Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 580 of 770
Found at i:180999294 original size:26 final size:26
Alignment explanation
Indices: 180999265--180999315 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
180999255 AATAAAAGAA
180999265 AACATTCAATATTTCTA-TTTAATTAT
1 AACATTCAATATTTC-AGTTTAATTAT
180999291 AACATTCAATATTTCAGTTTAATTA
1 AACATTCAATATTTCAGTTTAATTA
180999316 GCATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAT
Found at i:181001396 original size:26 final size:26
Alignment explanation
Indices: 181001367--181001417 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
181001357 AATAAAAGAA
181001367 AACATTCAATATTTCTA-TTTAATTAT
1 AACATTCAATATTTC-AGTTTAATTAT
181001393 AACATTCAATATTTCAGTTTAATTA
1 AACATTCAATATTTCAGTTTAATTA
181001418 GCATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAT
Found at i:181012968 original size:30 final size:30
Alignment explanation
Indices: 181012934--181013036 Score: 75
Period size: 30 Copynumber: 3.2 Consensus size: 30
181012924 TGCGACCTAG
181012934 CTACATTTATCTTTCACGTAGCTCTCTTGT
1 CTACATTTATCTTTCACGTAGCTCTCTTGT
* * * *
181012964 CTACATGGTGTCCTCACTTATCACGCATGCGAC-CTAG-
1 CTACAT--T-T-AT--CTT-TCACGTA-GC-TCTCTTGT
181013001 CTACATTTATCTTTCACGTAGCTCTCTTGT
1 CTACATTTATCTTTCACGTAGCTCTCTTGT
181013031 CTACAT
1 CTACAT
181013037 GGGATACATC
Statistics
Matches: 54, Mismatches: 8, Indels: 22
0.64 0.10 0.26
Matches are distributed among these distances:
28 1 0.02
29 5 0.09
30 18 0.33
31 3 0.06
32 1 0.02
33 2 0.04
34 2 0.04
35 1 0.02
36 3 0.06
37 12 0.22
38 5 0.09
39 1 0.02
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.39
Consensus pattern (30 bp):
CTACATTTATCTTTCACGTAGCTCTCTTGT
Found at i:181013010 original size:67 final size:69
Alignment explanation
Indices: 181012879--181013038 Score: 288
Period size: 67 Copynumber: 2.3 Consensus size: 69
181012869 CGATTTGTCT
181012879 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTT-G-ATCACGCATGCGACCTAGCTACATTTAT
181012944 CTTTCA
64 CTTTCA
181012950 CGTAGCTCTCTTGTCTACATGGTGTCC-TCACTT-ATCACGCATGCGACCTAGCTACATTTATCT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGATCACGCATGCGACCTAGCTACATTTATCT
181013013 TTCA
66 TTCA
181013017 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
181013039 GATACATCTC
Statistics
Matches: 89, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
67 56 0.63
70 6 0.07
71 27 0.30
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.36
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGATCACGCATGCGACCTAGCTACATTTATCT
TTCA
Found at i:181024339 original size:23 final size:23
Alignment explanation
Indices: 181024309--181024352 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
181024299 TAAGGATCGT
*
181024309 ATACATAGTTATTACTATGAGAA
1 ATACATAGTTATCACTATGAGAA
181024332 ATACATAGTTATCACTATGAG
1 ATACATAGTTATCACTATGAG
181024353 CAATGTTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (23 bp):
ATACATAGTTATCACTATGAGAA
Found at i:181035238 original size:40 final size:40
Alignment explanation
Indices: 181035193--181035322 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
181035183 CGGAATACAA
181035193 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
181035233 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
181035273 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
181035313 CCGGATATAA
1 CCGGATATAA
181035323 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:181044614 original size:79 final size:79
Alignment explanation
Indices: 181044477--181044659 Score: 296
Period size: 79 Copynumber: 2.3 Consensus size: 79
181044467 CCAGCATGAT
* * *
181044477 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
181044542 CATCACTAGCACGAA
65 CATCACTAGCACGAA
*
181044557 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
*
181044621 CATCACTAGCACGGA
65 CATCACTAGCACGAA
181044636 TGCTCTTCGGAACTTAGCCGGATA
1 TGCTCTTCGGAACTTAGCCGGATA
181044660 AAACCACAAG
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 7 0.07
79 58 0.60
80 31 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAC
ATCACTAGCACGAA
Found at i:181044683 original size:79 final size:79
Alignment explanation
Indices: 181044509--181044684 Score: 257
Period size: 79 Copynumber: 2.2 Consensus size: 79
181044499 ATGCATCACT
181044509 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAG
1 AGCAC-AATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAG
* * *
181044574 TCCGGATACATCACT
65 TCCGGATAAACCACA
* * *
181044589 AGCAGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGATGCTCTTCGGAACTTAG-
1 AGCACAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGT
181044653 CCGGATAAAACCACA
66 CCGGAT-AAACCACA
181044668 AGCACAATTGC-CTTCGG
1 AGCACAA-TGCTCTTCGG
181044685 GTCTTAACCC
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 6 0.07
79 74 0.85
80 7 0.08
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (79 bp):
AGCACAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGT
CCGGATAAACCACA
Found at i:181044684 original size:39 final size:40
Alignment explanation
Indices: 181044477--181044659 Score: 298
Period size: 40 Copynumber: 4.6 Consensus size: 40
181044467 CCAGCATGAT
* * * *
181044477 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
181044517 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
181044557 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
181044596 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
181044636 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
181044660 AAACCACAAG
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 45 0.33
40 90 0.67
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:181044722 original size:40 final size:40
Alignment explanation
Indices: 181044668--181044780 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
181044658 TAAAACCACA
* * *
181044668 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATA-ACAACT
1 AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATAC-ACT
* *
181044708 CA-CACAAATACCTTCGGGTCTTAGCCCGGATATATTCACT
1 -AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATACACT
* * *
181044748 AGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 AGCACAAATACCTTCGGGTCTTAGCCCGGGTAT
181044781 CATTCAAATG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 58 0.95
41 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATACACT
Found at i:181044723 original size:119 final size:118
Alignment explanation
Indices: 181044479--181044773 Score: 289
Period size: 119 Copynumber: 2.5 Consensus size: 118
181044469 AGCATGATTG
* * *
181044479 CTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATAAA
* * ** *
181044544 TCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCAGAATG
65 CCACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAATA
* * *
181044598 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGATGCTCTTCGGAACTTAGCCGGATAAAA
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGAT-AAA
* **
181044663 CCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCAC-A-CA-AATA
65 CCACAAGCACGAA-TGCTCCTCGGAACTTAACCC-GG-AT-AC-A-TCACTAGCAGAATA
* * ** *
181044718 C-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCC
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCC
181044774 CGGGTATCAT
Statistics
Matches: 146, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
118 19 0.13
119 98 0.67
120 19 0.13
121 4 0.03
122 2 0.01
123 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (118 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAAAC
CACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAATA
Found at i:181046684 original size:37 final size:36
Alignment explanation
Indices: 181046634--181046720 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
181046624 TACGAAGTCT
181046634 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
181046670 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
181046707 TCACCCGGAACATA
1 T-ACCCGG-ACATA
181046721 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:181046858 original size:49 final size:49
Alignment explanation
Indices: 181046784--181047018 Score: 389
Period size: 49 Copynumber: 4.8 Consensus size: 49
181046774 TCGGCTTTAC
* * * *
181046784 CACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATAT--ACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* *
181046835 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
181046884 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
*
181046933 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
181046982 CACATATACATATACTTTCGCATTCACCACATCGGCC
1 CACATATACATATACTTTCGCATTCACCACATCGGCC
181047019 TAATTATACT
Statistics
Matches: 177, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
49 166 0.94
51 11 0.06
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
Found at i:181046935 original size:98 final size:98
Alignment explanation
Indices: 181046769--181047367 Score: 487
Period size: 98 Copynumber: 5.9 Consensus size: 98
181046759 ATTCACATTA
* * * * * *
181046769 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATACATAT--ACTTTCGCATTCATCACATCGGCCATTAGGCCTCA
181046834 TCACATATACATACACTTTCACATTCACCACATCG
64 TCACATATACATACACTTTCACATTCACCACATCG
* *
181046869 GCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
181046934 ACATATACATATACTTTCGCATTCACCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* **
181046967 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAATTATACTTTC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCC--ATTAGGC---C
* * * * *
181047032 GCATTCACCACATCGGCCATTAGGC-CTTATCACATACATATACTTTCGCATTC-
61 TCA-TCA-CATAT---ACA-TA--CACTT-TCACAT---T-CAC---CACA-TCG
* * * * * *
181047085 ACCACATCGGCCATTAGGC-CTTATCACATATACATACATTTCGCATTCATCGCATCGGCCATTA
1 GCCA-TTAGGCC-TTA-TCACATAT-AC--AT--ATAC-TTTCGCATTCATCACATCGGCCATTA
* * * *
181047149 GGCCTCATCACATATATATACATTTTCGCATTCATCACATCG
57 GGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * *
181047191 GCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATC-GCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* * *
