Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 238 of 322
Found at i:79333506 original size:31 final size:31
Alignment explanation
Indices: 79333468--79333530 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
79333458 CCTATATTGT
*
79333468 AGTAAACATGTATCTGTTTTCTGTTTATTTG
1 AGTAAACATGTATCTGTTTTCTATTTATTTG
* *
79333499 AGTAAACATGTATTTTTTTTCTATTTATTTG
1 AGTAAACATGTATCTGTTTTCTATTTATTTG
79333530 A
1 A
79333531 ATAATGAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.08, G:0.13, T:0.54
Consensus pattern (31 bp):
AGTAAACATGTATCTGTTTTCTATTTATTTG
Found at i:79333523 original size:27 final size:32
Alignment explanation
Indices: 79333459--79333529 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
79333449 GGAATTATGC
79333459 CTATATTGTAGTAAACATGTATCTGTTTTCTGT
1 CTAT-TTGTAGTAAACATGTATCTGTTTTCTGT
* * * *
79333492 TTATTTG-AGTAAACATGTATTTTTTTTCTAT
1 CTATTTGTAGTAAACATGTATCTGTTTTCTGT
*
79333523 TTATTTG
1 CTATTTG
79333530 AATAATGAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 28 0.82
32 3 0.09
33 3 0.09
ACGTcount: A:0.24, C:0.08, G:0.13, T:0.55
Consensus pattern (32 bp):
CTATTTGTAGTAAACATGTATCTGTTTTCTGT
Found at i:79339971 original size:56 final size:55
Alignment explanation
Indices: 79339857--79340041 Score: 264
Period size: 56 Copynumber: 3.3 Consensus size: 55
79339847 TCGTAAACAC
* *
79339857 ATATCAGAATCACATATCGATGCCAACGTA-TGAATGTGGACTTACTCCCACACAT
1 ATATCA-AATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCCCACACAT
79339912 ATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCCCACACAT
1 ATATC-AAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCCCACACAT
* * * *
79339968 ATATCAGAATCACATATCGATGCCAGCGTATTAAACGTGGTCTTACTCGCACATAT
1 ATATCA-AATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCCCACACAT
*
79340024 ATATTAAAGTCACATATC
1 ATATCAAA-TCACATATC
79340042 TATTCCACAT
Statistics
Matches: 119, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
55 31 0.26
56 88 0.74
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (55 bp):
ATATCAAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCCCACACAT
Found at i:79352117 original size:27 final size:27
Alignment explanation
Indices: 79352087--79352138 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
79352077 GTTTATAAGT
*
79352087 TTTTAAAATTTATGTTTTAATGTGTGA
1 TTTTAAAATTTATATTTTAATGTGTGA
79352114 TTTTAAAATTTATATTTTAATGTGT
1 TTTTAAAATTTATATTTTAATGTGT
79352139 AAGGATTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (27 bp):
TTTTAAAATTTATATTTTAATGTGTGA
Found at i:79355421 original size:23 final size:24
Alignment explanation
Indices: 79355393--79355455 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
79355383 TTTATGTATT
*
79355393 ATATTATATATA-AT-TGTTTTTTC
1 ATATTATATATATATGTG-TTTTTA
79355416 ATATTATATATATATGTGTTTTTA
1 ATATTATATATATATGTGTTTTTA
*
79355440 ATATTATGTTATATAT
1 ATATTAT-ATATATAT
79355456 ATTATGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 12 0.34
24 14 0.40
25 9 0.26
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (24 bp):
ATATTATATATATATGTGTTTTTA
Found at i:79367877 original size:90 final size:86
Alignment explanation
Indices: 79367663--79368023 Score: 309
Period size: 86 Copynumber: 4.2 Consensus size: 86
79367653 TTTCTGTTTG
* * * *
79367663 TCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATGTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTATTGTCAATT
* * *
79367728 TCTGTCTTTAATTTCTACTTT
66 TCCGTCTTTAACTTATACTTT
* * *
79367749 TCCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACACTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTATTGTCAATT
*
79367814 TCCGT-TTTCCAACTTATGCTTT
66 TCCGTCTTT--AACTTATACTTT
* *
79367836 TCAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACACTGAGGTATTG-
1 TC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--GCACACTGAGGTATTGT
* *
79367900 ----TT-AG--TTTATA-TT-T--TTC
61 CAATTTCCGTCTTTA-ACTTATACTTT
** * *
79367916 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTATTGTCAATT
* * * *
79367981 TCTG-CTTTTCAATTTCTATTTT
66 TCCGTC-TTT-AACTTATACTTT
79368003 TCAAAATAATCAACTCATATT
1 TC-AAA-AATCAACTCATATT
79368024 TCGATTTACA
Statistics
Matches: 224, Mismatches: 28, Indels: 43
0.76 0.09 0.15
Matches are distributed among these distances:
75 15 0.07
77 38 0.17
80 4 0.02
81 1 0.00
82 1 0.00
83 7 0.03
84 4 0.02
85 7 0.03
86 63 0.28
87 15 0.07
88 3 0.01
89 14 0.06
90 37 0.17
92 15 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (86 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTATTGTCAATT
TCCGTCTTTAACTTATACTTT
Found at i:79367991 original size:75 final size:77
Alignment explanation
Indices: 79367827--79367992 Score: 230
Period size: 77 Copynumber: 2.2 Consensus size: 77
79367817 GTTTTCCAAC
* * *
79367827 TTATGCTTTTCAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACACTG
1 TTATGCTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTAGCACACTG
*
79367892 AGGTATTGTTAGT
65 AGGTATTGTTAAT
**
79367905 TTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-AGCACACTGA
1 TTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTAGCACACTGA
79367968 GGTATT-TTCAAT
66 GGTATTGTT-AAT
*
79367980 TTCTGCTTTTCAA
1 TTATGCTTTTCAA
79367993 TTTCTATTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
74 2 0.03
75 27 0.35
76 1 0.01
77 39 0.50
78 9 0.12
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (77 bp):
TTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTAGCACACTGA
GGTATTGTTAAT
Found at i:79368003 original size:14 final size:14
Alignment explanation
Indices: 79367972--79368006 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
79367962 CACTGAGGTA
*
79367972 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
*
79367986 TTTTCAATTTCTAT
1 TTTTCAATTTCTAC
79368000 TTTTCAA
1 TTTTCAA
79368007 AATAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:79370571 original size:93 final size:93
Alignment explanation
Indices: 79370403--79370574 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
79370393 CGCCCATAAG
* * * *
79370403 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCAGACTCAACTCA
* *
79370468 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
79370496 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCAGACTCAACTCA
79370561 ACGAGCTCGGATGC
66 ACGAGCTCGGATGC
79370575 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:79370590 original size:46 final size:46
Alignment explanation
Indices: 79370396--79370577 Score: 181
Period size: 46 Copynumber: 3.9 Consensus size: 46
79370386 TGTAACCCGC
* * * *
79370396 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACAT
* * * * * *
79370442 CCATGAGTGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-C---TCACAT
* * *
79370492 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACAT
*
79370535 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCA
79370578 ACCATCCTAG
Statistics
Matches: 109, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 66 0.61
47 28 0.26
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACAT
Found at i:79372752 original size:12 final size:12
Alignment explanation
Indices: 79372735--79372767 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
79372725 TATTATTTTG
79372735 TTCTTTTTCTTC
1 TTCTTTTTCTTC
*
79372747 TTCTTTTTGTTC
1 TTCTTTTTCTTC
79372759 TT-TTTTTCT
1 TTCTTTTTCT
79372768 ACTCATACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (12 bp):
TTCTTTTTCTTC
Found at i:79373534 original size:22 final size:22
Alignment explanation
Indices: 79373509--79373557 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
79373499 CCCGTATTTA
*
79373509 ATATACTTATGTATT-ATATTAT
1 ATATAATT-TGTATTCATATTAT
* *
79373531 ATATAATTTTTTTTCATATTAT
1 ATATAATTTGTATTCATATTAT
79373553 ATATA
1 ATATA
79373558 TATGTGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATAATTTGTATTCATATTAT
Found at i:79373550 original size:27 final size:26
Alignment explanation
Indices: 79373520--79373586 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 26
79373510 TATACTTATG
* * *
79373520 TATTATATTATATATAATTTTTTTTCA
1 TATTATATTATATAT-AGTGTTTTTAA
79373547 TATTATA-TATATAT-GTGTTTTTAA
1 TATTATATTATATATAGTGTTTTTAA
*
79373571 TATTATGTTATATATA
1 TATTATATTATATATA
79373587 TTATGTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 13 0.38
25 7 0.21
26 7 0.21
27 7 0.21
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (26 bp):
TATTATATTATATATAGTGTTTTTAA
Found at i:79377919 original size:28 final size:28
Alignment explanation
Indices: 79377879--79377935 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
79377869 CACCACAAAC
79377879 TTCTTATCGGATTCAGGCTGTATCAGAA
1 TTCTTATCGGATTCAGGCTGTATCAGAA
79377907 TTCTTATCGGATTCAGGCTGTATCAGAA
1 TTCTTATCGGATTCAGGCTGTATCAGAA
79377935 T
1 T
79377936 AGGAGCCTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (28 bp):
TTCTTATCGGATTCAGGCTGTATCAGAA
Found at i:79387261 original size:40 final size:40
Alignment explanation
Indices: 79387206--79387286 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
79387196 TTATGATCGA
*
79387206 ATTGTAACTTTTTGTAGTTAAGTGTTCAAAATAAAAATTT
1 ATTGTAACTTTTTGTAGTTAAGTGATCAAAATAAAAATTT
79387246 ATTGTAACTTTTTGTAGTTAAGTGATCAAAATAAAAATTT
1 ATTGTAACTTTTTGTAGTTAAGTGATCAAAATAAAAATTT
79387286 A
1 A
79387287 CTCATAGTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (40 bp):
ATTGTAACTTTTTGTAGTTAAGTGATCAAAATAAAAATTT
Found at i:79392131 original size:47 final size:47
Alignment explanation
Indices: 79392065--79392383 Score: 252
Period size: 47 Copynumber: 6.7 Consensus size: 47
79392055 TTGTTTGTGT
*
79392065 GCTAGTGT-AGAACATGTCTGGGACAT-GCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATTATGAGA
* * *
79392111 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAG--CATTGAGATCAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATT---ATGAGA
* *
79392159 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGA-GATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-AC-ATTATGAGA
* * *
79392204 TC-AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--AT-TATGAGA
* * * *
79392253 GCTAGTGCAAGACCATGTCTGGGACATGGCGTCGGC-CTTAGTTTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--A-TTATGAGA
* *
79392302 GTTAGTGTAAAACCATGT-TCGGGACATGGCATC-G-AC-TTGATGGATGA
1 GCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCACATT-AT-GA-GA
*
79392349 GCTAGTGTAAGACCATGTCTGGAACATGGCATCGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
79392384 TATTATACCC
Statistics
Matches: 218, Mismatches: 31, Indels: 46
0.74 0.11 0.16
Matches are distributed among these distances:
44 11 0.05
45 21 0.10
46 28 0.13
47 60 0.28
48 30 0.14
49 36 0.17
50 32 0.15
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTATGAGA
Found at i:79392254 original size:94 final size:94
Alignment explanation
Indices: 79392065--79392383 Score: 282
Period size: 94 Copynumber: 3.4 Consensus size: 94
79392055 TTGTTTGTGT
* * * *
79392065 GCTAGTGT-AGAACATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGA-TAT--GTGTCAGTGTAAGACCAT
* * * *
79392127 GTCTGGGACATGGCATCAGCATTGAGA--TCAGA
63 GTTTGGGACATGGCATC-GCA-CGATATGTGAGA
*
79392159 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGATATGTGTCAGTGTAAGACCATGTT
79392222 TGGGACATGGCATCGGCACGGATATGTGAGA
66 TGGGACATGGCATC-GCAC-GATATGTGAGA
* * * * * *
79392253 GCTAGTGCAAGACCATGTCTGGGACATGGCGTCGGCCTTA-GTTTTGATAGTTAGTGTAAAACCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-C-TACGATATG-T-GTCAGTGTAAGACCA
* *
79392317 TGTTCGGGACATGGCATCG-AC-TTGATG-GATGA
62 TGTTTGGGACATGGCATCGCACGAT-ATGTGA-GA
*
79392349 GCTAGTGTAAGACCATGTCTGGAACATGGCATCGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
79392384 TATTATACCC
Statistics
Matches: 191, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
92 38 0.20
94 49 0.26
95 21 0.11
96 43 0.23
97 6 0.03
98 4 0.02
99 30 0.16
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGATATGTGTCAGTGTAAGACCATGTT
TGGGACATGGCATCGCACGATATGTGAGA
Found at i:79392376 original size:96 final size:98
Alignment explanation
Indices: 79392206--79392383 Score: 247
Period size: 96 Copynumber: 1.8 Consensus size: 98
79392196 GAGATGTGTC
* *
79392206 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGATATGTGAGAGCTAGTGCAAGACCATGT
1 AGTGTAAAACCATGTTCGGGACATGGCATCGGCACGGA-ATGTGAGAGCTAGTGCAAGACCATGT
* *
79392271 CTGGGACATGGCGTCGGCCTTAGTTTTGATAGTT
65 CTGGAACATGGCATCGGCCTTAGTTTTGATAGTT
* *
79392305 AGTGTAAAACCATGTTCGGGACATGGCATC-G-ACTTG-ATG-GATGAGCTAGTGTAAGACCATG
1 AGTGTAAAACCATGTTCGGGACATGGCATCGGCAC-GGAATGTGA-GAGCTAGTGCAAGACCATG
79392366 TCTGGAACATGGCATCGG
64 TCTGGAACATGGCATCGG
79392384 TATTATACCC
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
95 2 0.03
96 37 0.52
97 2 0.03
98 2 0.03
99 28 0.39
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (98 bp):
AGTGTAAAACCATGTTCGGGACATGGCATCGGCACGGAATGTGAGAGCTAGTGCAAGACCATGTC
TGGAACATGGCATCGGCCTTAGTTTTGATAGTT
Found at i:79397723 original size:28 final size:28
Alignment explanation
Indices: 79397691--79397757 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
79397681 CCGTGTCTAT
* *
79397691 TGCCCATGTCCCTCACACGGCCATGACA
1 TGCCCGTGTCCCTCACACGGCAATGACA
*
79397719 TGCCCGTGTCCCTTACACGGCAATGACA
1 TGCCCGTGTCCCTCACACGGCAATGACA
*
79397747 CGCCCGTGTCC
1 TGCCCGTGTCC
79397758 TAGCCCGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.18, C:0.42, G:0.21, T:0.19
Consensus pattern (28 bp):
TGCCCGTGTCCCTCACACGGCAATGACA
Found at i:79400380 original size:48 final size:48
Alignment explanation
Indices: 79400302--79400676 Score: 456
Period size: 48 Copynumber: 7.9 Consensus size: 48
79400292 GGGAGTCTCA
* * *
79400302 CACCCTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATG-AAGTTCG
1 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTAA-CTCG
* **
79400350 CACCTGAAGTGCCGATATCATGGCTTGAAGCCAAATCAATGTAACTCG
1 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTAACTCG
*** * * * * *
79400398 CACTTAAAATGTCGATATCATGGCTCAAAGCCAAATCAATG-AAGTTCG
1 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTAA-CTCG
* *
79400446 CACCCGAAGTGCCGATATCATGACCCGAAGCC--A--AATGTAACTCA
1 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTAACTCG
** * *
79400490 CACTTGAAGTGCTGATATCATGGCCCGAAGCCAAATCAATGTAACACG
1 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTAACTCG
* * *
79400538 CACCCGAAGTGTCAATATCATGGCCCGAAGCCAAATCAATGTAACTCT
1 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTAACTCG
* **
79400586 CACCCGAAGTGTCGATATCATGGCCCGAAGCCAAATCAATGTAACTTA
1 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTAACTCG
79400634 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTA
1 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTA
79400677 TTCCCTAATG
Statistics
Matches: 280, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
44 34 0.12
45 2 0.01
46 2 0.01
47 2 0.01
48 238 0.85
49 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (48 bp):
CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTAACTCG
Found at i:79400619 original size:188 final size:188
Alignment explanation
Indices: 79400316--79400669 Score: 523
Period size: 188 Copynumber: 1.9 Consensus size: 188
79400306 CTAAGTGCCA
** * * **
79400316 ATATCATGGCCCGAAGCCAAATCAATGAAGTTCGCACCTGAAGTGCCGATATCATGGCTTGAAGC
1 ATATCATGGCCCGAAGCCAAATCAATGAAGCACGCACCCGAAGTGCCAATATCATGGCCCGAAGC
** * *
79400381 CAAATCAATGTAACTCGCACTTAAAATGTCGATATCATGGCTCAAAGCCAAATCAATG-AAGTTC
66 CAAATCAATGTAACTCGCACCCAAAATGTCGATATCATGGCCCAAAGCCAAATCAATGTAACTT-
*
79400445 GCACCCGAAGTGCCGATATCATGACCCGAAGCCAAATGTAACTCACACTTGAAGTGCTG
130 ACACCCGAAGTGCCGATATCATGACCCGAAGCCAAATGTAACTCACACTTGAAGTGCTG
*
79400504 ATATCATGGCCCGAAGCCAAATCAATGTAA-CACGCACCCGAAGTGTCAATATCATGGCCCGAAG
1 ATATCATGGCCCGAAGCCAAATCAATG-AAGCACGCACCCGAAGTGCCAATATCATGGCCCGAAG
* * * *
79400568 CCAAATCAATGTAACTCTCACCCGAAGTGTCGATATCATGGCCCGAAGCCAAATCAATGTAACTT
65 CCAAATCAATGTAACTCGCACCCAAAATGTCGATATCATGGCCCAAAGCCAAATCAATGTAACTT
*
79400633 ACACCCGAAGTGCCGATATCATGGCCCGAAGCCAAAT
130 ACACCCGAAGTGCCGATATCATGACCCGAAGCCAAAT
79400670 CAATGTATTC
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
188 141 0.96
189 6 0.04
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (188 bp):
ATATCATGGCCCGAAGCCAAATCAATGAAGCACGCACCCGAAGTGCCAATATCATGGCCCGAAGC
CAAATCAATGTAACTCGCACCCAAAATGTCGATATCATGGCCCAAAGCCAAATCAATGTAACTTA
CACCCGAAGTGCCGATATCATGACCCGAAGCCAAATGTAACTCACACTTGAAGTGCTG
Found at i:79401205 original size:29 final size:28
Alignment explanation
Indices: 79401137--79401209 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
79401127 CCCTAGTAGC
*
79401137 CCATATTTTCCATTTATTTCACATTTTAA
1 CCATATTTTCCA-TTATTTCACAATTTAA
*
79401166 CCACAAATTTTCCA-TATTTCACAATTTAA
1 -C-CATATTTTCCATTATTTCACAATTTAA
*
79401195 TCCATATTTTTCATT
1 -CCATATTTTCCATT
79401210 TTTACTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 9 0.25
29 16 0.44
30 1 0.03
31 10 0.28
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (28 bp):
CCATATTTTCCATTATTTCACAATTTAA
Found at i:79403066 original size:23 final size:23
Alignment explanation
Indices: 79403040--79403092 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
79403030 TTTTTTTTTA
*
79403040 ATTTCA-ATTAATTTTCTAATTTC
1 ATTTCATATTAA-TTTCAAATTTC
*
79403063 ATTTCATATTCATTTCAAATTTC
1 ATTTCATATTAATTTCAAATTTC
79403086 ATTTCAT
1 ATTTCAT
79403093 TTTATATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTCATATTAATTTCAAATTTC
Found at i:79403068 original size:5 final size:5
Alignment explanation
Indices: 79403058--79403189 Score: 77
Period size: 5 Copynumber: 24.2 Consensus size: 5
79403048 TAATTTTCTA
*
79403058 ATTTC ATTTC ATATTC ATTTC AAATTTC ATTTC ATTTT ATATTC ATTTCAC
1 ATTTC ATTTC AT-TTC ATTTC --ATTTC ATTTC ATTTC AT-TTC ATTT--C
* * * *
79403109 ATTTC ATTTC ATTTTT TTTTC ATTTC ATTTC AATTT- TTTCTC ATTTT
1 ATTTC ATTTC A-TTTC ATTTC ATTTC ATTTC -ATTTC ATT-TC ATTTC
* * *
79403156 ATTTGA ATTTC ATTTGA ATTTT ATTTC AATTTC A
1 ATTT-C ATTTC ATTT-C ATTTC ATTTC -ATTTC A
79403190 CTTATTTTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
4 2 0.02
5 57 0.57
6 31 0.31
7 10 0.10
ACGTcount: A:0.24, C:0.14, G:0.02, T:0.60
Consensus pattern (5 bp):
ATTTC
Found at i:79403079 original size:16 final size:15
Alignment explanation
Indices: 79403058--79403189 Score: 77
Period size: 16 Copynumber: 8.1 Consensus size: 15
79403048 TAATTTTCTA
79403058 ATTTCATTTCATATTC
1 ATTTCATTTCAT-TTC
79403074 ATTTCAAATTTCATTTC
1 ATTTC--ATTTCATTTC
*
79403091 ATTTTATATTCATTTCAC
1 ATTTCAT-TTCATTT--C
*
79403109 ATTTCATTTCATTTTT
1 ATTTCATTTCA-TTTC
*
79403125 TTTTCATTTCATTTC
1 ATTTCATTTCATTTC
* *
79403140 AATTT-TTTCTCATTTT
1 -ATTTCATT-TCATTTC
* *
79403156 ATTTGAATTTCATTTGA
1 ATTT-CATTTCATTT-C
*
79403173 ATTTTATTTCAATTTC
1 ATTTCATTTC-ATTTC
79403189 A
1 A
79403190 CTTATTTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
15 11 0.12
16 43 0.47
17 21 0.23
18 17 0.18
ACGTcount: A:0.24, C:0.14, G:0.02, T:0.60
Consensus pattern (15 bp):
ATTTCATTTCATTTC
Found at i:79403123 original size:28 final size:28
Alignment explanation
Indices: 79403058--79403135 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
79403048 TAATTTTCTA
*
79403058 ATTTCATTTCATATTCATTTCAAATTTC
1 ATTTCATTTTATATTCATTTCAAATTTC
*
79403086 ATTTCATTTTATATTCATTTCACATTTC
1 ATTTCATTTTATATTCATTTCAAATTTC
* *
79403114 ATTTCATTTTTTTTTCATTTCA
1 ATTTCATTTTATATTCATTTCA
79403136 TTTCAATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTCATTTTATATTCATTTCAAATTTC
Found at i:79403144 original size:11 final size:11
Alignment explanation
Indices: 79403052--79403189 Score: 86
Period size: 11 Copynumber: 12.0 Consensus size: 11
79403042 TTCAATTAAT
79403052 TTTCTAATTTCA
1 TTTC-AATTTCA
79403064 TTTC-ATATTCA
1 TTTCAAT-TTCA
79403075 TTTCAAATTTCA
1 TTTC-AATTTCA
79403087 TTTCATTTTATATTCA
1 TTTCA----AT-TTCA
79403103 TTTCACATTTCA
1 TTTCA-ATTTCA
* **
79403115 TTTCATTTTTT
1 TTTCAATTTCA
79403126 TTTC-ATTTCA
1 TTTCAATTTCA
79403136 TTTCAATTT--
1 TTTCAATTTCA
* *
79403145 TTTCTCATTTTA
1 TTTC-AATTTCA
*
79403157 TTTGAATTTCA
1 TTTCAATTTCA
* *
79403168 TTTGAATTTTA
1 TTTCAATTTCA
79403179 TTTCAATTTCA
1 TTTCAATTTCA
79403190 CTTATTTTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 25
0.72 0.10 0.18
Matches are distributed among these distances:
9 4 0.04
10 13 0.13
11 44 0.44
12 24 0.24
13 4 0.04
15 2 0.02
16 9 0.09
ACGTcount: A:0.24, C:0.14, G:0.01, T:0.60
Consensus pattern (11 bp):
TTTCAATTTCA
Found at i:79403164 original size:21 final size:21
Alignment explanation
Indices: 79403084--79403165 Score: 83
Period size: 21 Copynumber: 3.8 Consensus size: 21
79403074 ATTTCAAATT
* *
79403084 TCATTTCATTTTATATTCATTTC
1 TCATTTCATTTCA-ATT-TTTTC
* * *
79403107 ACATTTCATTTCATTTTTTTT
1 TCATTTCATTTCAATTTTTTC
79403128 TCATTTCATTTCAATTTTTTC
1 TCATTTCATTTCAATTTTTTC
* *
79403149 TCATTTTATTTGAATTT
1 TCATTTCATTTCAATTT
79403166 CATTTGAATT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
21 36 0.73
22 2 0.04
23 11 0.22
ACGTcount: A:0.21, C:0.15, G:0.01, T:0.63
Consensus pattern (21 bp):
TCATTTCATTTCAATTTTTTC
Found at i:79403166 original size:32 final size:31
Alignment explanation
Indices: 79403082--79403183 Score: 89
Period size: 32 Copynumber: 3.2 Consensus size: 31
79403072 TCATTTCAAA
* * *
79403082 TTTCATTTCATTT-TATATTCATTTCACATTTCA
1 TTTCATTTTATTTGAAT-TTCATTTCA-ATTT-T
* **
79403115 TTTCATTTTTTTTTCATTTCATTTCAATTTT
1 TTTCATTTTATTTGAATTTCATTTCAATTTT
*
79403146 TTCTCATTTTATTTGAATTTCATTTGAATTTT
1 TT-TCATTTTATTTGAATTTCATTTCAATTTT
