Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018403219.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_889.0, 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: 41755
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.29
Warning! 8183 characters in sequence are not A, C, G, or T
Found at i:1752 original size:173 final size:171
Alignment explanation
Indices: 969--2069 Score: 646
Period size: 171 Copynumber: 6.5 Consensus size: 171
959 GGTAAGCACC
* * * *
969 CAATTATATTCTGTTTTAAC-CAAAATA-ATAAAAAAATTCAACTTAAAATCAATTATGAGCTTA
1 CAATTATAGTCTATTTTAACTAAAAATATA-AAAAAAATTCAACTTAAAATCAATTATGAGATTA
* ** * * * * *
1032 CAAAACCATTTAAGGCGACTAATAAGGC-TTTAAAAGGAATTAG-TGACTATAAATGGACTTTTC
65 TAAAACCATTTAAAACAAGTAATAAGGCTTTTGAAA-GAA-TGGTTTACTATAAAT-GACTTTTC
* ** *
1095 TTGCCAATGAATGCCTTTTTCTTCTTGTTTCTCTAGGTAGACATT
127 TTGCCAATGAATACCTTTTTCTTCAAGTTTCTCGAGGTAGACATT
********** * * * * *
1140 CAATNNNNNNNNNNTTTAACTAAAAATGT-AAAACAATTTAACCTAAAATCAATTGTGAGATTAT
1 CAATTATAGTCTATTTTAACTAAAAATATAAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * ********** ** *
1204 AAAAGCATTTAAAGCGAGTAATAAGGCNNNNNNNNNNATGAG-AGACTATAAACAGACTTTTCTT
66 AAAACCATTTAAAACAAGTAATAAGGCTTTTGAAAGAATG-GTTTACTATAAA-TGACTTTTCTT
* ** ** * * *
1268 -CCAAATAAATATTTTTTTCAACATGTTT-TCTGAGGCA-ACCAGT
129 GCC-AATGAATACCTTTTTCTTCAAGTTTCTC-GAGGTAGA-CATT
* * * * * *
1311 CAATTATAGTCTGTTTTAACAAAAAATGTAAAAAATAA---AACTCAAAATTAATTATAAGATTA
1 CAATTATAGTCTATTTTAACTAAAAATATAAAAAA-AATTCAACTTAAAATCAATTATGAGATTA
* * * ** ***********
1373 TAAAACCATTTAAAGCGAGTAATAAGGATTTTGATGGAATGGGNNNNNNNNNNTAGACTTTTCTT
65 TAAAACCATTTAAAACAAGTAATAAGGCTTTTGAAAGAATGGTTTACTATAAAT-GACTTTTCTT
* *
1438 GCCAATGAATGCCTTTTTCTTCAAGTTTCTCAAGGTAGACATT
129 GCCAATGAATACCTTTTTCTTCAAGTTTCTCGAGGTAGACATT
** * * * * * * *
1481 CAAAAATAGTATGTTTTAACTAAAAATACAAAAAAAA-TCAACTTAAAACCAGTTTTGAGATTAC
1 CAATTATAGTCTATTTTAACTAAAAATATAAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
** * *
1545 AAAATTATTTAAAACGAGTAATAAGGCATTTGAAAGAATGGTTTACTATAAATGAACTTTTCTTG
66 AAAACCATTTAAAACAAGTAATAAGGCTTTTGAAAGAATGGTTTACTATAAATG-ACTTTTCTTG
* * * * * * * *
1610 TCAATAAATATCTTTTTTTTCAGGTTTTTCGATGTACACATT
130 CCAATGAATACCTTTTTCTTCAAGTTTCTCGAGGTAGACATT
* *
1652 CAATTATAGTCTATTTTAACTAAAAATATAAAAAAAAATACAACTTAAAATAAATTATGAGATTA
1 CAATTATAGTCTATTTTAACTAAAAATAT-AAAAAAAATTCAACTTAAAATCAATTATGAGATTA
* * * * * * *
1717 TAAAACTATTTACAGCAAGTAATAAGGCTTTTGAAAGGATGAGTGT-GTATAAATCGACATTTCT
65 TAAAACCATTTAAAACAAGTAATAAGGCTTTTGAAAGAATG-GTTTACTATAAAT-GACTTTTCT
* * * *
1781 TGCCAATGACTACCTTTTTCTTCACGTTTTTCGAGCTA-AGCATT
128 TGCCAATGAATACCTTTTTCTTCAAGTTTCTCGAGGTAGA-CATT
* * * * * *
1825 CAGTTATAGTTTGTTTTAACCAAAAATGT--TAAAAATTCAACTTAAAATCAATTATGAGATTA-
1 CAATTATAGTCTATTTTAACTAAAAATATAAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * * * *
1887 AAAACCATTAAAAACGAGTAA-ACA-GATTTTGAAGGAATAGG-TGACTATAAATGGACTTTTTT
66 AAAACCATTTAAAACAAGTAATA-AGGCTTTTGAAAGAAT-GGTTTACTATAAAT-GACTTTTCT
* * * * *
1949 TGCTAATGAATATCTTTTTCTACATGTTTCTCGAGGTAGATATT
128 TGCCAATGAATACCTTTTTCTTCAAGTTTCTCGAGGTAGACATT
* * * * *
1993 TAACTATAGTCTATTTTAA-TCAAAAT-TGTAAAAAAATTCAACTTAAAATCAATAATGAGATTA
1 CAATTATAGTCTATTTTAACTAAAAATAT-AAAAAAAATTCAACTTAAAATCAATTATGAGATTA
2056 TAAAACCATTTAAA
65 TAAAACCATTTAAA
2070 GCANNNNNNN
Statistics
Matches: 697, Mismatches: 202, Indels: 63
0.72 0.21 0.07
Matches are distributed among these distances:
166 1 0.00
167 5 0.01
168 75 0.11
169 53 0.08
170 161 0.23
171 251 0.36
172 18 0.03
173 129 0.19
174 4 0.01
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.34
Consensus pattern (171 bp):
CAATTATAGTCTATTTTAACTAAAAATATAAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
AAAACCATTTAAAACAAGTAATAAGGCTTTTGAAAGAATGGTTTACTATAAATGACTTTTCTTGC
CAATGAATACCTTTTTCTTCAAGTTTCTCGAGGTAGACATT
Found at i:4745 original size:132 final size:132
Alignment explanation
Indices: 4487--4748 Score: 321
Period size: 132 Copynumber: 2.0 Consensus size: 132
4477 AAATCTAAAA
* * * * *
4487 AATTTTGAGTTTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGAGACCATAA
1 AATTATGAGATTACAAAACCATTTAAAGCGACTAATAAGGCTTTTAAAGAAATAAGAGACCATAA
* * * *
4552 ATGGACTTTCCCTGCCCATGAATGCTTTTTCTTTTACATTTCTCGAGGTACACATTCAATTATAA
66 ATGGACTTTCCCTACCAATGAATGCTTTTTCTTCTACATTTCTCGAGGTACACATTAAATTATAA
4617 TC
131 TC
* * * * **
4619 AATTATGAGATTACAAAATCATTTAAGGTGACTAATAAGGCTTTTGAAGAAATAAGTA-ATTATA
1 AATTATGAGATTACAAAACCATTTAAAGCGACTAATAAGGCTTTTAAAGAAATAAG-AGACCATA
* * * *
4683 AATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCT-CGTTTCTTGAGGTACACATTAAATTAT
65 AATGGACTTTCCCTACCAATGAATG-CTTTTTCTTCTACATTTCTCGAGGTACACATTAAATTAT
4747 AA
129 AA
4749 ACTGTTTTGA
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
132 98 0.90
133 11 0.10
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (132 bp):
AATTATGAGATTACAAAACCATTTAAAGCGACTAATAAGGCTTTTAAAGAAATAAGAGACCATAA
ATGGACTTTCCCTACCAATGAATGCTTTTTCTTCTACATTTCTCGAGGTACACATTAAATTATAA
TC
Found at i:5388 original size:171 final size:171
Alignment explanation
Indices: 4605--6180 Score: 1132
Period size: 170 Copynumber: 9.2 Consensus size: 171
4595 CGAGGTACAC
* * * * * *
4605 ATTCAA-TTATAATCAATTATGAGATTACAAAATCATTTAAGGTGACTAATAAGGCTTTTG-AAG
