Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401940.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_504.0, whole genome shotgun sequence
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: 37354
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.23
Warning! 14319 characters in sequence are not A, C, G, or T
Found at i:10147 original size:172 final size:171
Alignment explanation
Indices: 9840--11074 Score: 1174
Period size: 172 Copynumber: 7.2 Consensus size: 171
9830 NNNNNNNNNN
* ** * * * * *
9840 TTTTTTGTTAAAACAGACTATAATTGAATGTCTGTCTTGAGAAACGTGAAGAAAAAAGTAGTAAT
1 TTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTCAT
* * * *
9905 TGGCAAGAAAAGTTCATTTATAGTCTCCTATTCCATT-AAAAGCTTTATTACTCACTTTAAAAGG
66 TGGCAAGAAAAGTCCATTTATAGTCACC-ATTCC-TTCAAAAGCCTTATTACTCACTTTAAATGG
* * **
9969 TTTTATAATCTTATAATGGATTTTGGGTTCAATTTTTTTTACA
129 TTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTTACA
* * * * *
10012 TTATTGGTAAAAACATATTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAGGCATTCAT
1 TTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTCAT
* * * * *
10077 TGGTAAGAAAAGTCTATTTATAGTAACCGATTCCTTCAAAAGTCTTATTACTCA-TTTCAAATGA
66 TGGCAAGAAAAGTCCATTTATAGTCACC-ATTCCTTCAAAAGCCTTATTACTCACTTT-AAATGG
* *
10141 TTTTATAATCTCATAATTAATTTTAAGTT-AA-ATTTTTTACA
129 TTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTTACA
** * * **
10182 TTTTTCATT-AAACAGACTATAATTGAATG-CTTGCC-TCAGAAA-ATGTGTAA-AAAAACTCAT
1 TTTTTGGTTAAAACAGACTATAATTGAATGTC-TACCTTAAGAAACA--TG-AAGAAAAAAGCAT
* * * * * *
10242 TTATTTGAAACAAAAGTCCATTTATAGTCTTCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAA
62 TCATTGGCAAGAAAAGTCCATTTATAGTC-ACCATTCCTTCAAAAGCCTTATTACTCACTTTAAA
* * * *
10307 TAGTTTTATAATCTCATAATGGATTTTAAGTTGAA-GTTTTTTACA
126 TGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTTACA
** * * * * *
10352 TTTTTCATTAAACCAAACTATTATTGAAAGTCTACCTTGAGAAACATGAA-AAAAAAGCATTCAT
1 TTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTCAT
* * *
10416 TGGCAAGAAAAGTCCATTTATAGTC-TCATTCCTTCAGAAGCCTTATTACCCACTTTAAATGGTT
66 TGGCAAGAAAAGTCCATTTATAGTCACCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTT
* * * **
10480 TTAAAATCTCATAATTAATTTTAGGTTCAATTTTTTGAACA
131 TTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTTACA
* * * * * **
10521 TTATTGGTTAAAACAGATTATAATTGAATGTTTAACTCAAGAAATGTGAAGAAAAAAGCATTCAT
1 TTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTCAT
* * *
10586 TGGCAAGCAAAA-TCCATTTAT-GATCACCTATTCGTTCAAAAGCCTTATTAATCAATTTAAATG
66 TGGCAAG-AAAAGTCCATTTATAG-TCACC-ATTCCTTCAAAAGCCTTATTACTCACTTTAAATG
*
10649 GTTTTATAATCTCA-AATTTGATTTTAAGTTCAGTTTTTTTTACA
128 GTTTTATAATCTCATAA-TTGATTTTAAGTTCAATTTTTTTTACA
* * * * * * * *
10693 ATTTTGGTTAAAATAGATTATAATTAAATGTTTACCTCATG--ACATGTAGAGAAAAAGGCATTC
1 TTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATG-A-AGAAAAAAGCATTC
* * * * *
10756 ATTGGCAAGAAAAGTCCATTCATAGTAACCCATTCATTTAAAAGCCTTATTACCCACTTTAAATG
64 ATTGGCAAGAAAAGTCCATTTATAGTCA-CCATTCCTTCAAAAGCCTTATTACTCACTTTAAATG
* * * *
10821 GTTTTATTATCTCAAAATTAATTTTATGTTCAATTTTTTTTTTACA
128 GTTTTATAATCTCATAATTGATTTTAAGTTCAA--TTTTTTTTACA
** * * * * *
10867 TTTTTGGTTAAGGCAAACTATAATTGAATATCTA-ATGTGAGAAACATGAAGAAAAAAGTATTCA
1 TTTTTGGTTAAAACAGACTATAATTGAATGTCTACCT-TAAGAAACATGAAGAAAAAAGCATTCA
* * * * * *
10931 TTGACAAGTAAAGTCCATTTATAGTCTCTCATTCTTTCAAACGCCTTATTACCCACTTTAAATGG
65 TTGGCAAGAAAAGTCCATTTATAGTCAC-CATTCCTTCAAAAGCCTTATTACTCACTTTAAATGG
* * * * **
10996 CTTTATTATCTAAAAATTGATTTTCTGTTCAATTTTTTTTACA
129 TTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTTACA
* * * *
11039 TTTCTAGTTAAGACAAACTATAATTGAATGTCTACC
1 TTTTTGGTTAAAACAGACTATAATTGAATGTCTACC
11075 NNNNNNNNNN
Statistics
Matches: 874, Mismatches: 156, Indels: 65
0.80 0.14 0.06
Matches are distributed among these distances:
167 1 0.00
168 66 0.08
169 152 0.17
170 111 0.13
171 40 0.05
172 357 0.41
173 8 0.01
174 133 0.15
175 1 0.00
176 5 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (171 bp):
TTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTCAT
TGGCAAGAAAAGTCCATTTATAGTCACCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTT
TTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTTACA
Found at i:11503 original size:171 final size:172
Alignment explanation
Indices: 11318--11703 Score: 388
Period size: 171 Copynumber: 2.2 Consensus size: 172
11308 NNNNNNNNNC
* * * *
11318 ATTATAAGATTATAAAACCTTTTAAAGTGAGTAATAAAGCTTTT-AATGGAATAAG-GGACTATA
1 ATTATGAGATTATAAAA-ATTTTAAAGCGAGTAATAAGGCTTTTGAA-GGAA-AAGAGGACTATA
* * * * *
11381 AATGGACTTTTCTTGTC-AATTAATGCTTTTTTCTTTACGTTTCTC-AAGATAGATATTCAATTA
63 AATGGACTTTTCTTG-CAAATAAATACCTTTTTCTTCACATTTCTCGAAGA-AGATATTCAATTA
* * *
11444 TAGCCTGTTTTAACCAAAAATAT-AAAAAAAGTCAA-CTTAAAATCA
126 TAACCTGTTTGAACCAAAAATATAAAAAAAAATCAAGCTTAAAATCA
* ********* *
11489 ATTATGATATTATAANNNNNNNNNNAGCGAGTAATAAGGCTTTTGAAGGAAAAGATGACTATAAA
1 ATTATGAGATTATAA-AAATTTTAAAGCGAGTAATAAGGCTTTTGAAGGAAAAGAGGACTATAAA
* * * *
11554 TGGATTTTTCTTGCAAATAAATACCTTTTTCTTCATATTTCTCGAGGAAGATATTCAATTATAAT
65 TGGACTTTTCTTGCAAATAAATACCTTTTTCTTCACATTTCTCGAAGAAGATATTCAATTATAAC
* * * *
11619 CTGTTTGAGCTAATAATATAAAAAAAAATTAAGCTTAAAATCA
130 CTGTTTGAACCAAAAATATAAAAAAAAATCAAGCTTAAAATCA
11662 ATTATGAGATTATAAAAATATTTAAAGCGAGTAATAAGGCTT
1 ATTATGAGATTATAAAAAT-TTTAAAGCGAGTAATAAGGCTT
11704 NNNNNNNNNN
Statistics
Matches: 167, Mismatches: 40, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
170 4 0.02
171 107 0.64
172 15 0.09
173 41 0.25
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.35
Consensus pattern (172 bp):
ATTATGAGATTATAAAAATTTTAAAGCGAGTAATAAGGCTTTTGAAGGAAAAGAGGACTATAAAT
GGACTTTTCTTGCAAATAAATACCTTTTTCTTCACATTTCTCGAAGAAGATATTCAATTATAACC
TGTTTGAACCAAAAATATAAAAAAAAATCAAGCTTAAAATCA
Found at i:12286 original size:18 final size:19
Alignment explanation
Indices: 12263--12319 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 19
12253 GGTGACTATA
12263 AATGAA-CTTTTTCTTGCC
1 AATGAATCTTTTTCTTGCC
12281 AATGAATATCTTTTTCTTGCC
1 AATG-A-ATCTTTTTCTTGCC
12302 AATGAATATCTTTTTCTT
1 AATG-A-ATCTTTTTCTT
12320 CANNNNNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.11
19 1 0.03
20 1 0.03
21 30 0.83
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.49
Consensus pattern (19 bp):
AATGAATCTTTTTCTTGCC
Found at i:12295 original size:21 final size:21
Alignment explanation
Indices: 12269--12319 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
12259 TATAAATGAA
12269 CTTTTTCTTGCCAATGAATAT
1 CTTTTTCTTGCCAATGAATAT
12290 CTTTTTCTTGCCAATGAATAT
1 CTTTTTCTTGCCAATGAATAT
12311 CTTTTTCTT
1 CTTTTTCTT
12320 CANNNNNNNN
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.53
Consensus pattern (21 bp):
CTTTTTCTTGCCAATGAATAT
Found at i:12968 original size:172 final size:161
Alignment explanation
Indices: 12643--12969 Score: 361
Period size: 172 Copynumber: 2.0 Consensus size: 161
12633 CTTTTCTTGC
* * * *
12643 CAATAAATGCCTTTGTCATCACGTTTCTCGATATAGACATTCAATTACAGCCTGTTTTAACCATA
1 CAATAAATGCCTTTGTCATCACGTTTCTCAAGATAGACATTCAATTACAGCCTGTCTTAACCAGA
* * *
12708 AATGTAAAAAAATTCAACTTAAAATCAATTATGTGATAATAAAATCATTTAAAGTGAGTAATAAG
66 AATGTAAAAAAATTAAACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGTGAGTAATAAG
12773 GCTTTTAAAGGAATAGGAGACTATATATGNNNNNNNNNNAT
131 GCTTTTAAAGGAATAGGAGACTATATATG----------AT
* * * * * * **
12814 CAATAAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTTTGTCTTAACCAGA
1 CAATAAATGCCTTTGTCATCACGTTTCTCAAGATAGACATTCAATTACAGCCTGTCTTAACCAGA
* *
12879 AATGTAAAAACAATTAAACTTAAAATCAATTTTGAGATAATAAAGCCATTTAAAGTG-GATAATA
66 AATGTAAAAA-AATTAAACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGTGAG-TAATA
*
12943 AGGCTTTTGAAGGAAT-GGAAGACTATA
129 AGGCTTTTAAAGGAATAGG-AGACTATA
12970 AATGCACTTT
Statistics
Matches: 135, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
171 66 0.49
172 69 0.51