181047255 ACAT-TATATACATTTTCACATTCATCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* * *
181047287 GCCATTAGGCCTTATCACATATACATACA-TTT-TCA--CATCACATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
181047348 ACATATATATACATTTTCAC
66 ACATATACATACACTTTCAC
181047368 GAATCTTGAT
Statistics
Matches: 414, Mismatches: 49, Indels: 78
0.77 0.09 0.14
Matches are distributed among these distances:
92 8 0.02
93 19 0.05
94 17 0.04
95 3 0.01
96 56 0.14
97 20 0.05
98 134 0.32
99 2 0.00
100 28 0.07
101 2 0.00
103 6 0.01
104 10 0.02
105 11 0.03
106 6 0.01
108 2 0.00
109 3 0.01
110 4 0.01
111 5 0.01
113 6 0.01
114 3 0.01
115 4 0.01
116 1 0.00
118 6 0.01
119 11 0.03
120 10 0.02
121 6 0.01
123 2 0.00
124 5 0.01
125 4 0.01
126 20 0.05
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (98 bp):
GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCG
Found at i:181047114 original size:127 final size:127
Alignment explanation
Indices: 181046894--181047144 Score: 441
Period size: 127 Copynumber: 2.0 Consensus size: 127
181046884 CACATATACA
181046894 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACA-ATACATATACTTTCGCATTCA
*
181046959 CCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAAT
65 CCACATCGGCCATTAGGCCTTATCACATATACATACA-TTTCGCATTCACCACATCGGCCTAAT
*
181047023 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCAC-ATACATATACTTTCGCATTCAC
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACAATACATATACTTTCGCATTCAC
* *
181047087 CACATCGGCCATTAGGCCTTATCACATATACATACATTTCGCATTCATCGCATCGGCC
66 CACATCGGCCATTAGGCCTTATCACATATACATACATTTCGCATTCACCACATCGGCC
181047145 ATTAGGCCTC
Statistics
Matches: 118, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
126 20 0.17
127 57 0.48
129 41 0.35
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.30
Consensus pattern (127 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACAATACATATACTTTCGCATTCAC
CACATCGGCCATTAGGCCTTATCACATATACATACATTTCGCATTCACCACATCGGCCTAAT
Found at i:181047195 original size:49 final size:49
Alignment explanation
Indices: 181047028--181047365 Score: 496
Period size: 48 Copynumber: 7.1 Consensus size: 49
181047018 CTAATTATAC
* *
181047028 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATACATATAC--
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
* *
181047075 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATACA-
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
* *
181047123 TTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
*
181047172 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
* *
181047221 TTTCGCATTCATCGCATC-GCCATTAGGCCTCATCACAT-TATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
* *
181047268 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
* *
181047317 TTT--CA--CATCACATCGACCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
181047362 TTTC
1 TTTC
181047366 ACGAATCTTG
Statistics
Matches: 267, Mismatches: 19, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
45 40 0.15
47 71 0.27
48 82 0.31
49 74 0.28
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (49 bp):
TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
Found at i:181047214 original size:97 final size:97
Alignment explanation
Indices: 181047024--181047365 Score: 538
Period size: 97 Copynumber: 3.6 Consensus size: 97
181047014 CGGCCTAATT
* * *
181047024 ATAC-TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATACATATAC--TTTCGCATTCA
1 ATACATTTCGCATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTCGCATTCA
*
181047086 CCACATCGGCCATTAGGCCTTATCACATATAC
66 TCACATCGGCCATTAGGCCTTATCACATATAC
*
181047118 ATACATTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATATATACATTTTCGCATTCA
1 ATACATTTCGCATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTCGCATTCA
181047183 TCACATCGGCCATTAGGCCTTATCACATATAC
66 TCACATCGGCCATTAGGCCTTATCACATATAC
* *
181047215 ATACATTTTCGCATTCATCGCATC-GCCATTAGGCCTCATCACAT-TATATACATTTTCACATTC
1 ATACA-TTTCGCATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTCGCATTC
181047278 ATCACATCGGCCATTAGGCCTTATCACATATAC
65 ATCACATCGGCCATTAGGCCTTATCACATATAC
* *
181047311 ATACATTT-TCA--CATCACATCGACCATTAGGCCTCATCACATATATATACATTTTC
1 ATACATTTCGCATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTC
181047366 ACGAATCTTG
Statistics
Matches: 233, Mismatches: 9, Indels: 12
0.92 0.04 0.05
Matches are distributed among these distances:
92 8 0.03
93 19 0.08
94 19 0.08
95 46 0.20
96 56 0.24
97 67 0.29
98 18 0.08
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (97 bp):
ATACATTTCGCATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTCGCATTCA
TCACATCGGCCATTAGGCCTTATCACATATAC
Found at i:181051338 original size:79 final size:79
Alignment explanation
Indices: 181051201--181051383 Score: 296
Period size: 79 Copynumber: 2.3 Consensus size: 79
181051191 CCAGCATGAT
* * *
181051201 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
181051266 CATCACTAGCACGAA
65 CATCACTAGCACGAA
*
181051281 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
*
181051345 CATCACTAGCACGGA
65 CATCACTAGCACGAA
181051360 TGCTCTTCGGAACTTAGCCGGATA
1 TGCTCTTCGGAACTTAGCCGGATA
181051384 AAACCACAAG
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 7 0.07
79 58 0.60
80 31 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAC
ATCACTAGCACGAA
Found at i:181051407 original size:79 final size:79
Alignment explanation
Indices: 181051233--181051408 Score: 257
Period size: 79 Copynumber: 2.2 Consensus size: 79
181051223 ATGCATCACT
181051233 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAG
1 AGCAC-AATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAG
* * *
181051298 TCCGGATACATCACT
65 TCCGGATAAACCACA
* * *
181051313 AGCAGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGATGCTCTTCGGAACTTAG-
1 AGCACAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGT
181051377 CCGGATAAAACCACA
66 CCGGAT-AAACCACA
181051392 AGCACAATTGC-CTTCGG
1 AGCACAA-TGCTCTTCGG
181051409 GTCTTAACCC
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 6 0.07
79 74 0.85
80 7 0.08
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (79 bp):
AGCACAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGT
CCGGATAAACCACA
Found at i:181051408 original size:39 final size:40
Alignment explanation
Indices: 181051201--181051383 Score: 298
Period size: 40 Copynumber: 4.6 Consensus size: 40
181051191 CCAGCATGAT
* * * *
181051201 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
181051241 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
181051281 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
181051320 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
181051360 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
181051384 AAACCACAAG
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 45 0.33
40 90 0.67
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:181051446 original size:40 final size:40
Alignment explanation
Indices: 181051392--181051504 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
181051382 TAAAACCACA
* * *
181051392 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATA-ACAACT
1 AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATAC-ACT
* *
181051432 CA-CACAAATACCTTCGGGTCTTAGCCCGGATATATTCACT
1 -AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATACACT
* * *
181051472 AGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 AGCACAAATACCTTCGGGTCTTAGCCCGGGTAT
181051505 CATTCAAATG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 58 0.95
41 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATACACT
Found at i:181051447 original size:119 final size:118
Alignment explanation
Indices: 181051203--181051497 Score: 289
Period size: 119 Copynumber: 2.5 Consensus size: 118
181051193 AGCATGATTG
* * *
181051203 CTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATAAA
* * ** *
181051268 TCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCAGAATG
65 CCACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAATA
* * *
181051322 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGATGCTCTTCGGAACTTAGCCGGATAAAA
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGAT-AAA
* **
181051387 CCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCAC-A-CA-AATA
65 CCACAAGCACGAA-TGCTCCTCGGAACTTAACCC-GG-AT-AC-A-TCACTAGCAGAATA
* * ** *
181051442 C-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCC
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCC
181051498 CGGGTATCAT
Statistics
Matches: 146, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
118 19 0.13
119 98 0.67
120 19 0.13
121 4 0.03
122 2 0.01
123 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (118 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAAAC
CACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAATA
Found at i:181053412 original size:37 final size:36
Alignment explanation
Indices: 181053362--181053448 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
181053352 TACGAAGTCT
181053362 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
181053398 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
181053435 TCACCCGGAACATA
1 T-ACCCGG-ACATA
181053449 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:181053586 original size:49 final size:49
Alignment explanation
Indices: 181053512--181054091 Score: 406
Period size: 49 Copynumber: 12.2 Consensus size: 49
181053502 TCGGCTTTAC
* * * *
181053512 CACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATAT--ACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* *
181053563 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
181053612 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
*
181053661 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* *
181053710 CACATATACATATACTTTCGCATTCACCACATCGGCC--TA---ATTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * * * *
181053754 -AC-TTTCGCAT-TCAC---CACA-TCGGCCA-TTAGGCC-TTA-TCACAT-AT
1 CACATAT-ACATAT-ACTTTCGCATTC-ACCACATCGGCCATTAGGC-C-TCAT
* *** * * * * * * *
181053797 -ACATATACTTTCGCATTCACCACATCGGCCA-TTAGGCC-TTA-TCACAT-AT