1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAG
** * * * *
4668 AAATAAGTAATTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCTCGTTTCTTGAGGT
66 -AATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCACGTTTCTCGAGGT
* * ** * *
4733 ACACATTAAATTATAAACTGTTTTGA-CAATAAATGTAAAACA
130 AGACATTCAATTATAGTCTGTTTTAACCAA-AAATGTAAAAAA
* * * * * *
4775 TTTCAACTAAAAATCAATTATGACATTATAAAACTATTTAAAGCAAGTAATAAGGCTTCT-AAAG
1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA-
*** * * *** ** ** *
4839 GAATGAAAGACTATAAATGAACTTTTCTT-CCAAATAAATATTTTTTTCAACATATTTC-CTAAG
65 GAATGGGTGACTATAAATGGACTTTTCTTACC-AATGAATGCCTTTTTCTTCACGTTTCTC-GAG
* * * * *
4902 ATA-AGTATTCAATTATAGTCTGTTTCAA-TAGAAAATAT-AAAAA
128 GTAGA-CATTCAATTATAGTCTGTTTTAACCA-AAAATGTAAAAAA
* * *
4945 ATTCAACTTAAAATCAATTATGACATTATAAAATCATTTAAAATC-AGTAATAAGGAC-TTTGAA
1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT-AAAGCGAGTAATAAGG-CTTTTGAA
* * * ** ** *
5008 GGAATGAGTGACTATAAATTGACTTTTCTTGTCAATGAATGATTTTTTCTTCACGTTTCTCAAGG
64 AGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCACGTTTCTCGAGG
* * * *
5073 TAGACATTCAACTATAATCTATTTTAACCAAAAATGCAAAAAA
129 TAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAA
* * * **********
5116 CATTCAACTTAAAATCAATTCTGAGATTATAAAACCATTTAAAGTGAGTAATGAGNNNNNNNNNN
1 -ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA
*
5181 GAATGGGTGATTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCTA-GTTTCTCGAGG
65 GAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTC-ACGTTTCTCGAGG
* *
5245 TAGACATTCAATTATAGTCTAG-CTTAACTAAAAATGTAAAAAA
129 TAGACATTCAATTATAGTCT-GTTTTAACCAAAAATGTAAAAAA
* * * * * *
5288 ATACAACTTGAAGTCAAATATGAGATTATAAAACCATTTACAGCGAGTAATAAAGCTTTTGAAAG
1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAG
* * * * * * *
5353 AATGGGTGAGTGTAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCATCACGTTT-TCTAGGGC
66 AATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCACGTTTCTCGA-GGT
* * *
5417 A-AGCATTCAATTATAGTTTGTTTTAACCAAAAAAGT-GAAAA
130 AGA-CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAA
* *** * * *
5458 ATTCAAGC-TAAAATCAATTATGAGAGTATAAATTTATTTAAAGTGAGTAATAAGGATTTTGAAC
1 ATTCAA-CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA
* * * * *
5522 GAATGGGTGACTATAAATGGACTTTTCTTATCAATGAATACCTTTTTTTTCACGTTTCTTGAGGC
65 GAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCACGTTTCTCGAGGT
* * * *
5587 AGACATTCAACTATAGTCTGTATTAACAAAAAATGTAAAACA
130 AGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAA
* ********** * *
5629 ATTCAGCTTAAAATCAATTNNNNNNNNNNAAAACTATTTAAAGCGACTAATAAGGCTTTT-AAAG
1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA-
* * * * *
5693 GAATGGGTAACTATAAATGGACCTTTCTTTACCAATGAATGCATTTTTATTCACGTTTCTCAAGG
65 GAATGGGTGACTATAAATGGACTTTTC-TTACCAATGAATGCCTTTTTCTTCACGTTTCTCGAGG
* ********** * *
5758 TCAG-CACTCAATNNNNNNNNNNTTTAATCAAAAATATAAAAAA
129 T-AGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAA
** * * * * * * *
5801 ATTCATTTTAAAATCAATTATGAGCTTACAAAACCATTTAACGCGACTAACAAGGCTCTTGAAGG
1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAG
* * * * * * **
5866 AATCGGTGACTATGAA-GAGACTTTTCTTGCGAATGAATGTCATTTTCTTCTTGTTTCTCGAGGT
66 AATGGGTGACTATAAATG-GACTTTTCTTACCAATGAATGCCTTTTTCTTCACGTTTCTCGAGGT
* * *
5930 AGATATTCAATTATAATATGTTTTAACC-AAAATGTAAAAAA
130 AGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAA
**********
5971 ATTCAACTTAAAATCAATTATGAGATTATANNNNNNNNNNAAGCGAGTAATAAGGCTTTTGAAAG
1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAG
* * * * *** ** * * * *
6036 AATGAGAGACTATAAATGGACTTTTCTT-CTGAATAAATATTTTTTTCAACATGTTTCCCAAGGC
66 AATGGGTGACTATAAATGGACTTTTCTTAC-CAATGAATGCCTTTTTCTTCACGTTTCTCGAGGT
* * *
6100 A-ACCATTCAATTGTAGTCTGTTTT-ACTGAAAAATGT-AAAAC
130 AGA-CATTCAATTATAGTCTGTTTTAAC-CAAAAATGTAAAAAA
*
6141 ATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTA
1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA
6181 NNNNNNNNNN
Statistics
Matches: 1072, Mismatches: 294, Indels: 80
0.74 0.20 0.06
Matches are distributed among these distances:
169 4 0.00
170 431 0.40
171 378 0.35
172 254 0.24
173 5 0.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.34
Consensus pattern (171 bp):
ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAG
AATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCACGTTTCTCGAGGTA
GACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAA
Found at i:5727 original size:513 final size:513
Alignment explanation
Indices: 4603--5758 Score: 1211
Period size: 513 Copynumber: 2.3 Consensus size: 513
4593 CTCGAGGTAC
* * * * * *
4603 ACATTCAA-TTATAATCAATTATGAGATTACAAAATCATTTAAGGTGACTAATAAGGCTTTTGAA
1 ACATTCAACTTAAAATCAATTCTGAGATTATAAAACCATTTAAAGTGACTAATAAGGCTTTTAAA
* ** * *
4667 GAAATAAGTAATTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCTCGTTTCTTGAGG
66 GGAATGGGTAATTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCTAGTTTCTCGAGG
* * * * * *
4732 TACACATTAAATTATAAACTGTTTTGACAATAAATGTAAAACATTTCAACTAAAAATCAATTATG
131 TACACATTAAATTATAAACTGTCTTAACAATAAATGTAAAAAAATACAACTAAAAATCAAATATG
* *
4797 ACATTATAAAACTATTTAAAGCAAGTAATAAGGCTTCTAAAGGAATGAAAGACTATAAATGAACT
196 ACATTATAAAACCATTTAAAGCAAGTAATAAAGCTTCTAAAGGAATGAAAGACTATAAATGAACT
* * * *
