Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401061.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_422.0, 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: 61296
ACGTcount: A:0.28, C:0.10, G:0.11, T:0.27
Warning! 15349 characters in sequence are not A, C, G, or T
Found at i:4034 original size:171 final size:170
Alignment explanation
Indices: 3718--4651 Score: 660
Period size: 171 Copynumber: 5.5 Consensus size: 170
3708 NNNNNNNNNN
* *
3718 AAAGTGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAAT-AGACTTTTCTTGCT-AATGAA
1 AAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGA-ACTTTTCTT-CTCAATGAA
* ** * * * *
3781 TGCTTTTTTCTTCACGTTTTTTAAGGTAGACATTCAATTATAGTTTGTTTTAACCAAAAAAGTGA
64 TGATTTTTTCTTCACGTTTTCCAAGGAACACATTCAATTATAGTCTGTTTTAA-C-AAAAACTGA
* *
3846 AAA-AATTCATCTTAAAATCAATTATGAGTTTATAAAACCATTT
127 AAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
* * * *
3889 AAAGCGAGTAATAAAGCTTTTCAAAGAATAGGG-AACTATAAATGAATTTTTCTTCTCAATGAAT
1 AAAGCGAGTAATAAGGCTTTTGAAAGAAT-GGGTGACTATAAATGAACTTTTCTTCTCAATGAAT
* * *
3953 GGTTTTTTCTTCACGTTTTCCAAGGAACACATTCAATTATAGTCTGTTTTAATGAATAA-TCGAA
65 GATTTTTTCTTCACGTTTTCCAAGGAACACATTCAATTATAGTCTGTTTTAA-CAAAAACT-GAA
*
4017 AACAATTCAAGTTAAAATCAATTATGAGATTATAAAACCATTT
128 AACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
** * * * ** * *
4060 AAAGCGAACAATAAGGTTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGGCAGTAAATG
1 AAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGAACTTTTCTTCTCAATGAATG
* * * * * *
4125 ACTTTTTCTTCATG-TTTCACGAGGAATACATTCAATTATAGTCTGTTTTAACCAAAACTATAAA
66 ATTTTTTCTTCACGTTTTC-CAAGGAACACATTCAATTATAGTCTGTTTTAACAAAAACT-GAAA
* *
4189 ACAAATTCAATTTAAAATCAATTATGAGACTGA-AAAACCATTT
129 AC-AATTCAACTTAAAATCAATTATGAGA-TTATAAAACCATTT
* *********** * **
4232 AAAGTGAGTAATAAGGCTTNNNNNNNNNNAGGAGACTATAAATGAACTTTTCTTGC-CAATCCAT
1 AAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGAACTTTTCTT-CTCAATGAAT
** * ** * ********** ***
4296 TCTTTTTTCTAT-ATG-TTT-CATGAGTTAGACATTCAATTATAGNNNNNNNNNNCCAAAGTTTG
65 GATTTTTTCT-TCACGTTTTCCA--AGGAACACATTCAATTATAG-TCTGTTTTAACAAAAACTG
* * * *
4358 AAAA-AATTCAGCTTAAAATTAATTATGAGATTATAAAACTATTC
126 AAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
* * *
4402 AAAGTGAGTAATAAGGTCTTTTGAAGGAATGGGTTG-CTATAAATGTACTTTCTCTT-TCAATGA
1 AAAGCGAGTAATAAGG-CTTTTGAAAGAATGGG-TGACTATAAATGAACTTT-TCTTCTCAATGA
* * * * * * * * *
4465 ATGGA-TTTTTCTACATGTTTCCCAAGGCATATATTCAATTATTGTCTATTTTAACCAAAAA-GG
63 AT-GATTTTTTCTTCACGTTTTCCAAGGAACACATTCAATTATAGTCTGTTTTAA-CAAAAACTG
* * * * *
4528 AAGAAAAATTCAACTTAAAATAAATTATTACATTATAAAATCATTT
126 AA-AACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
* * * * *
4574 AAAGCGAGTAAAAAGGATTTT-AAAGCAATGGGAGACTATATATGGACTTTTCTTCTCAATGAAT
1 AAAGCGAGTAATAAGGCTTTTGAAAG-AATGGGTGACTATAAATGAACTTTTCTTCTCAATGAAT
* *
4638 GACTTTTTATTCAC
65 GATTTTTTCTTCAC
4652 ATTTATTGAG
Statistics
Matches: 586, Mismatches: 146, Indels: 62
0.74 0.18 0.08
Matches are distributed among these distances:
169 3 0.01
170 82 0.14
171 323 0.55
172 169 0.29
173 9 0.02
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.35
Consensus pattern (170 bp):
AAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGAACTTTTCTTCTCAATGAATG
ATTTTTTCTTCACGTTTTCCAAGGAACACATTCAATTATAGTCTGTTTTAACAAAAACTGAAAAC
AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
Found at i:7267 original size:170 final size:169
Alignment explanation
Indices: 6876--7411 Score: 534
Period size: 170 Copynumber: 3.1 Consensus size: 169
6866 TAATTGAACC
* * * * * ** *
6876 TAAAATCAATTATTAGATTATAAAACTATGTTAAGCGAGCAGTAAGGCTTTCAAAAGAATGGTTG
1 TAAAATCAATTATGAGATTATAAACCCAT-TAAAGCGAGCAATAAGGCTTTTGAAAGAATGGATG
* * * * *
6941 GCTATAAATGGACATTTCTTCTCAATGAATGGCTTTTTCTCCATGTTTCTCATGGTAGACATTCA
65 ACCATAAATGGACTTTTCTTCTCAATGAATGGCTTTTTCTCCATGTTTCCCAAGGTAGACATTCA
7006 ATTATAGCCTATTTTAACCAAAAATGAAGAAAAATTCAGCA
130 ATTATAGCCTATTTTAA-CAAAAATGAAGAAAAATTCAGCA
* ********** *
7047 TAAAATTAATTATGAGATTATAAACCCATTAAAGNNNNNNNNNNGGCTTTTGAAAGAATGGGTGA
1 TAAAATCAATTATGAGATTATAAACCCATTAAAGCGAGCAATAAGGCTTTTGAAAGAATGGATGA
* *
7112 CCGTAAATGGACTTTTCTTCTCAATGAATGGCTTTTTCTCCATGTTTCCCAAGGTAAACATTCAA
66 CCATAAATGGACTTTTCTTCTCAATGAATGGCTTTTTCTCCATGTTTCCCAAGGTAGACATTCAA
* * * *
7177 TTATAACCTCTTTTAACTAAAAATGAAGAAAAGTTCAGCT
131 TTATAGCCTATTTTAAC-AAAAATGAAGAAAAATTCAGCA
********** * *
7217 TAAAATCAATTATGAGATNNNNNNNNNNTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGATGA
1 TAAAATCAATTATGAGATTATAAACCCATTAAAGCGAGCAATAAGGCTTTTGAAAGAATGGATGA
* * *
7282 CCATAAATGGACTATTCTTCTCAAGGAATGGCTTTTTCTCCATGTTTCCCAAGGCAGACATTCAA
66 CCATAAATGGACTTTTCTTCTCAATGAATGGCTTTTTCTCCATGTTTCCCAAGGTAGACATTCAA
* * * ***
7347 TTATAGCTTGTTTTAACAAAAATTGTAA-AACAAATTAAATT
131 TTATAGCCTATTTTAACAAAAA-TG-AAGAA-AAATTCAGCA
*
7388 TAAAATCAATTTTGAGATTATAAA
1 TAAAATCAATTATGAGATTATAAA
7412 ACCTTTTAAC
Statistics
Matches: 290, Mismatches: 71, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
169 6 0.02
170 234 0.81
171 50 0.17
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.32
Consensus pattern (169 bp):
TAAAATCAATTATGAGATTATAAACCCATTAAAGCGAGCAATAAGGCTTTTGAAAGAATGGATGA
CCATAAATGGACTTTTCTTCTCAATGAATGGCTTTTTCTCCATGTTTCCCAAGGTAGACATTCAA
TTATAGCCTATTTTAACAAAAATGAAGAAAAATTCAGCA
Found at i:7896 original size:171 final size:170
Alignment explanation
Indices: 7585--7906 Score: 398
Period size: 171 Copynumber: 1.9 Consensus size: 170
7575 TCAAGGCAAA
*
7585 CATTCAATTATAGTCTGTTTTAACCAAAGTGTGAAAAACTTCAACTTAAAATCAATTATGAGATT
1 CATTCAATTATAGTCTGTTTTAACCAAAATGTGAAAAACTTCAACTTAAAATCAATTATGAGATT
* * * * *
7650 ATAAAACCATTAAAATCGAGTAATAAGGACTTTAAAGGAATGCGTGACTATAAATATACTTTTCG
66 ATAAAACCATTAAAAGCAAGTAATAAGGACTTTAAAGGAATGAGAGACTATAAATAGACTTTTCG
*
7715 TTTCAATGAAT-CGCTTTTTCTACATGTTCCCCTATGCATG
131 TTGCAATGAATGC-CTTTTTCTACATGTTCCCCTATGCATG
* *
7755 CATTCAATTATAGTCTGTTTTAGCCAAAAATGT-AGAAAACTTCAACTTAAAATGAATTATGAGA
1 CATTCAATTATAGTCTGTTTTAACC-AAAATGTGA-AAAACTTCAACTTAAAATCAATTATGAGA
* ********** *
7819 TTATAAAACCATTTAAAGCAAGTAATANNNNNNNNNNAGGAATGAGAGACTATAAATGGACTTTT
64 TTATAAAACCATTAAAAGCAAGTAATAAGGACTTTAAAGGAATGAGAGACTATAAATAGACTTTT
7884 C-TTGCTAATGAATGCCTTTTTCT
129 CGTTGC-AATGAATGCCTTTTTCT
7907 TCACATTTCA
Statistics
Matches: 127, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
170 28 0.22
171 98 0.77
172 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.33
Consensus pattern (170 bp):
CATTCAATTATAGTCTGTTTTAACCAAAATGTGAAAAACTTCAACTTAAAATCAATTATGAGATT
ATAAAACCATTAAAAGCAAGTAATAAGGACTTTAAAGGAATGAGAGACTATAAATAGACTTTTCG
TTGCAATGAATGCCTTTTTCTACATGTTCCCCTATGCATG
Found at i:9340 original size:173 final size:170
Alignment explanation
Indices: 9031--9637 Score: 409
Period size: 172 Copynumber: 3.5 Consensus size: 170
9021 NNNNNNNCAT
* *
9031 TCAATTATAGTCTGTTTTAACCAAAGTGTAAAAAAATTCAACTTAAAATCATTTATGAGATTATA
1 TCAATTATAGTCTGTTTTAACCAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * * * * * *
9096 AGACCATTTAAAGCGAGTAATAAGGCCTTTGAATGTATGGGTGACTATAAATGTGCTTTTTCTTT
66 AAACCATTTAAAGCGAGTAATAAGGCCTTTGAAGGAACGGATGACTATAAATGTGCTATTTCTTC
* * * *
9161 CAATGAATGGCTTTTTATGCACGTTTCTTAAGGCATG-CAA
131 CAATGAATGCCTTTTTATGCACGTTTCATAACG-AAGACAA
*
9201 TCAATTATAGTCTGTTTTAACCAAATATGTAAAAACAATTTCAACCTAAAATCAATTATGAGATT
1 TCAATTATAGTCTGTTTTAACCAAA-ATGTAAAAA-AA-TTCAACTTAAAATCAATTATGAGATT
********** * *
9266 ATAAAACCNNNNNNNNNNAGTAATAAGGCTTTTGAAGGAACGGATGGCTATAAATG-GAC-ATTT
63 ATAAAACCATTTAAAGCGAGTAATAAGGCCTTTGAAGGAACGGATGACTATAAATGTG-CTATTT
* * * * * *
9329 CTTGCCAATGAATTCCTTTTTGTTCATGTTTCATGACGAAGACAT
127 CTT-CCAATGAATGCCTTTTTATGCACGTTTCATAACGAAGACAA
* * * * * *
9374 TCACTTATACTCTGTTTTAATCAAAAATGTAAATAAAATTGAACTTAAAATCAATTTTGACATTA
1 TCAATTATAGTCTGTTTTAA-CCAAAATGTAAA-AAAATTCAACTTAAAATCAATTATGAGATTA
* * * ********** * * * * *
9439 TAAAATCGTATAANNNNNNNNNNAAGGCTTTTGAAGGAATGGGTGACTATGAATG-GACT-GTTC
64 TAAAACCATTTAAAGCGAGTAATAAGGCCTTTGAAGGAACGGATGACTATAAATGTG-CTATTTC
** * * * * * *
9502 TTTTGAATGAAAG-CTTTTTCCTTCACGTTTCTTAAGGTAGA-AA
128 -TTCCAATGAATGCCTTTTT-ATGCACGTTTCATAACGAAGACAA
* * * * *
9545 TTCAATTATAGTTTGTTTGAACCAAAAATGTAGAAAAATTCAACTAAAAATGAATTATGAGATTA
1 -TCAATTATAGTCTGTTTTAACC-AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTA
* *
9610 TAAAACTATTTAAAGAGAGTAATAAGGC
64 TAAAACCATTTAAAGCGAGTAATAAGGC
9638 TTTTNNNNNN
Statistics
Matches: 331, Mismatches: 93, Indels: 25
0.74 0.21 0.06
Matches are distributed among these distances:
170 25 0.08
171 56 0.17
172 124 0.37
173 120 0.36
174 6 0.02
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.34
Consensus pattern (170 bp):
TCAATTATAGTCTGTTTTAACCAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
AAACCATTTAAAGCGAGTAATAAGGCCTTTGAAGGAACGGATGACTATAAATGTGCTATTTCTTC
CAATGAATGCCTTTTTATGCACGTTTCATAACGAAGACAA
Found at i:9965 original size:171 final size:161
Alignment explanation
Indices: 9788--10110 Score: 330
