTGAATGAC-AAAGGGGTGCCGACCAT-GGGTTGTCCAAAACCCC
1 CAAAAAAATTTT-AAT-ACAAAAGGGGTGCCGACCATAAGG-TGTCCAAAACCCT
*
82679983 CAAAAAAA--TTAATACAAAAAAGGGGTGTCGACCATAAGGTGTCCAAAACCCT
1 CAAAAAAATTTTAATAC--AAAAGGGGTGCCGACCATAAGGTGTCCAAAACCCT
82680035 CAAAAAAATTTT-ATACAAAA
1 CAAAAAAATTTTAATACAAAA
82680055 AATGGGTGTC
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
49 2 0.03
50 3 0.05
51 6 0.10
52 36 0.57
53 14 0.22
54 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (52 bp):
CAAAAAAATTTTAATACAAAAGGGGTGCCGACCATAAGGTGTCCAAAACCCT
Found at i:82680041 original size:53 final size:52
Alignment explanation
Indices: 82679949--82680070 Score: 156
Period size: 53 Copynumber: 2.3 Consensus size: 52
82679939 TTTGAATGAC
* * *
82679949 AAAGGGGTGCCGACCATGGGTTGTCCAAAACCCCCAAAAAAATTAATACAAA
1 AAAGGGGTGTCGACCATAGGTTGTCCAAAACCCCAAAAAAAATTAATACAAA
* *
82680001 AAAGGGGTGTCGACCATAAGG-TGTCCAAAACCCTCAAAAAAATTTTATACAAA
1 AAAGGGGTGTCGACCAT-AGGTTGTCCAAAACCC-CAAAAAAAATTAATACAAA
* *
82680054 AAATGGGTGTCGGCCAT
1 AAAGGGGTGTCGACCAT
82680071 CTGTTTCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
52 28 0.46
53 33 0.54
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.19
Consensus pattern (52 bp):
AAAGGGGTGTCGACCATAGGTTGTCCAAAACCCCAAAAAAAATTAATACAAA
Found at i:82680055 original size:52 final size:52
Alignment explanation
Indices: 82679949--82680070 Score: 165
Period size: 52 Copynumber: 2.3 Consensus size: 52
82679939 TTTGAATGAC
* *
82679949 AAAGGGGTGCCGACCATGGGTTGTCCAAAACCCCCAAAAAAATTAATACAAA
1 AAAGGGGTGTCGACCATAGGTTGTCCAAAACCCCCAAAAAAATTAATACAAA
* *
82680001 AAAGGGGTGTCGACCATAAGG-TGTCCAAAACCCTCAAAAAAATTTTATACAAA
1 AAAGGGGTGTCGACCAT-AGGTTGTCCAAAACCCCCAAAAAAA-TTAATACAAA
* *
82680054 AAATGGGTGTCGGCCAT
1 AAAGGGGTGTCGACCAT
82680071 CTGTTTCAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
52 36 0.58
53 26 0.42
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.19
Consensus pattern (52 bp):
AAAGGGGTGTCGACCATAGGTTGTCCAAAACCCCCAAAAAAATTAATACAAA
Found at i:82680769 original size:21 final size:21
Alignment explanation
Indices: 82680744--82680783 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
82680734 TAACGAGACA
*
82680744 CTGATGTGGCAAGTTAACTAG
1 CTGATGTAGCAAGTTAACTAG
*
82680765 CTGATGTAGCCAGTTAACT
1 CTGATGTAGCAAGTTAACT
82680784 TGCCACGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (21 bp):
CTGATGTAGCAAGTTAACTAG
Found at i:82681828 original size:3 final size:3
Alignment explanation
Indices: 82681822--82681850 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
82681812 TTTTACAGTC
82681822 TCT TCT TCT TCT TCT TCT TCT TCT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
82681851 ATTATTAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:82682026 original size:30 final size:31
Alignment explanation
Indices: 82681973--82682041 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
82681963 ATTGTTAATC
*
82681973 AGTGATTGTTTTGTCACTTTTTTATAACGTT-
1 AGTGATTGTTTTGTCACTTTTTTA-AAAGTTG
*
82682004 AGTGATTGTTTTGTTA-TTTTTTAAAAGTTG
1 AGTGATTGTTTTGTCACTTTTTTAAAAGTTG
82682034 AGTGATTG
1 AGTGATTG
82682042 AAATAAAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 5 0.14
30 15 0.43
31 15 0.43
ACGTcount: A:0.22, C:0.04, G:0.20, T:0.54
Consensus pattern (31 bp):
AGTGATTGTTTTGTCACTTTTTTAAAAGTTG
Found at i:82682362 original size:18 final size:18
Alignment explanation
Indices: 82682339--82682376 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
82682329 GTAGCATTTA
82682339 TGGCAAAATTAAAACTGG
1 TGGCAAAATTAAAACTGG
82682357 TGGCAAAATTAAAACTGG
1 TGGCAAAATTAAAACTGG
82682375 TG
1 TG