4862 TTTCTTCCAAATAAATATTTTTTTCAACATATTTCCTAAGATAAGTATTCAATTATAGTCTGTTT
261 TTTCTTCCAAATAAATATCTTTTTCAACACATTTCCTAAGACAAGCATTCAATTATAGTCTGTTT
* *
4927 CAATAGAAAATATAAAAAATTCAACTTAAAATCAATTATGACATTATAAAATCATTTAAAATCAG
326 CAACAGAAAATATAAAAAATTCAACTTAAAATCAATTATGACAGTATAAAATCATTTAAAATCAG
* * *
4992 TAATAAGGACTTTGAAGGAATGAGTGACTATAAATTGACTTTTCTTGTCAATGAATGATTTTTTC
391 TAATAAGGACTTTGAACGAATGAGTGACTATAAATGGACTTTTCTTATCAATGAATGATTTTTTC
* * *
5057 TTCACGTTTCTCAAGGTAGACATTCAACTATAATCTATTTTAACCAAAAATGCAAAAA
456 TTCACGTTTCTCAAGGCAGACATTCAACTATAATCTATATTAACAAAAAATGCAAAAA
* * *********
5115 ACATTCAACTTAAAATCAATTCTGAGATTATAAAACCATTTAAAGTGAGTAATGAGNNNNNNNNN
1 ACATTCAACTTAAAATCAATTCTGAGATTATAAAACCATTTAAAGTGACTAATAAGGCTTTTAAA
* *
5180 NGAATGGGTGATTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCTAGTTTCTCGAGG
66 GGAATGGGTAATTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCTAGTTTCTCGAGG
* * ** ** *
5245 TAGACATTCAATTATAGTCTAG-CTTAACTAA-AAATGTAAAAAAATACAACTTGAAGTCAAATA
131 TACACATTAAATTATAAACT-GTCTTAAC-AATAAATGTAAAAAAATACAACTAAAAATCAAATA
* * * * *** * * *
5308 TGAGATTATAAAACCATTTACAGCGAGTAATAAAGCTTTTGAAA-GAATGGGTGAGTGTAAATGG
194 TGACATTATAAAACCATTTAAAGCAAGTAATAAAGCTTCT-AAAGGAATGAAAGACTATAAATGA
* * * * * * * *
5372 ACTTTTCTTGCC-AATGAATGTCTTTTTCATCACGTTTTCTAGGGCAAGCATTCAATTATAGTTT
258 ACTTTTCTT-CCAAATAAATATCTTTTTCAACACATTTCCTAAGACAAGCATTCAATTATAGTCT
* * * * *
5436 GTTTTAACCA-AAAA-AGTGAAAAATTCAAGC-TAAAATCAATTATGAGAGTATAAATTTATTTA
322 GTTTCAA-CAGAAAATA-TAAAAAATTCAA-CTTAAAATCAATTATGACAGTATAAAATCATTTA
* * * *
5498 AAGTGAGTAATAAGGATTTTGAACGAATGGGTGACTATAAATGGACTTTTCTTATCAATGAAT-A
384 AAATCAGTAATAAGGACTTTGAACGAATGAGTGACTATAAATGGACTTTTCTTATCAATGAATGA
** * * *
5562 CCTTTTTT-TTCACGTTTCTTGAGGCAGACATTCAACTATAGTCTGTATTAACAAAAAATGTAAA
449 --TTTTTTCTTCACGTTTCTCAAGGCAGACATTCAACTATAATCTATATTAACAAAAAATGCAAA
*
5626 AC
512 AA
* ********** * *
5628 A-ATTCAGCTTAAAATCAATTNNNNNNNNNNAAAACTATTTAAAGCGACTAATAAGGCTTTTAAA
1 ACATTCAACTTAAAATCAATTCTGAGATTATAAAACCATTTAAAGTGACTAATAAGGCTTTTAAA
* * * * *
5692 GGAATGGGTAACTATAAATGGACCTTTCTTTACCAATGAATGCATTTTTATTC-ACGTTTCTCAA
66 GGAATGGGTAATTATAAATGGACTTTTC-TTACCAATGAATGCCTTTTTCTTCTA-GTTTCTCGA
5756 GGT
129 GGT
5759 CAGCACTCAA
Statistics
Matches: 518, Mismatches: 114, Indels: 23
0.79 0.17 0.04
Matches are distributed among these distances:
512 74 0.14
513 428 0.83
514 16 0.03
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.34
Consensus pattern (513 bp):
ACATTCAACTTAAAATCAATTCTGAGATTATAAAACCATTTAAAGTGACTAATAAGGCTTTTAAA
GGAATGGGTAATTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCTAGTTTCTCGAGG
TACACATTAAATTATAAACTGTCTTAACAATAAATGTAAAAAAATACAACTAAAAATCAAATATG
ACATTATAAAACCATTTAAAGCAAGTAATAAAGCTTCTAAAGGAATGAAAGACTATAAATGAACT
TTTCTTCCAAATAAATATCTTTTTCAACACATTTCCTAAGACAAGCATTCAATTATAGTCTGTTT
CAACAGAAAATATAAAAAATTCAACTTAAAATCAATTATGACAGTATAAAATCATTTAAAATCAG
TAATAAGGACTTTGAACGAATGAGTGACTATAAATGGACTTTTCTTATCAATGAATGATTTTTTC
TTCACGTTTCTCAAGGCAGACATTCAACTATAATCTATATTAACAAAAAATGCAAAAA
Found at i:8104 original size:170 final size:170
Alignment explanation
Indices: 7752--8265 Score: 430
Period size: 170 Copynumber: 3.0 Consensus size: 170
7742 NNNNNNNNNN
* * * *
7752 AAAATCATTTAAAGCGCGTAATAAGGCTTTTGAAAGAATAAGTGACTATAAATGAACTTTTCTTG
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGTGACTATAAATGGACTTTTCTTG
* * * * * * *
7817 CCCATGAATAATTTTTTCTTAACGTTTCTCAAAGTAGACTTTTAATTATAGTTTATTTAACAAAA
66 CCAATAAATAATATTTTCTTAACATTTCTCAAAGTAGACTTTGAATTATAGGTAATTTAACAAAA
**********
7882 AATGTAAAAAAATTCAACTTAAAATCAATTNNNNNNNNNN
131 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATGAT
* * * * *
7922 AAAACCATTTAAAGCGGGTAATAATGCTTTTGAAAGAATGGGCGACTATAAATGGACTTTT-TTT
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGTGACTATAAATGGACTTTTCTTG
* * * *
7986 TCAATAAATAGTATTTT-TTACACATTTCTCAAGGTAGA-TATTGAATTATAGCGTAATTTAACT
66 CCAATAAATAATATTTTCTTA-ACATTTCTCAAAGTAGACT-TTGAATTATAG-GTAATTTAACA
* *
8049 AAAAATGTATAAAAATTCAACTTATAATCAATTATGAGATGAT
128 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATGAT
* * * * * *
8092 AAAACTATTTAAAACGAGTAATAAGGTTTTTGAAGGAATAGGTGTCAATAAATGGACTTTTCTTG
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGTGACTATAAATGGACTTTTCTTG
* * ** * * * ** * *
8157 CTAATGAATGCCT-TTTTCTTCACATTTCTCAACA-TAGACATTCAATTATAATCTATTTTAGCC
66 CCAATAAAT-AATATTTTCTTAACATTTCTCAA-AGTAGACTTTGAATTAT-AGGTAATTTA-AC
* * *
8220 AAAAAA-GTAAAACAAAATT-AACATAAAATCAATTTTGAGATTAT
127 AAAAAATGT-AAA-AAAATTCAACTTAAAATCAATTATGAGATGAT
8264 AA
1 AA
8266 GACNNNNNNN
Statistics
Matches: 271, Mismatches: 61, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
168 4 0.01
169 39 0.14
170 144 0.53
171 43 0.16
172 35 0.13
173 6 0.02
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.35
Consensus pattern (170 bp):
AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGTGACTATAAATGGACTTTTCTTG
CCAATAAATAATATTTTCTTAACATTTCTCAAAGTAGACTTTGAATTATAGGTAATTTAACAAAA
AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATGAT
Found at i:10842 original size:169 final size:170
Alignment explanation
Indices: 10542--10856 Score: 418
Period size: 169 Copynumber: 1.9 Consensus size: 170
10532 NNNNNNNCAA
* * * * *