Period size: 171 Copynumber: 1.9 Consensus size: 161
9778 NNNNNNNNNN
* * *
9788 ATTTAAAGCGAGTAATAAGGATTTTGAAAGAATAGGG-GACTATAAATGGATTTTTCTT-CTCAA
1 ATTTAAAGAGAGCAATAAGGATTTTGAAAGAAT-GGGTGACTATAAATGGACTTTTCTTGCT-AA
* ** * **
9851 TGAATGGTTTTTTCTTCATGTTTTC-CAAGGAACGCATTCAATTATAGCCTGTTTTAATTAAGAA
64 TAAATGACTTTTTCTTCATG-TTTCACAAGGAACACATTCAATTATAGCCTGTTTTAACCAA-AA
*
9915 -TGCAAAAAAATTCAAGTTAAAATCANNNNNNNNNNTATAAAACC
127 GTGCAAAAAAATTCAACTTAAAATCA----------TATAAAACC
* *
9959 ATTTAAAGAGAGCAATAAGGTTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCTAGTA
1 ATTTAAAGAGAGCAATAAGGATTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCTAATA
* * * * * *
10024 AATGACTTTTTCTTCATGTTTCACGAGGTATACATTCAATTATTGTCTGTTTTAACCAAAAGTGT
66 AATGACTTTTTCTTCATGTTTCACAAGGAACACATTCAATTATAGCCTGTTTTAACCAAAAGTGC
10089 AAAAAAATTCAACTTAAAATCA
131 AAAAAAATTCAACTTAAAATCA
10111 ATTATGAGAC
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
170 9 0.07
171 119 0.92
172 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.34
Consensus pattern (161 bp):
ATTTAAAGAGAGCAATAAGGATTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCTAATA
AATGACTTTTTCTTCATGTTTCACAAGGAACACATTCAATTATAGCCTGTTTTAACCAAAAGTGC
AAAAAAATTCAACTTAAAATCATATAAAACC
Found at i:11960 original size:170 final size:171
Alignment explanation
Indices: 11339--12492 Score: 671
Period size: 170 Copynumber: 6.8 Consensus size: 171
11329 NNNNNNNNNN
* * ** * *
11339 GATTTTAAGTTGAATTTTTTTGCAT-TCTTCATTAAAACAGACTATAATTGAATGTTTTCCTAGA
1 GATTTTAAATTGAATTTTTTTACATCT-TTGGTTAAAACAGACTATAATTGAATGTCTGCCTAGA
* * **********
11403 GAAATGTGAAGAAAAAACTATTCATTGGCAAGAAAAGTTCATTTATAGTNNNNNNNNNNTTCAAA
65 GAAATGTGAAGAAAAAACCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAA
* * * *
11468 AGCCTTATTACTAACCTTAAATGGATTTATAATCTCAAAATT
130 AGCCTTATTATTCACCTTAAATGGTTTTATAATCTCATAATT
* * * * * * ** *
11510 GATTATAAGTTTAATTTGTTTTATATTTTTGGTTAATACAGGTTATAATTGAGT-TCCTGCC-AT
1 GATTTTAAATTGAATTT-TTTTACATCTTTGGTTAAAACAGACTATAATTGAATGT-CTGCCTA-
** * * **
11573 GAGAAATGTGAAGAAAAAGGCATTCATTAGAAAGAAAAGTCCATTTATAGTCTCCCATTCCTTNN
63 GAGAAATGTGAAGAAAAAACCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCA
******** * * *
11638 NNNNNNNNATTACTT-GCTTTAAATGGTTTTATAATTTCATAATT
128 AAAGCCTTATTA-TTCACCTTAAATGGTTTTATAATCTCATAATT
* * * * * *
11682 CATTTTTAGTTGAA-TTTTCTACATTTTTGGTTAAAACAGACTATAATTGAATG-CATGCCTTGA
1 GATTTTAAATTGAATTTTTTTACATCTTTGGTTAAAACAGACTATAATTGAATGTC-TGCCTAGA
** * * ************ * * *
11745 GAAACATGTA-TAAAAAGNNNNNNNNNNAAAGAAAAAGTACATTTATAGTCACCCATACCTTCAA
65 GAAATGTGAAGAAAAAACCATTCATTGGCAAG-AAAAGTCCATTTATAGTCTCCCATTCCTTCAA
* * * * * *
11809 AGGCCTTATTATTCGCTTTAAGTGGTCTTATAATCTCATAACT
129 AAGCCTTATTATTCACCTTAAATGGTTTTATAATCTCATAATT
*
11852 GATTTTAAATTGAATTTTTTTACA-CTTTGGTTAAAAGAGACTATAATTGAATGTCTGCCTAGAG
1 GATTTTAAATTGAATTTTTTTACATCTTTGGTTAAAACAGACTATAATTGAATGTCTGCCTAGAG
* * *
11916 AAATGTGAAGAAAAAACCATTTATTGGCAAGAAAAGTTCATTTATAGTCTCCTATTCCTTCAAAA
66 AAATGTGAAGAAAAAACCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAA
* * *
11981 GCCTTATTATTAACCTTAAATGGTTTTATAATCCCAAAATT
131 GCCTTATTATTCACCTTAAATGGTTTTATAATCTCATAATT
********* * * * ** *
12022 NNNNNNNNNNTT-AATTTGTTTTATATTTTTGATTAAAACAGGTTATAATTGAAT-TCCTGCCTT
1 -GATTTTAAATTGAATTT-TTTTACATCTTTGGTTAAAACAGACTATAATTGAATGT-CTGCCTA
*** * * *
12085 GAGAAATGTGAAGAAAAAGGTATTCATTAGCAAGAAAAGTCCATTTACAGTCTCCCATTCTTTCA
63 GAGAAATGTGAAGAAAAAACCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCA
********** *
12150 AAAGCCTTATTACTT-NNNNNNNNNNGTTTTCTAATCTCATAATT
128 AAAGCCTTATTA-TTCACCTTAAATGGTTTTATAATCTCATAATT
* * * * * * * *
12194 CATTTTAAGTTGAATTTTTCTACATTTTTAGCTAAAACAGACTATAATTGAATG-CATGCATAGG
1 GATTTTAAATTGAATTTTTTTACATCTTTGGTTAAAACAGACTATAATTGAATGTC-TGCCTAGA
* * * ** ** * *
12258 GAAATGTGTAGAAAAAGCCATTTATT-AAAAGAAAAAGTATATTTATAGTCACTCATTCCTTCAA
65 GAAATGTGAAGAAAAAACCATTCATTGGCAAG-AAAAGTCCATTTATAGTCTCCCATTCCTTCAA
* * * **********
12322 AGGTCTTATTACTCANNNNNNNNNNTTTTATAATCTCATAATT
129 AAGCCTTATTATTCACCTTAAATGGTTTTATAATCTCATAATT
* * * * * * * *
12365 GATTTTAACTTAAAATTTTTTAC-GCTTTGGTTAAAATAGACTATAATTGAATGTTTACCTCGAG
1 GATTTTAAATTGAATTTTTTTACATCTTTGGTTAAAACAGACTATAATTGAATGTCTGCCTAGAG
* *
12429 AAATGTGAAGAAAAAAGCATTCATTGGCAGGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAA
66 AAATGTGAAGAAAAAACCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAA
12493 NNNNNNNNNN
Statistics
Matches: 734, Mismatches: 224, Indels: 51
0.73 0.22 0.05
Matches are distributed among these distances:
169 12 0.02
170 302 0.41
171 184 0.25
172 232 0.32
173 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.36
Consensus pattern (171 bp):
GATTTTAAATTGAATTTTTTTACATCTTTGGTTAAAACAGACTATAATTGAATGTCTGCCTAGAG
AAATGTGAAGAAAAAACCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAA
GCCTTATTATTCACCTTAAATGGTTTTATAATCTCATAATT
Found at i:12192 original size:512 final size:513
Alignment explanation
Indices: 11201--12492 Score: 1301
Period size: 513 Copynumber: 2.5 Consensus size: 513
11191 NNNNNNNNNN
* * * * *
11201 AAAACAGACTATAATTGAATGCATGCCTTGAGAAACGTGTATAAAAAGCCATTCATTCAAAA-AA
1 AAAACAGACTATAATTGAATGCATGCATAGAGAAACATGTAGAAAAAGCCATTTATT-AAAAGAA
* *************
11265 AAAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTACTCGCTTTAANNNNNNNNNNNNN
65 AAAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTACTCACTTTAAGTGGTCTTATAAT
********* * * * **
11330 NNNNNNNNNGATTTTAAGTTGAATTTTTTTGCATTCTTCATTAAAACAGACTATAATTGAATGTT
130 CTCATAACTGATTTTAAATTGAATTTTTTTACACT-TTGGTTAAAACAGACTATAATTGAATGTT
* * ********
11395 TTCCTAGAGAAATGTGAAGAAAAAACTATTCATTGGCAAGAAAAGTTCATTTATAGTNNNNNNNN
194 TACCTAGAGAAATGTGAAGAAAAAACCATTCATTGGCAAGAAAAGTTCATTTATAGTCTCCCATT
** *
11460 NNTTCAAAAGCCTTATTACTAACCTTAAATGGATTTATAATCTCAAAATTGATTATAAGTTTAAT
259 CCTTCAAAAGCCTTATTACTAACCTTAAATGGATTTATAATCCCAAAATTGATTATAAGTTTAAT
* * *
11525 TTGTTTTATATTTTTGGTTAATACAGGTTATAATTGAGTTCCTGCCATGAGAAATGTGAAGAAAA
324 TTGTTTTATATTTTTGATTAAAACAGGTTATAATTGAATTCCTGCCATGAGAAATGTGAAGAAAA
* **********
11590 AGGCATTCATTAGAAAGAAAAGTCCATTTATAGTCTCCCATTCCTTNNNNNNNNNNATTACTTGC
389 AGGCATTCATTAGAAAGAAAAGTCCATTTACAGTCTCCCATTCCTTCAAAAGCCTTATTACTTGC
* * * *
11655 TTTAAATGGTTTTATAATTTCATAATTCATTTTTAGTTGAA-TTTTCTACATTTTTGGTT
454 TTTAAATGGTTTTATAATCTCATAATTCATTTTAAGTTGAATTTTTCTACATTTTTAGCT
* * * **********
11714 AAAACAGACTATAATTGAATGCATGCCTTGAGAAACATGTATAAAAAGNNNNNNNNNNAAAGAAA
1 AAAACAGACTATAATTGAATGCATGCATAGAGAAACATGTAGAAAAAGCCATTTATTAAAAGAAA
* *
11779 AAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTATTCGCTTTAAGTGGTCTTATAATC
66 AAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTACTCACTTTAAGTGGTCTTATAATC
* * *
11844 TCATAACTGATTTTAAATTGAATTTTTTTACACTTTGGTTAAAAGAGACTATAATTGAATGTCTG
131 TCATAACTGATTTTAAATTGAATTTTTTTACACTTTGGTTAAAACAGACTATAATTGAATGTTTA
* *
11909 CCTAGAGAAATGTGAAGAAAAAACCATTTATTGGCAAGAAAAGTTCATTTATAGTCTCCTATTCC
196 CCTAGAGAAATGTGAAGAAAAAACCATTCATTGGCAAGAAAAGTTCATTTATAGTCTCCCATTCC
* * **********
11974 TTCAAAAGCCTTATTATTAACCTTAAATGGTTTTATAATCCCAAAATTNNNNNNNNNNTTAATTT
261 TTCAAAAGCCTTATTACTAACCTTAAATGGATTTATAATCCCAAAATTGATTATAAGTTTAATTT
*
12039 GTTTTATATTTTTGATTAAAACAGGTTATAATTGAATTCCTGCCTTGAGAAATGTGAAGAAAAAG
326 GTTTTATATTTTTGATTAAAACAGGTTATAATTGAATTCCTGCCATGAGAAATGTGAAGAAAAAG
* * * ****
12104 GTATTCATTAGCAAGAAAAGTCCATTTACAGTCTCCCATTCTTTCAAAAGCCTTATTACTTNNNN
391 GCATTCATTAGAAAGAAAAGTCCATTTACAGTCTCCCATTCCTTCAAAAGCCTTATTACTTGCTT
****** *
12169 NNNNNNGTTTTCTAATCTCATAATTCATTTTAAGTTGAATTTTTCTACATTTTTAGCT
456 TAAATGGTTTTATAATCTCATAATTCATTTTAAGTTGAATTTTTCTACATTTTTAGCT
* **
12227 AAAACAGACTATAATTGAATGCATGCATAGGGAAATGTGTAGAAAAAGCCATTTATTAAAAGAAA
1 AAAACAGACTATAATTGAATGCATGCATAGAGAAACATGTAGAAAAAGCCATTTATTAAAAGAAA
* * * * ********** *
12292 AAGTATATTTATAGTCACTCATTCCTTCAAAGGTCTTATTACTCANNNNNNNNNNTTTTATAATC
66 AAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTACTCACTTTAAGTGGTCTTATAATC
* * * * * *
12357 TCATAATTGATTTTAACTTAAAATTTTTTACGCTTTGGTTAAAATAGACTATAATTGAATGTTTA
131 TCATAACTGATTTTAAATTGAATTTTTTTACACTTTGGTTAAAACAGACTATAATTGAATGTTTA
* * * *
12422 CCTCGAGAAATGTGAAGAAAAAAGCATTCATTGGCAGGAAAAGTCCATTTATAGTCTCCCATTCC
196 CCTAGAGAAATGTGAAGAAAAAACCATTCATTGGCAAGAAAAGTTCATTTATAGTCTCCCATTCC
12487 TTCAAA
261 TTCAAA
12493 NNNNNNNNNN
Statistics
Matches: 630, Mismatches: 147, Indels: 4
0.81 0.19 0.01
Matches are distributed among these distances:
512 272 0.43
513 358 0.57
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.35
Consensus pattern (513 bp):
AAAACAGACTATAATTGAATGCATGCATAGAGAAACATGTAGAAAAAGCCATTTATTAAAAGAAA
AAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTACTCACTTTAAGTGGTCTTATAATC
TCATAACTGATTTTAAATTGAATTTTTTTACACTTTGGTTAAAACAGACTATAATTGAATGTTTA
CCTAGAGAAATGTGAAGAAAAAACCATTCATTGGCAAGAAAAGTTCATTTATAGTCTCCCATTCC
TTCAAAAGCCTTATTACTAACCTTAAATGGATTTATAATCCCAAAATTGATTATAAGTTTAATTT
GTTTTATATTTTTGATTAAAACAGGTTATAATTGAATTCCTGCCATGAGAAATGTGAAGAAAAAG
GCATTCATTAGAAAGAAAAGTCCATTTACAGTCTCCCATTCCTTCAAAAGCCTTATTACTTGCTT