1 CACATATACATATACTTTC-GCA-TTC-ACCACATCGGCCATTAGGC-C-TCAT
* *
181053846 -ACATA--C--AT--TTTCGCATTCATCGCATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
181053888 CACATATATATACATTTTCGCATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
181053937 CACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * * *
181053986 CACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
181054035 CACATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
181054084 CACATATA
1 CACATATA
181054092 TATACATTTT
Statistics
Matches: 454, Mismatches: 48, Indels: 56
0.81 0.09 0.10
Matches are distributed among these distances:
39 7 0.02
40 9 0.02
41 8 0.02
42 11 0.02
43 23 0.05
44 7 0.02
46 1 0.00
47 6 0.01
49 371 0.82
51 11 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
Found at i:181053663 original size:98 final size:98
Alignment explanation
Indices: 181053497--181054104 Score: 511
Period size: 98 Copynumber: 5.9 Consensus size: 98
181053487 ATTCACATTA
* * * * * *
181053497 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATACATAT--ACTTTCGCATTCATCACATCGGCCATTAGGCCTCA
181053562 TCACATATACATACACTTTCACATTCACCACATCG
64 TCACATATACATACACTTTCACATTCACCACATCG
* *
181053597 GCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
181053662 ACATATACATATACTTTCGCATTCACCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* **
181053695 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAATTATACTTTC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCC--ATTAGGC---C
* * * *
181053760 GCATTCACCACATCGGCCATTAGGC-CTTATCACATATACATATACTTTCGCATTC-
61 TCA-TCA-CATAT---ACA-TA--CACTT-TCACAT-T-C----AC---CACA-TCG
* * * * * *
181053815 ACCACATCGGCCATTAGGC-CTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATT
1 GCCA-TTAGGCC-TTA-TCACATAT-AC--AT--ATAC--TTTCGCATTCATCACATCGGCCATT
* * * *
181053879 AGGCCTCATCACATATATATACATTTTCGCATTCATCACATCG
56 AGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
181053922 GCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* * *
181053987 ACATATATATACATTTTCACATTCATCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* * * *
181054020 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
181054085 ACATATATATACATTTTCAC
66 ACATATACATACACTTTCAC
181054105 GAATCTTGAT
Statistics
Matches: 424, Mismatches: 47, Indels: 76
0.78 0.09 0.14
Matches are distributed among these distances:
98 265 0.62
100 30 0.07
102 2 0.00
103 3 0.01
104 6 0.01
105 11 0.03
106 7 0.02
107 6 0.01
108 2 0.00
109 2 0.00
110 4 0.01
111 5 0.01
112 1 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 6 0.01
117 4 0.01
118 2 0.00
119 1 0.00
120 6 0.01
121 7 0.02
122 11 0.03
123 6 0.01
124 3 0.01
125 2 0.00
127 9 0.02
129 20 0.05
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (98 bp):
GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCG
Found at i:181053781 original size:129 final size:129
Alignment explanation
Indices: 181053622--181053875 Score: 463
Period size: 129 Copynumber: 2.0 Consensus size: 129
181053612 CACATATACA
181053622 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
*
181053687 CCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAAT
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
*
181053751 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
* * *
181053816 CCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCC
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCC
181053876 ATTAGGCCTC
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (129 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
Found at i:181053804 original size:80 final size:80
Alignment explanation
Indices: 181053671--181053826 Score: 312
Period size: 80 Copynumber: 1.9 Consensus size: 80
181053661 CACATATACA
181053671 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
181053736 CCACATCGGCCTAAT
66 CCACATCGGCCTAAT
181053751 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
181053816 CCACATCGGCC
66 CCACATCGGCC
181053827 ATTAGGCCTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (80 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
CCACATCGGCCTAAT
Found at i:181054104 original size:49 final size:49
Alignment explanation
Indices: 181053756--181054102 Score: 550
Period size: 49 Copynumber: 7.1 Consensus size: 49
181053746 CTAATTATAC
* * *
181053756 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATAC
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
*
181053805 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * *
181053854 TTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
181053903 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * * *
181053952 TTTCGCATTCATCGCATCGACCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
*
181054001 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * * *
181054050 TTTCACATTCATCACATCGACCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
181054099 TTTC
1 TTTC
181054103 ACGAATCTTG
Statistics
Matches: 277, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 277 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (49 bp):
TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
Found at i:181057773 original size:35 final size:35
Alignment explanation
Indices: 181057733--181057800 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
181057723 AGAGAAAAGT
*
181057733 TGATTCAGAGGCAAAAGATTCGAGGAAGAGATTAA
1 TGATTCAGAGGCAAAAGATTCGAAGAAGAGATTAA
* *
181057768 TGATTCAGAGGCAAGAGATTTGAAGAAGAGATT
1 TGATTCAGAGGCAAAAGATTCGAAGAAGAGATT
181057801 GGTGAATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.29, T:0.22
Consensus pattern (35 bp):
TGATTCAGAGGCAAAAGATTCGAAGAAGAGATTAA
Found at i:181059896 original size:24 final size:24
Alignment explanation
Indices: 181059869--181059943 Score: 132
Period size: 24 Copynumber: 3.1 Consensus size: 24
181059859 AAGGCTGTCA
*
181059869 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
181059893 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
181059917 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
181059941 GGA
1 GGA
181059944 TAACGGTGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.33, C:0.04, G:0.41, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:181061010 original size:27 final size:26
Alignment explanation
Indices: 181060947--181061055 Score: 101
Period size: 27 Copynumber: 4.1 Consensus size: 26
181060937 AGGAAGCGTC
* * *
181060947 CTGGTGGCTATGCCATATTTATCTGAT
1 CTGGTGGCTCTGCCA-AATTATCTGTT
* * *
181060974 CTAGTTGCTCTGTCAAATATATCTGTT
1 CTGGTGGCTCTGCCAAAT-TATCTGTT
*
181061001 CTGGTGGCTCTGCCACAATTATTTGTT
1 CTGGTGGCTCTGCCA-AATTATCTGTT
* * *
181061028 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCAAATTATCTGTT
181061054 CT
1 CT
181061056 AGCAGCCATG
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
26 13 0.20
27 50 0.76
28 3 0.05
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.42
Consensus pattern (26 bp):
CTGGTGGCTCTGCCAAATTATCTGTT
Found at i:181067339 original size:24 final size:24
Alignment explanation
Indices: 181067312--181067389 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
181067302 AAGGCTGTCA
181067312 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
181067336 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
181067360 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
181067384 GGAGAA
1 GGAGAA
181067390 CGGTGTTGGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.35, C:0.04, G:0.41, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:181068897 original size:27 final size:27
Alignment explanation
Indices: 181068817--181068925 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 27
181068807 AGGAAGCGTC
* * * *
181068817 CTGGTGGCTATGCCATATTTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
181068844 CTAGTTGCTCTGCCA-AATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
*
181068871 CTGGTGGCTCTGCCACAATTATTTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
181068898 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
181068924 CT
1 CT
181068926 AGCAGCCATG
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.19
27 53 0.77
28 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.41
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:181075204 original size:24 final size:24
Alignment explanation
Indices: 181075177--181075254 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
181075167 AAGGCTGTCA
181075177 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
181075201 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
181075225 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
181075249 GGAGAA
1 GGAGAA
181075255 CGGTGTTGGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.35, C:0.04, G:0.41, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:181077610 original size:43 final size:43
Alignment explanation
Indices: 181077549--181077753 Score: 305
Period size: 43 Copynumber: 4.9 Consensus size: 43
181077539 GAATATTCGG
181077549 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
181077592 ATGATAACCGGGCCAAGTCTCGAAGGCATTTGTGTGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
181077635 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
181077678 AT-AT--TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
181077718 AT-AT--CCGGGCTAAGTCTCGAAGGCAGTTGAGCGAGT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
181077754 AGCTATATCT
Statistics
Matches: 151, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
40 67 0.44
42 2 0.01
43 82 0.54
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (43 bp):
ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:181077698 original size:40 final size:40
Alignment explanation
Indices: 181077556--181077779 Score: 290
Period size: 43 Copynumber: 5.5 Consensus size: 40
181077546 CGGATGATAA
181077556 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* * *
181077597 AACCGGGCCAAGTCTCGAAGGCATTTGTGTGAGTTACTATGAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
181077640 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