82682377 ATGTGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (18 bp):
TGGCAAAATTAAAACTGG
Found at i:82686120 original size:30 final size:30
Alignment explanation
Indices: 82686086--82686146 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
82686076 TCCTTAACTC
82686086 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
82686116 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
82686146 A
1 A
82686147 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:82692325 original size:18 final size:19
Alignment explanation
Indices: 82692304--82692340 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
82692294 TTACAATATT
*
82692304 ATTAAAATTTA-TAAAAAA
1 ATTAAAATTAATTAAAAAA
82692322 ATTAAAATTAATTAAAAAA
1 ATTAAAATTAATTAAAAAA
82692341 CCATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTAAAATTAATTAAAAAA
Found at i:82692838 original size:18 final size:19
Alignment explanation
Indices: 82692817--82692852 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
82692807 TTAAAGAAAA
*
82692817 TTAATTTTTA-ATAATTTT
1 TTAAATTTTATATAATTTT
82692835 TTAAATTTTATATAATTT
1 TTAAATTTTATATAATTT
82692853 AGAAATGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTAAATTTTATATAATTTT
Found at i:82696607 original size:41 final size:41
Alignment explanation
Indices: 82696525--82696623 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 41
82696515 CGTGCAATAA
*
82696525 GTAAAGTAATAGCGGCGTTTTTCTCATAAAAGCCTCAAAAG
1 GTAAAGCAATAGCGGCGTTTTTCTCATAAAAGCCTCAAAAG
* * * * *
82696566 GTAAAGCAGTAGCGGTGTTTTTCTCATAAACG-TTGCTAAAG
1 GTAAAGCAATAGCGGCGTTTTTCTCATAAAAGCCT-CAAAAG
*
82696607 GTAAAGCAATATCGGCG
1 GTAAAGCAATAGCGGCG
82696624 CAAAATATCT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
40 1 0.02
41 47 0.98
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (41 bp):
GTAAAGCAATAGCGGCGTTTTTCTCATAAAAGCCTCAAAAG
Found at i:82696749 original size:21 final size:20
Alignment explanation
Indices: 82696723--82696765 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
82696713 CCTAAAATAA
*
82696723 TTTCCCCAAATCCCTTAGTTT
1 TTTCCCC-AATCCCTTAGATT
82696744 TTTCCCCAATCCCTTAGATT
1 TTTCCCCAATCCCTTAGATT
82696764 TT
1 TT
82696766 CCTTGAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.19, C:0.33, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTCCCCAATCCCTTAGATT
Found at i:82696756 original size:20 final size:22
Alignment explanation
Indices: 82696723--82696765 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
82696713 CCTAAAATAA
82696723 TTTCCCCAAATCCCTTAG-TTT
1 TTTCCCCAAATCCCTTAGATTT
82696744 TTTCCCC-AATCCCTTAGATTT
1 TTTCCCCAAATCCCTTAGATTT
82696765 T
1 T
82696766 CCTTGAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.19, C:0.33, G:0.05, T:0.44
Consensus pattern (22 bp):
TTTCCCCAAATCCCTTAGATTT
Found at i:82696835 original size:25 final size:25
Alignment explanation
Indices: 82696779--82696865 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
82696769 TGAATGTCTA
* * *
82696779 CTACATCGCCGTCAATAGTCCTCTC
1 CTACATCGTCGTCGATAGTCCTCTG
* *
82696804 CAACATCGTCGTTGATAGTCCTCTG
1 CTACATCGTCGTCGATAGTCCTCTG
* *
82696829 CTGCATC-ACTGTCGATAGTCCTCTG
1 CTACATCGTC-GTCGATAGTCCTCTG
*
82696854 CTCCATCGTCGT
1 CTACATCGTCGT
82696866 GTACGCTTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.31
Consensus pattern (25 bp):
CTACATCGTCGTCGATAGTCCTCTG
Found at i:82698809 original size:39 final size:39
Alignment explanation
Indices: 82698765--82698907 Score: 214
Period size: 39 Copynumber: 3.7 Consensus size: 39
82698755 TCATATTTAA
* * *
82698765 TCAGTAACAATCAGTTATTCAGTACAGTAATTTAGTCAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