79403178 ATTTCA
1 -TTTCA
79403184 ATTTCACTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
31 2 0.03
32 32 0.55
33 22 0.38
34 2 0.03
ACGTcount: A:0.22, C:0.14, G:0.02, T:0.63
Consensus pattern (31 bp):
TTTCATTTTATTTGAATTTCATTTCAATTTT
Found at i:79403248 original size:17 final size:16
Alignment explanation
Indices: 79403210--79403242 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
79403200 TAGTTAAAAC
79403210 TTTATTTTTTTCTCAT
1 TTTATTTTTTTCTCAT
79403226 TTTATTTTTTT-TCAT
1 TTTATTTTTTTCTCAT
79403241 TT
1 TT
79403243 CATATTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTTTTTCTCAT
Found at i:79403362 original size:34 final size:37
Alignment explanation
Indices: 79403284--79403371 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 37
79403274 TTTTTTTCTC
*
79403284 ATTTTATTTTAATTTCAAATTTTTTTCTTCTTCAATTAA
1 ATTTCATTTTAATTTCAAATTTTTTTCTTCTT--ATTAA
79403323 ATTTCATTTT-ATTT-AAATTTTTTTC-TCATT-TTAA
1 ATTTCATTTTAATTTCAAATTTTTTTCTTC-TTATTAA
*
79403357 ATTTCATTTAAATTT
1 ATTTCATTTTAATTT
79403372 TTTTAAATCA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
34 13 0.29
35 4 0.09
36 2 0.04
37 13 0.29
38 4 0.09
39 9 0.20
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (37 bp):
ATTTCATTTTAATTTCAAATTTTTTTCTTCTTATTAA
Found at i:79404074 original size:22 final size:22
Alignment explanation
Indices: 79404034--79404096 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 22
79404024 TTATATTTTT
79404034 ATTTCAATTTCTATT-CAATTTGA
1 ATTTC-ATTTC-ATTCCAATTTGA
*
79404057 ATTTCATTTCATTCCAATTTTA
1 ATTTCATTTCATTCCAATTTGA
79404079 ATTTCATTTCATTCCAAT
1 ATTTCATTTCATTCCAAT
79404097 AAAAAAGTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 3 0.08
22 30 0.79
23 5 0.13
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTTCATTTCATTCCAATTTGA
Found at i:79404140 original size:11 final size:11
Alignment explanation
Indices: 79404124--79404181 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
79404114 TTTTTAAATA
79404124 TAATTTCATTT
1 TAATTTCATTT
79404135 TAATTTCA-TT
1 TAATTTCATTT
*
79404145 TCATTTCCATTT
1 TAATTT-CATTT
*
79404157 TCATTTTCATTT
1 T-AATTTCATTT
*
79404169 TCATTTCACTTT
1 TAATTTCA-TTT
79404181 T
1 T
79404182 TACTTTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 7 0.18
11 15 0.39
12 13 0.34
13 3 0.08
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (11 bp):
TAATTTCATTT
Found at i:79404155 original size:6 final size:6
Alignment explanation
Indices: 79404127--79404174 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
79404117 TTAAATATAA
* *
79404127 TTTCAT TTT-AA TTTCA- TTTCAT TTCCAT TTTCAT TTTCAT TTTCAT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
79404173 TT
1 TT
79404175 CACTTTTTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 9 0.24
6 28 0.76
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTCAT
Found at i:79404160 original size:12 final size:11
Alignment explanation
Indices: 79404126--79404181 Score: 69
Period size: 12 Copynumber: 4.9 Consensus size: 11
79404116 TTTAAATATA
*
79404126 ATTTCATTTTA
1 ATTTCATTTTC
79404137 ATTTCA-TTTC
1 ATTTCATTTTC
79404147 ATTTCCATTTTC
1 ATTT-CATTTTC
79404159 ATTTTCATTTTC
1 A-TTTCATTTTC
79404171 ATTTCACTTTT
1 ATTTCA-TTTT
79404182 TACTTTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
10 7 0.17
11 13 0.32
12 17 0.43
13 3 0.08
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTCATTTTC
Found at i:79404319 original size:27 final size:28
Alignment explanation
Indices: 79404289--79404352 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
79404279 TGTATTAATT
79404289 AATATATTTA-ATCAATTGTATAATTTG
1 AATATATTTATATCAATTGTATAATTTG
** * *
79404316 AATA-AAGTATGTCATTTGTATAATTTG
1 AATATATTTATATCAATTGTATAATTTG
*
79404343 TATATATTTA
1 AATATATTTA
79404353 CAACGTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
26 3 0.11
27 22 0.79
28 3 0.11
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (28 bp):
AATATATTTATATCAATTGTATAATTTG
Found at i:79408218 original size:45 final size:45
Alignment explanation
Indices: 79408149--79408237 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
79408139 TATTCACTAT
* *
79408149 TTAATTCCATTCCTACTATTTTTAGTGATTTTTTACATCCACATC
1 TTAATTCCATTCCTACTATGTTTAGTGATTTTTCACATCCACATC
*
79408194 TTAATTCCATTCCTATTATGTTTAGTGATTTTTCACATCCACAT
1 TTAATTCCATTCCTACTATGTTTAGTGATTTTTCACATCCACAT
79408238 TGCTGCTGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.06, T:0.48
Consensus pattern (45 bp):
TTAATTCCATTCCTACTATGTTTAGTGATTTTTCACATCCACATC
Found at i:79416517 original size:39 final size:40
Alignment explanation
Indices: 79416472--79416639 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
79416462 CGGGGTTTAG
* * *
79416472 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
79416511 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
79416551 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
79416591 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
79416632 CCGGATAT
1 CCGGATAT
79416640 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:79416622 original size:41 final size:40
Alignment explanation
Indices: 79416495--79416639 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
79416485 CTCGCACAAG
* * * * *
79416495 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
79416535 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
79416575 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
79416616 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
79416640 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:79421623 original size:46 final size:46
Alignment explanation
Indices: 79421570--79421742 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
79421560 TGGTTGAGCA
*
79421570 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * * *
79421616 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
79421661 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
79421709 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
79421743 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:79421726 original size:93 final size:93
Alignment explanation
Indices: 79421567--79421737 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
79421557 GGATGGTTGA
* * * * *
79421567 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
79421632 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
79421660 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
79421725 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
79421738 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:79427452 original size:5 final size:5
Alignment explanation
Indices: 79427442--79427469 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
79427432 TGATATCATC
79427442 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
79427470 TGGTCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:79447614 original size:27 final size:27
Alignment explanation
Indices: 79447581--79447637 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
79447571 TGGCAGAGGG
79447581 TGGTTGACCAATTCAATTTGGTAGTCC
1 TGGTTGACCAATTCAATTTGGTAGTCC
79447608 TGGTTGACCAATTCAATTTGGTAGTCC
1 TGGTTGACCAATTCAATTTGGTAGTCC
79447635 TGG
1 TGG
79447638 GTTGTCTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (27 bp):
TGGTTGACCAATTCAATTTGGTAGTCC
Found at i:79450633 original size:17 final size:18
Alignment explanation
Indices: 79450608--79450643 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
79450598 CAATTTGGGC
*
79450608 CGTGTGGGC-CACACGGG
1 CGTGAGGGCTCACACGGG
79450625 CGTGAGGGCTCACACGGG
1 CGTGAGGGCTCACACGGG
79450643 C
1 C
79450644 AGGCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.14, C:0.31, G:0.44, T:0.11
Consensus pattern (18 bp):
CGTGAGGGCTCACACGGG
Found at i:79459750 original size:13 final size:13
Alignment explanation
Indices: 79459732--79459756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79459722 TAATGGTATA
79459732 TTGAATCCATGAC
1 TTGAATCCATGAC
79459745 TTGAATCCATGA
1 TTGAATCCATGA
79459757 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:79460337 original size:27 final size:27
Alignment explanation
Indices: 79460302--79460480 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
79460292 TTAAATTGTA
79460302 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
79460329 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
79460356 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
79460383 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
79460411 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
79460438 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
79460465 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
79460481 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:79460418 original size:82 final size:81
Alignment explanation
Indices: 79460304--79460459 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
79460294 AAATTGTATA
* *
79460304 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
79460368 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
79460385 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
79460450 TGCGAGTTGA
65 TGCGAATTGA
79460460 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79460471 original size:82 final size:81
Alignment explanation
Indices: 79460300--79460480 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
79460290 GATTAAATTG
* *
79460300 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
79460365 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
79460381 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
79460445 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
79460463 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
79460481 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:79462891 original size:46 final size:45
Alignment explanation
Indices: 79462841--79463016 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
79462831 TGGTTGAGCA
*
79462841 TCCGAACTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
79462887 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
79462932 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
79462980 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
79463017 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:79462997 original size:93 final size:93
Alignment explanation
Indices: 79462838--79463009 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
79462828 GGATGGTTGA
* * *
79462838 GCATCCGAACTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
79462903 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
79462931 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