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.32
Consensus pattern (161 bp):
CAATAAATGCCTTTGTCATCACGTTTCTCAAGATAGACATTCAATTACAGCCTGTCTTAACCAGA
AATGTAAAAAAATTAAACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGTGAGTAATAAG
GCTTTTAAAGGAATAGGAGACTATATATGAT
Found at i:12998 original size:172 final size:170
Alignment explanation
Indices: 12422--12999 Score: 542
Period size: 171 Copynumber: 3.4 Consensus size: 170
12412 NNNNNNNNNC
* * * * *
12422 GAGTAATAAAGCTTTTAAAGGAATGAGAGACTATAAATAGACTTTTCTTACTAATGACTGGTTTT
1 GAGTAATAAGGCTTTTAAAGGAATGA-AGACTATAAATAGACTTTTCTTACCAATAAATGCTTTT
* * * * *
12487 TCTTCACGTTTCTTAAGGTAGATACTCAATTATAGTCTATTTTAACAAAAAATGT-AAAACAA-T
65 TCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAACAATT
* * * *
12550 ACTACTTAAAATCAATTATGATATTATAAAACCTTTTAAAGT
130 A-AACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGT
* * *
12592 GAGTACTAAGACTTTTGAAA-GAAT-AAGTGACTATAAATAGACTTTTCTTGCCAATAAATGCCT
1 GAGTAATAAGGCTTTT-AAAGGAATGAA--GACTATAAATAGACTTTTCTTACCAATAAATG-CT
* * * ** * * *
12655 TTGTCATCACGTTTCTCGATATAGACATTCAATTACAGCCTGTTTTAACCATAAATGTAAAAA-A
62 TTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAACA
* * *
12719 ATTCAACTTAAAATCAATTATGTGATAATAAAATCATTTAAAGT
127 ATTAAACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGT
* * ********* *
12763 GAGTAATAAGGCTTTTAAAGGAATAGGAGACTATATAT-GNNNNNNNNNNATCAATAAATGCTTT
1 GAGTAATAAGGCTTTTAAAGGAAT-GAAGACTATAAATAG-ACTTTTCTTACCAATAAATGC-TT
* * * *
12827 TTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTTTGTCTTAACCAGAAATGTAAAAACAA
63 TTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAACAA
* *
12892 TTAAACTTAAAATCAATTTTGAGATAATAAAGCCATTTAAAGT
128 TTAAACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGT
* * **
12935 G-GATAATAAGGCTTTTGAAGGAATGGAAGACTATAAAT-GCACTTTTCTTGCCAATGCATGCTT
1 GAG-TAATAAGGCTTTTAAAGGAAT-GAAGACTATAAATAG-ACTTTTCTTACCAATAAATGCTT
12998 TT
63 TT
13000 ATTCATGTTT
Statistics
Matches: 318, Mismatches: 77, Indels: 25
0.76 0.18 0.06
Matches are distributed among these distances:
168 1 0.00
169 1 0.00
170 50 0.16
171 179 0.56
172 86 0.27
173 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.34
Consensus pattern (170 bp):
GAGTAATAAGGCTTTTAAAGGAATGAAGACTATAAATAGACTTTTCTTACCAATAAATGCTTTTT
CTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAACAATTA
AACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGT
Found at i:13881 original size:170 final size:160
Alignment explanation
Indices: 13597--13928 Score: 308
Period size: 170 Copynumber: 2.0 Consensus size: 160
13587 AATTGAACTT
* * ** * *
13597 AAATCAATTATGAGATTATAAAACTATTTAAAGCTTGTAATAAAACTTTTGAAGGAATGGGAGAC
1 AAATCAATTATGAGATTATAAAACTAGTTAAAACGAGTAATAAAACTTTAGAAGGAATCGGAGAC
* * *
13662 TATAAATGGTCTTTTCTTGCAAATGAATGAGTTTTTCTACACGTTTCTTAAGGCAAG-CATTCAA
66 TATAAATGGACTTTTCTTGCAAATGAATGACTTTTGCTACACGTTTCTTAAGG-AAGACATTCAA
* * *
13726 TTATAGTCTATTTGAATAAAAAATGTAAAAA
130 ATATAATCTATTTGAACAAAAAATGTAAAAA
**
13757 NNNNNNNNNNAAATCAATTATGAGATTATAAAA-TCAGTTAAAACGAGTAATAAGGCTTTAGAAG
1 ----------AAATCAATTATGAGATTATAAAACT-AGTTAAAACGAGTAATAAAACTTTAGAAG
** * * ** ** *
13821 GAATCGGTTACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTGCTTTATTTTTCTTAAGGT
55 GAATCGGAGACTATAAATGGACTTTTCTTGCAAATGAATGACTTTTGCTACACGTTTCTTAAGGA
* * *
13886 AGACATTCAAATATAATCTATTTTAACCAATAATGTAAAAA
120 AGACATTCAAATATAATCTATTTGAACAAAAAATGTAAAAA
13927 AA
1 AA
13929 CATGAACCCA
Statistics
Matches: 134, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
160 2 0.01
169 3 0.02
170 129 0.96
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.34
Consensus pattern (160 bp):
AAATCAATTATGAGATTATAAAACTAGTTAAAACGAGTAATAAAACTTTAGAAGGAATCGGAGAC
TATAAATGGACTTTTCTTGCAAATGAATGACTTTTGCTACACGTTTCTTAAGGAAGACATTCAAA
TATAATCTATTTGAACAAAAAATGTAAAAA
Found at i:14024 original size:172 final size:172
Alignment explanation
Indices: 13767--14122 Score: 393
Period size: 172 Copynumber: 2.1 Consensus size: 172
13757 NNNNNNNNNN
* * ***
13767 AAATCAATTATGAGATTATAAAATCAGTTAAAACGAGTAATAAGGCTTTAGAAGGAATCGGTTAC
1 AAATCAATTATAAGATTATAAAACCAGTTAAAACGAGTAATAAGGCTTTAGAAGGAATCGAAGAC
* * ** * *
13832 TATAAATGGACTTTTCTTGCCAATGAATGCCTTTTGCT-TT-ATTTTTCTTAAGGTAGACATTCA
66 TATAAATAGACTTGTCTTGCCAATGAATG-CTTTT-CTCTTCACATTTCTTAAGATAGACAAT-A
* * *
13895 AA-TATAATCTATTTTAACCAATAATGTAAAAAAACATGAACCCA
128 AATTATAATATATTTTAACCAAAAATATAAAAAAACATGAACCCA
* * *
13939 AAATCCATTATAAGATTATAAAACCA-TCTAAAGCGAGTGATAAGGCTTTTA-AAGGAAT-GAAA
1 AAATCAATTATAAGATTATAAAACCAGT-TAAAACGAGTAATAAGGC-TTTAGAAGGAATCG-AA
* *
14001 GACTATAAATAGACTTGTCTTGCCAATTAATGCTTTTCTCTTCACATTTCTTGAGATAGACAATA
63 GACTATAAATAGACTTGTCTTGCCAATGAATGCTTTTCTCTTCACATTTCTTAAGATAGACAATA
* * * **
14066 AATTATAGTATATTTTAACCAAAAATATAAAAAAA-TTCAACTTA
128 AATTATAATATATTTTAACCAAAAATATAAAAAAACATGAACCCA
14110 AAATCAATTATAA
1 AAATCAATTATAA
14123 TNNNNNNNNN
Statistics
Matches: 153, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
170 2 0.01
171 29 0.19
172 118 0.77
173 4 0.03
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (172 bp):
AAATCAATTATAAGATTATAAAACCAGTTAAAACGAGTAATAAGGCTTTAGAAGGAATCGAAGAC
TATAAATAGACTTGTCTTGCCAATGAATGCTTTTCTCTTCACATTTCTTAAGATAGACAATAAAT
TATAATATATTTTAACCAAAAATATAAAAAAACATGAACCCA
Found at i:14624 original size:172 final size:170
Alignment explanation
Indices: 14316--15264 Score: 694
Period size: 170 Copynumber: 5.5 Consensus size: 170
14306 NNNNNNNNNN
** * *
14316 ATTACTCATTTTAAAT-GATTTTATAATATCATAATTGATTTTAAGTTGAATTTTCTTTACATTT
1 ATTACTCGCTTTAAATAG-TTTTATAATCTCATAATTGATTTTAAGTT-AATTTTTTTTACATTT
* * * * ** * *
14380 TTTGTTAAAACAAATTGTAATTGAATGTCCA-TCTTGAGAAATGTGAAGAAAAAAGTATT-AATA
64 TTCG-TAAAACAAATTATAATTGAATGTCTACTC-TAAGAAACATGAAGAAAAAAGCATTCATTA
* **
14443 GGCAAGAAAAGTCCATTTATAGTTTCTTATTCCATTAAAAGCCTT
127 -GCAAGAAAAGTCCATTTATAGTCTCCCATTCCATTAAAAGCCTT
* * * * * *
14488 ATTATTCGCTTTAAATAGTTTTATAATTTTATAATAGATTTTGAGTTCAATTTTTTTTACATTAT
1 ATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTT-AATTTTTTTTACATTTT
* ** * * *
14553 TCGTAAAACCATATTATAATTGAAAATCTACTCTAAGAAACATGAAGAAAAAGGTATTCATTAGT
65 TCGTAAAA-CAAATTATAATTGAATGTCTACTCTAAGAAACATGAAGAAAAAAGCATTCATTAGC
* ** * *
14618 AAGAAAAGTTCATTTATAGTAACCGATTCC-TTCAAAAGTCTT
129 AAGAAAAGTCCATTTATAGTCTCCCATTCCATT-AAAAGCCTT
* * * * *
14660 ATTACTAGCTTCAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAA-ATTTTTTATATTTTT
1 ATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTAATTTTTTTTACATTTTT
* * * * * * * ** * *
14724 CATTAAAACAGACTACAATTGAATGCCTGCATC--AGGAA-ATGTATAG-AAAACCCATTTATTT
66 C-GTAAAACAAATTATAATTGAATGTCTAC-TCTAAGAAACATG-A-AGAAAAAAGCATTCATTA
* * * * * *
14785 GAAAGAAAAGTGCATTTACAGTCTTCTATTCCTTTAAAAGCCTT
127 GCAAGAAAAGTCCATTTATAGTCTCCCATTCCATTAAAAGCCTT
* *
14829 ATTACTCGCTTTAAATAGTTTTTTAATCTCATAATTGATTTTAAGTTGATTTTTTTTACATTTTT
1 ATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTAATTTTTTTTACATTTTT
* * * * * * * *
14894 CATTAAATCAAACTATTATTGAAAGTTTAC-CTCGAGAAACATGAA-AAAAAAGCATTTATT-GA
66 C-GTAAAACAAATTATAATTGAATGTCTACTCT-AAGAAACATGAAGAAAAAAGCATTCATTAG-
* * * ** *
14956 CAAGAAAAGTTCATTTGTAGTCTCTCATTCTTTTAGAAGCCTT
128 CAAGAAAAGTCCATTTATAGTCTCCCATTCCATTAAAAGCCTT
* ** * ** *
14999 ATTACTCGCTTTAAAT-GATTTTATAATCTCAAAATAAATTTTAGGTTCAATTTTTTGAACATTA
1 ATTACTCGCTTTAAATAG-TTTTATAATCTCATAATTGATTTTAAGTT-AATTTTTTTTACATTT
* * * * * ** * *
15063 GTGGTTAAAACATATTGTAATTGAATGT-TAC-CACAAGAAATGTGAAGAAAAAGGCATTCATTG
64 TTCG-TAAAACAAATTATAATTGAATGTCTACTC-TAAGAAACATGAAGAAAAAAGCATTCATTA
* * *
15126 GCAAGAAAAATCCATTTATGGTCACCCATT-CATTCAAAAGCCTT
127 GCAAGAAAAGTCCATTTATAGTCTCCCATTCCATT-AAAAGCCTT
* * * *
15170 ATCACTC-CATTTAAATAGTTTTATAATCTCA-AATTTGATTTTAAGTTCAGTTTGTTTGACATT
1 ATTACTCGC-TTTAAATAGTTTTATAATCTCATAA-TTGATTTTAAGTT-AATTTTTTTTACATT
*
15233 TTT-GTTTAAAACAGATTATAATTGAATGTCTA
63 TTTCG--TAAAACAAATTATAATTGAATGTCTA
15265 TCTCATGACA