* * *
82698804 TCAGTAACTATCAAATATTCAGTGCAGTAGTTTAGTTAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
* *
82698843 TCAATAACTATCAATTATTCAATACAGTAATTTAGTTAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
82698882 TCAGTAACTATCAATTATTCAGTACA
1 TCAGTAACTATCAATTATTCAGTACA
82698908 ATAGTTTACC
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 91 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (39 bp):
TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
Found at i:82698862 original size:18 final size:18
Alignment explanation
Indices: 82698839--82698902 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
82698829 AGTAGTTTAG
82698839 TTATTCAATAACTATCAA
1 TTATTCAATAACTATCAA
* * *
82698857 TTATTCAATACAGTAATTTAG
1 TTATTCAATA-ACT-A-TCAA
*
82698878 TTATTCAGTAACTATCAA
1 TTATTCAATAACTATCAA
82698896 TTATTCA
1 TTATTCA
82698903 GTACAATAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 3 0.08
21 11 0.31
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (18 bp):
TTATTCAATAACTATCAA
Found at i:82698903 original size:18 final size:18
Alignment explanation
Indices: 82698802--82698905 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
82698792 TAATTTAGTC
*
82698802 ATTCAGTAACTATCAAAT
1 ATTCAGTAACTATCAATT
* * * *
82698820 ATTCAGTGCAGTAGTTTAGTT
1 ATTCAGT-AACTA--TCAATT
*
82698841 ATTCAATAACTATCAATT
1 ATTCAGTAACTATCAATT
* * * *
82698859 ATTCAATACAGTAATTTAGTT
1 ATTCAGTA-ACT-A-TCAATT
82698880 ATTCAGTAACTATCAATT
1 ATTCAGTAACTATCAATT
82698898 ATTCAGTA
1 ATTCAGTA
82698906 CAATAGTTTA
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
18 31 0.49
19 6 0.10
20 6 0.10
21 20 0.32
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (18 bp):
ATTCAGTAACTATCAATT
Found at i:82700123 original size:30 final size:28
Alignment explanation
Indices: 82700070--82700131 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 28
82700060 ATTATTTAAT
82700070 TAATAAATATCTTTTACTTAATAATAAA
1 TAATAAATATCTTTTACTTAATAATAAA
*
82700098 TAATAAATATCTATTTACTTTAATAATAAG
1 TAATAAATATCT-TTTAC-TTAATAATAAA
82700128 TAAT
1 TAAT
82700132 TTAAATCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 5 0.16
30 14 0.45
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (28 bp):
TAATAAATATCTTTTACTTAATAATAAA
Found at i:82702479 original size:14 final size:13
Alignment explanation
Indices: 82702453--82702494 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
82702443 AAACCCTAAA
*
82702453 TTTTCTCCTTTCT
1 TTTTCTTCTTTCT
82702466 TTTTCTTTCTTTCT
1 TTTTC-TTCTTTCT
82702480 TTTTCTTCTTTCT
1 TTTTCTTCTTTCT
82702493 TT
1 TT
82702495 CCCCTGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTCTTTCT
Found at i:82702728 original size:15 final size:15
Alignment explanation
Indices: 82702708--82702736 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
82702698 ATACTTTAAT
82702708 TATAATATAATATAG
1 TATAATATAATATAG
82702723 TATAATATAATATA
1 TATAATATAATATA
82702737 CTAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TATAATATAATATAG
Found at i:82723375 original size:103 final size:104
Alignment explanation
Indices: 82723131--82723395 Score: 408
Period size: 103 Copynumber: 2.6 Consensus size: 104
82723121 GTTGTACATA
** *
82723131 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* ** *
82723196 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCTCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
82723235 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
82723299 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