181077682 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
181077722 CCGGGCTAAGTCTCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
181077762 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
181077780 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 17 0.10
40 72 0.43
42 2 0.01
43 75 0.45
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:181083339 original size:28 final size:28
Alignment explanation
Indices: 181083301--181083407 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
181083291 GAATCATTCG
* *
181083301 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
181083329 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
181083357 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
181083385 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
181083408 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:181088400 original size:57 final size:56
Alignment explanation
Indices: 181088330--181088568 Score: 367
Period size: 57 Copynumber: 4.2 Consensus size: 56
181088320 GATCTCATTT
* * *
181088330 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTAC-GAACTCG
181088389 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAACTCG
*
181088445 --CACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTAC-AACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAACTCG
* *
181088498 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTAC-GAACTCG
181088555 CACACACAGTGCCT
1 CACACACAGTGCCT
181088569 ATGTTCACTT
Statistics
Matches: 169, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
53 6 0.04
54 46 0.27
55 45 0.27
56 7 0.04
57 58 0.34
59 7 0.04
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.18
Consensus pattern (56 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAACTCG
Found at i:181088532 original size:109 final size:111
Alignment explanation
Indices: 181088329--181088560 Score: 387
Period size: 109 Copynumber: 2.1 Consensus size: 111
181088319 TGATCTCATT
*
181088329 TCACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCGCACAC
1 TCACACAC--AGTGCCCCAACAACCGATCTCGCACACACAGTGCTTGGTTAC-GAACTCGCACAC
*
181088394 ACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTAC-GAAC
63 ACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAAC
* *
181088442 TCGCACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTAC-AACTCGCACACACA
1 TCACACACAGTGCCCCAACAACCGATCTCGCACACACAGTGCTTGGTTACGAACTCGCACACACA
181088506 GTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAAC
66 GTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAAC
181088552 TCACACACA
1 TCACACACA
181088561 CAGTGCCTAT
Statistics
Matches: 113, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
109 54 0.48
110 12 0.11
111 40 0.35
113 7 0.06
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.18
Consensus pattern (111 bp):
TCACACACAGTGCCCCAACAACCGATCTCGCACACACAGTGCTTGGTTACGAACTCGCACACACA
GTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAAC
Found at i:181090574 original size:28 final size:28
Alignment explanation
Indices: 181090536--181090642 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
181090526 GAATCATTCG
* *
181090536 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
181090564 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
181090592 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
181090620 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
181090643 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:181095700 original size:55 final size:57
Alignment explanation
Indices: 181095561--181095801 Score: 380
Period size: 57 Copynumber: 4.2 Consensus size: 57
181095551 GATCTCATTT
* * *
181095561 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
181095620 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTAC-GAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
181095676 CACGCACAGTGCCT-AACAACCGATCTCGCACACACAGTGCTTGGTTAC-GAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
181095731 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
181095788 CACACACAGTGCCT
1 CACACACAGTGCCT
181095802 ATGTTCACTT
Statistics
Matches: 171, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
55 53 0.31
56 52 0.30
57 59 0.35
59 7 0.04
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:181095767 original size:111 final size:113
Alignment explanation
Indices: 181095560--181095802 Score: 400
Period size: 111 Copynumber: 2.2 Consensus size: 113
181095550 TGATCTCATT
** * *
181095560 TCACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCGCACAC
1 TCACACACACAGTG-CCTAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCGCACAC
*
181095625 ACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTAC-GAAC
65 ACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAAC
* *
181095673 TCGCACGCACAGTGCCTAACAACCGATCTCGCACACACAGTGCTTGGTTAC-GAACTCGCACACA
1 TCACACACACAGTGCCTAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCGCACACA
181095737 CAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAAC
66 CAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAAC
181095785 TCACACACACAGTGCCTA
1 TCACACACACAGTGCCTA
181095803 TGTTCACTTG
Statistics
Matches: 120, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
111 55 0.46
112 55 0.46
113 10 0.08
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.18
Consensus pattern (113 bp):
TCACACACACAGTGCCTAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCGCACACA
CAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAAC
Found at i:181095792 original size:84 final size:85
Alignment explanation
Indices: 181095561--181095799 Score: 216
Period size: 84 Copynumber: 2.8 Consensus size: 85
181095551 GATCTCATTT
* * * *
181095561 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCGCACACA
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCGCACACA
*
181095626 CAGTGCCTCAACAACCGATCTCG
64 CAGTG-CTCAACAACCGAACTCG
**** * * * ** * *
181095649 CACACACAGTG-CTCGGTTA-CGAACTCGCACGCACAGTGC-CTAACAACCGATCTCGCACACAC
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTC-GATTACGGAACTCGCACACAC
*****
181095711 AGTGCTTGGTTA-CGAACTCG
65 AGTGCTCAACAACCGAACTCG
*
181095731 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCACACACACA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCGCACACACA
181095796 GTGC
66 GTGC
181095800 CTATGTTCAC
Statistics
Matches: 114, Mismatches: 33, Indels: 12
0.72 0.21 0.08
Matches are distributed among these distances:
82 18 0.16
83 7 0.06
84 74 0.65
85 4 0.04
86 4 0.04
88 7 0.06
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (85 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCGCACACACA
GTGCTCAACAACCGAACTCG
Found at i:181097805 original size:28 final size:28
Alignment explanation
Indices: 181097767--181097873 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
181097757 GAATCATTCG
* *
181097767 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
181097795 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
181097823 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
181097851 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
181097874 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:181102859 original size:28 final size:28
Alignment explanation
Indices: 181102816--181103036 Score: 174
Period size: 28 Copynumber: 7.8 Consensus size: 28
181102806 TGCCCCAACA
* * * *
181102816 ACCGATCTTGCACACACAGTGCTTGGTT
1 ACCGAACTCGCACACACAGTGCTCGATT
* * **
181102844 ACGGAACTCGCACACACAGTGCCTCAACA
1 ACCGAACTCGCACACACAGTG-CTCGATT
* *
181102873 ACCGATCTCGCACACACAGTGCTCGGTT
1 ACCGAACTCGCACACACAGTGCTCGATT
* ** **
181102901 A-CGAAACTCGCACGCACAGTGCCTTAACA
1 ACCG-AACTCGCACACACAGTG-CTCGATT
* * *
181102930 ACCGATCTCGCACACACAGTGCTTGGTT
1 ACCGAACTCGCACACACAGTGCTCGATT
* * **
181102958 ACAGAACTCGCACACACAGTGCCTCAACA
1 ACCGAACTCGCACACACAGTG-CTCGATT
*
181102987 ACCGATCTCGCACACACAGTGCTCGATT
1 ACCGAACTCGCACACACAGTGCTCGATT
* *
181103015 ACGGAACTCACACACACAGTGC
1 ACCGAACTCGCACACACAGTGC
181103037 CTATGTTCAC
Statistics
Matches: 146, Mismatches: 42, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
27 2 0.01
28 82 0.56
29 60 0.41
30 2 0.01
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.18
Consensus pattern (28 bp):
ACCGAACTCGCACACACAGTGCTCGATT
Found at i:181102865 original size:57 final size:57
Alignment explanation
Indices: 181102795--181103038 Score: 380
Period size: 57 Copynumber: 4.2 Consensus size: 57
181102785 GATCTCATTT
* * *
181102795 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
181102854 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * * *
181102911 CACGCACAGTGCCTTAACAACCGATCTCGCACACACAGTGCTTGGTTACAGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
181102968 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
181103025 CACACACAGTGCCT
1 CACACACAGTGCCT
181103039 ATGTTCACTT
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
57 163 0.96
59 7 0.04
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:181102891 original size:29 final size:29
Alignment explanation
Indices: 181102795--181103008 Score: 166
Period size: 29 Copynumber: 7.4 Consensus size: 29
181102785 GATCTCATTT
* *
181102795 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
***** * *
181102826 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
181102854 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** *
181102883 CACACACAGTG-CTCGGTTA-CGAAACTCG
1 CACACACAGTGCCTCAACAACCG-ATCTCG
* *
181102911 CACGCACAGTGCCTTAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
***** * *
181102940 CACACACAGTG-CTTGGTTACAGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
181102968 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
181102997 CACACACAGTGC
1 CACACACAGTGC
181103009 TCGATTACGG
Statistics
Matches: 136, Mismatches: 42, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
27 2 0.01
28 60 0.44
29 65 0.48
30 2 0.01
31 7 0.05
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:181105047 original size:28 final size:28
Alignment explanation
Indices: 181105009--181105109 Score: 148
Period size: 28 Copynumber: 3.6 Consensus size: 28