TAAATGGTTTTATAATCTCATAATTCATTTTAAGTTGAATTTTTCTACATTTTTAGCT
Found at i:12475 original size:513 final size:511
Alignment explanation
Indices: 11370--12492 Score: 1274
Period size: 512 Copynumber: 2.2 Consensus size: 511
11360 GCATTCTTCA
*
11370 TTAAAACAGACTATAATTGAATGTTTTCCTAGAGAAATGTGAAGAAAAAACTATTCATTGGCAAG
1 TTAAAACAGACTATAATTGAATGTTTACCTAGAGAAATGTGAAGAAAAAAC-ATTCATTGGCAAG
**********
11435 AAAAGTTCATTTATAGTNNNNNNNNNNTTCAAAAGCCTTATTACTAACCTTAAATGGATTTATAA
65 AAAAGTTCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAACCTTAAATGGATTTATAA
* * * *
11500 TCTCAAAATTGATTATAAGTTTAATTTGTTTTATATTTTTGGTTAATACAGGTTATAATTGAGTT
130 TCCCAAAATTGATTATAAGTTTAATTTGTTTTATATTTTTGATTAAAACAGGTTATAATTGAATT
*
11565 CCTGCCATGAGAAATGTGAAGAAAAAGGCATTCATTAGAAAGAAAAGTCCATTTATAGTCTCCCA
195 CCTGCCATGAGAAATGTGAAGAAAAAGGCATTCATTAGAAAGAAAAGTCCATTTACAGTCTCCCA
********** * *
11630 TTCCTTNNNNNNNNNNATTACTTGCTTTAAATGGTTTTATAATTTCATAATTCATTTTTAGTTGA
260 TTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTCATTTTAAGTTGA
* * * * *
11695 ATTTTCTACATTTTTGGTTAAAACAGACTATAATTGAATGCATGCCTTGAGAAACATGTATAAAA
325 ATTTTCTACATTTTTAGCTAAAACAGACTATAATTGAATGCATGCATAGAGAAACATGTAGAAAA
********** * *
11760 AGNNNNNNNNNNAAAGAAAAAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTATTCGC
390 AGCCATTTATTAAAAGAAAAAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTACTCAC
* *
11825 TTTAAGTGGTCTTATAATCTCATAACTGATTTTAAATTGAATTTTTTTACACTTTGG
455 TTTAAGTGGTCTTATAATCTCATAACTGATTTTAAATTAAAATTTTTTACACTTTGG
* * * *
11882 TTAAAAGAGACTATAATTGAATGTCTGCCTAGAGAAATGTGAAGAAAAAACCATTTATTGGCAAG
1 TTAAAACAGACTATAATTGAATGTTTACCTAGAGAAATGTGAAGAAAAAA-CATTCATTGGCAAG
* * *
11947 AAAAGTTCATTTATAGTCTCCTATTCCTTCAAAAGCCTTATTATTAACCTTAAATGGTTTTATAA
65 AAAAGTTCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAACCTTAAATGGATTTATAA
**********
12012 TCCCAAAATTNNNNNNNNNNTTAATTTGTTTTATATTTTTGATTAAAACAGGTTATAATTGAATT
130 TCCCAAAATTGATTATAAGTTTAATTTGTTTTATATTTTTGATTAAAACAGGTTATAATTGAATT
* * *
12077 CCTGCCTTGAGAAATGTGAAGAAAAAGGTATTCATTAGCAAGAAAAGTCCATTTACAGTCTCCCA
195 CCTGCCATGAGAAATGTGAAGAAAAAGGCATTCATTAGAAAGAAAAGTCCATTTACAGTCTCCCA
* ********** *
12142 TTCTTTCAAAAGCCTTATTACTTNNNNNNNNNNGTTTTCTAATCTCATAATTCATTTTAAGTTGA
260 TTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTCATTTTAAGTTGA
* **
12207 ATTTTTCTACATTTTTAGCTAAAACAGACTATAATTGAATGCATGCATAGGGAAATGTGTAGAAA
325 A-TTTTCTACATTTTTAGCTAAAACAGACTATAATTGAATGCATGCATAGAGAAACATGTAGAAA
* * * *
12272 AAGCCATTTATTAAAAGAAAAAGTATATTTATAGTCACTCATTCCTTCAAAGGTCTTATTACTCA
389 AAGCCATTTATTAAAAGAAAAAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTACTCA
********** * * * *
12337 NNNNNNNNNNTTTTATAATCTCATAATTGATTTTAACTTAAAATTTTTTACGCTTTGG
454 CTTTAAGTGGTCTTATAATCTCATAACTGATTTTAAATTAAAATTTTTTACACTTTGG
* * *
12395 TTAAAATAGACTATAATTGAATGTTTACCTCGAGAAATGTGAAGAAAAAAGCATTCATTGGCAGG
1 TTAAAACAGACTATAATTGAATGTTTACCTAGAGAAATGTGAAGAAAAAA-CATTCATTGGCAAG
*
12460 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAA
65 AAAAGTTCATTTATAGTCTCCCATTCCTTCAAA
12493 NNNNNNNNNN
Statistics
Matches: 502, Mismatches: 107, Indels: 3
0.82 0.17 0.00
Matches are distributed among these distances:
512 266 0.53
513 236 0.47
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.35
Consensus pattern (511 bp):
TTAAAACAGACTATAATTGAATGTTTACCTAGAGAAATGTGAAGAAAAAACATTCATTGGCAAGA
AAAGTTCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAACCTTAAATGGATTTATAAT
CCCAAAATTGATTATAAGTTTAATTTGTTTTATATTTTTGATTAAAACAGGTTATAATTGAATTC
CTGCCATGAGAAATGTGAAGAAAAAGGCATTCATTAGAAAGAAAAGTCCATTTACAGTCTCCCAT
TCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTCATTTTAAGTTGAA
TTTTCTACATTTTTAGCTAAAACAGACTATAATTGAATGCATGCATAGAGAAACATGTAGAAAAA
GCCATTTATTAAAAGAAAAAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTACTCACT
TTAAGTGGTCTTATAATCTCATAACTGATTTTAAATTAAAATTTTTTACACTTTGG
Found at i:12573 original size:513 final size:511
Alignment explanation
Indices: 11370--12659 Score: 1236
Period size: 513 Copynumber: 2.5 Consensus size: 511
11360 GCATTCTTCA
* * * *
11370 TTAAAACAGACTATAATTGAATGTTTTCCTAGAGAAATGTGAAGAAAAAACTATTCATTGGCAAG
1 TTAAAAGAGACTATAATTGAATGTCTACCTAGAGAAATGTGAAGAAAAAACCATTCATTGGCAAG
* ********** * *
11435 AAAAGTTCATTTATAGTNNNNNNNNNNTTCAAAAGCCTTATTACTAACCTTAAATGGATTTATAA
66 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTATTAACCTTAAATGGTTTTATAA
* * * *
11500 TCTCAAAATTGATTATAAGTTTAATTTGTTTTATATTTTTGGTTAATACAGGTTATAATTGAGTT
131 TCTCAAAATTGATTATAAATTTAATTTGTTTTATATTTTTTGTTAAAACAGGTTATAATTGAATT
* *
11565 CCTGCCATGAGAAATGTGAAGAAAAAGGCATTCATTAGAAAGAAAAGTCCATTTATAGTCTCCCA
196 CCTGCCTTGAGAAATGTGAAGAAAAAGGCATTCATTAG-AAGAAAAGTCCATTTACAGTCTCCCA
* ********** * *
11630 TTCCTTNNNNNNNNNNATTACTTGCTTTAAATGGTTTTATAATTTCATAATTCATTTTTAGTTGA
260 TTCTTTCAAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTCATTTTAAGTTGA
* * * * *
11695 ATTTTCTACATTTTTGGTTAAAACAGACTATAATTGAATGCATGCCTTGAGAAACATGTATAAAA
325 ATTTTCTACATTTTTAGCTAAAACAGACTATAATTGAATGCATGCATAGAGAAACATGTAGAAAA
********** * *
11760 AGNNNNNNNNNNAAAGAAAAAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTATTCGC
390 AGCCATTTATTAAAAGAAAAAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTACTCAC
* *
11825 TTTAAGTGGTCTTATAATCTCATAACTGATTTTAAATTGAATTTTTTTACACTTTGG
455 TTTAAGTGGTCTTATAATCTCATAACTGATTTTAAATTAAAATTTTTTACACTTTGG
* *
11882 TTAAAAGAGACTATAATTGAATGTCTGCCTAGAGAAATGTGAAGAAAAAACCATTTATTGGCAAG
1 TTAAAAGAGACTATAATTGAATGTCTACCTAGAGAAATGTGAAGAAAAAACCATTCATTGGCAAG
* *
11947 AAAAGTTCATTTATAGTCTCCTATTCCTTCAAAAGCCTTATTATTAACCTTAAATGGTTTTATAA
66 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTATTAACCTTAAATGGTTTTATAA
* **********
12012 TCCCAAAATTNNNNNNNNNNTTAATTTGTTTTATA-TTTTTGATTAAAACAGGTTATAATTGAAT
131 TCTCAAAATTGATTATAAATTTAATTTGTTTTATATTTTTTG-TTAAAACAGGTTATAATTGAAT
*
12076 TCCTGCCTTGAGAAATGTGAAGAAAAAGGTATTCATTAGCAAGAAAAGTCCATTTACAGTCTCCC
195 TCCTGCCTTGAGAAATGTGAAGAAAAAGGCATTCATTAG-AAGAAAAGTCCATTTACAGTCTCCC
********** *
12141 ATTCTTTCAAAAGCCTTATTACTTNNNNNNNNNNGTTTTCTAATCTCATAATTCATTTTAAGTTG
259 ATTCTTTCAAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTCATTTTAAGTTG
* **
12206 AATTTTTCTACATTTTTAGCTAAAACAGACTATAATTGAATGCATGCATAGGGAAATGTGTAGAA
324 AA-TTTTCTACATTTTTAGCTAAAACAGACTATAATTGAATGCATGCATAGAGAAACATGTAGAA
* * * *
12271 AAAGCCATTTATTAAAAGAAAAAGTATATTTATAGTCACTCATTCCTTCAAAGGTCTTATTACTC
388 AAAGCCATTTATTAAAAGAAAAAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTACTC
********** * * * *
12336 ANNNNNNNNNNTTTTATAATCTCATAATTGATTTTAACTTAAAATTTTTTACGCTTTGG
453 ACTTTAAGTGGTCTTATAATCTCATAACTGATTTTAAATTAAAATTTTTTACACTTTGG
* * * * *
12395 TTAAAATAGACTATAATTGAATGTTTACCTCGAGAAATGTGAAGAAAAAAGCATTCATTGGCAGG
1 TTAAAAGAGACTATAATTGAATGTCTACCTAGAGAAATGTGAAGAAAAAACCATTCATTGGCAAG
*******************
12460 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAANNNNNNNNNNNNNNNNNNNNAA-GGTTTTATA
66 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAA-AGCCTTATTATTAACCTTAAATGGTTTTATA
* * *
12524 ATCTCAAAATTGATTTTAAATTTAATTTTTTTTACATTTTTTGTTAAAACAGGTTATAATTGAAA
130 ATCTCAAAATTGATTATAAATTTAATTTGTTTTATATTTTTTGTTAAAACAGGTTATAATTG-AA
* * ** * ** * * *
12589 TTTCTGCCTTGGGAAACATGGAG-AAAACCCATTCACTGAGAAGAATAGTCCATTTACAGTCACC
194 TTCCTGCCTTGAGAAATGTGAAGAAAAAGGCATTCA-TTAGAAGAAAAGTCCATTTACAGTCTCC
12653 CATTCTT
258 CATTCTT
12660 NNNNNNNNNN
Statistics
Matches: 621, Mismatches: 151, Indels: 11
0.79 0.19 0.01
Matches are distributed among these distances:
511 5 0.01
512 261 0.42
513 324 0.52
514 31 0.05
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.35
Consensus pattern (511 bp):
TTAAAAGAGACTATAATTGAATGTCTACCTAGAGAAATGTGAAGAAAAAACCATTCATTGGCAAG
AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTATTAACCTTAAATGGTTTTATAA
TCTCAAAATTGATTATAAATTTAATTTGTTTTATATTTTTTGTTAAAACAGGTTATAATTGAATT
CCTGCCTTGAGAAATGTGAAGAAAAAGGCATTCATTAGAAGAAAAGTCCATTTACAGTCTCCCAT
TCTTTCAAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTCATTTTAAGTTGAA
TTTTCTACATTTTTAGCTAAAACAGACTATAATTGAATGCATGCATAGAGAAACATGTAGAAAAA
GCCATTTATTAAAAGAAAAAGTACATTTATAGTCACCCATACCTTCAAAGGCCTTATTACTCACT
TTAAGTGGTCTTATAATCTCATAACTGATTTTAAATTAAAATTTTTTACACTTTGG
Found at i:13329 original size:171 final size:170
Alignment explanation
Indices: 12957--13338 Score: 455
Period size: 170 Copynumber: 2.2 Consensus size: 170
12947 NNNNNNNNTT
* * * * * *
12957 GAAAGGAAAAGTACATTTATAGTTACCCATTCCTTCAAAGGCCTTATTACTCACTTTGAACGGTT
1 GAAA-GAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCCTACTACTCACTTTAAACGGTT
*
13022 TTATAATCTCATAATTCATTTAAAGCTGAATTTTTTGAAACTTTGATTAAAACAGACTATAATTG
65 TTATAAACTCATAATTCATTTAAAGCTGAATTTTTTGAAACTTTGATTAAAACAGACTATAATTG
* *
13087 AATGTCTAACTCACGAAACATGAAGAAAAAAGCATTGATTG
130 AATGTATAACTCACGAAACATGAAGAAAAAAGCATTGACTG
* ** *
13128 GAAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCCTACTACTTGCTTTAAATGGTTT
1 GAAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCCTACTACTCACTTTAAACGGTTT
* * * * *
13193 T-TCAAACTCATAATTGATTTTAAGTTGAATTTTTT-AACACTTTTGGTTCAAACAGACTATAAT
66 TAT-AAACTCATAATTCATTTAAAGCTGAATTTTTTGAA-AC-TTTGATTAAAACAGACTATAAT
* * ** * *
13256 TGGATGTATACCTCGTGAAACGTGAAG-AAAAAGTCATTTACTG
128 TGAATGTATAACTCACGAAACATGAAGAAAAAAG-CATTGACTG
* *
13299 GCAAGAAAAGTCCATTTGTAGTCACCCATTCCTTCGAAAA
1 GAAAGAAAAGTCCATTTATAGTCACCCATTCCTTC-AAAA
13339 CCTTATTACT
Statistics
Matches: 179, Mismatches: 27, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
169 3 0.02
170 88 0.49
171 84 0.47
172 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (170 bp):
GAAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCCTACTACTCACTTTAAACGGTTT
TATAAACTCATAATTCATTTAAAGCTGAATTTTTTGAAACTTTGATTAAAACAGACTATAATTGA
ATGTATAACTCACGAAACATGAAGAAAAAAGCATTGACTG
Found at i:13373 original size:171 final size:170
Alignment explanation
Indices: 12957--13432 Score: 458
Period size: 171 Copynumber: 2.8 Consensus size: 170
12947 NNNNNNNNTT
* * * * * ** * *
12957 GAAAGGAAAAGTACATTTATAGTTACCCATTCCTTCAAAGGCCTTATTACTCACTTTGAACGGTT
1 GAAA-GAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCCTACTACTTGCTTTAAATGGTT
* * * *
13022 TTATAATCTCATAATTCATTTAAAGCTGAATTTTTTGAAACTTTGATTAAAACAGACTATAATTG
65 TTATAAACTCATAATTGATTTTAAGTTGAATTTTTTGAAACTTTGATTAAAACAGACTATAATTG
* *
13087 AATGTCTAACTCACGAAACATGAAGAAAAAAGCATTGATTG
130 AATGTATAACTCACGAAACATGAAGAAAAAAGCATTGACTG
*
13128 GAAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCCTACTACTTGCTTTAAATGGTTT
1 GAAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCCTACTACTTGCTTTAAATGGTTT
* *
13193 T-TCAAACTCATAATTGATTTTAAGTTGAATTTTTT-AACACTTTTGGTTCAAACAGACTATAAT
66 TAT-AAACTCATAATTGATTTTAAGTTGAATTTTTTGAA-AC-TTTGATTAAAACAGACTATAAT
* * ** * *
13256 TGGATGTATACCTCGTGAAACGTGAAG-AAAAAGTCATTTACTG
128 TGAATGTATAACTCACGAAACATGAAGAAAAAAG-CATTGACTG
* * * * **********
13299 GCAAGAAAAGTCCATTTGTAGTCACCCATTCCTTCGAAAA-CCTTATTACTNNNNNNNNNNGGTT
1 GAAAGAAAAGTCCATTTATAGTCACCCATTCCTTC-AAAAGCCCTACTACTTGCTTTAAATGGTT
* * * * *
13363 TTATAAACTCATAATTGATTTTAACTTGAATTTTTTTG-TATTCTTCATTAAAATAGACTATAAT
65 TTATAAACTCATAATTGATTTTAAGTTGAA-TTTTTTGAAACT-TTGATTAAAACAGACTATAAT
13427 TGAATG
128 TGAATG
13433 CGTTCCTTGG
Statistics
Matches: 249, Mismatches: 47, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
169 3 0.01
170 89 0.36
171 146 0.59
172 11 0.04
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.35
Consensus pattern (170 bp):
GAAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCCTACTACTTGCTTTAAATGGTTT
TATAAACTCATAATTGATTTTAAGTTGAATTTTTTGAAACTTTGATTAAAACAGACTATAATTGA
ATGTATAACTCACGAAACATGAAGAAAAAAGCATTGACTG
Found at i:13479 original size:171 final size:161
Alignment explanation
Indices: 13187--13519 Score: 282
Period size: 171 Copynumber: 2.0 Consensus size: 161
13177 TTGCTTTAAA
* ** *
13187 TGGTTTTTCAAACTCATAATTGATTTTAAGTTGAATTTTTTAACACTTTTGGTTCAAACAGACTA
1 TGGTTTTTCAAACTCATAATTGATTTTAACTTGAATTTTTTAACACTTTTCATTAAAACAGACTA
* * * * * *
13252 TAATTGGATGTATACCTCGTGAAACGTGAAGAAAAAGTCATTTACTGGCAAGAAAAGTCCATTTG
66 TAATTGAATGCATACCTCGTGAAACATGAAGAAAAAGCCATTCACTGGCAAGAAAAGTCCATTTA
13317 TAGTCACCC-ATTCCTTCGAAAA-CCTTATTAC
131 TAGTC-CCCTATTCCTTC-AAAAGCCTTATTAC
***
13348 TNNNNNNNNNNGGTTTTAT-AAACTCATAATTGATTTTAACTTGAATTTTTTTGTA-TTCTTCAT
1 T----------GGTTTT-TCAAACTCATAATTGATTTTAACTTGAATTTTTTAACACTT-TTCAT
* * * * * *
13411 TAAAATAGACTATAATTGAATGCGTTCCTTG-GAAAACATGAAGAAAAAGCCATTCATTGAG-GA
54 TAAAACAGACTATAATTGAATGCATACCTCGTG-AAACATGAAGAAAAAGCCATTCACTG-GCAA
* * *
13474 GAAAAGTTCATTTATTGTCCCCTATTCTTTCAAAAGCCTTATTAC
117 GAAAAGTCCATTTATAGTCCCCTATTCCTTCAAAAGCCTTATTAC
13519 T
1 T
13520 NNNNNNNNNN
Statistics
Matches: 134, Mismatches: 22, Indels: 22
0.75 0.12 0.12
Matches are distributed among these distances:
161 1 0.01
170 10 0.07
171 121 0.90
172 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.36
Consensus pattern (161 bp):
TGGTTTTTCAAACTCATAATTGATTTTAACTTGAATTTTTTAACACTTTTCATTAAAACAGACTA
TAATTGAATGCATACCTCGTGAAACATGAAGAAAAAGCCATTCACTGGCAAGAAAAGTCCATTTA
TAGTCCCCTATTCCTTCAAAAGCCTTATTAC
Found at i:14286 original size:171 final size:170
Alignment explanation
Indices: 13727--14465 Score: 539
Period size: 171 Copynumber: 4.3 Consensus size: 170
13717 NNAAACTTTG
* * * * * * *
13727 GTTAAAACAGATTATAATTGAATGTCTAACTCATGAAACATGAAGAAAAAAGTATTG-ATTGGCA
1 GTTAAAACAAACTATAATTGAATGTCTACCTTAAGAAACGTGAAG-AAAAAGCA-TGCATTGGCA
* * * * * ** *
13791 AGAAAAGTCCATTTACAGTCTCCTATTCCTTCAAAAGCGTTATTACTCGCTTTAAATGGTTTT-T
64 AAAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTACTTTAAATGATTTTAT
* * * * * *
13855 CAGTCTCATAATTGATTTTAAATTGAATTGTTT-TACACTTTTG
129 -AATCTCATAATTGATTTTAAGTTGAATT-TTTCCATATTTTTA
* * * *** ** *
13898 GTTAAAACAGACTATAATTGGATGTATACCTCGTGAAACGTGAAG-AAAAGTCATTTACTGGCAA
1 GTTAAAACAAACTATAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAAG-CATGCATTGGCAA
* * * ********** *
13962 GAAAAGTCCATTTATTGTCACCCATTCCTTCAAAAACCTTATTACNNNNNNNNNNTGGTTTTATA
65 AAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTACTTTAAATGATTTTATA
* * * *
14027 ATCTCATAATTGATTTTAACTTGAATCTTGTTGCAT-TCTTCA
130 ATCTCATAATTGATTTTAAGTTGAAT-TT-TTCCATATTTTTA
* * * * *
14069 -TTAAAACAGACTATAATTGAATG-CGTTCCTT-GGAAAACATGAAGAAAAAGCCATGGATTGAG
1 GTTAAAACAAACTATAATTGAATGTC-TACCTTAAG-AAACGTGAAGAAAAAG-CATGCATTG-G
* ** * ***
14131 -AAGAAAAGTCCATTTATAGTC-CTTTATT-CTATCAAAAGCCTTATTACTTGCTTTAAATGNNN
62 CAAAAAAAGTCCATTTATAGTCAC-CCATTCCT-TCAAAAGCCTTATTACTTACTTTAAATGATT
*******
14193 NNNNNNNCTCATAATTGATTTTAAGTTGAATTTTTCCATATTTTTA
125 TTATAATCTCATAATTGATTTTAAGTTGAATTTTTCCATATTTTTA
* * *
14239 GTTAAAACAAACTATAATTGAGTGTCTACCTTAAGAAACGCGAAGAAAAAAAGCATTCATTGGCA
1 GTTAAAACAAACTATAATTGAATGTCTACCTTAAGAAACGTGAAG--AAAAAGCATGCATTGGCA
* * *
14304 AAAAAAGTCTATTTATGGTCACCCATTCCTTCAGAAGCCTTATTACTTACTTTAAATGATTTTAT
64 AAAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTACTTTAAATGATTTTAT
* * * *
14369 AATCTCATAATTCATTTTAAGTTGAATATTTCTACATTTTT-
129 AATCTCATAATTGATTTTAAGTTGAATTTTTCCATATTTTTA
*
14410 GATTCAAACAAACTATAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAAAGCAT
1 G-TTAAAACAAACTATAATTGAATGTCTACCTTAAGAAACGTGAAG-AAAAAGCAT
14466 NNNNNNNNNN
Statistics
Matches: 443, Mismatches: 103, Indels: 44
0.75 0.17 0.07
Matches are distributed among these distances:
169 12 0.03
170 124 0.28
171 165 0.37
172 133 0.30
173 9 0.02
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.35
Consensus pattern (170 bp):
GTTAAAACAAACTATAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAAGCATGCATTGGCAAA
AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTACTTTAAATGATTTTATAA
TCTCATAATTGATTTTAAGTTGAATTTTTCCATATTTTTA
Found at i:17279 original size:171 final size:169
Alignment explanation
Indices: 17102--17490 Score: 426
Period size: 171 Copynumber: 2.3 Consensus size: 169
17092 NNNNNNNNNN
* * * * *
17102 ATTTAAAGCGAGTAATAAGGTTTTCGAAGGAATGGGTGACTATACATGGACTTTTCTTGCCAGTA
1 ATTTAAAGCGAGTAATAAGGCTTT-GAAGGAATGGGTGACTATAAATAGACTTTTCTCGCCAATA
*
17167 AATGAC-TTTTTCTTCATGTTTCATGAGGTATAC-ATCCAATTATAGTCTGTTTTAACCAAAAGT
65 AATG-CTTTTTTCTTCATGTTTCATGAGGTAAACAAT-CAATTATAGTCTGTTTTAACC-AAAGT
*
17230 AT-AATAAAATTCAACTTAAAATCAATTATGAGACTGA-AAAACT
127 ATCAA-AAAATTCAACTTAAAATCAATTATGAGA-TGAGAAAACC
********** * * *
17273 ATTTAAAGCGAGTAATAAGGCTTTNNNNNNNNNNAGAGACTATAAATAGACTTTTCTCGTCAATC
1 ATTTAAAGCGAGTAATAAGGCTTT-GAAGGAATGGGTGACTATAAATAGACTTTTCTCGCCAATA
* *
17338 AATGCTTTTTTCTTCATGTTTCATGAGTTAAACAATCAATTATAGTCTGTTTTAACCAAAGTTTC
65 AATGCTTTTTTCTTCATGTTTCATGAGGTAAACAATCAATTATAGTCTGTTTTAACCAAAGTATC
* * *
17403 AAAATATTCAGCTTAAAATGAATTATGAGATGAGAAAACC
130 AAAAAATTCAACTTAAAATCAATTATGAGATGAGAAAACC
* * *
17443 ATTCAAAGCGAGTAATAAGGCCTTTGAAGGAATGGATAACTATAAATA
1 ATTTAAAGCGAGTAATAAGG-CTTTGAAGGAATGGGTGACTATAAATA
17491 TACTATTCCT
Statistics
Matches: 173, Mismatches: 40, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
169 3 0.02
170 66 0.38
171 102 0.59
172 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.33
Consensus pattern (169 bp):
ATTTAAAGCGAGTAATAAGGCTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTCGCCAATAA
ATGCTTTTTTCTTCATGTTTCATGAGGTAAACAATCAATTATAGTCTGTTTTAACCAAAGTATCA
AAAAATTCAACTTAAAATCAATTATGAGATGAGAAAACC
Found at i:17520 original size:170 final size:171
Alignment explanation
Indices: 17106--17568 Score: 422
Period size: 170 Copynumber: 2.7 Consensus size: 171
17096 NNNNNNATTT
* * * * * * * * *
17106 AAAGCGAGTAATAAGGTTTTCGAAGGAATGG-GTGACTATACATGGACTTTTCTTGCCAGTAAAT
1 AAAGCGAGTAATAAGGCTTT-GAAGGAATGGAGAGACTATAAATAGACTTTCCTCGTCAATCAAT
*
17170 G-ACTTTTTCTTCATGTTTCATGAGGTATACATCCAATTATAGTCTGTTTTAACCAAAAGTATAA
65 GCA-TTTTTCTTCATGTTTCATGAGGTAAACATCCAATTATAGTCTGTTTTAACCAAAAGTATAA
* *
17234 TAAAATTCAACTTAAAATCAATTATGAGACTGAAAAACTATTT
129 TAAAATTCAACTTAAAATCAATTATGAGACTGAAAAACCATTC
********** *
17277 AAAGCGAGTAATAAGGCTTTNNNNNNNNNNAGAGACTATAAATAGACTTTTCTCGTCAATCAATG
1 AAAGCGAGTAATAAGGCTTTGAAGGAATGGAGAGACTATAAATAGACTTTCCTCGTCAATCAATG