Statistics
Matches: 615, Mismatches: 133, Indels: 58
0.76 0.17 0.07
Matches are distributed among these distances:
168 4 0.01
169 94 0.15
170 173 0.28
171 166 0.27
172 172 0.28
173 6 0.01
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.40
Consensus pattern (170 bp):
ATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTAATTTTTTTTACATTTTT
CGTAAAACAAATTATAATTGAATGTCTACTCTAAGAAACATGAAGAAAAAAGCATTCATTAGCAA
GAAAAGTCCATTTATAGTCTCCCATTCCATTAAAAGCCTT
Found at i:14998 original size:170 final size:171
Alignment explanation
Indices: 14316--15269 Score: 772
Period size: 172 Copynumber: 5.6 Consensus size: 171
14306 NNNNNNNNNN
** * *
14316 ATTACTCATTTTAAAT-GATTTTATAATATCATAATTGATTTTAAGTTGAATTTTCTTTACATTT
1 ATTACTCGCTTTAAATAG-TTTTATAATCTCATAATTGATTTTAAGTT-AATTTTTTTTACATTT
* * * * ** ** * * * *
14380 TTTGTTAAAACAAATTGTAATTGAATGTCCATCTTGAGAAATGTGAAGAAAAAAGTATTAATAGG
64 TTCGTTAAAACAAATTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAAGCATTCATTGA
* * *
14445 CAAGAAAAGTCCATTTATAGTTTCTTATTCCATTAAAAGCCTT
129 CAAGAAAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTT
* * * * * *
14488 ATTATTCGCTTTAAATAGTTTTATAATTTTATAATAGATTTTGAGTTCAATTTTTTTTACATTAT
1 ATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTT-AATTTTTTTTACATTTT
* ** * *
14553 TCG-TAAAACCATATTATAATTGAAAATCTA-CTCTAAGAAACATGAAGAAAAAGGTATTCATT-
65 TCGTTAAAA-CAAATTATAATTGAATGTCTACCTC-AAGAAACATGAAGAAAAAAGCATTCATTG
* * ** * *
14615 AGTAAGAAAAGTTCATTTATAGTAAC-CGATTCCTTCAAAAGTCTT
128 A-CAAGAAAAGTCCATTTATAGTCTCTC-ATTCCTTTAAAAGCCTT
* * * * *
14660 ATTACTAGCTTCAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAA-ATTTTTTATATTTTT
1 ATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTAATTTTTTTTACATTTTT
* * * * * * * * ** *
14724 CATTAAAACAGACTACAATTGAATGCCTGCATC-AGGAA-ATGTATAG-AAAACCCATTTATTTG
66 CGTTAAAACAAATTATAATTGAATGTCTACCTCAAGAAACATG-A-AGAAAAAAGCATTCA-TTG
* *
14786 A-AAGAAAAGTGCATTTACAGTCT-TCTATTCCTTTAAAAGCCTT
128 ACAAGAAAAGTCCATTTATAGTCTCTC-ATTCCTTTAAAAGCCTT
* *
14829 ATTACTCGCTTTAAATAGTTTTTTAATCTCATAATTGATTTTAAGTTGATTTTTTTTACATTTTT
1 ATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTAATTTTTTTTACATTTTT
* * * * * * * *
14894 CATTAAATCAAACTATTATTGAAAGTTTACCTCGAGAAACATGAA-AAAAAAGCATTTATTGACA
66 CGTTAAAACAAATTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAAGCATTCATTGACA
* * * *
14958 AGAAAAGTTCATTTGTAGTCTCTCATTCTTTTAGAAGCCTT
131 AGAAAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTT
* ** * ** *
14999 ATTACTCGCTTTAAAT-GATTTTATAATCTCAAAATAAATTTTAGGTTCAATTTTTTGAACATTA
1 ATTACTCGCTTTAAATAG-TTTTATAATCTCATAATTGATTTTAAGTT-AATTTTTTTTACATTT
* * * * * ** * *
15063 GTGGTTAAAACATATTGTAATTGAATGT-TACCACAAGAAATGTGAAGAAAAAGGCATTCATTGG
64 TTCGTTAAAACAAATTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAAGCATTCATTGA
* * * * * *
15127 CAAGAAAAATCCATTTATGGTCACCCATTCATTCAAAAGCCTT
129 CAAGAAAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTT
* * * *
15170 ATCACTC-CATTTAAATAGTTTTATAATCTCA-AATTTGATTTTAAGTTCAGTTTGTTTGACATT
1 ATTACTCGC-TTTAAATAGTTTTATAATCTCATAA-TTGATTTTAAGTT-AATTTTTTTTACATT
* *
15233 TTT-GTTTAAAACAGATTATAATTGAATGTCTATCTCA
63 TTTCG-TTAAAACAAATTATAATTGAATGTCTACCTCA
15270 TGACATGTAG
Statistics
Matches: 620, Mismatches: 136, Indels: 52
0.77 0.17 0.06
Matches are distributed among these distances:
168 3 0.00
169 96 0.15
170 171 0.28
171 174 0.28
172 175 0.28
173 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.40
Consensus pattern (171 bp):
ATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTAATTTTTTTTACATTTTT
CGTTAAAACAAATTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAAGCATTCATTGACA
AGAAAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTT
Found at i:15073 original size:341 final size:341
Alignment explanation
Indices: 14446--15232 Score: 770
Period size: 341 Copynumber: 2.3 Consensus size: 341
14436 ATTAATAGGC
* *
14446 AAGAAAAGTCCATTTATAGTTTCTTATTCCATTAAAAGCCTTATTATTCGCTTTAAATAGTTTTA
1 AAGAAAAGTCCATTTACAGTTTCTTATTCCATTAAAAGCCTTATTACTCGCTTTAAATAGTTTTA
* * * * * *
14511 TAATTTTATAATAGATTTTGAGTTCAATTTTTTTTACATTATTCGTAAAACCATATTATAATTGA
66 TAATCTCATAATAGATTTTAAGTTCAATTTTTTTTACATTATTCATAAAACCAAACTATAATTGA
* * *
14576 AAATCTACTCTAAGAAACATGAAGAAAAAGGTATTCATTAGTAAGAAAAGTTCATTTATAGTAAC
131 AAATCTACTCTAAGAAACATGAAGAAAAAAGCATTCATTAGCAAGAAAAGTTCATTTATAGTAAC
* * * **
14641 CGATTCCTTCAAAAGTCTTATTACTAGCTTCAAATGGTTTTATAATCTCATAATTGATTTTAAGT
196 CGATTCCTTCAAAAGCCTTATTACTAGCTTCAAATGATTTTATAATCTCAAAATAAATTTTAAGT
* **
14706 TAAATTTTTTATATTTTTCATTAAAACAGACTACAATTGAATGCCTGCATCAGGAAATGTATAGA
261 TAAATTTTTTACATTAGTCATTAAAACAGACTACAATTGAATGCCTGCATCAGGAAATGTATAGA
14771 AAACCCATTTATTTGA
326 AAACCCATTTATTTGA
* *
14787 AAGAAAAGTGCATTTACAGTCTTC-TATTCCTTTAAAAGCCTTATTACTCGCTTTAAATAGTTTT
1 AAGAAAAGTCCATTTACAGT-TTCTTATTCCATTAAAAGCCTTATTACTCGCTTTAAATAGTTTT
* * * * * * *
14851 TTAATCTCATAATTGATTTTAAGTT-GATTTTTTTTACATTTTTCATTAAATCAAACTATTATTG
65 ATAATCTCATAATAGATTTTAAGTTCAATTTTTTTTACATTATTCATAAAACCAAACTATAATTG
* * * * *
14915 AAAGTTTAC-CTCGAGAAACATGAA-AAAAAAGCATTTATT-GACAAGAAAAGTTCATTTGTAGT
130 AAAATCTACTCT-AAGAAACATGAAGAAAAAAGCATTCATTAG-CAAGAAAAGTTCATTTATAGT
** * * * * *
14977 CTCTC-ATTCTTTTAGAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCAAAATAAATTTT
193 AAC-CGATTCCTTCAAAAGCCTTATTACTAGCTTCAAATGATTTTATAATCTCAAAATAAATTTT
* * ** * * ** * * *
15041 AGGTTCAATTTTTTGAACATTAGTGGTTAAAACATATTGTAATTGAATG-TTACCA-CAAGAAAT
257 AAGTTAAATTTTTT--ACATTAGTCATTAAAACAGACTACAATTGAATGCCT-GCATCAGGAAAT
** * * *
15104 GTGA-AGAAAAAGGCATTCATTGGC
319 GT-ATAG-AAAACCCATTTATTTGA
* ** ** ** *
15128 AAGAAAAATCCATTTATGGTCACCCATT-CATTCAAAAGCCTTATCACTC-CATTTAAATAGTTT
1 AAGAAAAGTCCATTTACAGTTTCTTATTCCATT-AAAAGCCTTATTACTCGC-TTTAAATAGTTT
* * * *
15191 TATAATCTCA-AATTTGATTTTAAGTTCAGTTTGTTTGACATT
64 TATAATCTCATAA-TAGATTTTAAGTTCAATTTTTTTTACATT
15233 TTTGTTTAAA
Statistics
Matches: 362, Mismatches: 70, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
338 1 0.00
339 95 0.26
340 69 0.19
341 183 0.51
342 14 0.04
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (341 bp):
AAGAAAAGTCCATTTACAGTTTCTTATTCCATTAAAAGCCTTATTACTCGCTTTAAATAGTTTTA
TAATCTCATAATAGATTTTAAGTTCAATTTTTTTTACATTATTCATAAAACCAAACTATAATTGA
AAATCTACTCTAAGAAACATGAAGAAAAAAGCATTCATTAGCAAGAAAAGTTCATTTATAGTAAC
CGATTCCTTCAAAAGCCTTATTACTAGCTTCAAATGATTTTATAATCTCAAAATAAATTTTAAGT
TAAATTTTTTACATTAGTCATTAAAACAGACTACAATTGAATGCCTGCATCAGGAAATGTATAGA
AAACCCATTTATTTGA
Found at i:17218 original size:172 final size:172
Alignment explanation
Indices: 15604--17218 Score: 1431
Period size: 171 Copynumber: 9.4 Consensus size: 172
15594 NNNNNNNNNN
* * * ** * * *
15604 TATAATCTCAAAATTGATTTTAAGTTGAATTTTTTATA-GTTTTT-ACTAAAATA-AACTATCAT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATC-ATAAT
* * ** *** *
15666 TGAATGTTTACCTCGAGAAACGTGTAA-AAAAACCCAGTT-ATTTAAAAGATAAGTCTATTTATA
65 TGAATGTCTACCTCAAGAAACGTG-AAGAAAAAAGCA-TTCATTGGCAAGAAAAGTCTATTTATA
* * * *
15729 GTCTCTCATACCTTCAAAAGCCTTATTGCTCGCTTTAAATGGTTT
128 GTCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* **
15774 TATAATCTCATAATTGATTTTAAGTTGAATTGTTTTTACATTTTTCATTAAAACCA-A-CAGTAA
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAA-CAGATCA-TAA
* * * ** *
15837 TTGAATG-CTTGCC-CTAGAAACGTGTAG-AAAAAGTCATTCAATAAG-AAGAAAAGTCCATTTA
64 TTGAATGTC-TACCTCAAGAAACGTGAAGAAAAAAG-CATTC-ATTGGCAAGAAAAGTCTATTTA
* *
15898 TAGTCTCCCATTCCTTCAAAAGCCATATTACTTGCTTTAAAAGGTTT
126 TAGTCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * * *
15945 TATAATCTCATGATTAATTTTAAGTTGAATTGTTTTTGCATTTTTGGTTAAAACAGATTATAATT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATCATAATT
* * * * * * * *
16010 GAATGT-TCACGTCGAGAAATGTGAAGAAAAAGGCATTCATTGGTAAAAAAAGTCCATTTATATT
66 GAATGTCT-ACCTCAAGAAACGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGT
* * * *
16074 CACTCATTCTTTCAAAAGCCTTATTAC-T-CATTCCAAATGGTTT