181104999 GAATCATTCG
* *
181105009 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
181105037 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
181105065 ATATTTCGTACACTAAGTGCCATACTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
181105093 ATATTTCGTACACTAAG
1 ATATTTCGCACACTAAG
181105110 AACCATATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:181109723 original size:27 final size:27
Alignment explanation
Indices: 181109705--181109801 Score: 176
Period size: 27 Copynumber: 3.6 Consensus size: 27
181109695 ATAGTGAGTC
181109705 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
181109732 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
181109759 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
181109787 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
181109802 GTACAAGTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
27 49 0.72
28 19 0.28
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:181117805 original size:28 final size:27
Alignment explanation
Indices: 181117742--181117811 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
181117732 ATAGTGAGTC
181117742 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
181117769 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
181117797 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
181117812 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:181126038 original size:17 final size:17
Alignment explanation
Indices: 181126018--181126051 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
181126008 TTCGTATATT
*
181126018 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
181126035 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
181126052 GCGAATCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:181128911 original size:18 final size:18
Alignment explanation
Indices: 181128888--181128924 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
181128878 ATGAAGCTGG
* *
181128888 TTTATCTCATTTTTCCAC
1 TTTATCTAATTTATCCAC
181128906 TTTATCTAATTTATCCAC
1 TTTATCTAATTTATCCAC
181128924 T
1 T
181128925 GCGTCGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATCTAATTTATCCAC
Found at i:181130673 original size:12 final size:11
Alignment explanation
Indices: 181130656--181130703 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 11
181130646 AAATAATACT
181130656 AATATATATTAG
1 AATATATA-TAG
*
181130668 AATATATATAT
1 AATATATATAG
*
181130679 AATAGA-ATAG
1 AATATATATAG
181130689 AATATATAATAG
1 AATATAT-ATAG
181130701 AAT
1 AAT
181130704 TAATATTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.27
11 7 0.23
12 15 0.50
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (11 bp):
AATATATATAG
Found at i:181130695 original size:17 final size:16
Alignment explanation
Indices: 181130629--181130709 Score: 74
Period size: 16 Copynumber: 4.9 Consensus size: 16
181130619 ATAGATAAGA
181130629 AATAG-ATAAATAATAT
1 AATAGAATAAAT-ATAT
* *
181130645 AAAATAATACTAATATAT
1 AATAGAATA--AATATAT
* *
181130663 ATTAGAATATATATAT
1 AATAGAATAAATATAT
181130679 AATAGAATAGAATATAT
1 AATAGAATA-AATATAT
*
181130696 AATAGAATTAATAT
1 AATAGAATAAATAT
181130710 TCTAACATCT
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
16 22 0.42
17 17 0.33
18 10 0.19
19 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (16 bp):
AATAGAATAAATATAT
Found at i:181134143 original size:15 final size:15
Alignment explanation
Indices: 181134123--181134153 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
181134113 CTGTATCAGT
181134123 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
181134138 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
181134153 A
1 A
181134154 CGGAACCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
AATGAATCAGAGCAC
Found at i:181138899 original size:18 final size:18
Alignment explanation
Indices: 181138878--181138920 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
181138868 CCTTTCCCCC
*
181138878 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
*
181138896 TTCTTTCGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
181138914 TGCTTTC
1 TTCTTTC
181138921 TTTTTATGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.14, G:0.07, T:0.70
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:181139561 original size:15 final size:17
Alignment explanation
Indices: 181139541--181139572 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
181139531 ACGTTTCATT
181139541 TATATAA-T-CATAAAA
1 TATATAACTGCATAAAA
181139556 TATATAACTGCATAAAA
1 TATATAACTGCATAAAA
181139573 AGATTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAACTGCATAAAA
Found at i:181139730 original size:17 final size:17
Alignment explanation
Indices: 181139708--181139746 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
181139698 AATTTAGATG
*
181139708 TAAAATATACTA-AAATA
1 TAAAATAAACTAGAAA-A
181139725 TAAAATAAACTAGAAAA
1 TAAAATAAACTAGAAAA
181139742 TAAAA
1 TAAAA
181139747 ATGGAGTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAATAAACTAGAAAA
Found at i:181139830 original size:9 final size:9
Alignment explanation
Indices: 181139816--181139846 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
181139806 ATAAAAAAAG
181139816 ATATTAAAT
1 ATATTAAAT
181139825 ATATTAAAT
1 ATATTAAAT
*
181139834 ATATAAAAT
1 ATATTAAAT
181139843 ATAT
1 ATAT
181139847 AGATAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATATTAAAT
Found at i:181139863 original size:19 final size:21
Alignment explanation
Indices: 181139829--181139872 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
181139819 TTAAATATAT
181139829 TAAATATATAAAATATATAGA
1 TAAATATATAAAATATATAGA
*
181139850 TAAATA-AT-AAATATATATA
1 TAAATATATAAAATATATAGA
181139869 TAAA
1 TAAA
181139873 ATTTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
20 2 0.09
21 6 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAATATATAAAATATATAGA
Found at i:181140049 original size:13 final size:13
Alignment explanation
Indices: 181140033--181140059 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
181140023 TTCGAGTCTC
181140033 TAATTCATATTAA
1 TAATTCATATTAA
181140046 TAATTCATATTAA
1 TAATTCATATTAA
181140059 T
1 T
181140060 TATGAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTCATATTAA
Found at i:181140481 original size:22 final size:22
Alignment explanation
Indices: 181140447--181140502 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
181140437 TTTATTTATC
181140447 TATTTA-ATATTATAT-TCAATT
1 TATTTATATATTATATCT-AATT
*
181140468 TATTTATATATTATATCTATTT
1 TATTTATATATTATATCTAATT
181140490 TATTATATATATT
1 TATT-TATATATT
181140503 CTAAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 6 0.19
22 16 0.52
23 9 0.29
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTTATATATTATATCTAATT
Found at i:181140522 original size:15 final size:15
Alignment explanation
Indices: 181140497--181140532 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
181140487 TTTTATTATA
181140497 TATATTCTAAATATTT
1 TATA-TCTAAATATTT
181140513 TATATCTAAATATTT
1 TATATCTAAATATTT
181140528 TATAT
1 TATAT
181140533 ATTTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATCTAAATATTT
Found at i:181140544 original size:15 final size:15
Alignment explanation
Indices: 181140497--181140575 Score: 59
Period size: 16 Copynumber: 4.9 Consensus size: 15
181140487 TTTTATTATA
*
181140497 TATATTCTAAATATTT
1 TATATT-TATATATTT
* *
181140513 TATATCTAAATATTT
1 TATATTTATATATTT
*
181140528 TATATATTTTATATTT
1 TATAT-TTATATATTT
*
181140544 ATATATTAATATTATTTT
1 -TATATTTATA-TA-TTT
181140562 TATATATTATATAT
1 TATAT-TTATATAT
181140576 ATATTTATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
15 14 0.27
16 16 0.31
17 14 0.27
18 7 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATTTATATATTT
Found at i:181140563 original size:19 final size:20
Alignment explanation
Indices: 181140530--181140581 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
181140520 AAATATTTTA
* *
181140530 TATATTTTATATTTATATAT
1 TATATATTATTTTTATATAT
181140550 TA-ATATTATTTTTATATAT
1 TATATATTATTTTTATATAT
181140569 TATATATATATTT
1 TATATAT-TATTT
181140582 ATTTCTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 17 0.61
20 6 0.21
21 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATATTATTTTTATATAT
Found at i:181140568 original size:34 final size:34
Alignment explanation
Indices: 181140468--181140584 Score: 100
Period size: 34 Copynumber: 3.4 Consensus size: 34
181140458 ATATTCAATT
181140468 TATTTATATATT-ATATCTATTTTATTATATATATTCTAAA
1 TATTTATATATTAATAT-TA-TTT-TTATATAT-TT-T--A
181140508 TATTT-TATATCTAA-A-TA-TTTTATATATTTTA
1 TATTTATATAT-TAATATTATTTTTATATATTTTA
*
181140539 TATTTATATATTAATATTATTTTTATATATTATA
1 TATTTATATATTAATATTATTTTTATATATTTTA
* *
181140573 TATATATTTATT
1 TATTTATATATT
181140585 TCTATTTTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 18
0.76 0.03 0.20
Matches are distributed among these distances:
31 9 0.13
32 6 0.09
33 3 0.04
34 25 0.37
35 8 0.12
36 2 0.03
38 2 0.03
39 5 0.07
40 7 0.10
41 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (34 bp):
TATTTATATATTAATATTATTTTTATATATTTTA
Found at i:181140574 original size:9 final size:9
Alignment explanation
Indices: 181140490--181140577 Score: 57
Period size: 9 Copynumber: 10.3 Consensus size: 9
181140480 ATATCTATTT
181140490 TATTATATA
1 TATTATATA
* *
181140499 TATTCTAAA
1 TATTATATA
181140508 TATT-T-TA
1 TATTATATA
181140515 TATCTA-A-A
1 TAT-TATATA
*
181140523 TATTTTATA
1 TATTATATA
181140532 TATT-T-TA
1 TATTATATA
181140539 TATT-TATA
1 TATTATATA
181140547 TATTA-ATA
1 TATTATATA
*
181140555 TTATTTTTATA
1 -TA-TTATATA
181140566 TATTATATA
1 TATTATATA
181140575 TAT
1 TAT
181140578 ATTTATTTCT
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
7 12 0.19
8 17 0.27
9 27 0.43
10 4 0.06
11 3 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTATATA
Found at i:181141870 original size:14 final size:14
Alignment explanation
Indices: 181141848--181141881 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
181141838 AATAGAAAAC
*
181141848 TTTTCATCACTTTT
1 TTTTTATCACTTTT
181141862 TTTTTATCACTTTT