82723338 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCAC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCAC
82723396 TAATAACGGT
Statistics
Matches: 147, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 81 0.55
104 66 0.45
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:82725096 original size:40 final size:40
Alignment explanation
Indices: 82725052--82725237 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
82725042 GCTCCTCGTT
*
82725052 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAATTCGCA
* *
82725092 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
* *
82725132 CAAATACCTTC-GGATCTTAGTCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAT-TCGCA
* * * * * *
82725172 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGGA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AATTCGCA
82725213 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
82725238 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 4 0.03
40 109 0.87
41 12 0.10
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
Found at i:82731811 original size:21 final size:22
Alignment explanation
Indices: 82731771--82731813 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
82731761 AATATTTAAA
*
82731771 AAATTAATTAAATATATTTTTT
1 AAATAAATTAAATATATTTTTT
*
82731793 AAATAAATTGAAT-TATTTTTT
1 AAATAAATTAAATATATTTTTT
82731814 TGAAAAGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
AAATAAATTAAATATATTTTTT
Found at i:82734041 original size:47 final size:45
Alignment explanation
Indices: 82733969--82734096 Score: 145
Period size: 47 Copynumber: 2.8 Consensus size: 45
82733959 TCCTTTGTGC
*
82733969 GCTAGTGTAATACATGTCTGGGACATGCATCGGCCACATT-ATG-AGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTGA-GAAGA
* *
82734015 GCTAGTGTAAGACCATGTTTGAGACATGGCATCGG-CATTGAGACTAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATTGAGA--AGA
82734063 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
82734097 TACAAGATGT
Statistics
Matches: 70, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
45 5 0.07
46 19 0.27
47 24 0.34
48 22 0.31
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGAAGA
Found at i:82734171 original size:92 final size:94
Alignment explanation
Indices: 82733972--82734181 Score: 243
Period size: 92 Copynumber: 2.3 Consensus size: 94
82733962 TTTGTGCGCT
* ** * **
82733972 AGTGTAATACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATGTTTGA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTATAAGACCATGCCTGA
*
82734037 GACATGGCATCGGCATTGAGACTAGAGCT
66 GACATGGCATCGGCATTGAGACTAGAGCC
* * * *
82734066 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTG-TC-AGTATAAGACCATGCCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTATAAGACCATGCCTGA
82734129 GACATGGCATC-G-ATTTGATGGA-T-GAGCC
66 GACATGGCATCGGCA-TTGA--GACTAGAGCC
82734157 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
82734182 GTATTGGCAT
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
90 1 0.01
91 18 0.18
92 42 0.42
93 3 0.03
94 37 0.37
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTATAAGACCATGCCTGA
GACATGGCATCGGCATTGAGACTAGAGCC
Found at i:82735218 original size:28 final size:28
Alignment explanation
Indices: 82735177--82735242 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
82735167 ATACGGCCTA
* *
82735177 GGACACGGGTGTGTCGTGGTCATGTGAG
1 GGACACGGGCGTGTCATGGTCATGTGAG
82735205 GGACACGGGCGTGTCATGGTCATGTGAG
1 GGACACGGGCGTGTCATGGTCATGTGAG
82735233 GGACACGGGC
1 GGACACGGGC
82735243 CATAGACAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.17, C:0.18, G:0.45, T:0.20