79462996 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
79463010 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:79470473 original size:46 final size:46
Alignment explanation
Indices: 79470419--79470594 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
79470409 TGGTTGAGCA
79470419 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
79470465 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
79470510 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
79470558 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
79470595 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 28 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:79470575 original size:93 final size:93
Alignment explanation
Indices: 79470416--79470587 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
79470406 GGATGGTTGA
* * *
79470416 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACGCCCAAACTCGTTGAGT
79470481 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
79470509 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACGCCCAAACTCGTTGAGT
79470574 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
79470588 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:79473246 original size:16 final size:16
Alignment explanation
Indices: 79473221--79473253 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
79473211 ATGTAATTTT
79473221 AAGTATTAT-ATCAAA
1 AAGTATTATAATCAAA
79473236 AAGTAATTATAATCAAA
1 AAGT-ATTATAATCAAA
79473253 A
1 A
79473254 TTTATATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 5 0.31
17 7 0.44
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (16 bp):
AAGTATTATAATCAAA
Found at i:79475637 original size:37 final size:37
Alignment explanation
Indices: 79475577--79475654 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
79475567 TATTACGAAG
* * *
79475577 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGA
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
* *
79475614 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
79475651 TCTT
1 TCTT
79475655 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
Found at i:79475851 original size:47 final size:47
Alignment explanation
Indices: 79475773--79476071 Score: 490
Period size: 47 Copynumber: 6.3 Consensus size: 47
79475763 CCCTTCGGGA
* * * * * *
79475773 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79475820 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79475867 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79475914 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79475961 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79476008 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79476057 CTTATCACATATATA
1 CTTATCACATATATA
79476072 TACNNNNNNN
Statistics
Matches: 239, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 192 0.80
49 47 0.20
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:79486835 original size:368 final size:368
Alignment explanation
Indices: 79486158--79486836 Score: 1232
Period size: 368 Copynumber: 1.8 Consensus size: 368
79486148 CAAGACATAT
*
79486158 AACTTTCAAACACTACAAAGTGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACAATTTAAAAGAT
1 AACTTTCAAACACTACAAAGGGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACAATTTAAAAGAT
*
79486223 TTTCGATAAAGTACTATAAAAGCCGAAAAAAATTCAAAAATTGTTTGGGTCCTAATTGAAAAATA
66 TTTCGATAAAGTACTATAAAAGCCGAAAAAAATTCAAAAATTGATTGGGTCCTAATTGAAAAATA
* * *
79486288 CACTCAATTAGATGTAAAATTTTATTATTAAATTTGACATAAACGCCGTTGGTCCCTCCTGCTAA
131 CACTCAAGTAGATGTAAAATTTAATTATTAAATTTGACATAAACGCCGTTGATCCCTCCTGCTAA
*
79486353 TCACAAAATAGAGGAAACGCTAACTTTCTCAAATCTCACAATAATGAAGCACATCATCAACAACA
196 TCACAAAATAGAGGAAACGCTAACTTTCTCAAATCTCACAACAATGAAGCACATCATCAACAACA
79486418 AATGACAAGATTTGTCAGTTTCAAGACATATAACTTTCAAACACTACAAAGTTGTGTTCATTTTC
261 AATGACAAGATTTGTCAGTTTCAAGACATATAACTTTCAAACACTACAAAGTTGTGTTCATTTTC
79486483 AAAATTCAAGTCGATTCCCGTTTTTCAAAAAAATGGTTACGAC
326 AAAATTCAAGTCGATTCCCGTTTTTCAAAAAAATGGTTACGAC
79486526 AACTTTCAAACACTACAAAGGGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACAATTTAAAAGAT
1 AACTTTCAAACACTACAAAGGGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACAATTTAAAAGAT
**
79486591 TTTCGATAAAGTACTATAAAAGCCGAAACTAATTCAAAAATTGATTGGGTCCTAATTGAAAAATA
66 TTTCGATAAAGTACTATAAAAGCCGAAAAAAATTCAAAAATTGATTGGGTCCTAATTGAAAAATA
* * * *
79486656 CACTCAAGTGGATGTAAAATTTAATTATTAAATTTGATATAAACGCCGTTGATTCCTCTTGCTAA
131 CACTCAAGTAGATGTAAAATTTAATTATTAAATTTGACATAAACGCCGTTGATCCCTCCTGCTAA
*
79486721 TCACAAAATAGAGGAAATGCTAACTTTCTCAAATCTCACAACAATGAAGCACATCATCAACAACA
196 TCACAAAATAGAGGAAACGCTAACTTTCTCAAATCTCACAACAATGAAGCACATCATCAACAACA
*
79486786 AATGACGAGATTTGTCAGTTTCAAGACATATAACTTTCAAACACTACAAAG
261 AATGACAAGATTTGTCAGTTTCAAGACATATAACTTTCAAACACTACAAAG
79486837 GGCCCTCTTA
Statistics
Matches: 297, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
368 297 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.30
Consensus pattern (368 bp):
AACTTTCAAACACTACAAAGGGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACAATTTAAAAGAT
TTTCGATAAAGTACTATAAAAGCCGAAAAAAATTCAAAAATTGATTGGGTCCTAATTGAAAAATA
CACTCAAGTAGATGTAAAATTTAATTATTAAATTTGACATAAACGCCGTTGATCCCTCCTGCTAA
TCACAAAATAGAGGAAACGCTAACTTTCTCAAATCTCACAACAATGAAGCACATCATCAACAACA
AATGACAAGATTTGTCAGTTTCAAGACATATAACTTTCAAACACTACAAAGTTGTGTTCATTTTC
AAAATTCAAGTCGATTCCCGTTTTTCAAAAAAATGGTTACGAC
Found at i:79487118 original size:30 final size:29
Alignment explanation
Indices: 79487054--79487128 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
79487044 GCGGGTAAAA
*
79487054 CTTAATTGATATTTT-ATTTTTTAGGAGGG
1 CTTAATTGAT-TTTTAATTTTTTAAGAGGG
* * *
79487083 TTTAATAGATTTTTAATTATTTTAAGATGG
1 CTTAATTGATTTTTAATT-TTTTAAGAGGG
79487113 CTTAATTGATTTTTAA
1 CTTAATTGATTTTTAA
79487129 AGGCTATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 4 0.11
29 11 0.29
30 23 0.61
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (29 bp):
CTTAATTGATTTTTAATTTTTTAAGAGGG
Found at i:79492992 original size:48 final size:48
Alignment explanation
Indices: 79492938--79493033 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
79492928 CATATCGATG
*
79492938 CTGCTGTCCTAGACAGGGTCTTACTTGCACACATATATTGGAATCACA
1 CTGCTGTCCTAGACAGGGTCTCACTTGCACACATATATTGGAATCACA
79492986 CTGCTGTCCTAGACAGGGTCTCACTTGCACACATATATTGGAATCACA
1 CTGCTGTCCTAGACAGGGTCTCACTTGCACACATATATTGGAATCACA
79493034 TATCTATGCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (48 bp):
CTGCTGTCCTAGACAGGGTCTCACTTGCACACATATATTGGAATCACA
Found at i:79495676 original size:87 final size:85
Alignment explanation
Indices: 79495527--79495865 Score: 348
Period size: 87 Copynumber: 4.0 Consensus size: 85
79495517 TTTGATAATA
* * * * *
79495527 AAAATTAAATAAAATCTATTTCGGGATTTATTTCCTCCGTTCAACAGATTTTATTTCCTTTTTTA
1 AAAATTAAATAAAATTTGTTTCGGGATTTATTCCCTCCATTCAACAGATTTTA-TTCCATTTTTA
* * *
79495592 TTATATTTCCAAATGAGTATT
65 TTTTGTTTCCAAATGAGAATT
* **
79495613 AAAAATTAAATAAAATTTGTTTCGGGATTTATTCCCGCCATTCAATGGATTTTATTCCATTTTTA
1 -AAAATTAAATAAAATTTGTTTCGGGATTTATTCCCTCCATTCAACAGATTTTATTCCATTTTTA
* *
79495678 TTTTGTTGCCAGAACGAGAAATT
65 TTTTGTTTCCA-AATGAG-AATT
* * * * *
79495701 AAAATTAAATAAACTTTGTTTCGGGATTTATACCCTCCATTTAACAGATTTTATTCGATTTTAAT
1 AAAATTAAATAAAATTTGTTTCGGGATTTATTCCCTCCATTCAACAGATTTTATTCCATTTTTAT
79495766 TTTGTTTCCAAAAT-AGAATT
66 TTTGTTTCC-AAATGAGAATT
* * * * * *
79495786 -AAATT---GAAAATTTGTTTCGGGATTTATTCCCACCGTTTAACAAATTTTA-TCCGATTTTGA
1 AAAATTAAATAAAATTTGTTTCGGGATTTATTCCCTCCATTCAACAGATTTTATTCC-ATTTTTA
* *
79495846 TTCTGTTTCCAAACGAGAAT
65 TTTTGTTTCCAAATGAGAAT
79495866 ACTTAATCAA
Statistics
Matches: 214, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
80 5 0.02
81 58 0.27
84 5 0.02
85 4 0.02
86 20 0.09
87 118 0.55
88 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (85 bp):
AAAATTAAATAAAATTTGTTTCGGGATTTATTCCCTCCATTCAACAGATTTTATTCCATTTTTAT
TTTGTTTCCAAATGAGAATT
Found at i:79495826 original size:81 final size:79
Alignment explanation
Indices: 79495703--79495858 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 79
79495693 GAGAAATTAA
* * * * *
79495703 AATTAAATAAACTTTGTTTCGGGATTTATACCCTCCATTTAACAGATTTTATTCGATTTTAATTT
1 AATTAAATAAAATTTGTTTCGGGATTTATACCCACCATTTAACAAATTTTATCCGATTTTAATTC
79495768 TGTTTCCAAAATAG
66 TGTTTCCAAAATAG
* * *
79495782 AATTAAATTGAAAATTTGTTTCGGGATTTATTCCCACCGTTTAACAAATTTTATCCGATTTTGAT
1 AATTAAA-T-AAAATTTGTTTCGGGATTTATACCCACCATTTAACAAATTTTATCCGATTTTAAT
79495847 TCTGTTTCCAAA
64 TCTGTTTCCAAA
79495859 CGAGAATACT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 7 0.10
80 1 0.01
81 59 0.88
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (79 bp):
AATTAAATAAAATTTGTTTCGGGATTTATACCCACCATTTAACAAATTTTATCCGATTTTAATTC
TGTTTCCAAAATAG
Found at i:79495918 original size:85 final size:81
Alignment explanation
Indices: 79495703--79495920 Score: 197
Period size: 81 Copynumber: 2.7 Consensus size: 81
79495693 GAGAAATTAA
* * * * * * *
79495703 AATTAAAT--AAACTTTGTTTCGGGATTTATACCCTCCATTTAACAGATTTTATTCGATTTTAAT
1 AATTAAATCAAAAATTTATTTCGAGATTTATTCCCACCGTTTAACAGATTTTATCCGATTTTAAT
* *
79495766 TTTGTTTCCAAAATAG
66 TCTGTTTCCAAAAGAG
** * * * *
79495782 AATTAAATTGAAAATTTGTTTCGGGATTTATTCCCACCGTTTAACAAATTTTATCCGATTTTGAT
1 AATTAAATCAAAAATTTATTTCGAGATTTATTCCCACCGTTTAACAGATTTTATCCGATTTTAAT
*
79495847 TCTGTTTCCAAACGAG
66 TCTGTTTCCAAAAGAG
* *** *
79495863 AATACTTAATCAAATAATTCTATTTCGAGATTTATTCCTGTCGTTTAATAGATTTTAT
1 AAT--TAAATCAAA-AATT-TATTTCGAGATTTATTCCCACCGTTTAACAGATTTTAT
79495921 TTTGATTTAA
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
79 8 0.07
81 64 0.57
83 6 0.05
84 4 0.04
85 31 0.27
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (81 bp):
AATTAAATCAAAAATTTATTTCGAGATTTATTCCCACCGTTTAACAGATTTTATCCGATTTTAAT
TCTGTTTCCAAAAGAG
Found at i:79496783 original size:21 final size:21
Alignment explanation
Indices: 79496759--79496807 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
79496749 GTGGGGCACA
*
79496759 GGCGTGTTATCCTCCCACACG
1 GGCGTGTTACCCTCCCACACG
* *
79496780 GGCGTGTTACCCTTCTACACG
1 GGCGTGTTACCCTCCCACACG
*
79496801 GACGTGT
1 GGCGTGT
79496808 GCCCTGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.14, C:0.33, G:0.27, T:0.27
Consensus pattern (21 bp):
GGCGTGTTACCCTCCCACACG
Found at i:79503189 original size:47 final size:46
Alignment explanation
Indices: 79503080--79503205 Score: 130
Period size: 47 Copynumber: 2.7 Consensus size: 46
79503070 TTATGAGATC
* * * *
79503080 CAGTGTAAGACCATGTCCGGGACATGGCATCGACATTGAGACGAGGG
1 CAGTGTAAGACCATGTCTGGGACAT-GTATCGACATAGAGACGAAGG
* *
79503127 CTAGTGTAAGA-CATGTCTGGGACATGTATCGAC-TAAGAGATGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGTATCGACAT-AGAGACGA-AGG
*
79503174 CAGTGTAAGACCATGTTTGGGACATGATATCG