* * *
17342 CTTTTTTCTTCATGTTTCATGAGTTAAACAAT-CAATTATAGTCTGTTTTAACC-AAAGTTTCAA
66 CATTTTTCTTCATGTTTCATGAGGTAAAC-ATCCAATTATAGTCTGTTTTAACCAAAAGTAT-AA
* * *
17405 -AATATTCAGCTTAAAATGAATTATGAGA-TGAGAAAACCATTC
129 TAAAATTCAACTTAAAATCAATTATGAGACTGA-AAAACCATTC
* * * *
17447 AAAGCGAGTAATAAGGCCTTTGAAGGAATGGATA-ACTATAAATATACTATTCCT-TTCAATGAA
1 AAAGCGAGTAATAAGG-CTTTGAAGGAATGGAGAGACTATAAATAGACT-TTCCTCGTCAATCAA
* * * * * * * *
17510 TGGATTTTTCTACATGTTTCCTAAGGCATATATTCAATTATTA-TCTGTTTTAACCAAAA
64 TGCATTTTTCTTCATGTTTCATGAGGTAAACATCCAATTA-TAGTCTGTTTTAACCAAAA
17569 ATGAAGGAAT
Statistics
Matches: 231, Mismatches: 51, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
169 5 0.02
170 115 0.50
171 109 0.47
172 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.34
Consensus pattern (171 bp):
AAAGCGAGTAATAAGGCTTTGAAGGAATGGAGAGACTATAAATAGACTTTCCTCGTCAATCAATG
CATTTTTCTTCATGTTTCATGAGGTAAACATCCAATTATAGTCTGTTTTAACCAAAAGTATAATA
AAATTCAACTTAAAATCAATTATGAGACTGAAAAACCATTC
Found at i:32063 original size:171 final size:161
Alignment explanation
Indices: 31826--32136 Score: 338
Period size: 171 Copynumber: 1.9 Consensus size: 161
31816 ATATTTTTCA
* **
31826 TTAAAACAGGTTATAATTGAATTCCTGCCTTGGGAAACATAGAGAAAAAGCCATTCATTAAGAAG
1 TTAAAACAGGTTATAATTGAATTCCTACCTTGGGAAACATAGAGAAAAAGAAATTCATTAAGAAG
* * * *
31891 AAAAGACCATTTATAGACA-CTCATTCTTCCAAAAGCCTTATTACTAGCTTTAGATGGTTTTATA
66 AAAAGACCATTTATAGACACCT-ATTCTTCCAAAAGCCTTACTACTAGCTTAACATAGTTTTATA
31955 ATCTCATAATTGAATTTAANNNNNNNNNNTCTACATTTTTGG
130 ATCTCATAATTGAATTTAA----------TCTACATTTTTGG
* * * *
31997 TTAAAATAGGTTATAATTGAATGT-TTACCTTGGGAAACATGGAGAAAAAGAAATTCATTGAGAA
1 TTAAAACAGGTTATAATTGAAT-TCCTACCTTGGGAAACATAGAGAAAAAGAAATTCATTAAGAA
* * * *** *
32061 GAAATGTCCATTTATAGTCACCTATTCTTTTGAAAGCCTTACTACTCGCTTAACATAGTTTTATA
65 GAAAAGACCATTTATAGACACCTATTCTTCCAAAAGCCTTACTACTAGCTTAACATAGTTTTATA
32126 ATCTCATAATT
130 ATCTCATAATT
32137 ATTTTTAGGT
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
171 117 0.98
172 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.34
Consensus pattern (161 bp):
TTAAAACAGGTTATAATTGAATTCCTACCTTGGGAAACATAGAGAAAAAGAAATTCATTAAGAAG
AAAAGACCATTTATAGACACCTATTCTTCCAAAAGCCTTACTACTAGCTTAACATAGTTTTATAA
TCTCATAATTGAATTTAATCTACATTTTTGG
Found at i:42698 original size:511 final size:507
Alignment explanation
Indices: 42121--43089 Score: 1159
Period size: 511 Copynumber: 1.9 Consensus size: 507
42111 NNNNNNNNNN
42121 CAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGGACGAATGGGTGACTATA
1 CAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGGACGAATGGGTGACTATA
* *
42186 AATAGACTTTTCTTCCCAATGAATGGCTTTTTCTCTATATTTCC-AGAAGTAGGCATTCAATTAT
66 AATAGACTTTTCTTCCCAATGAATGGCTTTTTCTCCATATTTCCTA-AAGCAGGCATTCAATTAT
* * * *
42250 AACCTATTTTAA-GAAAAATTGTAAAACAAATTAAATTTAAAAACAATTTTGAGATTATAAAACC
130 AACCTATTTTAACGAAAAA-TATAAAACAAATGAAACTTAAAAACAATTTTGAGATTACAAAACC
**
42314 AATTAAAGTTAGTAATAAGGCTTTTGAAGGAATNNNNNNNNNNAAATGAACTTTTCTTACCAATG
194 AATTAAAGTTAGTAATAAGGCTTTTGAAGGAAT--------GAAAATGAACTTTTCTTACCAATG
* * * * * *
42379 AATGC-TTTTTCTTCACATTTCTCAAGGTAGATATTCAATTATAGTCTGTTTTAA-CTAAAGTGT
251 AATGCTTTTTTCTCCACATTTCTCAAGGTAAACATTCAATTATAATCTGTTTTAACCAAAAATGT
* * *
42442 A-AAAGAATTCAACTTAAAATCAATTATGAGACTGA-AAATCCA-TTTAAAGCAAGTAATAAAGC
316 AGAAA-AATTAAACTTAAAATCAATTATAAGA-TGATAAA-ACAGTTTAAAGCAAGTAATAAAGC
42504 TTTTGAA-GAAATGAGAGACTATAAATAAAC-TTTCTTGCCAATGAATGCCTTTTGCTTCACATT
378 TTTTGAAGGAAATG-GAGACTATAAATAAACTTTTCTTGCCAATGAATGCCTTTTGCTTCACATT
42567 TCTTGAGGTAGACATTCAATTATAAGCTGTTTTAACCAATTATGTAAAATTAGTTGAACCTAAAA
442 TCTTGAGGTAGACATTCAATTATAAGCTGTTTTAACCAATTATGTAAAATTAGTTGAACCTAAAA
42632 T
507 T
* *********
42633 CAATTATAAGATTAT-AAACTATTTAAAGCGAGTAATAAGGCTTTT-GANNNNNNNNNNGACTAT
1 CAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGGA-CGAATGGGTGACTAT
* ** *
42696 AAATGGACTTTTCTTCTTAATGAATGGCTTTTTCTCCATATTTCCTAAGGCAGGCATTCAATTAT
65 AAATAGACTTTTCTTCCCAATGAATGGCTTTTTCTCCATATTTCCTAAAGCAGGCATTCAATTAT
* * ** *
42761 AACCTGTTTTAACTAAAAATATAAAACAAATGAAACTTAAAATTAATTTTGGGATTACAAAACCA
130 AACCTATTTTAACGAAAAATATAAAACAAATGAAACTTAAAAACAATTTTGAGATTACAAAACCA
* ** **
42826 TTTAGGGTTAGTAATAAGGCTTTTGAAGGAATGANNNNNNNNNNATGAACTTTTCTTACCAATGA
195 ATTAAAGTTAGTAATAAGGCTTTTGAAGGAATGA--------AAATGAACTTTTCTTACCAATGA
* ** *
42891 ATGCTTTTTTCTCCACGTTTCTTGATGTAAACATTCAATTATAATCTGTTTTAACCAAAAATGTA
252 ATGCTTTTTTCTCCACATTTCTCAAGGTAAACATTCAATTATAATCTGTTTTAACCAAAAATGTA
* * * *
42956 GAAAAATTAAACTTAAAATGAATTATAAGATTATAAAACAGTTTAAAGCGAGTAATAAGGCTTTT
317 GAAAAATTAAACTTAAAATCAATTATAAGATGATAAAACAGTTTAAAGCAAGTAATAAAGCTTTT
* * ** * *
43021 GAAGGAATTGGAGATTATAAATGGACTTTTCTTGCTAATGAATGCCTTTTTCTTCACATTTCTTG
382 GAAGGAAATGGAGACTATAAATAAACTTTTCTTGCCAATGAATGCCTTTTGCTTCACATTTCTTG
43086 AGGT
447 AGGT
43090 NNNNNNNNNN
Statistics
Matches: 384, Mismatches: 55, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
510 2 0.01
511 196 0.51
512 66 0.17
513 72 0.19
514 48 0.12
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.34
Consensus pattern (507 bp):
CAATTATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGGACGAATGGGTGACTATA
AATAGACTTTTCTTCCCAATGAATGGCTTTTTCTCCATATTTCCTAAAGCAGGCATTCAATTATA
ACCTATTTTAACGAAAAATATAAAACAAATGAAACTTAAAAACAATTTTGAGATTACAAAACCAA
TTAAAGTTAGTAATAAGGCTTTTGAAGGAATGAAAATGAACTTTTCTTACCAATGAATGCTTTTT
TCTCCACATTTCTCAAGGTAAACATTCAATTATAATCTGTTTTAACCAAAAATGTAGAAAAATTA
AACTTAAAATCAATTATAAGATGATAAAACAGTTTAAAGCAAGTAATAAAGCTTTTGAAGGAAAT
GGAGACTATAAATAAACTTTTCTTGCCAATGAATGCCTTTTGCTTCACATTTCTTGAGGTAGACA
TTCAATTATAAGCTGTTTTAACCAATTATGTAAAATTAGTTGAACCTAAAAT
Found at i:43085 original size:171 final size:170
Alignment explanation
Indices: 41056--43089 Score: 1217
Period size: 171 Copynumber: 11.9 Consensus size: 170
41046 NNNNATAGTT
* ** * *
41056 TGTTTTAACTAAAAATGTGGAAAAATTCAACTTAAAATCAATTATGAGTTTATAAAATGATTTAA
1 TGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-CATTTAA
* * * * ********** *
41121 AGCGAGTAATGAGGCTTTTGAAAGAATAGGTGACTATANNNNNNNNNNTCTT-CTCAATGAATGA
65 AGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGC-CAATGAATGC
** * * * *
41185 CTTTTTCTTCACGT-TTTC-CAAGGAACACAATCAATTATAGTC
129 CTTTTTCTTCA--TATTTCTTGAGGTAGACATTCAATTATAATC
** * * * ********
41227 TGTTTTAATGAAAAATGTAAAAAAAATCAAGTTGAAATCAATTATGAGATTATAAANNNNNNNNN
1 TGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA-ACATTTAA
* * * * * * * *
41292 NGCGAGTTATAAGGTTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTTCCAGTAAATGAC
65 AGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGCC
* * * * * *
41357 TTTTTCTTCATGTCTCATGAGGTATAAATTCAATTATAGTC
130 TTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATC
* *
41398 TATTTTAA-CAAAAAGTGTAAAAAAAATTCAACTTAAAATCAATTATGAGACTGA-AAAACTATT
1 TGTTTTAACCAAAAA-TGT-AAAAAAATTCAACTTAAAATCAATTATGAGA-TTATAAAAC-ATT
* * * * * *
41461 TAAAGCAAGTACTAAGGCTTTTGAAGGAATGAGAGACTATAAATGGCCTTTTCTTCCCAATCAAT
62 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAAT
* * * * * **
41526 ACTTTTTTCTTCATGTTTCATGAGTTAGACATTCAATTATAGCC
127 GCCTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATC
* * * * * ********* *
41570 TGTTTTAA-CAAAAGTTTGAAAAAATTCAGCTTAAAATGAATTATGAGANNNNNNNNNNATTCAA
1 TGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGA-TTATAAAACATTTAA
* * * * * *
41634 AGCGAGTAATAAGGCCTTTGAAGGGATGGGTGACTATAAATGTACTTTTTCTT-TCAATGAATGA
65 AGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGAC-TTTTCTTGCCAATGAATGC
* * * ** * **
41698 ATTTTTCTACATGTTTCTCAAGGTATACATTCAATTATTTTC
129 CTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATC
* * * *
41740 TGTATTAGCCAAATATAT-TGAAAAAA-TCAACTTAAAATGAATTATGAGATTATAAAACCATTT
1 TGTTTTAACCAAA-A-ATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-CATTT
* * * *
41803 CAAA-CGAGTAATAGGGCTTTTAAAGGAATGGGAGACTATAAATGTACTTTTCTTGCTAATGAAT
63 -AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAAT
********** * *
41867 GCCTTTTNNNNNNNNNNTCTTGAGGTAAACATTCAATTATAATT
127 GCCTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATC
** * * * *
41911 TGTTTTAACCAATTATATAAAAATAATTGAACCTAAAATCACTTATGAGATTATAAAACTATTTA
1 TGTTTTAACCAAAAATGTAAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAAC-ATTTA
********** * * *
41976 AAGCGAGTAATAAGGNNNNNNNNNNAATGGGTGACTATAAATAGACTTTTCTT-CTCAATAAATG
64 AAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGC-CAATGAATG
* * * ** *
42040 GCTTTTTCTCCATGTTTCCCGAGGTAGACATTCAATTATAACC
128 CCTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATC
* * * ********** *
42083 TATTTTAACTAAAAATGTAGAAAAATTCNNNNNNNNNNCAATTATAAGATTATAAAACCATTTAA
1 TGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-CATTTAA
* * * * * *
42148 AGCGAGTAATAAGGCTTTTGGACGAATGGGTGACTATAAATAGACTTTTCTTCCCAATGAATGGC
65 AGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGCC
** * * *
42213 TTTTTC-TCTATATTTCCAGAAGTAGGCATTCAATTATAACC
130 TTTTTCTTC-ATATTTCTTGAGGTAGACATTCAATTATAATC