130 CTCCCATTCCTTCAAAAGCCTTATTACTTGC-TT-TAAATGGTTT
* * * * * * * * * * *
16117 TATAATTTTAAAATTGATTTTAAATTCAATTTCTTTTAAATTTTTAGTTAAAACATATTACAATT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATCATAATT
* *
16182 GAATGTCTACCTCATGAAACGTTAA-AAAAAAGCATTCATTGGCATA-AAAAGT-TCATTTATAG
66 GAATGTCTACCTCAAGAAACGTGAAGAAAAAAGCATTCATTGGCA-AGAAAAGTCT-ATTTATAG
* *
16244 TCTCCCATTCTTTCAAAAGCCTTATTACTAT-CTTTAAAAGGTTT
129 TCTCCCATTCCTTCAAAAGCCTTATTACT-TGCTTTAAATGGTTT
* * * * * *
16288 TATAATCTCATAATTAATTTTAAATTGAA--GTGTTTCCAGTTTTT-GTTAAAACA-AACTATAA
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACA-TTTTTGGTTAAAACAGATC-ATAA
** * * * ** *
16349 TTGAATGAATGCCTCGA-AAACGTGTAGAAAAACCCATTTATTAGG-AAGAAAAGTCTATTTATA
64 TTGAATGTCTACCTCAAGAAACGTGAAGAAAAAAGCATTCATT-GGCAAGAAAAGTCTATTTATA
* * * * * *
16412 GTCTCTCATACCTTCAAAAACTTTATTACTGGCTTTAAATGGTGT
128 GTCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * ** *
16457 TATAATCTCATAATTGATTTTAAGTTGAA-TTTGTTTACATCTGTCATTAAAATAGA-CTATAAT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATC-ATAAT
* * * * * * * *
16520 TGAATGCCTGCCTCAAGACACTTGTAGAAAAAAACATTCATTGAG-AACAAAAGTCCATTTATAG
65 TGAATGTCTACCTCAAGAAACGTGAAGAAAAAAGCATTCATTG-GCAAGAAAAGTCTATTTATAG
** *
16584 TCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAGCGATTT
129 TCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * * * * *
16628 TATAATCTCATAATTAATTTTAGGTT-AAATTTTTTTACATTATTGGCTAAAATAGATTATAATT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATCATAATT
* * * *
16692 GGATGTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGGC
66 GAATGTCTACCTCAAGAAACGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTC
* * * *** *
16757 ACCCATTTCGTTCAAAAGCCTTATTGCTCAATTTAAATAGTTT
131 TCCCA-TTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * * * * * **
16800 TATAATCTCAAAATTGTTTTTAAGTTCAATTTTTTTAAAATTTTTGGTTTAGACAGATTGTAATT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATCATAATT
* * * * * *
16865 AAATGTCTACCTCATGAAACATGAAGAAAAAAGTATTTATTAGCAAGAAAAGTCTATTTATAGTC
66 GAATGTCTACCTCAAGAAACGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTC
* * * *
16930 ACCCATTCCTTCAAAAGCCTTAGTACTCGCTTTAAAAGGTTT
131 TCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * **
16972 TATAATGTCATAATTGATTGTAAGTTGTATTTTTTTTACATTTTTTATTAAAACAGA-CTATAAT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATC-ATAAT
* *
17036 T-AAGTGTCTACCTCAAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAC
65 TGAA-TGTCTACCTCAAGAAACGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAG
*
17100 TCTCTCATTCCTTCAAAAGCCTTATTACTTGC-TTAAATGGTTT
129 TCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * * * *
17143 TATAATCTTA-AATTTGATTTTAAGTTCAATTTTTTTTTACATTTTTGGTTAAAATATAGCGTAA
1 TATAATCTCATAA-TTGATTTTAAGTTGAA-TTTTTTTTACATTTTTGGTTAAAACAGATCATAA
17207 TTGAATGTCTAC
64 TTGAATGTCTAC
17219 TTTGTGAAAT
Statistics
Matches: 1175, Mismatches: 224, Indels: 90
0.79 0.15 0.06
Matches are distributed among these distances:
168 9 0.01
169 120 0.10
170 94 0.08
171 440 0.37
172 408 0.35
173 104 0.09
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (172 bp):
TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATCATAATT
GAATGTCTACCTCAAGAAACGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTC
TCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
Found at i:17249 original size:172 final size:172
Alignment explanation
Indices: 15604--17249 Score: 1387
Period size: 172 Copynumber: 9.6 Consensus size: 172
15594 NNNNNNNNNN
* * * ** * * *
15604 TATAATCTCAAAATTGATTTTAAGTTGAATTTTTTATA-GTTTTT-ACTAAAATA-AACTATCAT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATC-ATAAT
* * * ** *** *
15666 TGAATGTTTACCTCGAGAAACGTGTAA-AAAAACCCAGTT-ATTTAAAAGATAAGTCTATTTATA
65 TGAATGTCTACCTCAAGAAACATG-AAGAAAAAGACA-TTCATTGGCAAGAAAAGTCTATTTATA
* * * *
15729 GTCTCTCATACCTTCAAAAGCCTTATTGCTCGCTTTAAATGGTTT
128 GTCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* **
15774 TATAATCTCATAATTGATTTTAAGTTGAATTGTTTTTACATTTTTCATTAAAACCA-A-CAGTAA
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAA-CAGATCA-TAA
* * * * * ** *
15837 TTGAATG-CTTGCC-CTAGAAACGTGTAGAAAAAGTCATTCAATAAG-AAGAAAAGTCCATTTAT
64 TTGAATGTC-TACCTCAAGAAACATGAAGAAAAAGACATTC-ATTGGCAAGAAAAGTCTATTTAT
* *
15899 AGTCTCCCATTCCTTCAAAAGCCATATTACTTGCTTTAAAAGGTTT
127 AGTCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * * *
15945 TATAATCTCATGATTAATTTTAAGTTGAATTGTTTTTGCATTTTTGGTTAAAACAGATTATAATT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATCATAATT
* * ** * * * * *
16010 GAATGT-TCACGTCGAGAAATGTGAAGAAAAAGGCATTCATTGGTAAAAAAAGTCCATTTATATT
66 GAATGTCT-ACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCTATTTATAGT
* * * *
16074 CACTCATTCTTTCAAAAGCCTTATTAC-T-CATTCCAAATGGTTT
130 CTCCCATTCCTTCAAAAGCCTTATTACTTGC-TT-TAAATGGTTT
* * * * * * * * * * *
16117 TATAATTTTAAAATTGATTTTAAATTCAATTTCTTTTAAATTTTTAGTTAAAACATATTACAATT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATCATAATT
* * * *
16182 GAATGTCTACCTCATGAAACGTTAAAAAAAAG-CATTCATTGGCATA-AAAAGT-TCATTTATAG
66 GAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCA-AGAAAAGTCT-ATTTATAG
* *
16244 TCTCCCATTCTTTCAAAAGCCTTATTACTAT-CTTTAAAAGGTTT
129 TCTCCCATTCCTTCAAAAGCCTTATTACT-TGCTTTAAATGGTTT
* * * * * *
16288 TATAATCTCATAATTAATTTTAAATTGAA--GTGTTTCCAGTTTTT-GTTAAAACA-AACTATAA
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACA-TTTTTGGTTAAAACAGATC-ATAA
** * * * * ** *
16349 TTGAATGAATGCCTCGA-AAACGTGTAGAAAAACCCATTTATTAGG-AAGAAAAGTCTATTTATA
64 TTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATT-GGCAAGAAAAGTCTATTTATA
* * * * * *
16412 GTCTCTCATACCTTCAAAAACTTTATTACTGGCTTTAAATGGTGT
128 GTCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * ** *
16457 TATAATCTCATAATTGATTTTAAGTTGAA-TTTGTTTACATCTGTCATTAAAATAGA-CTATAAT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATC-ATAAT
* * * * * * * *
16520 TGAATGCCTGCCTCAAGACACTTGTAGAAAAAAACATTCATTGAG-AACAAAAGTCCATTTATAG
65 TGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATTG-GCAAGAAAAGTCTATTTATAG
** *
16584 TCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAGCGATTT
129 TCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * * * * *
16628 TATAATCTCATAATTAATTTTAGGTT-AAATTTTTTTACATTATTGGCTAAAATAGATTATAATT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATCATAATT
* * *
16692 GGATGTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGGC
66 GAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCTATTTATAGTC
* * * *** *
16757 ACCCATTTCGTTCAAAAGCCTTATTGCTCAATTTAAATAGTTT
131 TCCCA-TTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * * * * * **
16800 TATAATCTCAAAATTGTTTTTAAGTTCAATTTTTTTAAAATTTTTGGTTTAGACAGATTGTAATT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATCATAATT
* * * * *
16865 AAATGTCTACCTCATGAAACATGAAGAAAAA-AGTATTTATTAGCAAGAAAAGTCTATTTATAGT
66 GAATGTCTACCTCAAGAAACATGAAGAAAAAGA-CATTCATTGGCAAGAAAAGTCTATTTATAGT
* * * *
16929 CACCCATTCCTTCAAAAGCCTTAGTACTCGCTTTAAAAGGTTT
130 CTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * **
16972 TATAATGTCATAATTGATTGTAAGTTGTATTTTTTTTACATTTTTTATTAAAACAGA-CTATAAT
1 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATC-ATAAT
17036 T-AAGTGTCTACCTCAAGAAACATGAAGAAAAA-AGCATTCATTGGCAAGAAAAGTCTATTTATA
65 TGAA-TGTCTACCTCAAGAAACATGAAGAAAAAGA-CATTCATTGGCAAGAAAAGTCTATTTATA
* *
17099 CTCTCTCATTCCTTCAAAAGCCTTATTACTTGC-TTAAATGGTTT
128 GTCTCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
* * * * * *
17143 TATAATCTTA-AATTTGATTTTAAGTTCAATTTTTTTTTACATTTTTGGTTAAAATATAGCGTAA
1 TATAATCTCATAA-TTGATTTTAAGTTGAA-TTTTTTTTACATTTTTGGTTAAAACAGATCATAA
* *** * *
17207 TTGAATGTCTACTTTGTGAAATATGAAGAAAAAGATATTCATT
64 TTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATT
17250 NNNNNNNNNN
Statistics
Matches: 1200, Mismatches: 230, Indels: 90
0.79 0.15 0.06
Matches are distributed among these distances:
168 14 0.01
169 115 0.10
170 90 0.08
171 439 0.37
172 443 0.37
173 99 0.08
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (172 bp):
TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTTACATTTTTGGTTAAAACAGATCATAATT
GAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCTATTTATAGTC
TCCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTT
Found at i:18999 original size:171 final size:171
Alignment explanation
Indices: 18875--20635 Score: 878
Period size: 171 Copynumber: 10.3 Consensus size: 171
18865 NNNNNNNNNN
* * *
18875 AATTATGAGATAATAAAATAATTTAAAG-CGAGTGATAAGGCTTTT-AAAGGAATGAGAAATTAT
1 AATTATGAGATAATAAAACAATTTAAAGTC-AGTAATAAGGCTTTTGAAA-GAATGAGAAACTAT
* *
18938 AAATAGACTTTTCTTATCAAGGAATGCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTAT
64 AAATACACTTTTCTTACCAAGGAATGCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTAT
* *
19003 AGTTTTCTTAACCAGAAATGTAAAAAAAATTGAACCTAAAATC
129 AGTGTTCTTAACCAGAAATGTAAAAAAAATTCAACCTAAAATC
* * * * *
19046 AATTTTGAGATAATAAAGCCATTTAAAGTCAGTAATAAGGCTTTTGAAAGAATGGGAGACTATAA
1 AATTATGAGATAATAAAACAATTTAAAGTCAGTAATAAGGCTTTTGAAAGAATGAGAAACTATAA
* * * * *
19111 ATACACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTTGAGGTAAACACTCAATTATAG
66 ATACACTTTTCTTACCAAGGAATGCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTATAG
* * ** * * ** *
19176 TCTATTTTAATAAAAAATAT-AAAAAAATAGAACTTAAAATC
131 TGT-TCTTAACCAGAAATGTAAAAAAAATTCAACCTAAAATC
* * ** * * **
19217 AATTATGACATTATAAAACCTTTTAAAG-CGAGTACTAAGGCTTTTGAAAGAATGGGTGACTATA
1 AATTATGAGATAATAAAACAATTTAAAGTC-AGTAATAAGGCTTTTGAAAGAATGAGAAACTATA
* * * * * *** * *
19281 AATAGACTTTTCTTGCTAATGAATGCTTTTTTCTTCATGTTTCACAAGGTAGACATTCAATTATA
65 AATACACTTTTCTTACCAAGGAATGCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTAT-
* * * * * * *
19346 ATCTGTT-TTGATCAAAAAT-TTAAAAAAATTGAACTTAAAATC
129 A-GTGTTCTTAACCAGAAATGTAAAAAAAATTCAACCTAAAATC
* * * * *
19388 AAATT-TGAGATTATAAAATC-ATTTAAAGTGAGTAATAAGGGTTTTGAAGGAATGAGAGACTAT
1 -AATTATGAGATAATAAAA-CAATTTAAAGTCAGTAATAAGGCTTTTGAAAGAATGAGAAACTAT
** * * ** ** * * *
19451 AAATGGACTTTTCTTTCAAATAAATGGGTTTTTCTACACGTTTAC-TGAGGTAAGCATTCAATTA
64 AAATACACTTTTCTTACCAAGGAATGCTTTTTTCTTCACGTTT-CTTGAGATAAACATTCAATTA
* ** *
19515 TAGTCTGTT-TGAATGAGAAATGT--AAAAAATTCAACTTAAAATC
128 TAG--TGTTCTTAACCAGAAATGTAAAAAAAATTCAACCTAAAATC
* * * * * **
19558 AATTATGAGATTATAAAACCATTTAAAG-CTAATAATAAGGCTTTAGAAGGAATCG-GTTACTAT
1 AATTATGAGATAATAAAACAATTTAAAGTC-AGTAATAAGGCTTTTGAAAGAAT-GAGAAACTAT
** * * * * * * * *
19621 AAATGGACTTTTCTTGCCGATGAATG-TCTTTTTCTTCATGTTTCTTAAGTTAGACATTCAAATA
64 AAATACACTTTTCTTACCAAGGAATGCT-TTTTTCTTCACGTTTCTTGAGATAAACATTCAATTA
* * * * **
19685 TAATCTGTGTTAACCA-ATAATGTAAAAAAAATTGAATTTAAAATC
128 TAGTGT-TCTTAACCAGA-AATGTAAAAAAAATTCAACCTAAAATC
* * * * * **
19730 AATTATAAGATTATAAAACCATTTAAAGCCAGTAATAAGGCTTTT-AAAGGAATGGGAGGCTATA
1 AATTATGAGATAATAAAACAATTTAAAGTCAGTAATAAGGCTTTTGAAA-GAATGAGAAACTATA
** * * ** ** * * ** * ** * *
19794 AATGGACTTTTCTTTCAAATAAATGAGTTTTTCTACATGTTTCTCAAGGTAGGCATTTAATTCT-
65 AATACACTTTTCTTACCAAGGAATGCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTATA
* ** * *
19858 GATCTAT-TTGAATAAAAAATGT--AAAAAATTCAACTTAAAATC
130 G-TGT-TCTT-AACCAGAAATGTAAAAAAAATTCAACCTAAAATC
* * * * * * **
19900 AATTATGAGATTATAAAACCAGTTAAAG-CGAGTAATAAGGCTTTAGAAGGAATCAGTTACTATA
1 AATTATGAGATAATAAAACAATTTAAAGTC-AGTAATAAGGCTTTTGAAAGAATGAGAAACTATA
** * * * * * ** * * * *
19964 AATTGACTTGTCTTGCCAATGAATGCCTTTCTCTTCATTTTTCTTAAGGTAGACATTCAAATATA
65 AATACACTTTTCTTACCAAGGAATGCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTAT-
* * * * *
20029 ATCTGTT-TTAACCA-ATAATCTAAAACAAATTGAACCCAAAATC
129 A-GTGTTCTTAACCAGA-AATGTAAAAAAAATTCAACCTAAAATC
* * * * * **
20072 CATTATAAGATTATAAAACCATCTAAAGGGAGTAATAAGGCTTTT-AAAGGAATGA-AAGACTAT
1 AATTATGAGATAATAAAACAATTTAAAGTCAGTAATAAGGCTTTTGAAA-GAATGAGAA-ACTAT
* * ** ** * * * *
20135 AAATAGACTTTTCTTGCCAATTAATGCTTTTTTCTTCATATTTCTCGAGATAGACAATAAATTAT
64 AAATACACTTTTCTTACCAAGGAATGCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTAT
* * * *
20200 AGTATGTT-TTAA-TAAAAAT-TATAAAAAAATTTAACTTAAAATC
129 AG--TGTTCTTAACCAGAAATGTA-AAAAAAATTCAACCTAAAATC
* * * ** * **
20243 AATTATAATATTATAAAATTATTTAAAG-CGAGTAATAAAGCTTTTGAAAGAAT-AGCTGACTAT
1 AATTATGAGATAATAAAACAATTTAAAGTC-AGTAATAAGGCTTTTGAAAGAATGAG-AAACTAT
** * * * * * * *
20306 AAATGGACTTTGCTT---AATGAATGCATTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTAT
64 AAATACACTTTTCTTACCAAGGAATGCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTAT
* * *
20368 AATCTGTT-TTAGCCA-ATAATGTAAAAAAAATTAAACCTAAAATC
129 -A-GTGTTCTTAACCAGA-AATGTAAAAAAAATTCAACCTAAAATC
* * * * * *
20412 AATTATGAGATTATAAAACTATTTAAAGTGAATAATAAGGC-TTTAAAAGGAAT-AGGAGACTAT
1 AATTATGAGATAATAAAACAATTTAAAGTCAGTAATAAGGCTTTTGAAA-GAATGA-GAAACTAT
* * * * * * ** * *
20475 AATTAGACTTTTCTT-CTGAATGAATAGC-TTTTTCTACACGTTTCATGAGGCAAGCAGTCAATT
64 AAATACACTTTTCTTAC-CAAGGAAT-GCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATT
* * * * * *
20538 ATAGTATATTTTAATCA-ATAA--TATAAAAAATTCAACTTCAAATC
127 ATAGTGT-TCTTAACCAGA-AATGTAAAAAAAATTCAACCTAAAATC
* * *
20582 AATTA-GTAGATTATAAAATC-ATTTAAA-ACGAGTAATAAGGCTTTTGAAGGAATG
1 AATTATG-AGATAATAAAA-CAATTTAAAGTC-AGTAATAAGGCTTTTGAAAGAATG
20636 GGTGACTATA
Statistics
Matches: 1285, Mismatches: 235, Indels: 140
0.77 0.14 0.08
Matches are distributed among these distances:
168 55 0.04
169 92 0.07
170 317 0.25
171 484 0.38
172 331 0.26
173 6 0.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (171 bp):
AATTATGAGATAATAAAACAATTTAAAGTCAGTAATAAGGCTTTTGAAAGAATGAGAAACTATAA
ATACACTTTTCTTACCAAGGAATGCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTATAG
TGTTCTTAACCAGAAATGTAAAAAAAATTCAACCTAAAATC
Found at i:19223 original size:342 final size:343
Alignment explanation
Indices: 18875--21057 Score: 2144
Period size: 342 Copynumber: 6.4 Consensus size: 343
18865 NNNNNNNNNN
* ** * ** *
18875 AATTATGAGATAATAAAATAATTTAAAGCGAGTGATAAGGCTTTTAAAGGAATGAGAAATTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGAGTGACTATAA
* * * * * * *
18940 ATAGACTTTTCTTATCAAGGAATGCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTATAG
66 ATAGACTTTTCTTGTCAATGAATGCTTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATAA
* * * *
19005 T-T-TTCTTAACCAGA-AATGTAAAAAAAATTGAACCTAAAATCAATTTTGAGATAATAAAGCCA
131 TCTGTT-TTAACCA-ATAATGTAAAAAAAATTGAACCTAAAATCAATTATAAGATTATAAAACCA
* *
19067 TTTAAAGTCAGTAATAAGGCTTTTGAAA-GAATGGGAGACTATAAATACACTTTTCTTGCCAATG
194 TTTAAAGTCAGTAATAAGGCTTTTGAAAGGAATGAGAGACTATAAATAGACTTTTCTTGCCAATG
* * *
19131 AATGCTTTTTTCTTCATGTTTCTTGAGGTAAACACTCAATTATAGTCTATTTTAATAAAAAATAT
259 AATGCGTTTTTCTACATGTTTCTTGAGGTAAACAGTCAATTATAGTCTATTTTAATAAAAAATAT
**
19196 AAAAAAATAGAACTTAAAATC
324 -AAAAAATTCAACTTAAAATC
* * * *
19217 AATTATGACATTATAAAACCTTTTAAAGCGAGTACTAAGGCTTTTGAAA-GAATGGGTGACTATA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT-AAAGGAATGAGTGACTATA
**
19281 AATAGACTTTTCTTG-CTAATGAATGCTTTTTTCTTCATGTTTCACAAGGTAGACATTCAATTAT
65 AATAGACTTTTCTTGTC-AATGAATGCTTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTAT
* * * * * * *
19345 AATCTGTTTTGATCAAAAAT-TTAAAAAAATTGAACTTAAAATCAAATT-TGAGATTATAAAATC
129 AATCTGTTTTAACCAATAATGTAAAAAAAATTGAACCTAAAATC-AATTATAAGATTATAAAACC
* * * * *
19408 ATTTAAAGTGAGTAATAAGGGTTTTG-AAGGAATGAGAGACTATAAATGGACTTTTCTTTCAAAT
193 ATTTAAAGTCAGTAATAAGGCTTTTGAAAGGAATGAGAGACTATAAATAGACTTTTCTTGCCAAT
* * * * * * * * *
19472 AAATGGGTTTTTCTACACGTTTAC-TGAGGTAAGCATTCAATTATAGTCTGTTTGAATGAGAAAT
258 GAATGCGTTTTTCTACATGTTT-CTTGAGGTAAACAGTCAATTATAGTCTATTTTAATAAAAAAT
*
19536 GTAAAAAATTCAACTTAAAATC
322 ATAAAAAATTCAACTTAAAATC
* * *
19558 AATTATGAGATTATAAAACCATTTAAAGCTAATAATAAGGC-TTTAGAAGGAATCG-GTTACTAT
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTA-AAGGAAT-GAGTGACTAT
* * * * *
19621 AAATGGACTTTTCTTGCCGATGAATG-TCTTTTTCTTCATGTTTCTTAAGTTAGACATTCAAATA