1 CAGTGTAAGACCATGTCTGGGACATG-TATCG
79503206 GTACTTAACC
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
45 1 0.01
46 22 0.33
47 30 0.45
48 14 0.21
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGTATCGACATAGAGACGAAGG
Found at i:79504301 original size:21 final size:21
Alignment explanation
Indices: 79504277--79504317 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
79504267 GGTACGTGTG
* *
79504277 TGCTACTCTCCCATACGGGCC
1 TGCTACCCTCCCACACGGGCC
*
79504298 TGCTACCCTTCCACACGGGC
1 TGCTACCCTCCCACACGGGC
79504318 TTGTGCCCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.44, G:0.20, T:0.22
Consensus pattern (21 bp):
TGCTACCCTCCCACACGGGCC
Found at i:79505933 original size:25 final size:26
Alignment explanation
Indices: 79505891--79505939 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
79505881 TGCTAGTTAT
*
79505891 TAATATCATGATTTAAA-TAAATAAA
1 TAATATCATGATTCAAATTAAATAAA
79505916 TAATATCAT-ATCTCAAATTAAATA
1 TAATATCATGAT-TCAAATTAAATA
79505940 TGTATCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 13 0.62
26 6 0.29
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (26 bp):
TAATATCATGATTCAAATTAAATAAA
Found at i:79507843 original size:43 final size:43
Alignment explanation
Indices: 79507795--79507952 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
79507785 CAATGCCAAA
* * *
79507795 TCCCAGATATGGTCTTACATGTTATCAC-ATATCGAAGCCACTG
1 TCCCAGACATGGTCTTACATGTAATCACAATA-CGAAGCCAATG
* * * *
79507838 TCCCAGACAGGGTCTTACATGAAATCATAATACGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACAATACGAAGCCAATG
*
79507881 TCCCAGACATGGTCTTACACGTAATCACAATAC-AATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACAATACGAA-GCCAATG
* * *
79507924 TCCCAGAGATGGTCTTACACGTATTCACA
1 TCCCAGACATGGTCTTACATGTAATCACA
79507953 TCTCGATAAC
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 95 0.96
44 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCACAATACGAAGCCAATG
Found at i:79512882 original size:94 final size:95
Alignment explanation
Indices: 79512721--79513171 Score: 590
Period size: 98 Copynumber: 4.7 Consensus size: 95
79512711 NNNNNNNNNN
* * *
79512721 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCATATTCATCAC
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCAC
* * * *
79512786 ATTGGCCATTCGGCCTTATCTC-ATATATG
66 ATCGGCCATTAGGCCTTATCACAATATATA
* *
79512815 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCAC
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCAC
* * * *
79512880 ATTGGCCATTCGGCCTTATCTC-ATATATG
66 ATCGGCCATTAGGCCTTATCACAATATATA
79512909 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TTCACATTCAT
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACA-TGTTCACATTCAT
79512973 CACATCGGCCATTAGGCCTTATCACATATATATA
63 CACATCGGCCATTAGGCCTTATCACA-ATATATA
* *
79513007 CACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TTCACATTCA
1 CA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACA-TGTTCACATTCA
79513070 TCACATCGGCCATTAGGCCTTATCACATATATATA
62 TCACATCGGCCATTAGGCCTTATCACA-ATATATA
* * * * *
79513105 CACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCATGTTCACATCCATCA
1 CA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
79513169 CAT
65 CAT
79513172 AGAATCCTAA
Statistics
Matches: 334, Mismatches: 16, Indels: 12
0.92 0.04 0.03
Matches are distributed among these distances:
94 128 0.38
95 1 0.00
96 64 0.19
97 1 0.00
98 139 0.42
99 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (95 bp):
CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACAATATATA
Found at i:79512974 original size:49 final size:49
Alignment explanation
Indices: 79512721--79513171 Score: 588
Period size: 47 Copynumber: 9.4 Consensus size: 49
79512711 NNNNNNNNNN
* *
79512721 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACA
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
* * *
79512768 CATGTTCATATTCATCACATTGGCCATTCGGCCTTATCTC--ATATATG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
* *
79512815 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC--ATATATG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
* *
79512862 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC--ATATATG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
79512909 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
* *
79512958 CACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
* *
79513007 CACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
* *
79513056 CACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
* * * *
79513105 CACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCTC--ATATATG
1 CA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
*
79513152 CATGTTCACATCCATCACAT
1 CATGTTCACATTCATCACAT
79513172 AGAATCCTAA
Statistics
Matches: 387, Mismatches: 13, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 197 0.51
49 188 0.49
50 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (49 bp):
CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
Found at i:79514610 original size:85 final size:85
Alignment explanation
Indices: 79514481--79514914 Score: 850
Period size: 85 Copynumber: 5.1 Consensus size: 85
79514471 TATTTTATTG
* *
79514481 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCAGTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
79514546 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
79514566 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
79514631 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
79514651 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
79514716 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
79514736 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
79514801 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
79514821 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
79514886 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
79514906 CCCATGCTC
1 CCCATGCTC
79514915 ATGGCCGGCC
Statistics
Matches: 347, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 347 1.00
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:79516225 original size:40 final size:40
Alignment explanation
Indices: 79516168--79516408 Score: 340
Period size: 40 Copynumber: 6.0 Consensus size: 40
79516158 TGAATACACG
* * ** *
79516168 TCACCAGCATGATTGCTCTTCGGGACCCAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * *
79516208 ACACCAGCATGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
79516248 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
79516288 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
79516328 TCACTAGCATGAATGCTCTTCGGAACTTAGCTCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
79516368 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
79516407 TC
1 TC
79516409 GTCGAGACCT
Statistics
Matches: 180, Mismatches: 21, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
39 4 0.02
40 176 0.98
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:79516531 original size:38 final size:38
Alignment explanation
Indices: 79516462--79516536 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
79516452 GAATTTTAAT
*
79516462 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
79516500 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
79516537 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:79527327 original size:15 final size:15
Alignment explanation
Indices: 79527283--79527321 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
79527273 GGAATTAAAT
79527283 TAAACTAAATG-AAAA
1 TAAAC-AAATGAAAAA
79527298 TAAACAAATGAAAAA
1 TAAACAAATGAAAAA
*
79527313 TAAATAAAT
1 TAAACAAAT
79527322 TTAAAAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (15 bp):
TAAACAAATGAAAAA
Found at i:79528186 original size:52 final size:52
Alignment explanation
Indices: 79528121--79528240 Score: 168
Period size: 52 Copynumber: 2.3 Consensus size: 52
79528111 CCATTGCCGT
* *
79528121 GAATTGAAGAAAGAAAACAAAAAAAAGTGATCATTCATGAACATCTTTGGTC
1 GAATAGAAGAAAGAAAACAAAAAAAAGTGATCATTCATGAACATCTTTGGCC
** *** *
79528173 GAATAGAAGAAAGAAAGGAAGGGAAAGTGTTCATTCATGAACATCTTTGGCC
1 GAATAGAAGAAAGAAAACAAAAAAAAGTGATCATTCATGAACATCTTTGGCC
79528225 GAATAGAAGAAAGAAA
1 GAATAGAAGAAAGAAA
79528241 GGAACGGAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (52 bp):
GAATAGAAGAAAGAAAACAAAAAAAAGTGATCATTCATGAACATCTTTGGCC
Found at i:79528241 original size:52 final size:52
Alignment explanation
Indices: 79528144--79528251 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
79528134 AAAACAAAAA
* *
79528144 AAAGTGATCATTCATGAACATCTTTGGTCGAATAGAAGAAAGAAAGGAAGGG
1 AAAGTGATCATTCATGAACATCTTTGGCCGAATAGAAGAAAGAAAGGAACGG
*
79528196 AAAGTGTTCATTCATGAACATCTTTGGCCGAATAGAAGAAAGAAAGGAACGG
1 AAAGTGATCATTCATGAACATCTTTGGCCGAATAGAAGAAAGAAAGGAACGG
79528248 AAAG
1 AAAG
79528252 AGCTTGGAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (52 bp):
AAAGTGATCATTCATGAACATCTTTGGCCGAATAGAAGAAAGAAAGGAACGG
Found at i:79529584 original size:40 final size:40
Alignment explanation
Indices: 79529479--79529778 Score: 369
Period size: 40 Copynumber: 7.5 Consensus size: 40
79529469 CGAATGATAA
* *
79529479 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
79529519 CCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTCACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
79529558 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
79529598 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
79529638 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGT----GCGAGTTACTAT-AT
*
79529683 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
79529722 CCGGGCT-AGTCCCAAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
79529761 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
79529779 TACTTGGTTT
Statistics
Matches: 231, Mismatches: 19, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
38 6 0.03
39 69 0.30
40 119 0.52
44 36 0.16
45 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:79529709 original size:84 final size:81
Alignment explanation
Indices: 79529475--79529778 Score: 381
Period size: 79 Copynumber: 3.8 Consensus size: 81
79529465 TATTCGAATG
* * * *
79529475 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGTTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAATCCGGGCTAAGTCCCGAAGGC
*
79529538 ATTTGTGCGAGTCACT
66 ATTTGTGCGAGTTACT
* *
79529554 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT-ATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAATCCGGGCTAAGTCCCGAAGGC
79529618 ATTTGTGCGAGTTACT
66 ATTTGTGCGAGTTACT
* *
79529634 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCGAGTTACTATAAT-CGGGCTAAGTCCCGA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGT----GCGAGTCACTATAATCCGGGCTAAGTCCCGA