10542 TTATAGTTTGTTTTAACTAAAAAAATAAGAAATTTAAATTAAAATCAATTATGAGATTATAAAAC
1 TTATAGTCTGTTTTAACGAAAAAAATAAAAAATTCAAATTAAAATAAATTATGAGATTATAAAAC
* * * * *
10607 CGGTTAAGGCGAGTAATAAAGCTTTTGAAAGAATGAGTGACTATAAATGGATTTTTCTTGCCCAT
66 CGGTTAAAGCGAGTAATAAAGCTTTTGAAAGAATAAGTGACTATAAATGAACTTTTCTTACCCAT
10672 GAATGCTTTTTTCTTCTTGTTTCTTGGGGTAGACTTTCGT
131 GAATGCTTTTTTCTTCTTGTTTCTTGGGGTAGACTTTCGT
** *
10712 TTATAGTCTGTTTTAACGAAAAATGTAAAAAATTCAACTT-AAATAAATTAT-AGGATTATAAAA
1 TTATAGTCTGTTTTAACGAAAAAAATAAAAAATTCAAATTAAAATAAATTATGA-GATTATAAAA
* * * * * * * *
10775 TCGTTTAAAGTGGGTGATAAGGTTTTTGCAAGAATAAGTGACTATAAATGAACTTTTCTTACCCA
65 CCGGTTAAAGCGAGTAATAAAGCTTTTGAAAGAATAAGTGACTATAAATGAACTTTTCTTACCCA
10840 TGAATGCTTTTTTCTTC
130 TGAATGCTTTTTTCTTC
10857 ATATTTCTCA
Statistics
Matches: 123, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
168 1 0.01
169 89 0.72
170 33 0.27
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (170 bp):
TTATAGTCTGTTTTAACGAAAAAAATAAAAAATTCAAATTAAAATAAATTATGAGATTATAAAAC
CGGTTAAAGCGAGTAATAAAGCTTTTGAAAGAATAAGTGACTATAAATGAACTTTTCTTACCCAT
GAATGCTTTTTTCTTCTTGTTTCTTGGGGTAGACTTTCGT
Found at i:11730 original size:170 final size:171
Alignment explanation
Indices: 11281--13383 Score: 1400
Period size: 171 Copynumber: 12.3 Consensus size: 171
11271 NNNNNNNNNN
* * * * *
11281 ACTTAAAATCAATTTTGAGATTGTAAAACTATTTAAAGTGAGTAATAAGGCTTTT-ACATGAATG
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGA-AAGAATG
* * * * * * * *
11345 GGTGA-TAATAAATTGACTTTTC-TTGCTAATGAATGTATTTTTCTTTATGTTTCTCAATGTAGA
65 AGTGACT-ATAAATGGACTTTTCTTTACTAATGAATATCTTTTTCTTCATGTTTCTCGAGGTAGA
* * * * *
11408 CATTCAGTTATACTATGTTTTAACAAAAAAAG-AAAAACAATTGA
129 CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAA-AATT-A
* * * * * * * *
11452 ACTTAAAATCAATTTTGAGATTATAAAACTATTTACATCAAGTAATAATGCTTTTGAAGGAATGG
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA
* * * ** * * * * *
11517 GAGATTATAAATGAAAATTTC-TTACCAATGAATGTCTTTTTCTTTAGGTTTCTCGACGTAGACA
66 GTGACTATAAATGGACTTTTCTTTACTAATGAATATCTTTTTCTTCATGTTTCTCGAGGTAGACA
*
11581 TTCAATTATAGTCTGTTTTAACCAAAAATGTAAAACAATTA
131 TTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTA
* * *
11622 ACTTAAAATCAATTATAAG-TATATAAAATCATTTACAA-CGAGTGATAAGGCTTTTGAAAGAAT
1 ACTTAAAATCAATTATGAGAT-TATAAAACCATTTA-AAGCGAGTAATAAGGCTTTTGAAAGAAT
* * * * * * ** *
11685 GAGTGAGTGTAAATGAACTTTTCTTTTC-AATGAATATCATTTTCTTCATGTTTTTCGAGACAGG
64 GAGTGACTATAAATGGACTTTTCTTTACTAATGAATATCTTTTTCTTCATGTTTCTCGAGGTAGA
* *
11749 CATTCAATTATAGTCTGTTTTAACTAAAAATATAAAAAAATTA
129 CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTA
********** * * *
11792 ACTNNNNNNNNNNTATGAGATTATAAAACCATTTAAAGCTAGTAATAAGGATTTTGAAGGAATGA
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA
* * *
11857 GTGACTATAAATGGACTTATC-TTGCCAATGAATATCTTTTTCTTCATGTTTCTCGAGGTAGACA
66 GTGACTATAAATGGACTTTTCTTTACTAATGAATATCTTTTTCTTCATGTTTCTCGAGGTAGACA
** * ** * * *
11921 TTCAACAATACTCTGTTTTAATGAAAAATATAAAACAACTCA
131 TTCAATTATAGTCTGTTTTAACCAAAAATGTAAAA-AAATTA
********** * * * * *
11963 ACTTAAAATCAATNNNNNNNNNNTAAAACTATTTAAAACGAGTAATTAGGCTTTTGAAGGAATGG
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA
* ** * ** *
12028 GTGATTGCAAATGGACTTTTC-TTACTAATAAATGCCTTTTTCTTCATGTTTCTGGAGGTAGACA
66 GTGACTATAAATGGACTTTTCTTTACTAATGAATATCTTTTTCTTCATGTTTCTCGAGGTAGACA
** * ** *
12092 TTCAAAAATAGTCTATTTTAATGAAAAATGTAAAAATATTTA
131 TTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAA-AATTA
* * *
12134 ACTTAAAATCAAGTATGAGATTATACAACCATTTAAAGCGAATAATAAGGCTTTTGAAAGAATGA
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA
* * * * * * * * * *
12199 GTGACTATAAATAGACTTTTTTTTGCAAATAAATGTCTTTCTCTTCAGGTTTCTTGAGCTAGACA
66 GTGACTATAAATGGACTTTTCTTTACTAATGAATATCTTTTTCTTCATGTTTCTCGAGGTAGACA
* ** *
12264 TTTAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATATA
131 TTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAAT-TA
* * ********** * *
12306 ACTTAAAATTAACTATGAGATTATAANNNNNNNNNNAGTGAGTAATAAGGCTTTCGAAAGAATGA
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA
** * * * * * * *
12371 GTGGGTATAAATGGA-TTGTTC-TTGCCAATGAATGA-CTTTTTCTTCACGTTT-TTGGGGGAGG
66 GTGACTATAAATGGACTT-TTCTTTACTAATGAAT-ATCTTTTTCTTCATGTTTCTCGAGGTAGA
* * *
12432 CATTCAATTATAGTCCGTTTTAACCACAAATGTAAATAAATTCA
129 CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATT-A
********** * * * *
12476 ACTTAAAATCAATTATGANNNNNNNNNNCCATTTAAAGCGAGCAATAAAGCTTTTGAAGGAATGG
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA
* * ** * *
12541 GTGACAATAAATAGA-TATTTC-TTACTAATGAATGCCTTTCTCTTCATGTTTCTCGATGTAGAC
66 GTGACTATAAATGGACT-TTTCTTTACTAATGAATATCTTTTTCTTCATGTTTCTCGAGGTAGAC
*
12604 ATTCAATTATAATCTGTTTTAACCAAACAA-GTAAAACAAATTGA
130 ATTCAATTATAGTCTGTTTTAACCAAA-AATGTAAAA-AAATT-A
* * * *
12648 ACTTAAAATCAATTTTGGGATTATAAAATCATTTAAAGCAAGTAATAAGGCTTTTGAAAGAATG-
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA
* * * * *
12712 GATGA-TAATAAATGGACTTTTC-TTACTAATGAAT-GCATTTTTCTTTATATTTCTCAATGTAG
66 G-TGACT-ATAAATGGACTTTTCTTTACTAATGAATATC-TTTTTCTTCATGTTTCTCGAGGTAG
* * * * * * *
12774 GCATTCAGTTATAATATGTTTTAACTAAAAAAGGAAAAAAAATTGA
128 ACATTCAATTATAGTCTGTTTTAAC-CAAAAATGTAAAAAAATT-A
********** * * * ** *
12820 ACTTAAAATCAATNNNNNNNNNNTAAAACCTTTTAAAGCAAATAATAAGAATTTTGAAGGAATG-