64 AAATAGACTTTTCTTGTCAATGAATGCT-TTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTA
* **
19685 TAATCTGTGTTAACCAATAATGTAAAAAAAATTGAATTTAAAATCAATTATAAGATTATAAAACC
128 TAATCTGTTTTAACCAATAATGTAAAAAAAATTGAACCTAAAATCAATTATAAGATTATAAAACC
* * * * * *
19750 ATTTAAAGCCAGTAATAAGGCTTTT-AAAGGAATGGGAGGCTATAAATGGACTTTTCTTTCAAAT
193 ATTTAAAGTCAGTAATAAGGCTTTTGAAAGGAATGAGAGACTATAAATAGACTTTTCTTGCCAAT
* * ** ** * * * *
19814 AAATGAGTTTTTCTACATGTTTCTCAAGGTAGGCATTTAATTCT-GATCTATTTGAATAAAAAAT
258 GAATGCGTTTTTCTACATGTTTCTTGAGGTAAACAGTCAATTATAG-TCTATTTTAATAAAAAAT
*
19878 GTAAAAAATTCAACTTAAAATC
322 ATAAAAAATTCAACTTAAAATC
* * *
19900 AATTATGAGATTATAAAACCAGTTAAAGCGAGTAATAAGGC-TTTAGAAGGAATCAGTTACTATA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTA-AAGGAATGAGTGACTATA
* * * * * * *
19964 AATTGACTTGTCTTGCCAATGAATGCCTTTCTCTTCATTTTTCTTAAGGTAGACATTCAAATATA
65 AATAGACTTTTCTTGTCAATGAATGCTTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATA
* * * *
20029 ATCTGTTTTAACCAATAATCTAAAACAAATTGAACCCAAAATCCATTATAAGATTATAAAACCAT
130 ATCTGTTTTAACCAATAATGTAAAAAAAATTGAACCTAAAATCAATTATAAGATTATAAAACCAT
* ** * *
20094 CTAAAGGGAGTAATAAGGCTTTT-AAAGGAATGAAAGACTATAAATAGACTTTTCTTGCCAATTA
195 TTAAAGTCAGTAATAAGGCTTTTGAAAGGAATGAGAGACTATAAATAGACTTTTCTTGCCAATGA
* * * * * * * * * * *
20158 ATGCTTTTTTCTTCATATTTCTCGAGATAGACAATAAATTATAGTATGTTTTAATAAAAATTATA
260 ATGCGTTTTTCTACATGTTTCTTGAGGTAAACAGTCAATTATAGTCTATTTTAATAAAAAATAT-
*
20223 AAAAAATTTAACTTAAAATC
324 AAAAAATTCAACTTAAAATC
* * ** *
20243 AATTATAATATTATAAAATTATTTAAAGCGAGTAATAAAGCTTTTGAAA-GAAT-AGCTGACTAT
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT-AAAGGAATGAG-TGACTAT
* * *
20306 AAATGGACTTTGC-T-T-AATGAATGCATTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTAT
64 AAATAGACTTTTCTTGTCAATGAATGCTTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTAT
* * * *
20368 AATCTGTTTTAGCCAATAATGTAAAAAAAATTAAACCTAAAATCAATTATGAGATTATAAAACTA
129 AATCTGTTTTAACCAATAATGTAAAAAAAATTGAACCTAAAATCAATTATAAGATTATAAAACCA
* * * * *
20433 TTTAAAGTGAATAATAAGGC-TTTAAAAGGAAT-AGGAGACTATAATTAGACTTTTCTT-CTGAA
194 TTTAAAGTCAGTAATAAGGCTTTTGAAAGGAATGA-GAGACTATAAATAGACTTTTCTTGC-CAA
* * * * * * *
20495 TGAATAGC-TTTTTCTACACGTTTCATGAGGCAAGCAGTCAATTATAGTATATTTTAATCAATAA
257 TGAAT-GCGTTTTTCTACATGTTTCTTGAGGTAAACAGTCAATTATAGTCTATTTTAATAAAAAA
*
20559 TATAAAAAATTCAACTTCAAATC
321 TATAAAAAATTCAACTTAAAATC
* * * *
20582 AATTA-GTAGATTATAAAATCATTTAAAACGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATA
1 AATTATG-AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGAGTGACTATA
* * * ** * *
20646 AATGGACTTTTTTTTGTCAATGAAT-ATCTTTTTCTTCATGTTTCACAAGGTAAATATTCAATTA
65 AATAGAC-TTTTCTTGTCAATGAATGCT-TTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTA
*** * * * * * * ********
20710 CGCTATATTTTAACCAAAAATGTACAAAAAATTGAACTTAAAATTAAATT-TAAGATNNNNNNNN
128 TAATCTGTTTTAACCAATAATGTAAAAAAAATTGAACCTAAAA-TCAATTATAAGATTATAAAAC
****** * *
20774 NNNNNNAAG-CGAGTAATAAGGCTTTTG-AAGGAATGAGAGACTATAAATAGAGTTTTCTTGTCA
192 CATTTAAAGTC-AGTAATAAGGCTTTTGAAAGGAATGAGAGACTATAAATAGACTTTTCTTGCCA
* * * * *
20837 ATGAATGCCTTTTTCTTCATGTTTCTTTAGGTAGACAGTCAATTATAGTCTGTTTTAATGAAAAA
256 ATGAATGCGTTTTTCTACATGTTTCTTGAGGTAAACAGTCAATTATAGTCTATTTTAAT-AAAAA
* * * *
20902 TACAAAAAAAATACAAC-TAACAATT
320 -ATATAAAAAATTCAACTTAA-AATC
* * * ** *
20927 AATTATGACATTATAAAACCTTTTAAAGCGAGTATTAAGGCTTTTAAAAAAATGAGTTACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGAGTGACTATAA
* * * * * * *
20992 ATAGACTTTTTTTTGTCAATAAATACCTTATTCTTCATGTTTCATGAGGTAGACATTCAATTATA
66 ATAGAC-TTTTCTTGTCAATGAATGCTTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATA
21057 A
130 A
21058 NNNNNNNNNN
Statistics
Matches: 1533, Mismatches: 260, Indels: 93
0.81 0.14 0.05
Matches are distributed among these distances:
338 2 0.00
339 82 0.05
340 206 0.13
341 148 0.10
342 692 0.45
343 258 0.17
344 21 0.01
345 123 0.08
346 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.35
Consensus pattern (343 bp):
AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGAGTGACTATAA
ATAGACTTTTCTTGTCAATGAATGCTTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATAA
TCTGTTTTAACCAATAATGTAAAAAAAATTGAACCTAAAATCAATTATAAGATTATAAAACCATT
TAAAGTCAGTAATAAGGCTTTTGAAAGGAATGAGAGACTATAAATAGACTTTTCTTGCCAATGAA
TGCGTTTTTCTACATGTTTCTTGAGGTAAACAGTCAATTATAGTCTATTTTAATAAAAAATATAA
AAAATTCAACTTAAAATC
Found at i:19964 original size:512 final size:509
Alignment explanation
Indices: 18875--21056 Score: 1949
Period size: 512 Copynumber: 4.3 Consensus size: 509
18865 NNNNNNNNNN
* ** * * *
18875 AATTATGAGATAATAAAATAATTTAAAGCGAGTGATAAGGCTTTTA-AAGGAATGAGAAATTATA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTAGAAGGAATGAGAGACTATA
* * * * *
18939 AATAGACTTTTCTTATCAAGGAATGCTTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTATA
65 AATAGACTTTTCTT-TCAATGAATGCCTTTTTCTACACGTTTCTTGAGGTAAGCATTCAATTATA
* * * *
19004 GT-T-TTCTTAACCAGA-AATGTAAAAAAAATTGAACCTAAAATCAATTTTGAGATAATAAAGCC
129 GTCTGTT-TTAACCA-ATAATGT-AAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACC
* * *
19066 ATTTAAAGTC-AGTAATAAGGCTTTTGAAAGAATGGGAGACTATAAATACACTTTTCTTGCCAAT
191 ATTTAAAG-CGAGTAATAAGGCTTTAGAAGGAATGGGAGACTATAAATAGACTTTTCTTGCCAAT
* * * * *
19130 GAATGCTTTTTTCTTCATGTTTCTTGAGGTAAACACTCAATTATAGTCTATTTTAATAAAAAA-T
255 GAATGCTTTTTTCTTCATGTTTCTTGAGATAGACAATCAAATATAGTCTGTTTTAA-AAAAAATT
* * * *
19194 ATAAAAAAATAGAACTTAAAATCAATTATGACATTATAAAACCTTTTAAAGCGAGTACTAAGGCT
319 A-AAAAAAATTGAACTTAAAATCAATTATAACATTATAAAACCATTTAAAGCGAGTAATAAGGCT
* * *
19259 TTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATGCTTTTTTCTTCATGTTTC
383 TTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTTC-AATGAATG-ATTTTTCTTCATGTTTC
* * * *
19324 ACAAGGTAGACATTCAATTATAATCTGTTTTG-ATCAAAAATTTAAAAAAATTGAACTTAAAATC
446 TCAAGGTAGACATTCAATTATAATCT-ATTTGAATCAAAAATGTAAAAAAATTAAACTTAAAATC
* * * *
19388 AAATT-TGAGATTATAAAATCATTTAAAGTGAGTAATAAGGGTTTTGAAGGAATGAGAGACTATA
1 -AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTAGAAGGAATGAGAGACTATA
* * **
19452 AATGGACTTTTCTTTCAAATAAATGGGTTTTTCTACACGTTTAC-TGAGGTAAGCATTCAATTAT
65 AATAGACTTTTCTTTC-AATGAATGCCTTTTTCTACACGTTT-CTTGAGGTAAGCATTCAATTAT
* ** *
19516 AGTCTGTTTGAATGAGA-AATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA
128 AGTCTGTTTTAACCA-ATAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCA
* * * ** * *
19579 TTTAAAGCTAATAATAAGGCTTTAGAAGGAATCGGTTACTATAAATGGACTTTTCTTGCCGATGA
192 TTTAAAGCGAGTAATAAGGCTTTAGAAGGAATGGGAGACTATAAATAGACTTTTCTTGCCAATGA
* * * * * * *
19644 ATG-TCTTTTTCTTCATGTTTCTTAAGTTAGACATTCAAATATAATCTGTGTTAACCAATAATGT
257 ATGCT-TTTTTCTTCATGTTTCTTGAGATAGACAATCAAATATAGTCTGTTTTAA-AAAAAAT-T
* * *
19708 AAAAAAAATTGAATTTAAAATCAATTATAAGATTATAAAACCATTTAAAGCCAGTAATAAGGCTT
319 AAAAAAAATTGAACTTAAAATCAATTATAACATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
* * * *
19773 TT-AAAGGAATGGGAGGCTATAAATGGACTTTTCTTTCAAATAAATGAGTTTTTCTACATGTTTC
384 TTGAAA-GAATGGGTGACTATAAATGGACTTTTCTTTC-AATGAATGA-TTTTTCTTCATGTTTC
* * * * * *
19837 TCAAGGTAGGCATTTAATTCTGATCTATTTGAATAAAAAATGT-AAAAAATTCAACTTAAAATC
446 TCAAGGTAGACATTCAATTATAATCTATTTGAATCAAAAATGTAAAAAAATTAAACTTAAAATC
* * **
19900 AATTATGAGATTATAAAACCAGTTAAAGCGAGTAATAAGGCTTTAGAAGGAATCAGTTACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTAGAAGGAATGAGAGACTATAA
* * * * * ** * *
19965 ATTGACTTGTCTTGCCAATGAATGCCTTTCTCTTCATTTTTCTTAAGGT-AGACATTCAAATATA
66 ATAGACTTTTCTT-TCAATGAATGCCTTTTTCTACACGTTTCTTGAGGTAAG-CATTCAATTATA
* * * * * *
20029 ATCTGTTTTAACCAATAATCTAAAACAAATTGAACCCAAAATCCATTATAAGATTATAAAACCAT
129 GTCTGTTTTAACCAATAATGTAAAA-AAATTCAACCTAAAATCAATTATGAGATTATAAAACCAT
* * ** *
20094 CTAAAGGGAGTAATAAGGCTTTTA-AAGGAATGAAAGACTATAAATAGACTTTTCTTGCCAATTA
193 TTAAAGCGAGTAATAAGGC-TTTAGAAGGAATGGGAGACTATAAATAGACTTTTCTTGCCAATGA
* * * *
20158 ATGCTTTTTTCTTCATATTTCTCGAGATAGACAAT-AAATTATAGTATGTTTTAATAAAAATTAT