Consensus pattern (28 bp):
GGACACGGGCGTGTCATGGTCATGTGAG
Found at i:82737139 original size:40 final size:40
Alignment explanation
Indices: 82737084--82737281 Score: 315
Period size: 40 Copynumber: 5.0 Consensus size: 40
82737074 GGAAAAAAAA
* *
82737084 TATAACCAGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
82737124 TATAACTGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
82737164 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
82737204 TATAACCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * * *
82737244 TATAACTGGGTTAAGTCCCGAAAGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
82737282 GTTACATCCG
Statistics
Matches: 146, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:82737305 original size:120 final size:120
Alignment explanation
Indices: 82737084--82737307 Score: 313
Period size: 120 Copynumber: 1.9 Consensus size: 120
82737074 GGAAAAAAAA
* * *
82737084 TATAACCAGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTATAACTGGGTTAAGTCCCGAAGGC
1 TATAACCAGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTATAACTGGGTTAAGTCCCGAAAGC
* * ** *
82737149 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
66 ATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCGGGTTAT
* *
82737204 TATAACCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTATAACTGGGTTAAGTCCCGAAAGC
1 TATAACCAGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTATAACTGGGTTAAGTCCCGAAAGC
* * * * *
82737269 ATTTGTGCTGGTTGTTACATCCGAGCCAAATTCCGAAGG
66 ATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGG
82737308 TATTTATGTT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
120 89 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (120 bp):
TATAACCAGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTATAACTGGGTTAAGTCCCGAAAGC
ATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCGGGTTAT
Found at i:82745837 original size:49 final size:48
Alignment explanation
Indices: 82745533--82745895 Score: 215
Period size: 46 Copynumber: 7.7 Consensus size: 48
82745523 TTTGTGTGCT
* * * *
82745533 AGTGTAAGA-CATGTCTGGGACAT-GCAACGGCCAC-AT-TATAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATCGAT--GAGCC
* * * * *
82745579 AGTGTAAAACCATGTCTGGGACATGGCATCGACATTGA--GATGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATCGATG--AGCC
* * *
82745627 AGTGTATGA-CATGTCTGGGACAT-GTATCGACCTCGA--GATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATCGATG--AGCC
* * * *
82745673 AGTGTAAGA-CATGTTTGGGACAT-GTATCGG-CTACGA--GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATCGATGAGCC
* * * * *
82745717 AGTATAAGACCATGCCTGGGACATGGCATCGGCAC-GGATATG-TGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT-CGAT--GAGCC
* * **
82745767 AGTGTAAGACCATGTTTGGGACATGGCGTCGGCCTCGATTTCGAT-ATTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA--TCGATGAGCC
* * * *
82745816 AGTGTAAGACTATGTCTGGGACATGGCATC-GACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATCGATGAGCC
82745863 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
82745896 ATTATACCCT
Statistics
Matches: 250, Mismatches: 46, Indels: 40
0.74 0.14 0.12
Matches are distributed among these distances:
44 10 0.04
45 14 0.06
46 73 0.29
47 59 0.24
48 27 0.11
49 31 0.12
50 33 0.13
51 1 0.00
52 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATCGATGAGCC
Found at i:82749618 original size:21 final size:21
Alignment explanation
Indices: 82749589--82749635 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
82749579 CTCTCCACAT
*
82749589 GTGTGTGGCCTTCACACAGGC
1 GTGTATGGCCTTCACACAGGC
**
82749610 GTGTATGGCCTTCACATGGGC