* * * * * * *
42254 TATTTTAA-GAAAAATTGTAAAACAAATTAAATTTAAAAACAATTTTGAGATTATAAAACCAATT
1 TGTTTTAACCAAAAA-TGTAAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAA-CATTT
** ********** * *
42318 AAAGTTAGTAATAAGGCTTTTGAAGGAATNNNNNNNNNNAAATGAACTTTTCTTACCAATGAATG
63 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATG
* ** * *
42383 -CTTTTTCTTCACATTTCTCAAGGTAGATATTCAATTATAGTC
128 CCTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATC
* * * * *
42425 TGTTTTAA-CTAAAGTGTAAAAGAATTCAACTTAAAATCAATTATGAGACTGA-AAATCCATTTA
1 TGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGA-TTATAAA-ACATTTA
* * * * **
42488 AAGCAAGTAATAAAGCTTTTGAAGAAATGAGAGACTATAAATAAAC-TTTCTTGCCAATGAATGC
64 AAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGC
* * *
42552 CTTTTGCTTCACATTTCTTGAGGTAGACATTCAATTATAAGC
129 CTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATC
** * * * * *
42594 TGTTTTAACCAATTATGTAAAATTAGTTGAACCTAAAATCAATTATAAGATTAT-AAACTATTTA
1 TGTTTTAACCAAAAATGTAAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAAC-ATTTA
********** *
42658 AAGCGAGTAATAAGGCTTTTGANNNNNNNNNNGACTATAAATGGACTTTTCTT-CTTAATGAATG
64 AAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGC-CAATGAATG
* * * * * * *
42722 GCTTTTTCTCCATATTTCCTAAGGCAGGCATTCAATTATAACC
128 CCTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATC
* * ** * * * *
42765 TGTTTTAACTAAAAATATAAAACAAATGAAACTTAAAATTAATTTTGGGATTACAAAACCATTTA
1 TGTTTTAACCAAAAATGTAAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAA-CATTTA
** ** *********** * *
42830 GGGTTAGTAATAAGGCTTTTGAAGGAATGANNNNNNNNNNATGAACTTTTCTTACCAATGAATGC
64 AAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGC
* * ** * *
42895 TTTTTTCTCCACGTTTCTTGATGTAAACATTCAATTATAATC
129 CTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATC
* * * *
42937 TGTTTTAACCAAAAATGTAGAAAAATTAAACTTAAAATGAATTATAAGATTATAAAACAGTTTAA
1 TGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACA-TTTAA
* * *
43002 AGCGAGTAATAAGGCTTTTGAAGGAATTGGAGATTATAAATGGACTTTTCTTGCTAATGAATGCC
65 AGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGCC
*
43067 TTTTTCTTCACATTTCTTGAGGT
130 TTTTTCTTCATATTTCTTGAGGT
43090 NNNNNNNNNN
Statistics
Matches: 1404, Mismatches: 418, Indels: 82
0.74 0.22 0.04
Matches are distributed among these distances:
168 16 0.01
169 109 0.08
170 203 0.14
171 632 0.45
172 439 0.31
173 5 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.34
Consensus pattern (170 bp):
TGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACATTTAAA
GCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGCCT
TTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATC
Found at i:43570 original size:171 final size:160
Alignment explanation
Indices: 43393--43713 Score: 360
Period size: 171 Copynumber: 1.9 Consensus size: 160
43383 AGGAATGGGT
* *
43393 GACTATAAAT-GCACTTTTCTTGCCAGTAAATGAC-TTTTTCTTCATGTTTCATGAGGTATACAT
1 GACTATAAATAG-ACTTTTCTTGCCAATAAATG-CTTTTTTCTTCATGTTTCATGAGGTAGACAT
* *
43456 TCAATTATAATCTGTTTTAACCAAAAGTGTAAAAAAATTCAACTTAAATTCAATTATGAGACTGA
64 TCAATTATAATCTGCTTTAACC-AAAGTGTAAAAAAATTCAACTTAAAATCAATTATGAGA-TGA
* *
43521 -AAAACCATTTAAAGCGAGTAATATGGCNNNNNNNNNNATGAGA
127 TAAAACAATTCAAAGCGAGTAATATGGC----------ATGAGA
* * * *
43564 GACTATAAATAGACTTTTCTTGCCAATCAATGCTTTTTTTTTCATGTTTTATGAGTTAGACATTC
1 GACTATAAATAGACTTTTCTTGCCAATAAATGCTTTTTTCTTCATGTTTCATGAGGTAGACATTC
* * * * *
43629 AATTATAGTCTGCTTTAACCAAAGTTTGAAAAAATTCAGCTTAAAATCAATTATGAGATTATAAA
66 AATTATAATCTGCTTTAACCAAAGTGTAAAAAAATTCAACTTAAAATCAATTATGAGATGATAAA
43694 ACAATTCAAAGCGAGTAATA
131 ACAATTCAAAGCGAGTAATA
43714 AGGCCTTTGA
Statistics
Matches: 132, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
169 2 0.02
170 56 0.42
171 73 0.55
172 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.35
Consensus pattern (160 bp):
GACTATAAATAGACTTTTCTTGCCAATAAATGCTTTTTTCTTCATGTTTCATGAGGTAGACATTC
AATTATAATCTGCTTTAACCAAAGTGTAAAAAAATTCAACTTAAAATCAATTATGAGATGATAAA
ACAATTCAAAGCGAGTAATATGGCATGAGA
Found at i:44092 original size:170 final size:167
Alignment explanation
Indices: 43569--44095 Score: 420
Period size: 170 Copynumber: 3.1 Consensus size: 167
43559 TGAGAGACTA
* *
43569 TAAATAGACTTTTCTTGCCAATCAATGCTTTTTT-TTTCATGTTT-TATGAGTTAGACATTCAAT
1 TAAATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTTC--GTTTCT-TGAGATAGACATTCAAT
* * * * *
43632 TATAGTCTGCTTTAACCAAAGTTTGAAAAAATTCAGCTTAAAATCAATTATGAGATTATAAAACA
63 TATAGTTTGCTTTAACAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC-
* * * * ********
43697 ATTCAAAGCGAGTAATAAGGCCTTTGAAGGAATNNNNNNNNN
127 ATTTAAAGTGAGTAATAAGGCTTTTGAAAGAAT-AAGTAACC
* * ** ** ** ** *
43739 NAAAT-GTACTTTTCCTT-TCAATGAATGGATTTTTC-CACATGTTTCTCAAGGCATACATTCAA
1 TAAATAG-ACTTTT-CTTGCCAATGAATGCTTTTTTCTTTC--GTTTCTTGAGATAGACATTCAA
* * * *
43801 TTATTA-TTTGTTTTAACCAAAAATG-AAGAAAAATTCAATTTAAAATGAATTATGAGATTATAA
62 TTA-TAGTTTGCTTTAA-CAAAAATGTGA-AAAAATTCAACTTAAAATCAATTATGAGATTATAA
**********
43864 AATCATTTAAAGTGAGTAATAAGGCTTTTNNNNNNNNNNGTAACC
124 AA-CATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATAAGTAACC
43909 ATAAATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTTGCGTTTCTTGAGATAGACATTCAATT
1 -TAAATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTT-CGTTTCTTGAGATAGACATTCAATT
* *
43974 ATAGTTTGCTTTAACAAAAATGTGAAAAAATTAAACTTAAAATCAATTATGAGATTATGAAAACT
64 ATAGTTTGCTTTAACAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTAT-AAAACA
*
44039 TTTAAAGTGAGTAATAAGGCTTTTGAAAGAATAAGTTACTC
128 TTTAAAGTGAGTAATAAGGCTTTTGAAAGAATAAGTAAC-C
*
44080 TAAATGGACTTTTCTT
1 TAAATAGACTTTTCTT
44096 CTCCATGAGT
Statistics
Matches: 273, Mismatches: 67, Indels: 34
0.73 0.18 0.09
Matches are distributed among these distances:
169 1 0.00
170 142 0.52
171 127 0.47
172 2 0.01
173 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.36
Consensus pattern (167 bp):
TAAATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTTCGTTTCTTGAGATAGACATTCAATTAT
AGTTTGCTTTAACAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACATTT
AAAGTGAGTAATAAGGCTTTTGAAAGAATAAGTAACC
Found at i:44123 original size:341 final size:330
Alignment explanation
Indices: 43450--44195 Score: 680
Period size: 341 Copynumber: 2.2 Consensus size: 330
43440 TTCATGAGGT
* * * * *
43450 ATACATTCAATTATAATCTGTTTTAACCAAAAGTGTAAAAAAATTCAACTTAAATTCAATTATGA
1 ATACATTCAATTATAGTCTGTTTTAACCAAAAATGCAAAAAAATTCAAGTTAAAATCAATTATGA
* * * * *** * *
43515 GACTGA-AAAACCATTTAAAGCGAGTAATATGGCNNNNNNNNNNATGAGAGACTATAAATAGACT
66 GA-TTATAAAATCATTTAAAGTGAGTAATAAGGC--------TTTTG-TA-ACCATAAATAGACT
*
43579 TTTCTTGCCAATCAATGCTTTTTTTTTCATGTTTTATGAGTTAGACATTCAATTATAGTCTGCTT
120 TTTCTTGCCAATCAATGCTTTTTTTTTCA-GTTTTATGAGATAGACATTCAATTATAGTCTGCTT
* * * * *
43644 TAACCAAAGTTTGAAAAAATTCAGCTTAAAATCAATTATGAGATTATAAAACAATTCAAAGCGAG
184 TAACAAAAATGTGAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACAATTCAAAGCGAG
* ********** * *
43709 TAATAAGGCCTTTGAAGGAATNNNNNNNNNNAAATGTACTTTTCCTTTCAATGAATGGATTTTTC
249 TAATAAGGCCTTTGAAAGAATAAGTTACTCTAAATGGACTTTTCCTTTCAATGAATGGATTTCTC
*
43774 CACATG-TTTCTCAAGGC
314 CACATGTTTTC-CAAGGA
* * *
43791 ATACATTCAATTATTA-TTTGTTTTAACCAAAAATG-AAGAAAAATTCAATTTAAAATGAATTAT
1 ATACATTCAATTA-TAGTCTGTTTTAACCAAAAATGCAA-AAAAATTCAAGTTAAAATCAATTAT
43854 GAGATTATAAAATCATTTAAAGTGAGTAATAAGGCTTTTNNNNNNNNNNGTAACCATAAATAGAC
64 GAGATTATAAAATCATTTAAAGTGAGTAATAAGGCTTTT----------GTAACCATAAATAGAC
* *
43919 TTTTCTTGCCAATGAATGCTTTTTTCTTTGC-GTTTCT-TGAGATAGACATTCAATTATAGTTTG
119 TTTTCTTGCCAATCAATGCTTTTTT-TTT-CAGTTT-TATGAGATAGACATTCAATTATAGTCTG
* *
43982 CTTTAACAAAAATGTGAAAAAATTAAACTTAAAATCAATTATGAGATTATGAAAAC-TTTTAAAG
181 CTTTAACAAAAATGTGAAAAAATTAAACTTAAAATCAATTATGAGATTAT-AAAACAATTCAAAG
* * * * *
44046 TGAGTAATAAGGCTTTTGAAAGAATAAGTTACTCTAAATGGACTTTT-CTTCTCCATGAGTGGCT
245 CGAGTAATAAGGCCTTTGAAAGAATAAGTTACTCTAAATGGACTTTTCCTT-TCAATGAATGGAT
**
44110 TTCTCTTCATGTTTTCCAAGGA
309 TTCTCCACATGTTTTCCAAGGA
* * * ** *
44132 ATGCATTTATTTATAGTCTGTTTTAATGAAGAATGCAAAAAAATTCAAGTTAAAATCAATTATG
1 ATACATTCAATTATAGTCTGTTTTAACCAAAAATGCAAAAAAATTCAAGTTAAAATCAATTATG
44196 NNNNNNNNNN
Statistics
Matches: 330, Mismatches: 54, Indels: 42
0.77 0.13 0.10
Matches are distributed among these distances:
333 1 0.00
340 9 0.03
341 300 0.91
342 18 0.05
343 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.35
Consensus pattern (330 bp):
ATACATTCAATTATAGTCTGTTTTAACCAAAAATGCAAAAAAATTCAAGTTAAAATCAATTATGA
GATTATAAAATCATTTAAAGTGAGTAATAAGGCTTTTGTAACCATAAATAGACTTTTCTTGCCAA
TCAATGCTTTTTTTTTCAGTTTTATGAGATAGACATTCAATTATAGTCTGCTTTAACAAAAATGT
GAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACAATTCAAAGCGAGTAATAAGGCCTT
TGAAAGAATAAGTTACTCTAAATGGACTTTTCCTTTCAATGAATGGATTTCTCCACATGTTTTCC
AAGGA
Found at i:45587 original size:171 final size:169
Alignment explanation
Indices: 45382--45779 Score: 454
Period size: 170 Copynumber: 2.3 Consensus size: 169
45372 NNNNNNNNNN
* * *