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA
* * * * * * * * * *
12884 GATGACTATAAATGGATTTTTC-TTGCCAATGAAT-GCCTTTTCTTCACGTTTCTTGAGATGGGC
66 G-TGACTATAAATGGACTTTTCTTTACTAATGAATATCTTTTTCTTCATGTTTCTCGAGGTAGAC
** * * *
12947 ATTCAACAATAGTCTATTTTAACCACAAATGTAAAACAATTCA
130 ATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATT-A
********** * * * * *
12990 ACTTAAANNNNNNNNNNAGATTATAAAACTATTTAAAGCAAGCAATAATGTTTTTGAAAGAATGA
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA
* * * * *
13055 GTGATTATAAATGAAATTTTC-TTGCTAATGAATACCTTTTTCTTC-TAGTTTCTCGAGGTAGAC
66 GTGACTATAAATGGACTTTTCTTTACTAATGAATATCTTTTTCTTCAT-GTTTCTCGAGGTAGAC
* ********** *
13118 ATTTAATNNNNNNNNNNTTTAACCAAAAATATAAAAAAATATA
130 ATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAAT-TA
* * * * * * * *
13161 AGTTAAAATCATTTATAAGATTATAAAAGCTTTTACAGCGAGTAATAAAGCTTTTGAAAGAATGG
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA
* *
13226 GTGACTGTAAATGGACTTTTC-TTACTAATGAATATCTTTTTCTGT-ATGTTTCTTGAGGTAGAC
66 GTGACTATAAATGGACTTTTCTTTACTAATGAATATCTTTTTCT-TCATGTTTCTCGAGGTAGAC
* * * * *
13289 ATTCAATTATGGTATGTTTTAACAAAAAATATAAAAAAATACA
130 ATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAAT-TA
* *
13332 ACTTAAAATTAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCT
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
13384 NNNNNNNNNN
Statistics
Matches: 1492, Mismatches: 406, Indels: 68
0.76 0.21 0.03
Matches are distributed among these distances:
169 7 0.00
170 467 0.31
171 655 0.44
172 353 0.24
173 10 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.35
Consensus pattern (171 bp):
ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA
GTGACTATAAATGGACTTTTCTTTACTAATGAATATCTTTTTCTTCATGTTTCTCGAGGTAGACA
TTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTA
Found at i:12741 original size:21 final size:21
Alignment explanation
Indices: 12717--12756 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12707 GAATGGATGA
*
12717 TAATAAATGGACTTTTCTTAC
1 TAATAAATGCACTTTTCTTAC
* *
12738 TAATGAATGCATTTTTCTT
1 TAATAAATGCACTTTTCTT
12757 TATATTTCTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (21 bp):
TAATAAATGCACTTTTCTTAC
Found at i:14792 original size:172 final size:170
Alignment explanation
Indices: 14495--14838 Score: 399
Period size: 172 Copynumber: 2.0 Consensus size: 170
14485 NNNNNNNNNN
* * * *
14495 CAATTATGAGATTACAAAACCATTTAAAGCGAATAATAAGGCTTTTGAAGGAATCAGTGATAATA
1 CAATTATGAGATGACAAAACCATTTAAAGCGAATAATAAAGCTTTTGAAAGAATCAATGATAATA
* *
14560 AATAGACTTTTCTTGCCAATGAATACTCTTTTCTTCACGTTTCTCATCGTAAACATTCAATTATA
66 AATAGACTTTTCTTGCCAAAGAATACTCTTTTCTTCACGTTTCT-ATCGGAAACATTCAATTATA
14625 ATCTGTTTTAACCAAATAACAAAAAAAAATTGAACTTAAAAT
130 ATCTGTTTTAACCAAA-AACAAAAAAAAATTGAACTTAAAAT
* * * *
14667 CAATTTTGAGATGATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAATTAATGA-ATAT
1 CAATTATGAGATGACAAAACCATTTAAAGCGAATAATAAAGCTTTTGAAAGAATCAATGATA-AT
* * * * *
14731 AAATGGACTTTTCTTGCTAAAGAATGC-CTTTTTCTTCATGTTT-T-TCGAGACAAGTATTCAAT
65 AAATAGACTTTTCTTGCCAAAGAATACTC-TTTTCTTCACGTTTCTATCG-GA-AA-CATTCAAT
* * *** * *
14793 TATAGTTTGTTTTAACCAAAAATGTAAACAAATTTAACTTAAAAT
126 TATAATCTGTTTTAACCAAAAACAAAAAAAAATTGAACTTAAAAT
14838 C
1 C
14839 NNNNNNNNNN
Statistics
Matches: 145, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
169 3 0.02
170 1 0.01
171 26 0.18
172 115 0.79
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (170 bp):
CAATTATGAGATGACAAAACCATTTAAAGCGAATAATAAAGCTTTTGAAAGAATCAATGATAATA
AATAGACTTTTCTTGCCAAAGAATACTCTTTTCTTCACGTTTCTATCGGAAACATTCAATTATAA
TCTGTTTTAACCAAAAACAAAAAAAAATTGAACTTAAAAT
Found at i:16528 original size:169 final size:166
Alignment explanation
Indices: 16173--17095 Score: 614
Period size: 170 Copynumber: 5.5 Consensus size: 166
16163 NNNNNNNNNN
* *
16173 TAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGACTGCTTTTTTC
1 TAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGC-CTTTTC
* * * *
16238 TTCATGTTTCTCGAGGTAGGCATTCAACAGTAGTCTGTTTTAATCAAAAATATAAAAAAATTAAC
65 TTCATGTTTCTC-AGGTA-GCATTCAACAATAGTCTGTTTTAA-CCAAAATGTAAAAAAATCAAC
**********
16303 NNNNNNNNNNTTATGAGATTATAAAACCATTTAAAGTAAG
127 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAAG
* * * *
16343 GAATAAGGCTTTTGAAA-ATATGAGTGACTATAAATAGA-TTTTTTTGTCAATGAATGCCTTTTC
1 TAATAAGGCTTTTGAAAGA-ATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTC
**
16406 TTCACATTTCTCAAGGTACGCATTCAACAATAGTCTGTTTTAACCGAAAATGTAAAAACAATCAA
65 TTCATGTTTCTC-AGGTA-GCATTCAACAATAGTCTGTTTTAACC-AAAATGTAAAAA-AATCAA
** * *
16471 CTTAAAATCAATTACAAGATTATAAAACCATTGAAAGTGAG
126 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAAG
* *
16512 TAATAAGGCTTTTGAAAGAATGAGTGAGTATAAATGGACTTTTCTTGCCAAAGAATGCCTTTTGC
1 TAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTT-C
* * * ** * * * *
16577 TTTATGTTTCTCGGTGTAGACATTAAATTATAATCTGTTTTCACCAAACAAGTAAAAAAAATTGA
65 TTCATGTTTCTCAG-GTAG-CATTCAACAATAGTCTGTTTTAACCAAA-ATGT-AAAAAAA-TCA
* * *
16642 ATTTAAAATCAAATT-TGAGATAATAAAACCATTTAAAGCAAG
125 ACTTAAAATC-AATTATGAGATTATAAAACCATTTAAAGTAAG
* *
16684 TAATAAGG-TTGTTGAAAGAATGGGTGACTATAATTGGA-TTTTCTTGCCAATGAATGCCTTTTC
1 TAATAAGGCTT-TTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTC
* * * *