1 GTGTATGGCCTTCACACAGGC
82749631 GTGTA
1 GTGTA
82749636 GACCCCCACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (21 bp):
GTGTATGGCCTTCACACAGGC
Found at i:82757286 original size:25 final size:25
Alignment explanation
Indices: 82757252--82757323 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
82757242 CAACTTATAC
*
82757252 CTTCTCAACTTCTTCAATTTCTATT
1 CTTCTAAACTTCTTCAATTTCTATT
* *
82757277 CTTTTGAACTTCTTCAATTTCTATT
1 CTTCTAAACTTCTTCAATTTCTATT
*
82757302 CTTCTAAACTTCTCCAATTTCT
1 CTTCTAAACTTCTTCAATTTCT
82757324 CTTGCTGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.21, C:0.26, G:0.01, T:0.51
Consensus pattern (25 bp):
CTTCTAAACTTCTTCAATTTCTATT
Found at i:82768193 original size:2 final size:2
Alignment explanation
Indices: 82768150--82768174 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
82768140 AGCTTATCTT
82768150 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
82768175 TATTTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82768661 original size:4 final size:4
Alignment explanation
Indices: 82768635--82768741 Score: 56
Period size: 4 Copynumber: 24.8 Consensus size: 4
82768625 TTAAAAAAAT
* * *
82768635 TAAA TGAA T-AA TAAA TGAA TAAA TAAAA CAAA TATACA TAACA TTAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA TA-A-A TAA-A -TAAA
* * *
82768683 TTCAAA TAAA TGAA CAAA TAAA TAAA CAAA TATAA TAGATA TAAA T-AA
1 -T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TA-A-A TAAA TAAA
82768731 TAAA TAAA TAA
1 TAAA TAAA TAA
82768742 GTATTAGGTA
Statistics
Matches: 82, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
3 6 0.07
4 47 0.57
5 17 0.21
6 12 0.15
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:82775617 original size:25 final size:25
Alignment explanation
Indices: 82775588--82775637 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
82775578 AATAATGATT
82775588 GATGAACTAAATATTTTACAAATGA
1 GATGAACTAAATATTTTACAAATGA
82775613 GATGAACTAAATATTTTACAAATGA
1 GATGAACTAAATATTTTACAAATGA
82775638 AGTTTTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (25 bp):
GATGAACTAAATATTTTACAAATGA
Found at i:82776223 original size:44 final size:44
Alignment explanation
Indices: 82776082--82776326 Score: 183
Period size: 44 Copynumber: 5.5 Consensus size: 44
82776072 CACCAATAGT
* *
82776082 AGATTTGGCATCTCTGTATTAGATAGAGAGCAGATCAAAGATAGC
1 AGATTTGGCATCTCTGTATTAGATAGAGAGCAGATCGAAGA-AGA
* * * * * * *
82776127 AGATCTAGCAT-TCGTGTGTTTACATCGA-AGCAGATCGAGGATGA
1 AGATTTGGCATCTC-TGT-ATTAGATAGAGAGCAGATCGAAGAAGA
* *
82776171 TAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAGAAGA
1 -AGATTTGGCATCTCTGTATTAGATAGAGAGCAGATCGAAGAAGA
* * * * *
82776216 AGATTTGGCGTCTCTGTGTT-GATGGATAGCAGATCGAAGAAAGC
1 AGATTTGGCATCTCTGTATTAGATAGAGAGCAGATCGAAG-AAGA
* * * * *
82776260 ACATCTAGTATCTCTGTATT-GACAGAGAGCAGATCGAAGATAGCA
1 AGATTTGGCATCTCTGTATTAGATAGAGAGCAGATCGAAGA-AG-A
* **
82776305 TGATTTGGTGTCTCTGTATTAG
1 AGATTTGGCATCTCTGTATTAG
82776327 GCGAGATGCA
Statistics
Matches: 153, Mismatches: 38, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
43 17 0.11
44 64 0.42
45 62 0.41
46 10 0.07
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (44 bp):
AGATTTGGCATCTCTGTATTAGATAGAGAGCAGATCGAAGAAGA
Found at i:82776310 original size:133 final size:133
Alignment explanation
Indices: 82776082--82776326 Score: 309
Period size: 133 Copynumber: 1.8 Consensus size: 133
82776072 CACCAATAGT
* * *
82776082 AGATTTGGCATCTCTGTATTAGATAGAGAGCAGATCAAAGATAGCAGATCTAGCATTCGTGTGTT
1 AGATTTGGCATCTCTGTATTAGATAGAGAGCAGATCAAAGAAAGCACATCTAGCATTCGTGTATT
* *