45382 ATTATGAGATTATAAAA-CTATTT-AAGCAAGTAATAAGGCTTTTGAAA-GAATGGGTGACTATA
1 ATTATGAGATTATAAAACCT-TTTAAAGCGAGTAATAAAGCTTTT-AAAGGAATGGGTGACAATA
** * *
45444 AATGGACCTTTAT-TTTC-AATAAATGGCTTTTTC-TACATGTT-TCCCAAGGT-AGACATTCAA
64 AATGGA-CTTT-TCTGCCAAATAAATGGATTTTCCATACAT-TTCT-CCAA-GTAAG-CATTCAA
* *
45504 TTATAACCTATTTTAACCTAAAATTTAGAAAAATTCAACTTAAAATCA
123 TTATAACCTATTTTAACCAAAAATATA-AAAAATTCAACTTAAAATCA
* * *
45552 ATTATGAGCTTATAAAACCTTTTAAAGCGAGTAATAAAGCTTTTAAAGGAATGAGAGACAATAAA
1 ATTATGAGATTATAAAACCTTTTAAAGCGAGTAATAAAGCTTTTAAAGGAATGGGTGACAATAAA
* **
45617 TGGACTTTTCTGCCAAATAAATGGATTTTCCAATACATTTCTCGAAGTAAGCATTCAATTATAGT
66 TGGACTTTTCTGCCAAATAAATGGATTTTCC-ATACATTTCTCCAAGTAAGCATTCAATTATAAC
** *
45682 CTATTTTAATGAAAAATATAACAAATTCAACTTAAAATCA
130 CTATTTTAACCAAAAATATAAAAAATTCAACTTAAAATCA
* *
45722 ACTATGAGATTATAAAACCATTTAAA-CTGAGTAATAAAGCTTTTAAAGGAATGGGTGA
1 ATTATGAGATTATAAAACCTTTTAAAGC-GAGTAATAAAGCTTTTAAAGGAATGGGTGA
45780 NNNNNNNNNN
Statistics
Matches: 195, Mismatches: 23, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
169 2 0.01
170 98 0.50
171 82 0.42
172 7 0.04
173 6 0.03
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (169 bp):
ATTATGAGATTATAAAACCTTTTAAAGCGAGTAATAAAGCTTTTAAAGGAATGGGTGACAATAAA
TGGACTTTTCTGCCAAATAAATGGATTTTCCATACATTTCTCCAAGTAAGCATTCAATTATAACC
TATTTTAACCAAAAATATAAAAAATTCAACTTAAAATCA
Found at i:47152 original size:170 final size:168
Alignment explanation
Indices: 46790--47152 Score: 355
Period size: 170 Copynumber: 2.1 Consensus size: 168
46780 NNNNNNNNNN
* *
46790 AATCAATTATGAGATTATAAAA-CTCTTTAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACT
1 AATCAA-TATGAGATTATAAAACCTCTTTAAGCGAGTAATAAGGCTTTTGAAAGAATGGGAGACA
* * * * *
46854 ATAAATGGACTTTCTTTTCAATGAATGGCTTTTTCTACATGTTTTCCAAGGTAGACATTCAATTA
65 ATAAATGGACTTTCTTTCCAATAAATGGATTTTCCTACA-GTTTCCCAAGGTAGACATTCAATTA
* *
46919 TAACCTATTTTAACCTAAAATGTAAAAAAATTCAACTTAA
129 TAACCTATGTTAACCAAAAATGTAAAAAAATTCAACTTAA
*********
46959 AATCAATNNNNNNNNNNTAAAACCT-TTTAAAGCGAGTAATAAGGCTTTT-AAAGGAATGGGAGA
1 AATCAAT-ATGAGATTATAAAACCTCTTT-AAGCGAGTAATAAGGCTTTTGAAA-GAATGGGAGA
47022 CAATAAATGGACTTT-TCTTCCAATTAAATGGATTTTCCAATACA-TTTCCCGAA-GTA-AGCAT
63 CAATAAATGGACTTTCT-TTCCAA-TAAATGGATTTTCC--TACAGTTTCCC-AAGGTAGA-CAT
* * ** *
47083 TCAATTATAATCTGTGTTAATGAAAAATGT-AACAAATTCAACTTAA
122 TCAATTATAACCTATGTTAACCAAAAATGTAAAAAAATTCAACTTAA
47129 AATCAACTATGAGATTATAAAACC
1 AATCAA-TATGAGATTATAAAACC
47153 NNNNNNNNNN
Statistics
Matches: 151, Mismatches: 32, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
168 1 0.01
169 18 0.12
170 79 0.52
171 47 0.31
172 2 0.01
173 4 0.03
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.32
Consensus pattern (168 bp):
AATCAATATGAGATTATAAAACCTCTTTAAGCGAGTAATAAGGCTTTTGAAAGAATGGGAGACAA
TAAATGGACTTTCTTTCCAATAAATGGATTTTCCTACAGTTTCCCAAGGTAGACATTCAATTATA
ACCTATGTTAACCAAAAATGTAAAAAAATTCAACTTAA
Found at i:47594 original size:170 final size:171
Alignment explanation
Indices: 47279--47966 Score: 427
Period size: 170 Copynumber: 4.0 Consensus size: 171
47269 NATGTAAAGC
* * * * * * *
47279 AAATTAAACTTAAAAGCAATTTTAAGATTATAAAACCATTTAAGGCGAGTAATAAGGCTTTTAAA
1 AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCCTTTAAA
* *
47344 GGAATAGGAGACTATAAATGGACTTTTCTTGTCAGTGAATGCTTTTTTCTACAAATTTCTCAAGG
66 CGAATAGGAGACTATAAATGGACTTTTCTTGTCAATGAATGCTTTTTTCTACAAATTTCTCAAGG
**
47409 CAGACATTCAATTATAGTCTGTTTTAACCATAGTAT-AA-AA
131 CAGACATTCAATTATAGTCTGTTTTAACCA-AAAATGAAGAA
* * * *
47449 GAATTCAACTGAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTACTAAGGCCTTTGAA
1 AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCCTTTAAA
* * * **
47514 CGAATGGGTGACTATAAATGTACTTTTTCTT-TCAATGAATAGC-TTTTTCTACACGTTT-TCCT
66 CGAATAGGAGACTATAAATGGAC-TTTTCTTGTCAATGAAT-GCTTTTTTCTACAAATTTCT-C-
* * * *
47576 AA-GCATG-CATTTAATTATAGTGTGTTTTAGCTAAAAATGAAGAA
127 AAGGCA-GACATTCAATTATAGTCTGTTTTAACCAAAAATGAAGAA
* ********** * *
47620 AAATTCAACTTAAAATGAATTATGAGATTATANNNNNNNNNNAAGCGAGTAATAAGGCTTTTAAA
1 AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCCTTTAAA
* * ** * * * * * **
47685 GGAATGGGAGACTATCTACGGACTTTTCCTGCCAATGAATGCCTTTTTT-T-CATATTTATTGAG
66 CGAATAGGAGACTATAAATGGACTTTTCTTGTCAATGAATG-CTTTTTTCTACAAATTTCTCAAG
** * * * *
47748 ATAGATATTCAATTATAATCTGTTTGAACCAATTATAT-AA-AA
130 GCAGACATTCAATTATAGTCTGTTTTAACCAA--AAATGAAGAA
* * **********
47790 ATAA-TCGAACCTAAAATCAATTATGAGATTATAAAACTATTTNNNNNNNNNNATAAGG-CTTTG
1 A-AATTC-AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCCTTT-
* * * * * **
47853 GAAA-GAATGGGTGACTATAAATGGACTTCTCTTCTCAATGAATGGC-TTTTTCTCCATGTTTCT
63 -AAACGAATAGGAGACTATAAATGGACTTTTCTTGTCAATGAAT-GCTTTTTTCTACAAATTTCT
* ** * *
47916 CAAGGTAGACATTCAATTATAACCTATTTTAACTAAAAAT-ATAGAA
126 CAAGGCAGACATTCAATTATAGTCTGTTTTAACCAAAAATGA-AGAA
47962 AAATT
1 AAATT
47967 NNNNNNNNNN
Statistics
Matches: 390, Mismatches: 103, Indels: 48
0.72 0.19 0.09
Matches are distributed among these distances:
169 6 0.02
170 172 0.44
171 161 0.41
172 51 0.13
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.34
Consensus pattern (171 bp):
AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCCTTTAAA
CGAATAGGAGACTATAAATGGACTTTTCTTGTCAATGAATGCTTTTTTCTACAAATTTCTCAAGG
CAGACATTCAATTATAGTCTGTTTTAACCAAAAATGAAGAA
Found at i:47954 original size:342 final size:331
Alignment explanation
Indices: 47323--47966 Score: 637
Period size: 342 Copynumber: 1.9 Consensus size: 331
47313 ACCATTTAAG
* * * *
47323 GCGAGTAATAAGGCTTTTAAAGGAATAGGAGACTATAAATGGACTTTTCTTGTCAGTGAATGCTT
1 GCGAGTAATAAGGCTTTTAAAGGAATAGGAGACTATAAACGGACTTTTCCTGCCAATGAATGCTT
* * * * *
47388 TTTTCTACAAATTTCTCAAGGCAGACATTCAATTATAGTCTGTTTTAACCATAGTATAAAAGAAT
66 TTTTCTACAAATTTATCAAGACAGACATTCAATTATAATCTGTTTGAACCATAGTATAAAAGAAA
*
47453 TCAACTGAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTACTAAGGCCTTTGAACGAA
131 TCAACTGAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTACTAAGGCCTTTGAAAGAA
* *
47518 TGGGTGACTATAAATGTACTTTTTCTTTCAATGAATAGCTTTTTCTACACGTTTTCCTAAGCATG
196 TGGGTGACTATAAATGGACTTTCTCTTTCAATGAATAGCTTTTTCTACACGTTTTCCTAAGCATG
* *** * *
47583 CATTTAATTATAGTGTGTTTTAGCTAAAAATGA-AGAAAAATTCAACTTAAAATGAATTATGAGA
261 CATTCAATTATAACCTATTTTAACTAAAAAT-ATAGAAAAATTCAACTTAAAATGAATTATGAGA
47647 TTATANNNNNNNNNNAA
325 TTATA----------AA
* **
47664 GCGAGTAATAAGGCTTTTAAAGGAATGGGAGACTATCTACGGACTTTTCCTGCCAATGAATGCCT
1 GCGAGTAATAAGGCTTTTAAAGGAATAGGAGACTATAAACGGACTTTTCCTGCCAATGAATG-CT
* ** * *
47729 TTTTT-T-CATATTTATTGAGATAGATATTCAATTATAATCTGTTTGAACCAATTA-TATAAAA-
65 TTTTTCTACAAATTTATCAAGACAGACATTCAATTATAATCTGTTTGAACC-A-TAGTATAAAAG
* *********
47790 ATAATCGAACCT-AAAATCAATTATGAGATTATAAAACTATTTNNNNNNNNNNA-TAAGG-CTTT
128 A-AATC-AA-CTGAAAATCAATTATGAGATTATAAAACCATTT-AAAGCAAGTACTAAGGCCTTT
* * *
47852 GGAAAGAATGGGTGACTATAAATGGAC-TTCTCTTCTCAATGAATGGCTTTTTCTCCATG-TTT-
189 -GAAAGAATGGGTGACTATAAATGGACTTTCTCTT-TCAATGAATAGCTTTTTCTACACGTTTTC
*
47914 CTCAAG-GTAGACATTCAATTATAACCTATTTTAACTAAAAATATAGAAAAATT
252 CT-AAGCAT-G-CATTCAATTATAACCTATTTTAACTAAAAATATAGAAAAATT
47967 NNNNNNNNNN
Statistics
Matches: 250, Mismatches: 40, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
340 38 0.15
341 85 0.34
342 124 0.50
343 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.34
Consensus pattern (331 bp):
GCGAGTAATAAGGCTTTTAAAGGAATAGGAGACTATAAACGGACTTTTCCTGCCAATGAATGCTT
TTTTCTACAAATTTATCAAGACAGACATTCAATTATAATCTGTTTGAACCATAGTATAAAAGAAA
TCAACTGAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTACTAAGGCCTTTGAAAGAA
TGGGTGACTATAAATGGACTTTCTCTTTCAATGAATAGCTTTTTCTACACGTTTTCCTAAGCATG
CATTCAATTATAACCTATTTTAACTAAAAATATAGAAAAATTCAACTTAAAATGAATTATGAGAT
TATAAA
Found at i:49363 original size:170 final size:172
Alignment explanation
Indices: 49146--49483 Score: 389
Period size: 170 Copynumber: 2.0 Consensus size: 172
49136 NNNNNNAACC
* * *
49146 ATTTAAGGTTAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATG-AATTTTT-TTTGCCAA
1 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATGTAATTTTTCTTT--CAA
* * * * *
49209 TGAATAG-TTTTCTCTTCACATTTCTCTAGACAGACATTCAATTATAGTATGTTTTAACCA-AAG
64 TAAATAGCTTTT-TATACACATTTCTCAAGACAGACATTCAATTATAGTATGTTTTAACCATAAA
* *
49272 TGTAAAAA-AATTCAACTTAAAATCAGTTATGAGAATATAAGACT
128 TGTAAAAACAATTCAACCTAAAATCAATTATGAGAATATAAGACT
* * * *
49316 ATTTAAAGTGAGTAATATGGCTTTTGAAGGTATAGGTGACTATAAATGTACTTTTTCTTTCAATA
1 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATGTAATTTTTCTTTCAATA
* * ** ** * *
49381 AATGGCTTTTTATACACGTTTCTCAAGGTATTCATTCAATTATAGTCTGTTTTAATCATAAATGT
66 AATAGCTTTTTATACACATTTCTCAAGACAGACATTCAATTATAGTATGTTTTAACCATAAATGT
* * *
49446 AAAAACAATTTAGCCTAAAATCAATTATGAGATTATAA
131 AAAAACAATTCAACCTAAAATCAATTATGAGAATATAA
49484 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
170 88 0.64
171 20 0.14
172 30 0.22
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (172 bp):
ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATGTAATTTTTCTTTCAATA
AATAGCTTTTTATACACATTTCTCAAGACAGACATTCAATTATAGTATGTTTTAACCATAAATGT