79529698 AGGCATTTGTGCGAGTTACT
62 AGGCATTTGTGCGAGTTACT
* * * * *
79529718 ATAACCGGGCT-AGTCCCAAAGGCATTTGAGCAAGT-AGCTAT-ATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCA-CTATAATCCGGGCTAAGTCCCGAAGG
79529779 TACTTGGTTT
Statistics
Matches: 199, Mismatches: 17, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
78 17 0.09
79 57 0.29
80 51 0.26
83 16 0.08
84 56 0.28
85 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCGAGTTACT
Found at i:79536642 original size:27 final size:27
Alignment explanation
Indices: 79536076--79536635 Score: 672
Period size: 27 Copynumber: 20.9 Consensus size: 27
79536066 AGTACTCCCA
*
79536076 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
79536103 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
*
79536129 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** *
79536156 ATTTGTAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
79536183 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
79536209 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
79536237 ATTTACAGAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
79536263 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* **
79536291 ATTTATAGAA-TATTGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
79536316 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* **
79536344 ATTTATAGAA-TATTGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
79536369 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
79536397 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** *
79536424 ATTTGTAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
79536451 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
** *
79536477 AGTTTACAGAATTATTGTTTTACCATCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
79536505 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
79536532 ATTTGTAAAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
79536559 ATTTACAGAATTACTAG-TTTACCCTC-
1 ATTTACAGAATTAC-CGTTTTACCCTCG
* *
79536585 AGTTTACAAAATTATCGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
79536613 ATTTATAGAATTACCGTTTTACC
1 ATTTACAGAATTACCGTTTTACC
79536636 TTTGATTGTG
Statistics
Matches: 458, Mismatches: 58, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.00
26 72 0.16
27 377 0.82
28 7 0.02
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:79536822 original size:27 final size:27
Alignment explanation
Indices: 79536654--79536824 Score: 189
Period size: 27 Copynumber: 6.3 Consensus size: 27
79536644 TGAAATTGCT
* ***
79536654 GAAATACCCCTGTAGGGCAGAATTTTT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
79536681 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
79536708 AAAATACCCTTATAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
79536735 AAAATACCCCTGTAGAGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
79536762 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
79536789 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
79536816 GAGATACCC
1 GAAATACCC
79536825 TTGTGAGGCA
Statistics
Matches: 123, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:79536823 original size:54 final size:54
Alignment explanation
Indices: 79536654--79536828 Score: 215
Period size: 54 Copynumber: 3.2 Consensus size: 54
79536644 TGAAATTGCT
* * * * * *
79536654 GAAATACCCCTGTAGGGCAGAATTTTTGAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACC
* * * * * * *
79536708 AAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGAGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACC
*
79536762 GAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACC
*
79536816 GAGATACCCTTGT
1 GAAATACCCTTGT
79536829 GAGGCAAAAT
Statistics
Matches: 99, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
GAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACC
Found at i:79537436 original size:27 final size:26
Alignment explanation
Indices: 79537406--79537507 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
79537396 ATTCTATTAA
*
79537406 GTGGCTTTGCCACATTATCTGATTCTC
1 GTGGCTTTGCCACAATATCTG-TTCTC
* * *
79537433 GTGGCTATGCCACAAATATTTGTTCTG
1 GTGGCTTTGCCAC-AATATCTGTTCTC
*
79537460 GTGGCTTTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGT-TCTC
* * *
79537487 GTGACTCTGTCACAATATCTG
1 GTGGCTTTGCCACAATATCTG
79537508 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.78
28 6 0.09
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTC
Found at i:79537682 original size:6 final size:6
Alignment explanation
Indices: 79537644--79537726 Score: 64
Period size: 6 Copynumber: 13.3 Consensus size: 6
79537634 TTGCATTCAC
* *
79537644 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
79537694 -TCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
79537727 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
5 4 0.06
6 44 0.71
7 12 0.19
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:79537724 original size:31 final size:31
Alignment explanation
Indices: 79537644--79537717 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
79537634 TTGCATTCAC
* *
79537644 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTCACCTGATACTG
*
79537676 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
79537707 ATTCTGATTCT
1 ATTCTGATTCT
79537718 AGTTCTGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 32 0.82
32 7 0.18
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:79541101 original size:48 final size:46
Alignment explanation
Indices: 79540990--79541105 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 46
79540980 TGTGTGCTAG
*
79540990 TGTAAGACATGTCTGGGACATGCATAAGCCACAGTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATAAGCCACAGTATGAGAGCCAA
* * * * *
79541036 TGTAAGACATGTTTGGGACATGCATTAGCCATGAGATATTTA-AGGCAA
1 TGTAAGACATGTCTGGGACATGCATAAGCCA-CAG-TA-TGAGAGCCAA
79541084 TGTAAGACATGTCTGGGACATG
1 TGTAAGACATGTCTGGGACATG
79541106 TATCTGCATT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
46 29 0.48
47 2 0.03
48 27 0.45
49 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATAAGCCACAGTATGAGAGCCAA
Found at i:79541143 original size:46 final size:45
Alignment explanation
Indices: 79540985--79541196 Score: 139
Period size: 46 Copynumber: 4.6 Consensus size: 45
79540975 TGACATGTGT
* * **
79540985 GCTAGTGTAAGACATGTCTGGGACATGCATAAGCCA-C-AGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCAT-CGACATCGAG-AACA-A
* * * * *
79541031 GCCAGTGTAAGACATGTTTGGGACATGCATTAGCCAT-GAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCA-TCGACATCGAGA-A--CAA
* * *
79541079 GGC-AATGTAAGACATGTCTGGGACATGTATCTG-CATTGAG-ACGAGA
1 -GCTAGTGTAAGACATGTCTGGGACATGCATC-GACATCGAGAAC-A-A
* *
79541125 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGA-ACAA
*
79541171 GCTAGTGTAAGACCTGTCTGGGACAT
1 GCTAGTGTAAGACATGTCTGGGACAT
79541197 AGAGTTAGCT
Statistics
Matches: 135, Mismatches: 16, Indels: 30
0.75 0.09 0.17
Matches are distributed among these distances:
45 4 0.03
46 90 0.67
47 8 0.06
48 30 0.22
49 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAACAA
Found at i:79541166 original size:94 final size:92
Alignment explanation
Indices: 79541027--79541196 Score: 211
Period size: 94 Copynumber: 1.8 Consensus size: 92
79541017 GCCACAGTAT
* * * *
79541027 GAGAGCCAGTGTAAGACATGTTTGGGACATGCATTAGCCATGAGATATTTAAGGC-AATGTAAGA
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATGAGCCATGAGATA--CAA-GCTAATGTAAGA
79541091 CATGTCTGGGACATGTATCTGCATTGAGAC
63 CATGTCTGGGACATGTATCTGCATTGAGAC
* *
79541121 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGA-CC-TCGAGATACAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCAT-GAGCCAT-GAGATACAAGCTAATGTAAGAC
*
79541184 CTGTCTGGGACAT
64 ATGTCTGGGACAT
79541197 AGAGTTAGCT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
91 2 0.03
92 23 0.35
93 1 0.02
94 39 0.59
95 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (92 bp):
GAGAGCCAGTGTAAGACATGTCTAGGACATGCATGAGCCATGAGATACAAGCTAATGTAAGACAT
GTCTGGGACATGTATCTGCATTGAGAC
Found at i:79542504 original size:20 final size:21
Alignment explanation
Indices: 79542466--79542504 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
79542456 TTATAATGAT
*
79542466 CACACGGGCGTGTTGCCCTTC
1 CACACGAGCGTGTTGCCCTTC
79542487 CACACGAGCGTG-TGCCCT
1 CACACGAGCGTGTTGCCCT
79542505 ATTTCAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACGAGCGTGTTGCCCTTC
Found at i:79548940 original size:46 final size:46
Alignment explanation
Indices: 79548745--79548956 Score: 189
Period size: 46 Copynumber: 4.6 Consensus size: 46
79548735 TGATATGTGT
* *
79548745 GCTAGTGTAAGACATGTATGGGACATGCATCAGCCAC-AG-TATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAT-A-A
* * * *
79548791 GCCAGTGTAAGACAAGTTTGGGACATGTATCAGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATA--TAA
* * * * * * *
79548839 GCCAGTGTAAGACATGTCTGAGACAT-CATCGGCATTGAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGA-TATAA
* **
79548884 GCTAGTGTAAGAAATGTCTGGGACATGCATTGGCCTCGAGATATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAA
* *
79548930 GCTAGTGTAAGACCTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
79548957 GCGTCAACTT
Statistics
Matches: 134, Mismatches: 25, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
45 25 0.19
46 68 0.51
47 12 0.09
48 27 0.20
49 1 0.01
50 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAA
Found at i:79551389 original size:50 final size:50
Alignment explanation
Indices: 79551279--79551458 Score: 263
Period size: 50 Copynumber: 3.6 Consensus size: 50
79551269 CTGGTATGCA
* * * ** * *
79551279 TAGTAGCCTGCACATAGTACTACACAAGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
79551328 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* *
79551378 TAGTAGCCTGCACTTAGTACTACACACATGATCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
79551428 TAGTAGCCTGCACTTAGTACTACACATGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
79551459 TCACAGTTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 30 0.25
50 89 0.75
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:79551460 original size:50 final size:50
Alignment explanation
Indices: 79551279--79551504 Score: 258
Period size: 50 Copynumber: 4.5 Consensus size: 50
79551269 CTGGTATGCA
* * * * ** * *
79551279 TAGTAGCCTGCACATAGTACTACACAAGCGA-CCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACACG
*
79551328 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACACG
*
79551378 TAGTAGCCTGCACTTAGTACTACACACATGATCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACACG
* *** * * * *
79551428 TAGTAGCCTGCACTTAGTACTACACATGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCTA-A-CCATCTGATACACG