257 ATGCTTTTTTCTTCATGTTTCTTGAGATAGACAATCAAA-TATAGTCTGTTTTAAAAAAAATTA-
* * ** *
20222 AAAAAAATTTAACTTAAAATCAATTATAATATTATAAAATTATTTAAAGCGAGTAATAAAGCTTT
320 AAAAAAATTGAACTTAAAATCAATTATAACATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * * *
20287 TGAAAGAATAGCTGACTATAAATGGACTTTGC-TT-AATGAATGCATTTTTCTTCATGTTTCTTA
385 TGAAAGAATGGGTGACTATAAATGGACTTTTCTTTCAATGAATG-ATTTTTCTTCATGTTTCTCA
* * ** * *
20350 AGGTAGACATTCAATTATAATCTGTTTTAGCCAATAATGTAAAAAAAATTAAACCTAAAATC
449 AGGTAGACATTCAATTATAATCTATTTGAATCAAAAATGT-AAAAAAATTAAACTTAAAATC
* * * *
20412 AATTATGAGATTATAAAACTATTTAAAGTGAATAATAAGGCTTTAAAAGGAAT-AGGAGACTATA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTAGAAGGAATGA-GAGACTATA
* * * * *
20476 ATTAGACTTTTCTTCTGAATGAATAG-CTTTTTCTACACGTTTCATGAGGCAAGCAGTCAATTAT
65 AATAGACTTTTCTT-TCAATGAAT-GCCTTTTTCTACACGTTTCTTGAGGTAAGCATTCAATTAT
* * * * * * *
20540 AGTATATTTTAATCAATAATAT-AAAAAATTCAACTTCAAATCAATTA-GTAGATTATAAAATCA
128 AGTCTGTTTTAACCAATAATGTAAAAAAATTCAACCTAAAATCAATTATG-AGATTATAAAACCA
* * * * * *
20603 TTTAAAACGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTTTTTGTCAATG
192 TTTAAAGCGAGTAATAAGGCTTTAGAAGGAATGGGAGACTATAAATAGAC-TTTTCTTGCCAATG
* *** * * * * * * *
20668 AAT-ATCTTTTTCTTCATGTTTCACAAGGTAAATATTC-AAT-TACGCTATATTTTAACCAAAAA
256 AATGCT-TTTTTCTTCATGTTTCTTGAGATAGACAATCAAATATA-G-TCTGTTTTAA-AAAAAA
* * * **************
20730 TGTACAAAAAATTGAACTTAAAATTAAATT-TAAGATNNNNNNNNNNNNNNAAGCGAGTAATAAG
317 T-TAAAAAAAATTGAACTTAAAA-TCAATTATAACATTATAAAACCATTTAAAGCGAGTAATAAG
* * * * * *
20794 GCTTTTGAAGGAATGAGAGACTATAAATAGAGTTTTCTTGTCAATGAATGCCTTTTTCTTCATGT
380 GCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTT-TCAATGAATG-ATTTTTCTTCATGT
** * * * * * ** *
20859 TTCTTTAGGTAGACAGTCAATTATAGTCTGTTTTAATGAAAAATACAAAAAAAATACAAC-TAAC
443 TTCTCAAGGTAGACATTCAATTATAATCTATTTGAATCAAAAATGTAAAAAAATTA-AACTTAA-
*
20923 AATT
506 AATC
* * * ** **
20927 AATTATGACATTATAAAACCTTTTAAAGCGAGTATTAAGGCTTTTA-AAAAAATGAGTTACTATA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTAGAAGGAATGAGAGACTATA
* * * * * * *
20991 AATAGACTTTTTTTTGTCAATAAATACCTTATTCTTCATGTTTCATGAGGT-AGACATTCAATTA
65 AATAGAC-TTTTCTT-TCAATGAATGCCTTTTTCTACACGTTTCTTGAGGTAAG-CATTCAATTA
21055 TA
127 TA
21057 ANNNNNNNNN
Statistics
Matches: 1356, Mismatches: 262, Indels: 98
0.79 0.15 0.06
Matches are distributed among these distances:
509 5 0.00
510 125 0.09
511 63 0.05
512 488 0.36
513 343 0.25
514 156 0.12
515 127 0.09
516 49 0.04
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.35
Consensus pattern (509 bp):
AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTAGAAGGAATGAGAGACTATAA
ATAGACTTTTCTTTCAATGAATGCCTTTTTCTACACGTTTCTTGAGGTAAGCATTCAATTATAGT
CTGTTTTAACCAATAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTA
AAGCGAGTAATAAGGCTTTAGAAGGAATGGGAGACTATAAATAGACTTTTCTTGCCAATGAATGC
TTTTTTCTTCATGTTTCTTGAGATAGACAATCAAATATAGTCTGTTTTAAAAAAAATTAAAAAAA
ATTGAACTTAAAATCAATTATAACATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAG
AATGGGTGACTATAAATGGACTTTTCTTTCAATGAATGATTTTTCTTCATGTTTCTCAAGGTAGA
CATTCAATTATAATCTATTTGAATCAAAAATGTAAAAAAATTAAACTTAAAATC
Found at i:24084 original size:170 final size:169
Alignment explanation
Indices: 23458--24551 Score: 665
Period size: 172 Copynumber: 6.4 Consensus size: 169
23448 NNNNNNNNNN
* * * *
23458 TATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATTG-GAGACTATAAGTGGACTTTT
1 TATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA-TGAGAGACTATAAATAGACTTTT
*** * * * * * *
23522 CTTTTTAATGAATGA-CTTTTTCTACA-CGTTTCTTGAGGCAAGCAGTCAATTATAGTCTATTTT
65 CTTCCCAATGAAT-ACCTTTTTCTTCATC-TTTC-TGAGGTAAACATTCAATTATAATCTGTTTT
* * * * *
23585 AATTAATAATGTGAAAAATTCAACTTAAAATCAATTATGAAAT
127 AATCAAAAATATAAAAAATACAACTTAAAATCAATTATGAAAT
********** *
23628 NNNNNNNNNNTTTAAAGCGAGTAATAAGGCTTTTGAA-GAACTG-GATGACTATAAATGGACTTT
1 TATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA-TGAGA-GACTATAAATAGACTTT
* ** * * * ** * * * * * *
23691 TTTTGTCAATGAATATCTTTTTTTTCATGTTTCACAAGGTAGACATTTAATTACACTATATTTTA
64 TCTTCCCAATGAATACCTTTTTCTTCATCTTTC-TGAGGTAAACATTCAATTATAATCTGTTTTA
* * ********* *
23756 ACCAAAAATGTACNNNNNNNNNNACTTAAAATTAAATT-T-AAGAT
128 ATCAAAAATATA--AAAAATACAACTTAAAA-TCAATTATGAA-AT
* * * *
23800 TATAAAACTATTTAAAGCTAGTAATAAGACTTTTGAAGGAATGAGAGAC--TAAATAGAGTTTTT
1 TATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTC
* * * * * * * *
23863 TTGCCGATGAATGCTTTTTTCTTCA-CATTTCTTGAGATAGACACTCAATTATAATCCGTTTTAA
66 TTCCCAATGAATACCTTTTTCTTCATC-TTTC-TGAGGTAAACATTCAATTATAATCTGTTTTAA
* * *
23927 TGAAAAATATAAAAAATACAACTTACAATCAATTATGACAT
129 TCAAAAATATAAAAAATACAACTTAAAATCAATTATGAAAT
* * *
23968 TATAAAACCT-TTCAAAGCGAGTATTAAGGCTTTTGAAGGAATGAGTGACTATAAATAGACTTTT
1 TATAAAA-CTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTT
* * *
24032 -TTCCCCAATAAATACCTTTTTCTTCATCTTTAATGAGGTAAACATTCAATTATAATCTGTTTGA
65 CTT-CCCAATGAATACCTTTTTCTTCATCTTT-CTGAGGTAAACATTCAATTATAATCTGTTTTA
* * * *
24096 ATCAAAAATTTAAAAAAAATTA-AATTTAAAATTAATTTTGAAAT
128 ATCAAAAA--TATAAAAAA-TACAACTTAAAATCAATTATGAAAT
** * * * *
24140 TATAAAACTATTTAAAATGAGTAATAAGGCTTTTGAAGGAATGTGTGACCATATAT-GAACTTTT
1 TATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG-ACTTTT
** * * * *
24204 CTTGTCAATGAATATCTTTTTCTTCATCTTTCTCGATGTGAACATTCAATTATAATCTATTTTAA
65 CTTCCCAATGAATACCTTTTTCTTCATCTTTCT-GAGGTAAACATTCAATTATAATCTGTTTTAA
* * * * * * *
24269 CCAAAAATACAAAAACTATTCAGCTTAAAATTAAATATGAGAT
129 TCAAAAATATAAAAA--ATACAACTTAAAATCAATTATGAAAT
* * *
24312 TATAAAATCT-TTTAAAGTGAGTAATATGGCTTTCGAAGGAATGAGAGACTATAAATAGACTTTT
1 TATAAAA-CTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTT
* * * * * * *
24376 CTTCTCAATGAATGA-CTTTATCTACATGTTTTCT-AGGGTAAGCATTCAATTATAGTCAGTTTT
65 CTTCCCAATGAAT-ACCTTTTTCTTCAT-CTTTCTGA-GGTAAACATTCAATTATAATCTGTTTT
* * ** *******
24439 AATGAAAAATGTAAAAAAATTTAACTTAAAATCAATTNNNNNNN
127 AATCAAAAATAT-AAAAAATACAACTTAAAATCAATTATGAAAT
*** * * * * *
24483 NNNAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGGGAGGCTATAAATGGGCTTTTC
1 TATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTC
24548 TTCC
66 TTCC
24552 AAATAACTGG
Statistics
Matches: 706, Mismatches: 183, Indels: 69
0.74 0.19 0.07
Matches are distributed among these distances:
167 5 0.01
168 51 0.07
169 13 0.02
170 235 0.33
171 78 0.11
172 296 0.42
173 28 0.04
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.36
Consensus pattern (169 bp):
TATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTC
TTCCCAATGAATACCTTTTTCTTCATCTTTCTGAGGTAAACATTCAATTATAATCTGTTTTAATC
AAAAATATAAAAAATACAACTTAAAATCAATTATGAAAT
Found at i:24456 original size:344 final size:339
Alignment explanation
Indices: 23779--24475 Score: 773
Period size: 344 Copynumber: 2.0 Consensus size: 339
23769 NNNNNNNNNN
* *
23779 ACTTAAAATTAAATTTAAGATTATAAAACTATTTAAAGCTAGTAATAAGACTTTTGAAGGAATGA
1 ACTTAAAATTAATTTTAAGATTATAAAACTATTTAAAGATAGTAATAAGACTTTTGAAGGAATGA
* * * * *
23844 GAGACTAAATAGAGTTTTTTTGCCGATGAATGCTTTTTTCTTCACATTTCTTGAGATAGACACTC
66 GAGACCAAATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTCACATTTCTCGAGATAGACACTC
* ** * * *
23909 AATTATAATCCGTTTTAATGAAAAATATAAAAAATACAACTTACAATCAATTATGACATTATAAA
131 AATTATAATCCATTTTAACCAAAAATACAAAAAATACAACTTAAAATCAAATATGACATTATAAA
* * *
23974 ACCTTTCAAAGCGAGTATTAAGGCTTTTGAAGGAATGAGTGACTATAAATAGACTTTTTTCCCCA
196 ACCTTTCAAAGCGAGTAATAAGGCTTTCGAAGGAATGAGAGACTATAAATAGACTTTTTTCCCCA
* * *
24039 ATAAATACCTTTTTCTTCATCTTTAATGAGGTAAACATTCAATTATAATCTGTTTGAATCAAAAA
261 ATAAATACCTTTATCTACATCTTTAATGAGGTAAACATTCAATTATAATCAGTTTGAATCAAAAA
*
24104 TTTAAAAAAAATTAA
326 TGT-AAAAAAATTAA
* *
24119 ATTTAAAATTAATTTTGAA-ATTATAAAACTATTTAAA-ATGAGTAATAAGGCTTTTGAAGGAAT
1 ACTTAAAATTAATTTT-AAGATTATAAAACTATTTAAAGAT-AGTAATAAGACTTTTGAAGGAAT
* * * * *
24182 GTGTGACCATATATGAACTTTTCTTGTCAATGAAT-ATCTTTTTCTTCATC-TTTCTCGATG-T-
64 GAGAGACCAAATA-G-ACTTTTCTTGCCAATGAATGCT-TTTTTCTTCA-CATTTCTCGA-GATA