16747 TTCA------T---GT----TTCAACAATAGTCTATTTTAACTAAAA-AT-AAAAATTCAACTTA
65 TTCATGTTTCTCAGGTAGCATTCAACAATAGTCTGTTTTAACCAAAATGTAAAAAAATCAACTTA
*********** *
16797 AAATCAATTATGAGNNNNNNNNNNGATTTAAAGTGAG
130 AAATCAATTATGAGATTATAAAACCATTTAAAGTAAG
* * * *
16834 CAATAAGGCTTTTGAATA-AATGGGTGACTATAAATGGACTTTTCTTGCCAATGACT-CTTTTTC
1 TAATAAGGCTTTTGAA-AGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTC
* * ** * * * * * *
16897 TTCACGTTTCTCAAGGTAGACATTTAATTATATTCTATTTTGATCATAAAAT-AAAAATAAATTG
65 TTCATGTTTCTC-AGGTAG-CATTCAACAATAGTCTGTTTT-AAC-CAAAATGTAAAA-AAA-TC
* * * **
16961 AACTTAAAATTAATTTTGAGATTATAACACCATTTAAAGCGAG
124 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAAG
* ********** * * * * *
17004 AAANNNNNNNNNNGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCTAATTAATGTCTTTTCT
1 TAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTCT
17069 TCATGTTTCTCGAGGTAGACATTCAAC
66 TCATGTTTCTC-AGGTAG-CATTCAAC
17096 TGATAACTCT
Statistics
Matches: 585, Mismatches: 128, Indels: 79
0.74 0.16 0.10
Matches are distributed among these distances:
149 4 0.01
150 66 0.11
151 24 0.04
153 1 0.00
154 1 0.00
155 19 0.03
156 1 0.00
160 4 0.01
164 1 0.00
165 15 0.03
166 2 0.00
167 6 0.01
168 57 0.10
169 85 0.15
170 134 0.23
171 92 0.16
172 69 0.12
173 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.34
Consensus pattern (166 bp):
TAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTCT
TCATGTTTCTCAGGTAGCATTCAACAATAGTCTGTTTTAACCAAAATGTAAAAAAATCAACTTAA
AATCAATTATGAGATTATAAAACCATTTAAAGTAAG
Found at i:19987 original size:171 final size:170
Alignment explanation
Indices: 19015--19999 Score: 757
Period size: 170 Copynumber: 5.8 Consensus size: 170
19005 NNNNNNNNNN
* ** * * *
19015 TTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTAGAGGTAGACATTCAATCATGGTCTGTT
1 TTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTCGAGGTAGACATTCAATTATAGTCTGTT
* * * * * * *
19080 TTATCAAAAATAT-AAAAAAATTCAACATAAAATTAATTATGAGATTATAAAACCGTTCAAAGCG
66 TTAACAAAAA-ATGTAAAAAATTCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCG
* * * * *
19144 AGTAAAAAGGATTTTGAAGGAATGGGTGGCTATAAATGGAC
130 AGTAATAAGGACTTTGAAAGAATAGGTGACTATAAATGGAC
* * * * *
19185 TTTTCTTGTCTATG-ATGCCTTTTTCTTCACATTTCTCAAGGTAGACATTCAACTATAATCTGTT
1 TTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTCGAGGTAGACATTCAATTATAGTCTGTT
* ** *
19249 TGAACCAAAAATATAAAAAAAAATTCAACTTAAAATCAATTATGAGAA-TATAAAACCATTCAAA
66 TTAA-CAAAAA-AT-GTAAAAAATTCAACTTAAAATCAATTATGA-AATTATAAAACCATTTAAA
* * * * *
19313 GTGAGTAATAA-GACTGTTGAAAAAAT-GAGTGGCTATAAAAGAAC
127 GCGAGTAATAAGGACT-TTGAAAGAATAG-GTGACTATAAATGGAC
* * ** * ** * *
19357 TTTTCTTACCAATGAATACCTTTTTCTTCATGTTTTTTTAGGTGGATATTCAATTATAGTCTGTT
1 TTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTCGAGGTAGACATTCAATTATAGTCTGTT
* * **********
19422 TTAACTAAAAATGTAAAAAATTCAGCTTAAAATCAATTNNNNNNNNNNAAAACCATTTAAAGCGA
66 TTAACAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCGA
* *
19487 GTAATAAGG-CTCTTGAAAGAATGGGTGACTGTAAATGGAC
131 GTAATAAGGACT-TTGAAAGAATAGGTGACTATAAATGGAC
** * ** * *
19527 TTTTCTTGCCAATGAATATCTTTTCCTTCATGTTTCTCGAGATAG-CATTCAATTATTGTCTGTT
1 TTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTCGAGGTAGACATTCAATTATAGTCTGTT
* * * ********** *
19591 TTAACCAAAAAGGTAAAATAATTTAACTTAAAATCNNNNNNNNNNTTATAAAATCATTTAAAGCG
66 TTAACAAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCG
* * *
19656 CGTAATAA-GACTTTTGAAAGAATAAGTGACTGTAAGA-GGAC
130 AGTAATAAGGAC-TTTGAAAGAATAGGTGACTATAA-ATGGAC
* * * * * * * * *
19697 TTTTCTTGCCCATGAATGCTTTTTTTTTCACGTTTCCCAAGGTAAACATTCAGTTATAGTTTGTT
1 TTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTCGAGGTAGACATTCAATTATAGTCTGTT
********** * * *
19762 TTAACAAAAAATGTAAACAAATTCAACNNNNNNNNNNTTATGAGATTGTAAAACCATTTAAAGCA
66 TTAACAAAAAATGTAAA-AAATTCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCG
* *
19827 AGTAATAAGGTCTTTGAAAGAATAGGTGACAATAAATGGAC
130 AGTAATAAGGACTTTGAAAGAATAGGTGACTATAAATGGAC
* * * * * *
19868 TTTTTTTGTCAATGAATGCCATTTTCTTCACAATTT-TTGAGGTCGACATTCAATTATAGTCTAT
1 TTTTCTTGCCAATGAATGCCTTTTTCTTCAC-ATTTCTCGAGGTAGACATTCAATTATAGTCTGT
** * *
19932 TTTAAGGAAAAATGCAAACAAATTCAACTTAAAATCAATTAGGAAATTATAAAACCATTTAAAGC
65 TTTAACAAAAAATGTAAA-AAATTCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGC
19997 GAG
129 GAG
20000 CNNNNNNNNN
Statistics
Matches: 638, Mismatches: 158, Indels: 37
0.77 0.19 0.04
Matches are distributed among these distances:
169 77 0.12
170 228 0.36
171 194 0.30
172 95 0.15
173 44 0.07
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.34
Consensus pattern (170 bp):
TTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTCGAGGTAGACATTCAATTATAGTCTGTT
TTAACAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCGA
GTAATAAGGACTTTGAAAGAATAGGTGACTATAAATGGAC
Found at i:20575 original size:170 final size:170
Alignment explanation
Indices: 20324--20923 Score: 506
Period size: 172 Copynumber: 3.5 Consensus size: 170
20314 NNNNNNNNNN
* ** * *
20324 CTTACTAATGAATGCCTTTTTCTTCCGGTTTCTCGAGGTAGACATTCAACTATAATATGTTTTAA
1 CTTACTAATGAATGCCTTTTTCTTCAGGTTTCTTAAGGTAGACATTCAACTATAGTCTG-TTTAA
** * ********** *
20389 CCAAAAATGTAAAAAAATTTAACTTNNNNNNNNNNATGAGATTATAAAACTATTTAAAGCGAGTA