82776147 TACATCGAAGCAGATCGAGGATGATAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAG
66 GACA-CGAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAG
82776212 AAGA
130 AAGA
* * * * * *
82776216 AGATTTGGCGTCTCTGTGTT-GATGGATAGCAGATCGAAGAAAGCACATCTAGTATCTC-TGTAT
1 AGATTTGGCATCTCTGTATTAGATAGAGAGCAGATCAAAGAAAGCACATCTAGCAT-TCGTGTAT
*
82776279 TGACA-GAGAGCAGATCGAAGATAGCAT-GATTTGGTGTCTCTGTATTAG
65 TGACACGA-AGCAGATCGAAGAT-G-ATAGATTTGGCGTCTCTGTATTAG
82776327 GCGAGATGCA
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
131 2 0.02
132 13 0.14
133 58 0.61
134 22 0.23
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (133 bp):
AGATTTGGCATCTCTGTATTAGATAGAGAGCAGATCAAAGAAAGCACATCTAGCATTCGTGTATT
GACACGAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAGA
AGA
Found at i:82777845 original size:21 final size:22
Alignment explanation
Indices: 82777790--82777850 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
82777780 ATGTAAATAG
*
82777790 TATATATATTATTTATAAATTATC
1 TATATATATTGTTTAT--ATTATC
82777814 TATA-ATATTGTTTATATTAT-
1 TATATATATTGTTTATATTATC
*
82777834 TATATATTTTGTTTATA
1 TATATATATTGTTTATA
82777851 AATTTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 4 0.12
21 16 0.47
23 10 0.29
24 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (22 bp):
TATATATATTGTTTATATTATC
Found at i:82777872 original size:42 final size:43
Alignment explanation
Indices: 82777790--82777888 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 43
82777780 ATGTAAATAG
82777790 TATATATATTATTTATAAATTATCTATAATATTGTTTATATTAT
1 TATATATATTATTTATAAATTATCTATAATATTGTTTATATT-T
* * *
82777834 TATATATTTTGTTTATAAATT-T-TATTATA-TGTTATATATTT
1 TATATATATTATTTATAAATTATCTATAATATTGTT-TATATTT
82777875 TACTATATATTATT
1 TA-TATATATTATT
82777889 CCTTACATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
41 7 0.15
42 21 0.44
43 1 0.02
44 19 0.40
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (43 bp):
TATATATATTATTTATAAATTATCTATAATATTGTTTATATTT
Found at i:82777874 original size:19 final size:19
Alignment explanation
Indices: 82777846--82777887 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
82777836 TATATTTTGT
* *
82777846 TTATAAATTTTATTATATG
1 TTATAAATTTTACTATATA
*
82777865 TTATATATTTTACTATATA
1 TTATAAATTTTACTATATA
82777884 TTAT
1 TTAT
82777888 TCCTTACATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATAAATTTTACTATATA
Found at i:82778120 original size:15 final size:15
Alignment explanation
Indices: 82778100--82778180 Score: 56
Period size: 15 Copynumber: 5.1 Consensus size: 15
82778090 AATTTGTTTA
82778100 TTTATTTTTTTATTT
1 TTTATTTTTTTATTT
82778115 TTTATTTTTTGTATTGT
1 TTTATTTTTT-TATT-T
* * *
82778132 TTTAGTATGTTAATTT
1 TTTA-TTTTTTTATTT
**
82778148 TTT-TTATAAATTATTT
1 TTTATT-T-TTTTATTT
*
82778164 TTTATTTTTATATTT
1 TTTATTTTTTTATTT
82778179 TT
1 TT
82778181 ATATATTCGC
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
14 1 0.02
15 18 0.36
16 17 0.34
17 10 0.20
18 4 0.08
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTATTT
Found at i:82781028 original size:21 final size:21
Alignment explanation
Indices: 82780985--82781028 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
82780975 TACACTATAT
* ** *
82780985 TTTATATTTTTTTACTTAGAG
1 TTTAAATTTTTTTACAAAAAG
82781006 TTTAAATTTTTTTACAAAAAG
1 TTTAAATTTTTTTACAAAAAG
82781027 TT
1 TT
82781029 AACATTTGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTAAATTTTTTTACAAAAAG
Found at i:82781093 original size:22 final size:22
Alignment explanation
Indices: 82781043--82781093 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
82781033 TTTGTTACAT
* * *