* * * * *
24243 GAACATTCAATTATAATCTATTTTAACCAAAAATACAAAAACTATTCAGCTTAAAATTAAATATG
124 G-ACACTCAATTATAATCCATTTTAACCAAAAATACAAAAA--ATACAACTTAAAATCAAATATG
* * * * *
24308 AGATTATAAAATCTTTTAAAGTGAGTAATATGGCTTTCGAAGGAATGAGAGACTATAAATAGACT
186 ACATTATAAAACCTTTCAAAGCGAGTAATAAGGCTTTCGAAGGAATGAGAGACTATAAATAGACT
* * * ** * *
24373 TTTCTT-CTCAATGAATGA-CTTTATCTACATGTTTTCT-AGGGTAAGCATTCAATTATAGTCAG
251 TTT-TTCCCCAATAAAT-ACCTTTATCTACATCTTTAATGA-GGTAAACATTCAATTATAATCAG
* * *
24435 TTTTAATGAAAAATGTAAAAAAATTTA
313 TTTGAATCAAAAATGTAAAAAAATTAA
*
24462 ACTTAAAATCAATT
1 ACTTAAAATTAATT
24476 NNNNNNNNNN
Statistics
Matches: 295, Mismatches: 49, Indels: 23
0.80 0.13 0.06
Matches are distributed among these distances:
339 1 0.00
340 63 0.21
341 5 0.02
342 66 0.22
343 25 0.08
344 132 0.45
345 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (339 bp):
ACTTAAAATTAATTTTAAGATTATAAAACTATTTAAAGATAGTAATAAGACTTTTGAAGGAATGA
GAGACCAAATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTCACATTTCTCGAGATAGACACTC
AATTATAATCCATTTTAACCAAAAATACAAAAAATACAACTTAAAATCAAATATGACATTATAAA
ACCTTTCAAAGCGAGTAATAAGGCTTTCGAAGGAATGAGAGACTATAAATAGACTTTTTTCCCCA
ATAAATACCTTTATCTACATCTTTAATGAGGTAAACATTCAATTATAATCAGTTTGAATCAAAAA
TGTAAAAAAATTAA
Found at i:25621 original size:172 final size:162
Alignment explanation
Indices: 25434--25765 Score: 305
Period size: 172 Copynumber: 2.0 Consensus size: 162
25424 TATTACTCGC
* ** *
25434 TTTAAAAGATTTTATAATCTCATAATTAATTTTAAACTAAATAGT-TTTTGCATTTTTAGTT-AA
1 TTTAAAAGATTTTATAATCTCAAAATTAATTTTAAACTAAAT-GTGTTTTAAATTTTTAATTCAA
* * ** * *
25497 AGCAGATTATAATTTAATGTTCT-CGTCGA-GAAATGTGAAGAAAAATGAATTTATTGACAAGAA
65 A-CAGATTATAATTGAATG-TCTACCTC-ATGAAACATGAAGAAAAAGGAATTTATTGACAAAAA
*
25560 AAGT-TCATTTATAGTCACCCATTTCTTCAAAAGCNNNNNNNNNNAT
127 AAGTCT-ATTTATAGTCACCCATTCCTTCAAAAGC----------AT
* * * * *
25606 TTTAAATGGTTTTATAATCTCAAAATTAATTTTAAATTCAATTTGTTTTAAATTTTTAATTCAAA
1 TTTAAAAGATTTTATAATCTCAAAATTAATTTTAAACTAAATGTGTTTTAAATTTTTAATTCAAA
* * *
25671 TAGATTATAATTGAATGTCTACCTCATGAAACATGAAGAAAAAGGTATTTATTGGCAAAAAAAGT
66 CAGATTATAATTGAATGTCTACCTCATGAAACATGAAGAAAAAGGAATTTATTGACAAAAAAAGT
* *
25736 CTATTTATAGTCACTCATTCCTTCGAAAGC
131 CTATTTATAGTCACCCATTCCTTCAAAAGC
25766 CTTAATACTC
Statistics
Matches: 134, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
171 5 0.04
172 125 0.93
173 4 0.03
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.38
Consensus pattern (162 bp):
TTTAAAAGATTTTATAATCTCAAAATTAATTTTAAACTAAATGTGTTTTAAATTTTTAATTCAAA
CAGATTATAATTGAATGTCTACCTCATGAAACATGAAGAAAAAGGAATTTATTGACAAAAAAAGT
CTATTTATAGTCACCCATTCCTTCAAAAGCAT
Found at i:25912 original size:171 final size:172
Alignment explanation
Indices: 25646--25965 Score: 417
Period size: 171 Copynumber: 1.9 Consensus size: 172
25636 TTTAAATTCA
* * * * *
25646 ATTTGTTTTAAATTTTTAATTCAAATAGATTATAATTGAATGTCTACCTCATGAAACATGAAGAA
1 ATTTGTTTTAAATTTTTAATTAAAACAGACTATAATTGAATATCTACCTCAAGAAACATGAAGAA
* * * ** * * *
25711 AAAGGTATTTATTGGCAAAAAAAGTCTATTTATAGTCACTCATTCCTTCGAAAGCCTTAATACTC
66 AAAAGCATTCATCAGCAAAAAAACTCTATTTAAAGTCACTCATTCCTTCCAAAGCCTTAATACTC
25776 ACTTTAAAAAGTTTTATAACGTCATAATTGATTGTAAGTTGT
131 ACTTTAAAAAGTTTTATAACGTCATAATTGATTGTAAGTTGT
* * * * *
25818 ATTT-TTTTATATTTTTCATTAAAACAGACTATAATTGAGTATCTACCTCAAGAACCGTGAAGAA
1 ATTTGTTTTAAATTTTTAATTAAAACAGACTATAATTGAATATCTACCTCAAGAAACATGAAGAA
* * * *
25882 AAAAGCATTCATCAGTAAGAAAACTCTATTTAAAGTCTCTCATTCCTTCCAAAGCCTTATTACTC
66 AAAAGCATTCATCAGCAAAAAAACTCTATTTAAAGTCACTCATTCCTTCCAAAGCCTTAATACTC
* *
25947 GCTTTAAATAGTTTTATAA
131 ACTTTAAAAAGTTTTATAA
25966 TCTTAAATTT
Statistics
Matches: 124, Mismatches: 24, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
171 120 0.97
172 4 0.03
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (172 bp):
ATTTGTTTTAAATTTTTAATTAAAACAGACTATAATTGAATATCTACCTCAAGAAACATGAAGAA
AAAAGCATTCATCAGCAAAAAAACTCTATTTAAAGTCACTCATTCCTTCCAAAGCCTTAATACTC
ACTTTAAAAAGTTTTATAACGTCATAATTGATTGTAAGTTGT
Found at i:26057 original size:343 final size:332
Alignment explanation
Indices: 25699--26323 Score: 708
Period size: 342 Copynumber: 1.8 Consensus size: 332
25689 CTACCTCATG
* * * * *
25699 AAACATGAAGAAAAAGGTATTTATTGGCAAAAAAAG-TCTATTTATAGTCACTCATTCCTTCGAA
1 AAACATGAAGAAAAAGATATTCATTGACAAAAAAAGTTC-ATTTATAGTCACCCATTCCTTCAAA
*
25763 AGCCTTAATACTCACTTTAAAA-AGTTTTATAA-CGTCATAATTGATTGTAAGTTGTATTTTTTT
65 AGCCTTAATACTCACTTTAAAAGA-TTTTATAATC-TCATAATTGATTGTAAGTTG-AATTTTTT
* * * * * *
25826 ATATTTTTCATTAAAACAGACTATAATTGAGT-ATCTACCTCAAGAACCGTGAAGAAAAAAG-CA
127 ACATTATTAATTAAAACAGACTATAATTGACTGCT-TACCTCAAGAAACGTGAAG-AAAAAGCCA
* * * *
25889 TTCA-TCAGTAAGAAAACTCTATTTAAAGTC-TCTCATTCCTTCCAAAGCCTTATTACTCGCTTT
190 TTCATTAAG-AACAAAACTCCATTTAAAGTCTTCT-ATTCCTTCCAAAGACTTATTACTCGCTTT
25952 AAATAGTTTTATAATCTTA-AATTTGATTNNNNNNNNNNTTTTTTGTACATTTTTGGTTAAAATA
253 AAATAGTTTTATAATCTTATAA-TTGATT----------TTTTTTGTACATTTTTGGTTAAAATA
26016 TAGCGTAATTAAATGTCTGCGTTATA
307 TAGCGTAATTAAATGTCTGCGTTATA
26042 AAACATGAAGAAAAAGATATTCATTGACAAAAAAAGTTCATTTATAGTCACCCATTCCTTCAAAA
1 AAACATGAAGAAAAAGATATTCATTGACAAAAAAAGTTCATTTATAGTCACCCATTCCTTCAAAA
********** * *
26107 GCCTTANNNNNNNNNNTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACAT
66 GCCTTAATACTCACTTTAAAAGATTTTATAATCTCATAATTGATTGTAAGTTGAATTTTTTACAT
* *
26172 TATTAATTAAAACAGACTATAATTGACTGCTTGCCTCAAGAAACGTGTAGAAAAAGCCATTCATT
131 TATTAATTAAAACAGACTATAATTGACTGCTTACCTCAAGAAACGTGAAGAAAAAGCCATTCATT
* * * * *
26237 AAGAACAAAAGTCCATTTATAGTCTTCTATTCCTTCTAAAGATTTATTACTCGCTTTAAATGGTT
196 AAGAACAAAACTCCATTTAAAGTCTTCTATTCCTTCCAAAGACTTATTACTCGCTTTAAATAGTT
26302 TTATAATCTTATAATTGATTTT
261 TTATAATCTTATAATTGATTTT
26324 AGGTTCAATN
Statistics
Matches: 239, Mismatches: 35, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
332 2 0.01
341 6 0.03
342 124 0.52
343 103 0.43
344 4 0.02
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.37
Consensus pattern (332 bp):
AAACATGAAGAAAAAGATATTCATTGACAAAAAAAGTTCATTTATAGTCACCCATTCCTTCAAAA
GCCTTAATACTCACTTTAAAAGATTTTATAATCTCATAATTGATTGTAAGTTGAATTTTTTACAT
TATTAATTAAAACAGACTATAATTGACTGCTTACCTCAAGAAACGTGAAGAAAAAGCCATTCATT
AAGAACAAAACTCCATTTAAAGTCTTCTATTCCTTCCAAAGACTTATTACTCGCTTTAAATAGTT
TTATAATCTTATAATTGATTTTTTTTGTACATTTTTGGTTAAAATATAGCGTAATTAAATGTCTG
CGTTATA
Found at i:26821 original size:171 final size:170
Alignment explanation
Indices: 26491--26906 Score: 441
Period size: 171 Copynumber: 2.4 Consensus size: 170
26481 NNNNNNNNNN
* * * * * * *
26491 TTTAAATGATTTTATAATATCATAATTGATTTTAAGTAAAATTTTTTTATATTTTTTGTTAAAAC
1 TTTAACTGGTTTTATAATCTCATAATTGATTTTAAGTAAAATGTTTTTACATTATTGGTTAAAAC
* * * * *
26556 ATACTATAATTTATGTCTATCTTGAGAAATATGAAGAAAAAAGCATTAATTGGCAAGAAAAGTCT
66 AGACTATAATTTATGTCTACCTTAAGAAAAATGAAGAAAAAAGCATTAATTGGCAAGAAAAGTCC
**
26621 ATTCATAGTCTTTCATTCCTTTAAAAGCCTTATTACTCGC
131 ATTCATAGTCAATCATTCCTTTAAAAGCCTTATTACTCGC
* * ** *
26661 TTTAGA-TGGTTTTATACTCTTATAATTGATTTTGGGTTAAATGTTTTTACATTATTGGTTAAAA
1 TTTA-ACTGGTTTTATAATCTCATAATTGATTTTAAGTAAAATGTTTTTACATTATTGGTTAAAA
* * *
26725 CAGATTAT-ATTTGAATGTCTACCTTAAGAAAAATGAA-AAAAAGGCATTCATTGGCCAAGAAAA
65 CAGACTATAATTT--ATGTCTACCTTAAGAAAAATGAAGAAAAAAGCATTAATTGG-CAAGAAAA
* *
26788 GTCCATTTATAGT-AATCGATTCCTTCT-AAAGCCTTATTACTCGT
127 GTCCATTCATAGTCAATC-ATTCCTT-TAAAAGCCTTATTACTCGC
** * * ** *
26832 TTTAACTGGTTTTATAATCTCATAATAT-ATTTTAAGTTGAAT-TTTTTATATTTTTCATTTAAA
1 TTTAACTGGTTTTATAATCTCATAAT-TGATTTTAAGTAAAATGTTTTTACATTATTGGTTAAAA
26895 CAGACTATAATT
65 CAGACTATAATT
26907 GATTGCCTGC
Statistics
Matches: 203, Mismatches: 34, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
169 4 0.02
170 98 0.48
171 99 0.49
172 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (170 bp):
TTTAACTGGTTTTATAATCTCATAATTGATTTTAAGTAAAATGTTTTTACATTATTGGTTAAAAC
AGACTATAATTTATGTCTACCTTAAGAAAAATGAAGAAAAAAGCATTAATTGGCAAGAAAAGTCC
ATTCATAGTCAATCATTCCTTTAAAAGCCTTATTACTCGC
Done.