1 TTTTTATCACTTTT
*
181141876 TCTTTA
1 TTTTTA
181141882 GCCTCCGGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTATCACTTTT
Found at i:181143220 original size:16 final size:16
Alignment explanation
Indices: 181143199--181143249 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
181143189 AAGAAAGAGC
181143199 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
181143215 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
*
181143231 AAACACGCTAGTAAAT
1 AAATACGCTAGTAAAT
181143247 AAA
1 AAA
181143250 ATACTAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.22
Consensus pattern (16 bp):
AAATACGCTAGTAAAT
Found at i:181144189 original size:16 final size:17
Alignment explanation
Indices: 181144168--181144201 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
181144158 AATTAGAGAA
181144168 TTCTATTTAA-TTCTAT
1 TTCTATTTAATTTCTAT
181144184 TTCTATTTAATTTCTAT
1 TTCTATTTAATTTCTAT
181144201 T
1 T
181144202 AAATCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TTCTATTTAATTTCTAT
Found at i:181144894 original size:15 final size:15
Alignment explanation
Indices: 181144876--181144906 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
181144866 ATAACTAAAG
181144876 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
181144891 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
181144906 A
1 A
181144907 GATGAGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:181150574 original size:26 final size:26
Alignment explanation
Indices: 181150545--181150633 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 26
181150535 AAATTACAAG
*
181150545 TTATTAGCAATTAATATTAATTTATA
1 TTATTAGTAATTAATATTAATTTATA
* * **
181150571 TTATTTGTTATTAATATTAA-GAATA
1 TTATTAGTAATTAATATTAATTTATA
*
181150596 TTA--AGTAATTAATAAT-ATTTATA
1 TTATTAGTAATTAATATTAATTTATA
181150619 TTATTA-T-ATTAATAT
1 TTATTAGTAATTAATAT
181150634 ATTTCGATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
22 1 0.02
23 23 0.47
24 1 0.02
25 7 0.14
26 17 0.35
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (26 bp):
TTATTAGTAATTAATATTAATTTATA
Found at i:181150625 original size:8 final size:8
Alignment explanation
Indices: 181150614--181150786 Score: 55
Period size: 8 Copynumber: 21.2 Consensus size: 8
181150604 TTAATAATAT
181150614 TTATATTA
1 TTATATTA
181150622 TTATATTA
1 TTATATTA
*
181150630 ATATATTTCGA
1 TTATA-TT--A
*
181150641 TT-TATAAA
1 TTATAT-TA
181150649 TCTATATT-
1 T-TATATTA
181150657 TCTATATTA
1 T-TATATTA
181150666 TT-TATT-
1 TTATATTA
*
181150672 TTATTATTC
1 TTA-TATTA
*
181150681 TATCTATTA
1 T-TATATTA
181150690 TTATATTA
1 TTATATTA
181150698 TCTAT-TTA
1 T-TATATTA
*
181150706 TAAT-TTA
1 TTATATTA
181150713 -TATATTA
1 TTATATTA
181150720 TT-T-TTA
1 TTATATTA
181150726 TATATTATTA
1 T-TA-TATTA
181150736 TTATATATA
1 TTATAT-TA
181150745 TT-T-TTA
1 TTATATTA
*
181150751 TATATATTT
1 T-TATATTA
*
181150760 TTATTTCTA
1 TTATAT-TA
181150769 TT-TAGTTA
1 TTATA-TTA
*
181150777 TTATTTTA
1 TTATATTA
181150785 TT
1 TT
181150787 TCTATTTAGT
Statistics
Matches: 126, Mismatches: 14, Indels: 50
0.66 0.07 0.26
Matches are distributed among these distances:
6 11 0.09
7 16 0.13
8 58 0.46
9 29 0.23
10 10 0.08
11 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (8 bp):
TTATATTA
Found at i:181150725 original size:13 final size:12
Alignment explanation
Indices: 181150709--181150763 Score: 83
Period size: 12 Copynumber: 4.4 Consensus size: 12
181150699 CTATTTATAA
181150709 TTTATATATTATT
1 TTTATATA-TATT
181150722 TTTATATATTATT
1 TTTATATA-TATT
*
181150735 ATTATATATATT
1 TTTATATATATT
181150747 TTTATATATATT
1 TTTATATATATT
181150759 TTTAT
1 TTTAT
181150764 TTCTATTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
12 20 0.50
13 20 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTATATATATT
Found at i:181150738 original size:49 final size:46
Alignment explanation
Indices: 181150685--181150857 Score: 162
Period size: 49 Copynumber: 3.7 Consensus size: 46
181150675 TTATTCTATC
* * *
181150685 TATTATTATATTATCTATTTATAATT-TATATATTATTTTTATATA-T
1 TATTATTATATTAT-TATTTAT-ATTATATATTTTATTTCTATTTAGT
181150731 TATTATTATATATATT-TTTATA-TATAT-TTTTATTTCTATTTAGT
1 TATTATTATAT-TATTATTTATATTATATATTTTATTTCTATTTAGT
* *
181150775 TATTATTTTATT-TCTATTTAGTTATTATTTATTTTTATTTCTATTTAGT
1 TATTATTATATTAT-TATTTA--TATTATATA-TTTTATTTCTATTTAGT
181150824 TATTATT-TAGTTATTATTTATATTTAGTATATTT
1 TATTATTATA-TTATTATTTATA-TTA-TATATTT
181150858 AGAATTTATT
Statistics
Matches: 107, Mismatches: 6, Indels: 26
0.77 0.04 0.19
Matches are distributed among these distances:
42 1 0.01
43 15 0.14
44 19 0.18
45 5 0.05
46 14 0.13
47 9 0.08
48 8 0.07
49 35 0.33
50 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (46 bp):
TATTATTATATTATTATTTATATTATATATTTTATTTCTATTTAGT
Found at i:181150783 original size:22 final size:22
Alignment explanation
Indices: 181150758--181150831 Score: 103
Period size: 22 Copynumber: 3.1 Consensus size: 22
181150748 TTATATATAT
181150758 TTTTATTTCTATTTAGTTATTA
1 TTTTATTTCTATTTAGTTATTA
181150780 TTTTATTTCTATTTAGTTATTATTTA
1 TTTTATTTCTATTTAG---TTA-TTA
181150806 TTTTTATTTCTATTTAGTTATTA
1 -TTTTATTTCTATTTAGTTATTA
181150829 TTT
1 TTT
181150832 AGTTATTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
22 19 0.40
23 3 0.06
24 3 0.06
25 3 0.06
26 3 0.06
27 16 0.34
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTATTTCTATTTAGTTATTA
Found at i:181150803 original size:11 final size:11
Alignment explanation
Indices: 181150767--181150843 Score: 68
Period size: 11 Copynumber: 6.5 Consensus size: 11
181150757 TTTTTATTTC
181150767 TATTTAGTTAT
1 TATTTAGTTAT
181150778 TATTTTA-TT-T
1 TA-TTTAGTTAT
181150788 CTATTTAGTTAT
1 -TATTTAGTTAT
*
181150800 TATTTATTTTTATTT
1 TATTTA--GTTA--T
181150815 CTATTTAGTTAT
1 -TATTTAGTTAT
181150827 TATTTAGTTAT
1 TATTTAGTTAT
181150838 TATTTA
1 TATTTA
181150844 TATTTAGTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
10 5 0.09
11 31 0.56
12 6 0.11
13 3 0.05
14 3 0.05
15 1 0.02
16 6 0.11
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (11 bp):
TATTTAGTTAT
Found at i:181150915 original size:31 final size:33
Alignment explanation
Indices: 181150873--181150946 Score: 100
Period size: 31 Copynumber: 2.3 Consensus size: 33
181150863 TTATTATTAT
*
181150873 TTAAT-ATTTAATTTAAGT-TAAATAGAA-AAA
1 TTAATAATTTAATTTAAGTATAAATAAAATAAA
*
181150903 TTAATAATTTAATTTAAGTATAATTAAAATAAA
1 TTAATAATTTAATTTAAGTATAAATAAAATAAA
*
181150936 TTATTAATTTA
1 TTAATAATTTA
181150947 TTTTCATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.13
31 13 0.34
32 7 0.18
33 13 0.34
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (33 bp):
TTAATAATTTAATTTAAGTATAAATAAAATAAA
Found at i:181156603 original size:25 final size:25
Alignment explanation
Indices: 181156569--181156618 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
181156559 ATCTAGTTTC
181156569 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
181156594 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
181156619 ATAAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTATAATATCTATTTATTTCTA
Found at i:181156610 original size:15 final size:15
Alignment explanation
Indices: 181156569--181156611 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
181156559 ATCTAGTTTC
181156569 TTTTTATAATATCTA
1 TTTTTATAATATCTA
181156584 --TTTAT--T-TCTA
1 TTTTTATAATATCTA
181156594 TTTTTATAATATCTA
1 TTTTTATAATATCTA
181156609 TTT
1 TTT
181156612 ATTTCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 4 0.17
11 1 0.04
12 5 0.22
13 5 0.22
14 1 0.04
15 7 0.30
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTATAATATCTA
Found at i:181156625 original size:21 final size:23
Alignment explanation
Indices: 181156573--181156626 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
181156563 AGTTTCTTTT
*
181156573 TATAATATCTATTTATTTCTATTTT
1 TATAATATCTATTTATTTCTA--TA
181156598 TATAATATCTATTTATTTCTA-A
1 TATAATATCTATTTATTTCTATA
181156620 TA-AATAT
1 TATAATAT
181156627 TTATATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 2 0.07
25 21 0.75
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (23 bp):
TATAATATCTATTTATTTCTATA
Found at i:181163236 original size:66 final size:68
Alignment explanation
Indices: 181163160--181163346 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
181163150 TAGTACCACT
*
181163160 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
181163222 CACG
65 CACG
181163226 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
181163291 ATCACG
63 ATCACG
181163297 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
181163347 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:181163271 original size:71 final size:71
Alignment explanation
Indices: 181163183--181163346 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
181163173 CGATTTGTCT
181163183 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
181163248 CTTTCA
66 CTTTCA
181163254 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
181163319 CTTTCA
66 CTTTCA
181163325 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
181163347 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:181163384 original size:71 final size:70
Alignment explanation
Indices: 181163183--181163380 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
181163173 CGATTTGTCT
* * *
181163183 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
181163248 CTTTCA
65 CTTTCA
* * *
181163254 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
181163319 CTTTCA
65 CTTTCA
* *
181163325 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
181163381 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:181170805 original size:66 final size:68
Alignment explanation
Indices: 181170729--181170915 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
181170719 TAGTACCACT
*
181170729 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
181170791 CACG
65 CACG
181170795 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
181170860 ATCACG
63 ATCACG
181170866 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
181170916 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:181170840 original size:71 final size:71