AAAAACAATTCAACCTAAAATCAATTATGAGAATATAAGACT
Found at i:50751 original size:171 final size:158
Alignment explanation
Indices: 50565--50890 Score: 311
Period size: 170 Copynumber: 2.0 Consensus size: 158
50555 NNNNNNNNNN
* *
50565 AGTAATAAGGCTTTTGAAGGAATGGGTGACCATAAATATACTTTTCTTGC-CAATGAAT-GCTTT
1 AGTAATAAGGCTTTTGAAAGAAT-GGTGACCATAAATAGACTTTT-TTGCTCAATGAATGGC-TT
* ** * * * *
50628 TTTCTTCACG-TTTCCTAGGGTAGACATTCAATTATAGCTTGTGTTAA-GCAAAAATG-AGGAAA
63 TTTCTTCAAGTTTTCC-AAAGAACACATTCAATTATAG--TCTGTTAATG-AAAAATGCA-AAAA
*
50690 AATTCAACTTAAAATCAATTATGAGATTANNNNNNNNNNTAAAGCG
123 AATTCAACTTAAAATCAATTATAAGATTA----------TAAAGCG
* * *
50736 AGTAATAAGGCTTTTGAAAGAATGGTGACTATAAATGGACTTTTTTTCTCAATGAATGGCTTTTT
1 AGTAATAAGGCTTTTGAAAGAATGGTGACCATAAATAGACTTTTTTGCTCAATGAATGGCTTTTT
* * *
50801 CTTCAAGTTTTCCAAAGAACACATTCAATTATTGTCTGTTAATGAAGAATGCAAAAAAATTCAAG
66 CTTCAAGTTTTCCAAAGAACACATTCAATTATAGTCTGTTAATGAAAAATGCAAAAAAATTCAAC
50866 TTAAAATCAATTATAAGATTATAAA
131 TTAAAATCAATTATAAGATTATAAA
50891 ANNNNNNNNN
Statistics
Matches: 134, Mismatches: 16, Indels: 23
0.77 0.09 0.13
Matches are distributed among these distances:
158 4 0.03
168 43 0.32
169 5 0.04
170 53 0.40
171 29 0.22
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.33
Consensus pattern (158 bp):
AGTAATAAGGCTTTTGAAAGAATGGTGACCATAAATAGACTTTTTTGCTCAATGAATGGCTTTTT
CTTCAAGTTTTCCAAAGAACACATTCAATTATAGTCTGTTAATGAAAAATGCAAAAAAATTCAAC
TTAAAATCAATTATAAGATTATAAAGCG
Found at i:50998 original size:168 final size:159
Alignment explanation
Indices: 50729--51045 Score: 302
Period size: 169 Copynumber: 1.9 Consensus size: 159
50719 NNNNNNNNNN
* * *
50729 TAAAGCGAGTAATAAGGCTTTTGAAAGAATGGTGACTATAAATGGACTTTTTTTCTCAATGAATG
1 TAAAACGAGTAATAAGGCTTTTGAAAGAATGGTGACTATAAATGGACTTTTTTGCTCAATAAATG
* * * * *
50794 GCTTTTTCTTCAAGTTTTCCAAAGAACACATTCAATTATTGTCTG-TTAATGAAGAA-TGCAAAA
66 ACTTTTCCTTCAAGTTTTCCAAAGAACACATTCAATTATAGTATGTTTAATCAA-AATTGCAAAA
*
50857 AAATTCAAGTTAAAATCAATTATAAGATTA
130 AAATTCAACTTAAAATCAATTATAAGATTA
* *
50887 TAAAANNNNNNNNNNCGAGTAATAAGGTTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT
1 TAAAA----------CGAGTAATAAGGCTTTTGAAAGAAT-GGTGACTATAAATGGACTTTT-TT
* * * * *
50952 GCT-AGTAAATGACTTTTCCTTCATG-TTTCACAAGGTATAC-TTCAATTATAGTATGTTTTAAT
54 GCTCAATAAATGACTTTTCCTTCAAGTTTTC-CAAAGAACACATTCAATTATAGTATG-TTTAAT
* *
51014 CAAAATTGTAAAAAAATTTAACTTAAAATCAA
117 CAAAATTGCAAAAAAATTCAACTTAAAATCAA
51046 NNNNNNNNNN
Statistics
Matches: 125, Mismatches: 18, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
158 4 0.03
168 40 0.32
169 47 0.38
170 34 0.27
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.35
Consensus pattern (159 bp):
TAAAACGAGTAATAAGGCTTTTGAAAGAATGGTGACTATAAATGGACTTTTTTGCTCAATAAATG
ACTTTTCCTTCAAGTTTTCCAAAGAACACATTCAATTATAGTATGTTTAATCAAAATTGCAAAAA
AATTCAACTTAAAATCAATTATAAGATTA
Found at i:52565 original size:170 final size:161
Alignment explanation
Indices: 52340--52656 Score: 379
Period size: 170 Copynumber: 1.9 Consensus size: 161
52330 NNTGAGATTA
* *
52340 TAAAACTATTTAAAGCAAGTAATAAGGCTTTTGAAAGAATGGATGACAATAAATGGACTTTAATT
1 TAAAACCA-TTAAAGCAAGTAATAAGGCTTTTGAAAGAACGGATGACAATAAATGGACTTTAATT
* *
52405 CTCAATGAATGGCTTTGTCTCCATGTTTTC-CAA-GGTAGACATTCAATTATAACCTATTTTAAA
65 CTCAATGAATGGCTTTGTCTCCATG-TTTCGCAAGGGAAG-CATTCAATTATAACCTATTTCAAA
*
52468 TAAAAATGTAGAA-AAATTCAGCTTAAAATCAAT
128 TAAAAATGTAAAACAAATTCAGCTTAAAATCAAT
* *
52501 TNNNNNNNNNNAAAACCATTAAAGCAAGTAATAAGGCTTTTGAAAGAACGGTTGACTATAAATGG
1 T----------AAAACCATTAAAGCAAGTAATAAGGCTTTTGAAAGAACGGATGACAATAAATGG
** * * *
52566 ACTTTTTTTCTCAATGAATGGCTTTTTCTCCATGTTTCGCATGGGAAGCATTCAATTATAACCTG
56 ACTTTAATTCTCAATGAATGGCTTTGTCTCCATGTTTCGCAAGGGAAGCATTCAATTATAACCTA
*
52631 TTTCAACTAAAAATGTAAAACAAATT
121 TTTCAAATAAAAATGTAAAACAAATT
52657 AAACTTCAAA
Statistics
Matches: 130, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
161 1 0.01
169 4 0.03
170 110 0.85
171 15 0.12
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.32
Consensus pattern (161 bp):
TAAAACCATTAAAGCAAGTAATAAGGCTTTTGAAAGAACGGATGACAATAAATGGACTTTAATTC
TCAATGAATGGCTTTGTCTCCATGTTTCGCAAGGGAAGCATTCAATTATAACCTATTTCAAATAA
AAATGTAAAACAAATTCAGCTTAAAATCAAT
Found at i:54718 original size:172 final size:168
Alignment explanation
Indices: 54348--54824 Score: 519
Period size: 170 Copynumber: 2.8 Consensus size: 168
54338 NNNNNNNNNN
* * * * *
54348 CTATAAATGAACTTTTCTTGCCAATGAATGGTTTTTTCTTCACATTTCTCTAGGCAGGCATTCAA
1 CTATAAATGAACTTTTCTTGTCAATGAATGG-CTTTT-TTCATATTTCTCAAGGCAAGCATTCAA
* * * * *
54413 TTATAGTCTGTTTTAACCAAAGTGT-AAAAAAATTCAACTTCAAATCAGTTATGAGATTATAAGA
64 TTATAGTCTGTTTTAACAAAAATGTAAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * * *
54477 CCATTTAACGCGAGTAATAAGGCCTTTGAAGGTATGGGTGT
129 CCA-TTAAAGCGAGTAATAAAGCCTTTGAAGGAACGGGTGA
* *
54518 CTATAAATGTACTTTTTCTT-TCAATGAATGGCTTTTTATACATATTTCTCAAGGCATGCATTCA
1 CTATAAATGAAC-TTTTCTTGTCAATGAATGGCTTTTT-T-CATATTTCTCAAGGCAAGCATTCA
* * *
54582 ATTATAGTCTATTTTAACTAAAAATGTAAAAAGAAATTCAACCTGAAATCAATTATGAGATTATA
63 ATTATAGTCTGTTTTAAC-AAAAATGTAAAAA-AAATTCAACTTAAAATCAATTATGAGATTATA
*
54647 AAACCATTAAAGCGAGTAATAAAGCTTTTGAAGGAACGGGTGA
126 AAACCATTAAAGCGAGTAATAAAGCCTTTGAAGGAACGGGTGA
* * * * * * * * *
54690 CTATAAATGGACATTTCTTGTCAATGAATGCCATTTGTTCATGTTTCACGATG-AAGACATTCAC
1 CTATAAATGAACTTTTCTTGTCAATGAATGGC-TTTTTTCATATTTCTCAAGGCAAG-CATTCAA
* * * * *
54754 TTATACTCTGTTTTAACAAAAAATGTAAACAAAATTGAACTTAAAATCAATTTTGATATTATAAA
64 TTATAGTCTGTTTTAAC-AAAAATGTAAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
54819 ACCATT
128 ACCATT
54825 TAANNNNNNN
Statistics
Matches: 260, Mismatches: 38, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
168 1 0.00
169 5 0.02
170 96 0.37
171 62 0.24
172 58 0.22
173 38 0.15
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (168 bp):
CTATAAATGAACTTTTCTTGTCAATGAATGGCTTTTTTCATATTTCTCAAGGCAAGCATTCAATT
ATAGTCTGTTTTAACAAAAATGTAAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
ATTAAAGCGAGTAATAAAGCCTTTGAAGGAACGGGTGA
Found at i:57163 original size:171 final size:172
Alignment explanation
Indices: 56877--57237 Score: 392
Period size: 171 Copynumber: 2.1 Consensus size: 172
56867 NNNNNNNNNN
** *
56877 ATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGGGACTATAAAGGGACTTTTCT
1 ATAAAACCATTTAAAGCGAAAAATAAGGATTTTGAAAGAATAGGGGACTATAAAGGGACTTTTCT
* ** * * * * * ***
56942 TCTCAATCAATGGCTTTTTCTTCACGTTTTCCAAGGAACGCATTCAATTATAGTCTGTTTTAGTG
66 TCTCAATAAATAACTTTTTCTACACGATTTCCAAGGAACACATCCAATTATAGTCTATTTTAACC
* * *
57007 AAGAA-TGCAAAAAAATTTAAGTTAAAATCAATTATGAGA-TT
131 AA-AAGTGCAAAAAAATTCAACTTAAAATCAATTATGAGACTG
* * *
57048 ATAAAACCATTTAAAGTGAAAAATAA-GATTTTCGAAGGAAT-GGGTGACTATAAATGGACTTTT
1 ATAAAACCATTTAAAGCGAAAAATAAGGATTTT-GAAAGAATAGGG-GACTATAAAGGGACTTTT
* * * * *
57111 CTTGTCAGTAAATAACTTTTTCTACAC-ATTTCACGAGGTATACATCCAATTATAGTCTATTTTA
64 CTTCTCAATAAATAACTTTTTCTACACGATTTC-CAAGGAACACATCCAATTATAGTCTATTTTA
* * *
57175 ACCAAAAGTGTAAAAATATTCAACTTAAAATTAATTATGAGACTG
128 ACCAAAAGTGCAAAAAAATTCAACTTAAAATCAATTATGAGACTG
57220 A-AAAACCATTTAAAGCGA
1 ATAAAACCATTTAAAGCGA
57238 GTAATAAGNN
Statistics
Matches: 156, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
170 14 0.09
171 140 0.90
172 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (172 bp):
ATAAAACCATTTAAAGCGAAAAATAAGGATTTTGAAAGAATAGGGGACTATAAAGGGACTTTTCT
TCTCAATAAATAACTTTTTCTACACGATTTCCAAGGAACACATCCAATTATAGTCTATTTTAACC
AAAAGTGCAAAAAAATTCAACTTAAAATCAATTATGAGACTG
Found at i:58871 original size:171 final size:170
Alignment explanation
Indices: 58690--59055 Score: 386
Period size: 171 Copynumber: 2.1 Consensus size: 170
58680 NNNNNNNNNN
*
58690 TTGC-CAATGAATGCTTTTTTCTTCATGTTTCTT-AAGGTGGAC-ATTCAATTATAGGT-TGTTT
1 TTGCTCAATGAATGC-TTTTTCTTCATGTTT-TTGAA-G-GAACGATTCAATTATA-GTCTGTTT
*** * **********
58751 TAACAAAAAATGTGGAAAAATTCAACTTAAAATCAATTATGAGNNNNNNNNNNCATTTAAAGCGA
61 TAACAAAAAATGCAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGA
* *
58816 GGAATAAGGCTTTTGAAA-GAATAGGTGACTATAAATGGACTTGTC
126 GGAATAAGGATTTT-AAAGGAATAGGAGACTATAAATGGACTTGTC
58861 TT-CTCAATGAATGGCTTTTTCTTCATGTTTTTGAAGGAACGGATTCAATTATAGTCTGTTTTAA
1 TTGCTCAATGAAT-GCTTTTTCTTCATGTTTTTGAAGGAAC-GATTCAATTATAGTCTGTTTTAA
* * * * *
58925 TAAAGAATGCAAAAAAAATCAAGTTAAAATGAATTATGAGATTATAAAATCATTTAAAGCGAGTA
64 CAAAAAATGCAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGGA
* *
58990 ATAAGGATTTTAAAGGAATGGGAGACTATAAATGGACTTTTC
129 ATAAGGATTTTAAAGGAATAGGAGACTATAAATGGACTTGTC
59032 TTGCT-AATGAATGCCTTTTTCTTC
1 TTGCTCAATGAATG-CTTTTTCTTC
59056 NNNNNNNNNN
Statistics
Matches: 162, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
169 3 0.02
170 10 0.06
171 145 0.90
172 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.35
Consensus pattern (170 bp):
TTGCTCAATGAATGCTTTTTCTTCATGTTTTTGAAGGAACGATTCAATTATAGTCTGTTTTAACA
AAAAATGCAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGGAAT
AAGGATTTTAAAGGAATAGGAGACTATAAATGGACTTGTC
Done.