82781043 TATAAATAAAAATTTTAAACTC
1 TATAAATAAAAATTATAAAATA
82781065 TATAAATAAAAAATTATAAAATA
1 TATAAAT-AAAAATTATAAAATA
82781088 TA-AAAT
1 TATAAAT
82781094 GAGTATGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
TATAAATAAAAATTATAAAATA
Found at i:82781121 original size:14 final size:15
Alignment explanation
Indices: 82781104--82781132 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82781094 GAGTATGGTA
82781104 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
82781118 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
82781133 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:82782144 original size:27 final size:26
Alignment explanation
Indices: 82782100--82782158 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
82782090 TGTAAATTTT
**
82782100 TTTAAAAAATTGGTCTTTTTTTATAATA
1 TTTAAAAAATTGACCTTTTTTTA-AA-A
82782128 TTTAAAAAA-TGACCTTTTTTTAAAA
1 TTTAAAAAATTGACCTTTTTTTAAAA
82782153 TTTAAA
1 TTTAAA
82782159 TATGGACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 7 0.24
26 2 0.07
27 11 0.38
28 9 0.31
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (26 bp):
TTTAAAAAATTGACCTTTTTTTAAAA
Found at i:82792574 original size:10 final size:10
Alignment explanation
Indices: 82792547--82792617 Score: 65
Period size: 10 Copynumber: 6.9 Consensus size: 10
82792537 TTAAATTCTA
82792547 AAAGATAAAT
1 AAAGATAAAT
*
82792557 ACAA-ATAATT
1 A-AAGATAAAT
*
82792567 AAAGATAATT
1 AAAGATAAAT
82792577 AAAGATAAAT
1 AAAGATAAAT
82792587 AAAGATAAA-
1 AAAGATAAAT
*
82792596 AGCTAGGATAAAT
1 A---AAGATAAAT
82792609 AAAGATAAA
1 AAAGATAAA
82792618 AGCTAAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
9 3 0.06
10 38 0.75
11 2 0.04
12 7 0.14
13 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.11, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:82792608 original size:22 final size:22
Alignment explanation
Indices: 82792580--82792622 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
82792570 GATAATTAAA
82792580 GATAAATAAAGATAAAAGCTAG
1 GATAAATAAAGATAAAAGCTAG
82792602 GATAAATAAAGATAAAAGCTA
1 GATAAATAAAGATAAAAGCTA
82792623 AAATTAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.60, C:0.05, G:0.16, T:0.19
Consensus pattern (22 bp):
GATAAATAAAGATAAAAGCTAG
Found at i:82792668 original size:14 final size:13
Alignment explanation
Indices: 82792632--82792669 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
82792622 AAAATTAAAT
82792632 CTAAATAATTATC
1 CTAAATAATTATC
*
82792645 CTTAATAATTATC
1 CTAAATAATTATC
82792658 CTAATATAATTA
1 CTAA-ATAATTA
82792670 GAATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:82794610 original size:3 final size:3
Alignment explanation
Indices: 82794602--82794650 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
82794592 CAAACAAAAT
82794602 ATA ATA AT- ATA ATA AT- ATA ATA AT- ATA ATAA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
*
82794644 AAA ATA A
1 ATA ATA A
82794651 AAATTGAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 8 0.21
3 28 0.72
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:82794612 original size:8 final size:8
Alignment explanation
Indices: 82794599--82794649 Score: 77
Period size: 8 Copynumber: 6.5 Consensus size: 8
82794589 ATCCAAACAA
82794599 AATATAAT
1 AATATAAT
82794607 AATATAAT
1 AATATAAT
82794615 AATATAAT
1 AATATAAT
82794623 AATATAAT
1 AATATAAT
82794631 AA-ATAAT
1 AATATAAT
* *
82794638 AAAATAAA
1 AATATAAT
82794646 AATA
1 AATA
82794650 AAAATTGAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
7 7 0.17
8 33 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
AATATAAT
Done.