Alignment explanation
Indices: 181170752--181170915 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
181170742 CGATTTGTCT
181170752 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
181170817 CTTTCA
66 CTTTCA
181170823 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
181170888 CTTTCA
66 CTTTCA
181170894 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
181170916 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:181170953 original size:71 final size:70
Alignment explanation
Indices: 181170752--181170949 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
181170742 CGATTTGTCT
* * *
181170752 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
181170817 CTTTCA
65 CTTTCA
* * *
181170823 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
181170888 CTTTCA
65 CTTTCA
* *
181170894 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
181170950 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:181172575 original size:38 final size:38
Alignment explanation
Indices: 181172505--181172588 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
181172495 TGACTATATG
* *
181172505 TAGAGATTATGTCCGGGTAAAGACCCGATGGCTAT-GTA
1 TAGAGATTATGTCCGGATAAAGACCCGATGGCT-TCATA
*
181172543 TAGAGATTATGTCCGGATTAAGACCC-ACTGGCTTCATA
1 TAGAGATTATGTCCGGATAAAGACCCGA-TGGCTTCATA
181172581 TAGAGATT
1 TAGAGATT
181172589 TCATCTGAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
37 2 0.05
38 39 0.95
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (38 bp):
TAGAGATTATGTCCGGATAAAGACCCGATGGCTTCATA
Found at i:181172674 original size:40 final size:40
Alignment explanation
Indices: 181172619--181172851 Score: 385
Period size: 40 Copynumber: 5.8 Consensus size: 40
181172609 GACGATGATT
*
181172619 CGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTATATC
1 CGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATC
*
181172659 CGGGCTAAATCCCGAAAGGCATTCGTGCCGGTGTTATATC
1 CGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATC
* *
181172699 TGGGCTAAATCCCGAAAGGCATTCGTGCCGGTGTTATATC
1 CGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATC
* *
181172739 CGGGCTAAATCCCGAAGGGCATTCATGTCGGTGTTATATC
1 CGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATC
* *
181172779 CGGGCTAAATCCCGAAGGGTATTCGTGCCGATGTTATATC
1 CGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATC
*
181172819 CGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTG
1 CGGGCTAAATCCCGAAGGGCATTCGTGCCGGTG
181172852 ATGTGTATTC
Statistics
Matches: 179, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (40 bp):
CGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTATATC
Found at i:181177627 original size:91 final size:92
Alignment explanation
Indices: 181177518--181177687 Score: 297
Period size: 91 Copynumber: 1.8 Consensus size: 92
181177508 CGCCCATAAG
* *
181177518 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
181177583 ACGAG-CGGATGCCTAGTTACATCTCA
66 ACGAGTCGGATGCCTAGTTACATCTCA
*
181177609 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
181177674 ACGAGTTCGGATGC
66 ACGAG-TCGGATGC
181177688 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 67 0.91
93 7 0.09
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTCGGATGCCTAGTTACATCTCA
Found at i:181177684 original size:46 final size:46
Alignment explanation
Indices: 181177511--181177684 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
181177501 TGTAACCCGC
* * *
181177511 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
181177557 CCATAAGTGAACTCGGACTCAACTCAACGAG--CGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
181177605 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
181177648 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
181177685 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 5 0.05
45 25 0.23
46 61 0.56
47 6 0.06
48 3 0.03
49 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:181182460 original size:40 final size:40
Alignment explanation
Indices: 181182394--181182544 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
181182384 AAATTGAATG
* *
181182394 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
181182433 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
181182473 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
181182513 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
181182545 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:181182528 original size:80 final size:79
Alignment explanation
Indices: 181182396--181182544 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
181182386 ATTGAATGAT
*
181182396 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
181182461 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * * *
181182475 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
181182538 TTTGTGC
63 ATTGTGC
181182545 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.26
80 45 0.74
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Found at i:181182559 original size:80 final size:79
Alignment explanation
Indices: 181182394--181182560 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
181182384 AAATTGAATG
*
181182394 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
181182459 TTGTGCTAGTGGCT
66 TTGTGCTAATGGCT
* * * * *
181182473 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
181182536 CATTTGTGC-ACATGGTT
63 CAATTGTGCTA-ATGGCT
181182553 ATATCCGG
1 ATATCCGG
181182561 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 18 0.24
80 56 0.76
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAATGGCT
Found at i:181191729 original size:30 final size:30
Alignment explanation
Indices: 181191693--181191793 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
181191683 GACAAGATTG
* * *
181191693 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
181191723 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
181191751 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
181191780 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
181191794 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:181191805 original size:29 final size:28
Alignment explanation
Indices: 181191722--181191797 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
181191712 AAAATTGTAC
* *
181191722 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
181191750 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
181191779 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
181191798 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:181207903 original size:42 final size:42
Alignment explanation
Indices: 181207851--181207933 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
181207841 GGAGCAGCTA
181207851 AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATC
1 AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATC
*
181207893 AAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGAT
1 AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGAT
181207934 TGAAGTCACG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (42 bp):
AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATC
Found at i:181208690 original size:16 final size:17
Alignment explanation
Indices: 181208664--181208696 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
181208654 ATACATATAT
181208664 TAAAAACATAAAAAAAA
1 TAAAAACATAAAAAAAA
181208681 TAAAAA-ATAAAAAAAA
1 TAAAAACATAAAAAAAA
181208697 GGAAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (17 bp):
TAAAAACATAAAAAAAA
Found at i:181208702 original size:16 final size:16
Alignment explanation
Indices: 181208665--181208707 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
181208655 TACATATATT
*
181208665 AAAAACATAAAAAAAAT
1 AAAAA-ATAAAAAAAAG
181208682 AAAAAATAAAAAAAAG
1 AAAAAATAAAAAAAAG
*
181208698 -GAAAATAAAA
1 AAAAAATAAAA
181208708 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.38
16 10 0.42
17 5 0.21
ACGTcount: A:0.84, C:0.02, G:0.05, T:0.09
Consensus pattern (16 bp):
AAAAAATAAAAAAAAG
Found at i:181209172 original size:3 final size:3
Alignment explanation
Indices: 181209164--181209299 Score: 59
Period size: 3 Copynumber: 45.0 Consensus size: 3
181209154 CTTATTACTG
* * * *
181209164 TTA TTA TTA -TA TTT TTA TTA GTG TT- CTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
181209209 TT- TGA TGC TTA TATA TATA TATA TTA -TA TTA TATA GTA TTA TTA ATA
1 TTA TTA TTA TTA T-TA T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA
* * *
181209256 GCTT- TTA ATA TTA TTA TTA TTA CTA TTA GTA TTA TTA TATA TTA
1 --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
181209300 GTGTATATTT
Statistics
Matches: 101, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
2 10 0.10
3 74 0.73
4 16 0.16
5 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:181209411 original size:3 final size:3
Alignment explanation
Indices: 181209403--181209441 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
181209393 TGTATTTCTA
* * *
181209403 TAT TAT TAT TAT TAT TAT TGT CAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
181209442 ATAGTAGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:181209622 original size:12 final size:12
Alignment explanation
Indices: 181209605--181209629 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
181209595 GTATTATGTT
181209605 TTTTTAATACCA
1 TTTTTAATACCA
181209617 TTTTTAATACCA
1 TTTTTAATACCA
181209629 T
1 T
181209630 GCATGTTGTG
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTTAATACCA
Found at i:181212157 original size:25 final size:24
Alignment explanation
Indices: 181212123--181212246 Score: 106
Period size: 25 Copynumber: 5.0 Consensus size: 24
181212113 TCATGTACAT
* *
181212123 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTC-TACGAGCTATAAATCG
** * *
181212148 GTATGCTCATTTGAGCTGA-AGATAG
1 GTATGCTC-TACGAGCT-ATAAATCG
* *
181212173 GTATGCTCTCATGAGCTATAAATCA
1 GTATGCTCT-ACGAGCTATAAATCG
181212198 GTATGCTCTTACGAGCTATAAATCG
1 GTATGCTC-TACGAGCTATAAATCG
*
181212223 GTATACTCTCACGAGCTATAAATC
1 GTATGCTCT-ACGAGCTATAAATC
181212247 AATAACCCTA
Statistics