79551479 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
79551505 TGCGACCTCA
Statistics
Matches: 155, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 29 0.19
50 93 0.60
51 33 0.21
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACACG
Found at i:79553643 original size:15 final size:15
Alignment explanation
Indices: 79553591--79553644 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
79553581 TAAAGATAAC
*
79553591 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
79553605 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
79553620 GAA-AAACCCAGAATA
1 -AAGAAACCCAGAATA
79553635 AAGAAACCCA
1 AAGAAACCCA
79553645 AGATACGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 11 0.33
15 19 0.58
16 3 0.09
ACGTcount: A:0.61, C:0.19, G:0.13, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:79556763 original size:51 final size:49
Alignment explanation
Indices: 79556645--79556785 Score: 185
Period size: 51 Copynumber: 2.8 Consensus size: 49
79556635 AAAGCTATCT
* *
79556645 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTC
* * * *
79556694 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT-TTC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATTC
*
79556744 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
79556786 TCACAATAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
49 35 0.44
50 5 0.06
51 39 0.49
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTC
Found at i:79560500 original size:46 final size:45
Alignment explanation
Indices: 79560352--79560522 Score: 137
Period size: 46 Copynumber: 3.7 Consensus size: 45
79560342 TTTATGTGCT
* * ** *
79560352 AGTGTAAGACAGGTCCAGGACATGCATCGGCC-ACATTATGAAAGCC
1 AGTGTAAGACATGTCCGGGACATGCATCGGCCTTGA-GATG-AAGCC
* * * * * *
79560398 AGTGTAAAACCATGTCCGCGACATGGCATTGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCCGGGACAT-GCATCGGCCTTGAGATGA-AGCC
* *
79560446 AGGGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
1 AGTGTAAGACATGTCCGGGACATGCATCGGCCTTGAGATG-AAGCC
* **
79560492 AGTGTAAGACACGTTTGGGACATGCATCGGC
1 AGTGTAAGACATGTCCGGGACATGCATCGGC
79560523 TACAAAATGT
Statistics
Matches: 98, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
46 53 0.54
47 25 0.26
48 19 0.19
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (45 bp):
AGTGTAAGACATGTCCGGGACATGCATCGGCCTTGAGATGAAGCC
Found at i:79563433 original size:28 final size:28
Alignment explanation
Indices: 79563374--79563434 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
79563364 TTGAAATTTG
** * *
79563374 AAATTTAATTTTATATTTTTATCTTTTG
1 AAATTTAATTTTATATTTTTAAATTCTA
79563402 AAATTTAATTTT-TAATTTTTAAATTCTA
1 AAATTTAATTTTAT-ATTTTTAAATTCTA
79563430 AAATT
1 AAATT
79563435 CAGGTTCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (28 bp):
AAATTTAATTTTATATTTTTAAATTCTA
Found at i:79563577 original size:12 final size:12
Alignment explanation
Indices: 79563560--79563584 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79563550 GGTGTTCATT
79563560 CGGTTAACCGAC
1 CGGTTAACCGAC
79563572 CGGTTAACCGAC
1 CGGTTAACCGAC
79563584 C
1 C
79563585 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:79563759 original size:9 final size:9
Alignment explanation
Indices: 79563745--79563796 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
79563735 TTTGGTTAAA
79563745 AATTACCCG
1 AATTACCCG
79563754 AATTACCCG
1 AATTACCCG
79563763 AATTACCCG
1 AATTACCCG
*
79563772 AATTAACCG
1 AATTACCCG
*
79563781 AATTAACCG
1 AATTACCCG
79563790 AATTACC
1 AATTACC
79563797 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:79565467 original size:16 final size:16
Alignment explanation
Indices: 79565443--79565495 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
79565433 AAAATTGAAA
*
79565443 TATAAATTATTATATT
1 TATATATTATTATATT
*
79565459 TATATATTATTATATA
1 TATATATTATTATATT
*
79565475 TAAATACTTATT-TATT
1 TATATA-TTATTATATT
79565491 TATAT
1 TATAT
79565496 TCATCTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 26 0.84
17 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATATTATTATATT
Found at i:79566187 original size:28 final size:28
Alignment explanation
Indices: 79566129--79566193 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
79566119 AATCTTGAAT
* *
79566129 TTTTTTATTAAAAATATCTATTTATATA
1 TTTTTTATTAAAAAAATCTATTTATAGA
* *
79566157 TTTTATATTATAAAAAATCTATTT-TGGA
1 TTTTTTATTA-AAAAAATCTATTTATAGA
79566185 TTTTTTATT
1 TTTTTTATT
79566194 TTTATATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 19 0.61
29 12 0.39
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTTTTATTAAAAAAATCTATTTATAGA
Found at i:79566189 original size:29 final size:26
Alignment explanation
Indices: 79566129--79566193 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 26
79566119 AATCTTGAAT
*
79566129 TTTTTTATTAAAAATATCTATTTATA
1 TTTTTTATTAAAAAAATCTATTTATA
79566155 TATTTTATATTATAAAAAATCTATTT-TGGA
1 T-TTTT-TATTA-AAAAAATCTATTTAT--A
79566185 TTTTTTATT
1 TTTTTTATT
79566194 TTTATATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 1 0.03
27 4 0.12
28 10 0.30
29 16 0.48
30 2 0.06
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (26 bp):
TTTTTTATTAAAAAAATCTATTTATA
Found at i:79567702 original size:21 final size:21
Alignment explanation
Indices: 79567676--79567720 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
79567666 TAAACAAGTT
* *
79567676 TAACACACCATTCCATATGCA
1 TAACACACCAGTCCATATGAA
*
79567697 TAACACACTAGTCCATATGAA
1 TAACACACCAGTCCATATGAA
79567718 TAA
1 TAA
79567721 ATCTACAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.24
Consensus pattern (21 bp):
TAACACACCAGTCCATATGAA
Found at i:79568310 original size:19 final size:21
Alignment explanation
Indices: 79568286--79568371 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
79568276 CATTGTTAAT
79568286 AGAAGCTCG-AA-AGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
79568305 AGAAGCTCGTAAGAGCTGAAT
1 AGAAGCTCGTAAGAGCTGAAC
* * * *
79568326 AGAAACTCGTATGAGTTAAAC
1 AGAAGCTCGTAAGAGCTGAAC
* *
79568347 AGAAGCTCATAA-AGTCTAAAC
1 AGAAGCTCGTAAGAG-CTGAAC
79568368 AGAA
1 AGAA
79568372 AGTAAAACAC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 9 0.17
20 4 0.07
21 41 0.76
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:79571277 original size:31 final size:31
Alignment explanation
Indices: 79571239--79571348 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
79571229 TTTAACGATT
79571239 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
79571270 ACTGGGCCGAAGCCTTTTCATAAATCATATT
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
79571301 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
79571332 ACTAGGTCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
79571349 ACTGTAAACG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:79571419 original size:42 final size:42
Alignment explanation
Indices: 79571372--79571463 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
79571362 TGGCACTTAG
*
79571372 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATTCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
79571414 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
79571456 GCCCATTT
1 GCCCATTT
79571464 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:79571628 original size:25 final size:24
Alignment explanation
Indices: 79571583--79571680 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 24
79571573 TGCTTTATCA
**
79571583 TATAACTGGAGGCCTAG-CCTTTTT
1 TATAACTGG-GGCAAAGCCCTTTTT
79571607 TAATAACTGGGGCAAAGCCCTTTTT
1 T-ATAACTGGGGCAAAGCCCTTTTT
* *
79571632 GATAAACTGGGGCAAAGCCCTTTTCGG
1 TAT-AACTGGGGCAAAGCCCTTTT--T
*
79571659 TA-AACTGGGGCAGAGCCCTTTT
1 TATAACTGGGGCAAAGCCCTTTT
79571681 AACACTTCCT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
24 8 0.13
25 54 0.86
27 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (24 bp):
TATAACTGGGGCAAAGCCCTTTTT
Found at i:79571630 original size:24 final size:25
Alignment explanation
Indices: 79571598--79571680 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 25
79571588 CTGGAGGCCT
* *
79571598 AGCCTTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
79571622 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
* * *
79571647 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTTTGATAAACTGGGGCAA
79571672 AGCCCTTTT
1 AGCCCTTTT
79571681 AACACTTCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 11 0.21
25 42 0.79
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTTGATAAACTGGGGCAA
Found at i:79572042 original size:54 final size:54
Alignment explanation
Indices: 79571886--79572054 Score: 250
Period size: 54 Copynumber: 3.1 Consensus size: 54
79571876 GGGAAAAATG
* *
79571886 GTAATTTTACCC-ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTACTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
79571939 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* ** *
79571993 GTAATTCTACCCTACAAGGGCGTTTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
79572047 ATAATTTT
1 GTAATTTT
79572055 GTAAATCGAG
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 12 0.12
54 91 0.88
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:79572052 original size:27 final size:27
Alignment explanation
Indices: 79571886--79572044 Score: 185
Period size: 27 Copynumber: 5.9 Consensus size: 27
79571876 GGGAAAAATG
* * * *
79571886 GTAATTTTACCC-ACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
79571912 GTAATTCTACCCTACAGGGGTACTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
79571939 GTAATTTTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
79571966 GTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* ** *
79571993 GTAATTCTACCCTACAAGGGCGTTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
79572020 GTAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
79572045 TAATAATTTT
Statistics
Matches: 109, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 11 0.10
27 98 0.90
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:79572067 original size:27 final size:27
Alignment explanation
Indices: 79572037--79572486 Score: 254
Period size: 27 Copynumber: 16.6 Consensus size: 27
79572027 TACCCTACAG
** *
79572037 GGGTATTTTAATAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
79572064 GGGTGA-AACGGTAATTCTATAAATCG-
1 GGGT-ATTTTGGTAATTTTATAAATCGA
*
79572090 GGAGTACTTTGGTAATTTT-TACAAGTCGA
1 GG-GTATTTTGGTAATTTTATA-AA-TCGA
** * *
79572119 GGGTATTTCAGTAATTTTACAAATCGG
1 GGGTATTTTGGTAATTTTATAAATCGA
*** ** *
79572146 GGGTATTTCAATAATTTTGCAAA-CTAA
1 GGGTATTTTGGTAATTTTATAAATC-GA
* *
79572173 GGGTATTTCGGTAATTTTACAAATC-A
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
79572199 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * *
79572226 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* *
79572254 GGGTATTTTGGTAATTTTATAAGTTGA
1 GGGTATTTTGGTAATTTTATAAATCGA
** * * * *
79572281 GGGTATTTCAGAAATTTCACAAAT-TA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
79572307 GGGGTATTTTCGTAATTTTACAAGTCGA
1 -GGGTATTTTGGTAATTTTATAAATCGA
** *
79572335 GGGTATTTCAGTAATTTTACAAATC-A
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
79572361 GGGGTATTTTGGTAATTTCACAAA-CTA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * *
79572388 GGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * *
79572416 GAGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
79572442 GGGGTATTTTAGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* *
79572470 GGGCATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
79572487 GGTAAACTAA
Statistics
Matches: 344, Mismatches: 60, Indels: 38
0.78 0.14 0.09
Matches are distributed among these distances:
26 13 0.04
27 302 0.88
28 26 0.08
29 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:79572189 original size:54 final size:54
Alignment explanation
Indices: 79572074--79572466 Score: 387
Period size: 54 Copynumber: 7.3 Consensus size: 54
79572064 GGGTGAAACG
* * * * *
79572074 GTAATTCTATAAATC-GGGAGTACTTTGGTAATTTTTAC-AAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCAGGG-GTATTTTGGTAA-TTTTACAAACT-AAGGGTATTTCA
* *** * *
79572129 GTAATTTTACAAATCGGGGGTATTTCAATAATTTTGCAAACTAAGGGTATTTCG
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
* **
79572183 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
** * * * ** *
79572237 GTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTATAAGTTGAGGGTATTTCA
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
* * * * * *
79572291 GAAATTTCACAAATTAGGGGTATTTTCGTAATTTTAC-AAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTCA
* * **
79572345 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
* * * * * *
79572399 GTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAACCAGGGGTATTTTA
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
79572453 GTAATTTTACAAAT
1 GTAATTTTACAAAT
79572467 TGAGGGCATT
Statistics
Matches: 278, Mismatches: 56, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.01
54 246 0.88
55 27 0.10
56 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
Found at i:79572478 original size:81 final size:81
Alignment explanation
Indices: 79572097--79572486 Score: 426
Period size: 81 Copynumber: 4.8 Consensus size: 81
79572087 TCGGGAGTAC
* * ** * *
79572097 TTTGGTAATTTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAAATCGGGGGTATTTCAATAAT
1 TTTGGTAA-TTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTAGTAAT
* *
79572161 TTTGCAAACTAAGGGTAT
64 TTTACAAACCAAGGGTAT
* * * *
79572179 TTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTAGTAATTT
**
79572244 TGTAAACCAAGGGTAT
66 TACAAACCAAGGGTAT
* * * * * * *
79572260 TTTGGTAATTTTATAAGT-TGAGGGTATTTCAGAAATTTCACAAATTAGGGGTATTTTCGTAATT
1 TTTGGTAATTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTAGTAATT
** *
79572324 TTACAAGTCGAGGGTAT
65 TTACAAACCAAGGGTAT
** * * * *
79572341 TTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTAGTAATTT
*
79572406 TACAAACCAAGAGTAT
66 TACAAACCAAGGGTAT
* *
79572422 TTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATT-GAGGGCATTTTAGTAATT
1 TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATTAG-GGGTATTTTAGTAATT
79572486 T
65 T
79572487 GGTAAACTAA
Statistics
Matches: 255, Mismatches: 49, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
80 2 0.01
81 244 0.96
82 9 0.04
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTAGTAATTT
TACAAACCAAGGGTAT
Found at i:79574227 original size:31 final size:31
Alignment explanation
Indices: 79574190--79574388 Score: 310
Period size: 31 Copynumber: 6.4 Consensus size: 31
79574180 ATGGTTACTG
79574190 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
*
79574221 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
79574252 GGCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
79574283 GGCCGAAGCCTTTTCATAAATCATACCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
*
79574314 GGCCGAAGCCTTTTCATGAATCATATCAC-A
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
*
79574344 GGGCCGAAGACTTTTCATAAATCATATCACTA
1 -GGCCGAAGCCTTTTCATAAATCATATCACTA
*
79574376 GGTCGAAGCCTTT
1 GGCCGAAGCCTTT
79574389 ACTGTAAACG
Statistics
Matches: 155, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
31 154 0.99
32 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:79574637 original size:25 final size:25
Alignment explanation
Indices: 79574609--79574703 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
79574599 CTCTTTTAAT
* *
79574609 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
79574634 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
79574659 AACTGGGGCAAAGCCCCTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
79574684 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
79574704 AGCACTTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:79574639 original size:50 final size:50
Alignment explanation
Indices: 79574596--79574703 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 50
79574586 CTGGAGGCCT
* *
79574596 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAAAGCCCCTTTCGATAAACTGGGGCAA
** * *
79574645 AGCCCTTTTCGGTAAACTGGGGCAAAGCCCCTTTCGGTAAACTGGGGCAG
1 AGCCCTTTTCAATAAACTGGGGCAAAGCCCCTTTCGATAAACTGGGGCAA
79574695 AGCCCTTTT
1 AGCCCTTTT
79574704 AGCACTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
48 5 0.10
49 5 0.10
50 41 0.80
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGGCAAAGCCCCTTTCGATAAACTGGGGCAA
Found at i:79574965 original size:27 final size:26
Alignment explanation
Indices: 79574908--79575066 Score: 178
Period size: 27 Copynumber: 6.0 Consensus size: 26
79574898 AGGGAAAAAT
* *
79574908 GGTAATTTTACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTAT-TC
79574934 GGTAATTCTACCCTACAGGGGTACTTC
1 GGTAATTCTACCCTACAGGGGTA-TTC
* * *
79574961 TGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTA-TTC
* *
79574988 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTA-TTC
*
79575015 AGTAATTCTACCCTACAAGGGCGT-TTC
1 GGTAATTCTACCCTAC-AGGG-GTATTC
79575042 GGTAATTCTACCCTACAGGGGTATT
1 GGTAATTCTACCCTACAGGGGTATT
79575067 TTAATAATTT
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.02
26 18 0.16
27 86 0.76
28 5 0.04
29 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (26 bp):
GGTAATTCTACCCTACAGGGGTATTC
Found at i:79575065 original size:54 final size:54
Alignment explanation
Indices: 79574909--79575077 Score: 241
Period size: 54 Copynumber: 3.1 Consensus size: 54
79574899 GGGAAAAATG
* * *
79574909 GTAATTTTACCC-ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTACTTCT
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
79574962 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* ** *
79575016 GTAATTCTACCCTACAAGGGCGTTTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
79575070 ATAATTTT
1 GTAATTTT
79575078 GTAAATCGAG
Statistics
Matches: 102, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 12 0.12
54 90 0.88
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:79575075 original size:81 final size:80
Alignment explanation
Indices: 79574925--79575075 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 80
79574915 TTACCCACAA
* * * **
79574925 GGGTATCTCGGTAATTCTACCCTACAGGGGTACTTCTGTAATTTTACCCTACAAGGGTATTTCGG
1 GGGTATCTCAGTAATTCTACCCTACAGGGGTA-TTCGGTAATTCTACCCTACAAGGGTATTTCAA
79574990 TAATTCTACCTTATAG
65 TAATTCTACCTTATAG
* * *
79575006 GGGTATTTCAGTAATTCTACCCTACAAGGGCGT-TTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GGGTATCTCAGTAATTCTACCCTAC-AGGG-GTATTCGGTAATTCTACCCTACAAGGGTATTTCA
79575070 ATAATT
64 ATAATT
79575076 TTGTAAATCG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
81 54 0.90
82 4 0.07
83 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (80 bp):
GGGTATCTCAGTAATTCTACCCTACAGGGGTATTCGGTAATTCTACCCTACAAGGGTATTTCAAT
AATTCTACCTTATAG
Found at i:79580891 original size:42 final size:42
Alignment explanation
Indices: 79580829--79580945 Score: 153
Period size: 42 Copynumber: 2.8 Consensus size: 42
79580819 AGTTACTGAG
*
79580829 ACTACGAGTAAGACCATATCTAGGATATGGCATCAATACGAA
1 ACTACGTGTAAGACCATATCTAGGATATGGCATCAATACGAA
* * *
79580871 ACTACGTGTAAGACCGTATCTAGGATATGGCATCGATACGAG
1 ACTACGTGTAAGACCATATCTAGGATATGGCATCAATACGAA
* * * * *
79580913 ATTACATGTAAGACCATGTTTGGGATATGGCAT
1 ACTACGTGTAAGACCATATCTAGGATATGGCAT
79580946 TGGTGCAATA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (42 bp):
ACTACGTGTAAGACCATATCTAGGATATGGCATCAATACGAA
Found at i:79589944 original size:35 final size:34
Alignment explanation
Indices: 79589877--79589944 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
79589867 AAGACTATGA
* *
79589877 GTAAGACCATATTTGGGATATGGCATCAATACGT
1 GTAAGACCACATCTGGGATATGGCATCAATACGT
* *
79589911 GTAAGACCACATCTGGGGTATTGGCATCGATACG
1 GTAAGACCACATCTGGGATA-TGGCATCAATACG
79589945 AGATTACATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (34 bp):
GTAAGACCACATCTGGGATATGGCATCAATACGT
Found at i:79593147 original size:31 final size:31
Alignment explanation
Indices: 79593110--79593172 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
79593100 TGTTATGAGA
79593110 TAGAAGTAGCAATGGCTACATATGGGGCACC
1 TAGAAGTAGCAATGGCTACATATGGGGCACC
79593141 TAGAAGTAGCAATGGCTACATATGGGGCACC
1 TAGAAGTAGCAATGGCTACATATGGGGCACC
79593172 T
1 T
79593173 TGTGTGCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.21
Consensus pattern (31 bp):
TAGAAGTAGCAATGGCTACATATGGGGCACC
Found at i:79594042 original size:32 final size:32
Alignment explanation
Indices: 79594006--79594070 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
79593996 TTTGGTTGCC
79594006 TAAGTATACCATTGTTTATGCCATTGAATTTG
1 TAAGTATACCATTGTTTATGCCATTGAATTTG
79594038 TAAGTATACCATTGTTTATGCCATTGAATTTG
1 TAAGTATACCATTGTTTATGCCATTGAATTTG
79594070 T
1 T
79594071 GTATGTGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (32 bp):
TAAGTATACCATTGTTTATGCCATTGAATTTG
Found at i:79595628 original size:40 final size:41
Alignment explanation
Indices: 79595573--79595670 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
79595563 TTTCCAGCTT
* * *
79595573 AATAATTCACCTATTTTACCT-ACTGGCAGCCTAACATGTG
1 AATAATTCACCTATTTTACATAACTGACAGCCTAACATGCG
* * *
79595613 AATAATTCACCTATTTTAGATAACTGACGGCCTAACTTGCG
1 AATAATTCACCTATTTTACATAACTGACAGCCTAACATGCG
79595654 AATAATTCACCTATTTT
1 AATAATTCACCTATTTT
79595671 GAGTGTTAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 19 0.37
41 32 0.63
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (41 bp):
AATAATTCACCTATTTTACATAACTGACAGCCTAACATGCG
Done.