Matches: 81, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
24 3 0.04
25 77 0.95
26 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (24 bp):
GTATGCTCTACGAGCTATAAATCG
Found at i:181213670 original size:35 final size:35
Alignment explanation
Indices: 181213615--181213698 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 35
181213605 CTCATGATGT
* **
181213615 TATGCGAACCTATGTTCTTATGTGAACCTATGTTA
1 TATGCGAACCTATATTCTTATGCCAACCTATGTTA
* * *
181213650 TATGGGAACTTATATTCTTATGCCAACCTATGTTGT
1 TATGCGAACCTATATTCTTATGCCAACCTATGTT-A
*
181213686 TATGTGAACCTAT
1 TATGCGAACCTAT
181213699 GCTATATGCG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 29 0.73
36 11 0.28
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (35 bp):
TATGCGAACCTATATTCTTATGCCAACCTATGTTA
Found at i:181213707 original size:35 final size:35
Alignment explanation
Indices: 181213674--181213772 Score: 89
Period size: 35 Copynumber: 2.8 Consensus size: 35
181213664 TTCTTATGCC
* *
181213674 AACCTATGTTGTTATGTGAACCTATGCTATATGCGA
1 AACC-ATGATGTTATGCGAACCTATGCTATATGCGA
* * *
181213710 AACCATGATGTTATGCGAACTTATGTTGTTATGCG-
1 AACCATGATGTTATGCGAACCTATGCT-ATATGCGA
181213745 AA-CAT-ATGCTATATGCGAA-CTATGCTAT
1 AACCATGATG-T-TATGCGAACCTATGCTAT
181213773 GTACAAATTG
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
33 4 0.08
34 9 0.17
35 29 0.56
36 10 0.19
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (35 bp):
AACCATGATGTTATGCGAACCTATGCTATATGCGA
Found at i:181213724 original size:53 final size:54
Alignment explanation
Indices: 181213599--181213763 Score: 212
Period size: 53 Copynumber: 3.1 Consensus size: 54
181213589 CATGTTGTTT
* *
181213599 TGCG-AACTCATGATGTTATGCGAACCTATGTTCTTATGTGAACCTATGTTATA
1 TGCGAAACTCATGATGTTATGCGAACCTATGTTGTTATGTGAACCTATGCTATA
* * * *
181213652 TG-GGAACTTAT-ATTCTTATGCCAACCTATGTTGTTATGTGAACCTATGCTATA
1 TGCGAAACTCATGA-TGTTATGCGAACCTATGTTGTTATGTGAACCTATGCTATA
* * *
181213705 TGCGAAAC-CATGATGTTATGCGAACTTATGTTGTTATGCGAACATATGCTATA
1 TGCGAAACTCATGATGTTATGCGAACCTATGTTGTTATGTGAACCTATGCTATA
181213758 TGCGAA
1 TGCGAA
181213764 CTATGCTATG
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 89 0.93
54 5 0.05
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (54 bp):
TGCGAAACTCATGATGTTATGCGAACCTATGTTGTTATGTGAACCTATGCTATA
Found at i:181213752 original size:18 final size:18
Alignment explanation
Indices: 181213578--181213752 Score: 142
Period size: 18 Copynumber: 9.8 Consensus size: 18
181213568 ACTCATGTCA
* *
181213578 TTATGTGAACCCATGTTG
1 TTATGCGAACCTATGTTG
* *
181213596 TTTTGCGAA-CTCATGATG
1 TTATGCGAACCT-ATGTTG
*
181213614 TTATGCGAACCTATGTTC
1 TTATGCGAACCTATGTTG
*
181213632 TTATGTGAACCTATGTT-
1 TTATGCGAACCTATGTTG
* * * * *
181213649 ATATGGGAACTTATATTC
1 TTATGCGAACCTATGTTG
*
181213667 TTATGCCAACCTATGTTG
1 TTATGCGAACCTATGTTG
* *
181213685 TTATGTGAACCTATGCT-
1 TTATGCGAACCTATGTTG
* *
181213702 ATATGCGAAACC-ATGATG
1 TTATGCG-AACCTATGTTG
*
181213720 TTATGCGAACTTATGTTG
1 TTATGCGAACCTATGTTG
*
181213738 TTATGCGAACATATG
1 TTATGCGAACCTATG
181213753 CTATATGCGA
Statistics
Matches: 123, Mismatches: 28, Indels: 12
0.75 0.17 0.07
Matches are distributed among these distances:
17 26 0.21
18 95 0.77
19 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (18 bp):
TTATGCGAACCTATGTTG
Found at i:181226801 original size:40 final size:40
Alignment explanation
Indices: 181226746--181226955 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
181226736 AACATTGGAA
181226746 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
181226786 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
181226826 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
181226866 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
181226905 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
181226946 CTATATCCGG
1 ATATATCCGG
181226956 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:181234937 original size:40 final size:40
Alignment explanation
Indices: 181234882--181235091 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
181234872 AACATTGGAA
181234882 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
181234922 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
181234962 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
181235002 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
181235041 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
181235082 CTATATCCGG
1 ATATATCCGG
181235092 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:181238834 original size:46 final size:46
Alignment explanation
Indices: 181238784--181238959 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
181238774 TGGTTGAGCA
181238784 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
181238830 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
181238875 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
181238923 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
181238960 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:181238940 original size:93 final size:93
Alignment explanation
Indices: 181238781--181238951 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
181238771 GGATGGTTGA
* *
181238781 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
181238846 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
181238874 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
181238939 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
181238952 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:181241151 original size:15 final size:15
Alignment explanation
Indices: 181241131--181241186 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
181241121 GTATCTTGGG
181241131 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
181241146 TTTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
*
181241161 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
181241176 TTTCTTTATTC
1 TTTCTTTATTC
181241187 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:181244162 original size:124 final size:124
Alignment explanation
Indices: 181243940--181244164 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
181243930 GAATTATGTG
* * * * * *
181243940 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGCATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
181244005 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
181244064 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* *
181244129 GCTAAGTCCCGAAGATG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
181244165 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:181244288 original size:40 final size:40
Alignment explanation
Indices: 181244159--181244285 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
181244149 TTGCTGGAAA
* * *
181244159 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
181244199 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
* *
181244239 TTCTATCTGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
181244279 TTATATC
1 TTATATC
181244286 TGGTTGTATT
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 69 0.95
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:181246887 original size:46 final size:46
Alignment explanation
Indices: 181246837--181247009 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
181246827 TGGTTGAGCA
*
181246837 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
181246883 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
181246928 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
181246976 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
181247010 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:181246993 original size:93 final size:93
Alignment explanation
Indices: 181246834--181247004 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
181246824 GGATGGTTGA
* * *
181246834 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
181246899 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
181246927 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
181246992 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
181247005 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:181262357 original size:27 final size:28
Alignment explanation
Indices: 181262306--181262358 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
181262296 CCAGGCTGCT
*
181262306 ACTGATACTAAAATGGGCTAAGGCCCTA
1 ACTGAGACTAAAATGGGCTAAGGCCCTA
* *
181262334 ACTGAGACTACAA-GGGCTTAGGCCC
1 ACTGAGACTAAAATGGGCTAAGGCCC
181262359 AAATTGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (28 bp):
ACTGAGACTAAAATGGGCTAAGGCCCTA
Found at i:181262598 original size:19 final size:18
Alignment explanation
Indices: 181262567--181262603 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
181262557 AGGCCTCTTG
*
181262567 GGTATTTATTTTTAATTT
1 GGTATTTACTTTTAATTT
181262585 GGTATCTTACTTTTAATTT
1 GGTAT-TTACTTTTAATTT
181262604 TTGGATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (18 bp):
GGTATTTACTTTTAATTT
Found at i:181264689 original size:31 final size:31
Alignment explanation
Indices: 181264645--181264746 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 31
181264635 CCTTTTCATA
*
181264645 TTTCATATCTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
181264682 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
181264714 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
181264745 TT
1 TT
181264747 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
31 32 0.52
32 1 0.02
33 1 0.02
37 1 0.02
38 27 0.44
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:181264729 original size:38 final size:38
Alignment explanation
Indices: 181264622--181264729 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
181264612 TCAATCATGC
* *
181264622 ACTGGGCCGTAGCCCTTTTCATATTTCATATCTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
181264661 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
181264699 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
181264730 ACTGGGCCGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 54 0.83
39 11 0.17
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Done.