65 CCAAAAATCAAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCATTTAAAGCGAGTA
* *
20454 A-TAGGCTTTTGAAAGAATGAAAAACTATAAATGAACTTTT
130 ATTAGGCATTTGAAAAAATGAAAAACTATAAATGAACTTTT
*
20494 CTTACTAATGAATGCCTTTTTCTTCAGGTTTCTTAAGGTAGACATTCAACAATAGTCTGTTTAAC
1 CTTACTAATGAATGCCTTTTTCTTCAGGTTTCTTAAGGTAGACATTCAACTATAGTCTGTTTAAC
* *
20559 CAAAAATACAAAAAAAATTCGATTTAAAATCAGTTATGAGATTATAAAACCATTTAAAGCGAGTA
66 CAAAAAT-CAAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCATTTAAAGCGAGTA
**** *
20624 ATTAGGCATTTGAAAAAATGGGTTACTATAAATGGACTTTT
130 ATTAGGCATTTGAAAAAATGAAAAACTATAAATGAACTTTT
* * * * * *
20665 CTTGCCAATGAATGTCTTTTTCTTCAGGTTT-TTCAATGTACACATTCAATTATAGTCTGTTTTA
1 CTTACTAATGAATGCCTTTTTCTTCAGGTTTCTT-AAGGTAGACATTCAACTATAGTCTG-TTTA
** * * ** * * * *
20729 ATAAAAAATGTAAAAAAAATACAACTTAAAATCAACTATGATATTATAAAATCATTTACAGCAAG
64 ACCAAAAAT-CAAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCATTTAAAGCGAG
* * * *** * * *
20794 TAATAAGGCTTTTGAAACAATGAGTGAGTATAAATGGACATTT
128 TAATTAGGCATTTGAAAAAATGAAAAACTATAAATGAACTTTT
* * * * * * * * * * *
20837 CTTGCCAATGAATACATTTTTCGTCACGTTT-TCAGAGGCAGGCATTCAATTATAGTTTGTTTTA
1 CTTACTAATGAATGCCTTTTTCTTCAGGTTTCTTA-AGGTAGACATTCAACTATAGTCTG-TTTA
**
20901 ACCAAAAAT-GTAAAAAATTCAAC
64 ACCAAAAATCAAAAAAAATTCAAC
20924 NNNNNNNNNN
Statistics
Matches: 353, Mismatches: 72, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
169 13 0.04
170 108 0.31
171 82 0.23
172 150 0.42
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.34
Consensus pattern (170 bp):
CTTACTAATGAATGCCTTTTTCTTCAGGTTTCTTAAGGTAGACATTCAACTATAGTCTGTTTAAC
CAAAAATCAAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCATTTAAAGCGAGTAA
TTAGGCATTTGAAAAAATGAAAAACTATAAATGAACTTTT
Found at i:20712 original size:171 final size:172
Alignment explanation
Indices: 20424--20867 Score: 525
Period size: 172 Copynumber: 2.6 Consensus size: 172
20414 NNNNNNNNNN
* * ** *
20424 ATGAGATTATAAAACTATTTAAAGCGAGTAA-TAGGCTTTTGAAAGAATGAAAAACTATAAATGA
1 ATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAAAATGAGTAACTATAAATGG
* * *
20488 ACTTTTCTTACTAATGAATGCCTTTTTCTTCAGGTTTCTTAAGGTAGACATTCAACAATAGTCTG
66 ACTTTTCTTGCCAATGAATGCCTTTTTCTTCAGGTTTCTTAAGGTACACATTCAACAATAGTCTG
* * * * **
20553 -TTTAACCAAAAATACAAAAAAAATTCGATTTAAAATCAGTT
131 TTTTAACAAAAAATACAAAAAAAATACAACTTAAAATCAACT
* * *
20594 ATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCATTTGAAAAAATGGGTTACTATAAATGG
1 ATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAAAATGAGTAACTATAAATGG
* * **
20659 ACTTTTCTTGCCAATGAATGTCTTTTTCTTCAGGTTT-TTCAATGTACACATTCAATTATAGTCT
66 ACTTTTCTTGCCAATGAATGCCTTTTTCTTCAGGTTTCTT-AAGGTACACATTCAACAATAGTCT
* **
20723 GTTTTAATAAAAAATGTAAAAAAAATACAACTTAAAATCAACT
130 GTTTTAACAAAAAATACAAAAAAAATACAACTTAAAATCAACT
* * * * * * * *
20766 ATGATATTATAAAATCATTTACAGCAAGTAATAAGGCTTTTGAAACAATGAGTGAGTATAAATGG
1 ATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAAAATGAGTAACTATAAATGG
* * * * *
20831 ACATTTCTTGCCAATGAATACATTTTTCGTCACGTTT
66 ACTTTTCTTGCCAATGAATGCCTTTTTCTTCAGGTTT
20868 TCAGAGGCAG
Statistics
Matches: 231, Mismatches: 40, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
170 32 0.14
171 81 0.35
172 118 0.51
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (172 bp):
ATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAAAATGAGTAACTATAAATGG
ACTTTTCTTGCCAATGAATGCCTTTTTCTTCAGGTTTCTTAAGGTACACATTCAACAATAGTCTG
TTTTAACAAAAAATACAAAAAAAATACAACTTAAAATCAACT
Found at i:20840 original size:172 final size:170
Alignment explanation
Indices: 20101--20917 Score: 585
Period size: 170 Copynumber: 4.8 Consensus size: 170
20091 NNNNNNNNNN
* * * *
20101 TTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAG-AGACTATAAATGAACTTTTCGT-CCGAATA
1 TTAAAGCGAGTAAT-AGGCTTTTGAAAAAATGAGTA-ACTATAAATGGACTTTTCTTGCC-AATG
* ** * ** * * * ** *
20164 AAT-ATTTTTTGCAACATGTTTCCCTAGG-AAACCATTCAATTGTAGTCTGTTTTAATGACAAAT
63 AATGACTTTTT-CTTCAGGTTTTTCAAGGTAGA-CATTCAATTATAGTCTGTTTTAACCAAAAAT
* * * *
20227 GT--AAAAAATTCAACATAAAATCAATTACGAGATTATAAAATCAT
126 GTAAAAAAAATACAACTTAAAATCAACTATGAGATTATAAAA-CAT
* * ** * * ********** * *
20271 TTAAAGCGAATAATAAGGATTTTGAAGGAATGGGTGACTATAANNNNNNNNNNCTTACTAATGAA
1 TTAAAGCGAGTAAT-AGGCTTTTGAAAAAATGAGTAACTATAAATGGACTTTTCTTGCCAATGAA
* * * * * * *
20336 TGCCTTTTTCTTCCGGTTTCTCGAGGTAGACATTCAACTATAATATGTTTTAACCAAAAATGT-A
65 TGACTTTTTCTTCAGGTTTTTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAA
** **********
20400 AAAAAATTTAACTTNNNNNNNNNNATGAGATTATAAAACTAT
130 AAAAAATACAACTTAAAATCAACTATGAGATTATAAAAC-AT
* ** * * *
20442 TTAAAGCGAGTAATAGGCTTTTGAAAGAATGAAAAACTATAAATGAACTTTTCTTACTAATGAAT
1 TTAAAGCGAGTAATAGGCTTTTGAAAAAATGAGTAACTATAAATGGACTTTTCTTGCCAATGAAT
* ** **
20507 GCCTTTTTCTTCAGGTTTCTT-AAGGTAGACATTCAACAATAGTCTG-TTTAACCAAAAATACAA
66 GACTTTTTCTTCAGGTTT-TTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAA
* * * **
20570 AAAAAATTCGATTTAAAATCAGTTATGAGATTATAAAACCAT
130 AAAAAATACAACTTAAAATCAACTATGAGATTATAAAA-CAT
* * *
20612 TTAAAGCGAGTAATTAGGCATTTGAAAAAATGGGTTACTATAAATGGACTTTTCTTGCCAATGAA
1 TTAAAGCGAGTAA-TAGGCTTTTGAAAAAATGAGTAACTATAAATGGACTTTTCTTGCCAATGAA
* * * **
20677 TGTCTTTTTCTTCAGGTTTTTCAATGTACACATTCAATTATAGTCTGTTTTAATAAAAAATGTAA
65 TGACTTTTTCTTCAGGTTTTTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAA
*
20742 AAAAAATACAACTTAAAATCAACTATGATATTATAAAATCAT
130 AAAAAATACAACTTAAAATCAACTATGAGATTATAAAA-CAT
* * * * * *
20784 TTACAGCAAGTAATAAGGCTTTTGAAACAATGAGTGAGTATAAATGGACATTTCTTGCCAATGAA
1 TTAAAGCGAGTAAT-AGGCTTTTGAAAAAATGAGTAACTATAAATGGACTTTTCTTGCCAATGAA
* * * * *
20849 T-ACATTTTTCGTCACG-TTTTCAGAGGCAGGCATTCAATTATAGTTTGTTTTAACCAAAAATGT
65 TGAC-TTTTTCTTCAGGTTTTTCA-AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT
20912 AAAAAA
128 AAAAAA
20918 TTCAACNNNN
Statistics
Matches: 504, Mismatches: 128, Indels: 28
0.76 0.19 0.04
Matches are distributed among these distances:
169 13 0.03
170 199 0.39
171 139 0.28
172 153 0.30
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.33
Consensus pattern (170 bp):
TTAAAGCGAGTAATAGGCTTTTGAAAAAATGAGTAACTATAAATGGACTTTTCTTGCCAATGAAT
GACTTTTTCTTCAGGTTTTTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAA
AAAAATACAACTTAAAATCAACTATGAGATTATAAAACAT
Found at i:22092 original size:339 final size:329
Alignment explanation
Indices: 21466--22120 Score: 762
Period size: 339 Copynumber: 2.0 Consensus size: 329
21456 NNNNNNNNNN
* **
21466 AAAAATTCAACTTAAAATAAATTATGAGATTATAAAACTATTTAAAGTGAGTAACAAGGATTTTG
1 AAAAATTCAACTTAAAATAAATTATGAGATTATAAAACTAGTTAAAACGAGTAACAAGGATTTTG
* * **
21531 AAGGAATGGGTGACTATAAATAGAAGTTTCTTGTCAATGAATATTTTTTCTTCACGTTTCTTGAG
66 AAAGAATGAGTGACTATAAATAGAAGTTTCTTACCAATGAATATTTTTTCTTCACGTTTCTTGAG
*
21596 GTAGACATTCAACTATAGTCTATATTAACCAAAAATGTAAAAAAAATTCAATCTAAAATCAATTA
131 GTAGACATTCAACTATAGTCTATATTAACAAAAAATGT-AAAAAAATTCAATCTAAAATCAATTA
* * * *
21661 TGAGATTATAAAACCATTTAAAGCGACTAATAAGGGTTTTGAAAGAATGAGTGACTATAAATGGA
195 TGAGATTATAAAACCATTTAAAGCGACGAATAAGGCTTTTGAAAGAATAAGTGACTATAAATGAA
* * * *
21726 CTTTTGTCGTCAATAAATATCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATANNNNNN
260 CTTTTCTCGCCAATAAATATCTTTTTCTACATGTTTCTCAAGGTAGACATTCAATTATA------
21791 NNNNACCAAAATGTA
319 ----ACCAAAATGTA
* * *
21806 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC-AGGTTAAAACGAGTAATAAGGCTTTT
1 AAAAATTCAACTTAAAATAAATTATGAGATTATAAAACTA-GTTAAAACGAGTAACAAGGATTTT
* ** * * *
21870 GAAAGAATGAGTGACTATAAATGGATTTTTCTTACCCATGAATGCTTTTTTCTTCATGTTTCTTG
65 GAAAGAATGAGTGACTATAAATAGAAGTTTCTTACCAATGAAT-ATTTTTTCTTCACGTTTCTTG
* * ** * * * *
21935 GGGTAGACTTTTGATTATAGTCTGTTTTAACAAAAAATGT-AAAAAATTTAA-CTTAAAATCAAT
129 AGGTAGACATTCAACTATAGTCTATATTAACAAAAAATGTAAAAAAATTCAATC-TAAAATCAAT
* * * *
21998 TAT-AGCATTATAAAATCATTTAAAGCGAGGAATAAGGCTTTTGCAAGAATAAGTTACTATAAAT
193 TATGAG-ATTATAAAACCATTTAAAGCGACGAATAAGGCTTTTGAAAGAATAAGTGACTATAAAT
* * * *
22062 GAACTTTTCTTGCCCATGAAT-GCTTTTTTCTACATGTTTCTCAAGGTAGACATTCAATT
257 GAACTTTTCTCGCCAATAAATATC-TTTTTCTACATGTTTCTCAAGGTAGACATTCAATT
22121 TTAGTCTGTT
Statistics
Matches: 269, Mismatches: 41, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
338 4 0.01
339 123 0.46
340 91 0.34
341 51 0.19
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.35
Consensus pattern (329 bp):
AAAAATTCAACTTAAAATAAATTATGAGATTATAAAACTAGTTAAAACGAGTAACAAGGATTTTG
AAAGAATGAGTGACTATAAATAGAAGTTTCTTACCAATGAATATTTTTTCTTCACGTTTCTTGAG
GTAGACATTCAACTATAGTCTATATTAACAAAAAATGTAAAAAAATTCAATCTAAAATCAATTAT
GAGATTATAAAACCATTTAAAGCGACGAATAAGGCTTTTGAAAGAATAAGTGACTATAAATGAAC
TTTTCTCGCCAATAAATATCTTTTTCTACATGTTTCTCAAGGTAGACATTCAATTATAACCAAAA
TGTA
Found at i:22561 original size:172 final size:161
Alignment explanation
Indices: 22359--22677 Score: 345
Period size: 172 Copynumber: 1.9 Consensus size: 161
22349 CAAAACCATT
* * * *
22359 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTCATAATAAGTAGACTTTTCTTACTAATGACT
1 TAAAGTGAGTAATAAGACTTTTGAAGGAATGAGTCATAATAAATAGACTTTTCTTACTAATGAAT
* * ** * * *
22424 GTCTTTTCCTTCACGT-TTTGTCAATGTAGACATTCAATTATAATTTGTTTTCACCAAACAAGTA
66 ATATTTTCCTTCA--TATTACTCAATGTAGACATTCAATTATAATATGTTTT-AACAAAAAAGTA
22488 AAAAAAA-TGAACTTAAAATCAATTTTGAGATTG
128 AAAAAAATTGAACTTAAAATCAATTTTGAGATTG
* * *
22521 TANNNNNNNNNNAAGTGAGTAATAAGACTTTTGAAGGAATGGGTGATAATAAATGGACTTTTCTT
1 TA----------AAGTGAGTAATAAGACTTTTGAAGGAATGAGTCATAATAAATAGACTTTTCTT
* * * *
22586 GCTAATGAATATATTTTTCTTTATATTACTCAATGTAGACATTCAGTTATAATATGTTTTAACAA
56 ACTAATGAATATATTTTCCTTCATATTACTCAATGTAGACATTCAATTATAATATGTTTTAACAA
22651 AAAAGTAAAAAAAATTGAACTTAAAAT
121 AAAAGTAAAAAAAATTGAACTTAAAAT
22678 NNNNNNNNNN
Statistics
Matches: 127, Mismatches: 18, Indels: 15
0.79 0.11 0.09
Matches are distributed among these distances:
162 2 0.02
170 18 0.14
171 43 0.34
172 64 0.50
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.35
Consensus pattern (161 bp):
TAAAGTGAGTAATAAGACTTTTGAAGGAATGAGTCATAATAAATAGACTTTTCTTACTAATGAAT
ATATTTTCCTTCATATTACTCAATGTAGACATTCAATTATAATATGTTTTAACAAAAAAGTAAAA
AAAATTGAACTTAAAATCAATTTTGAGATTG
Found at i:23656 original size:343 final size:338
Alignment explanation
Indices: 21466--23832 Score: 1453
Period size: 343 Copynumber: 6.9 Consensus size: 338
21456 NNNNNNNNNN
* * * * * * *
21466 AAAAATTCAACTTAAAATAAATTATGAGATTATAAAACTATTTAAAGTGAGTAACAAGGATTTTG
1 AAAAATACAACTTAAAATCAATTATGAGATTCTAAAACTATTTACAGCGAGTAATAAGGCTTTTG
* * * * ** *** * * *
21531 AAGGAATGGGTGACTATAAATAGAAGTTTCTTGTCAATGAATATTTTTTCTTCACGTTTCTTGAG
66 AAAGAATGAGTGAGTATAAATGGACTTTTCTT-TCAATGAATGCCTTTTCTTCATGTTTTTTGGG
* * * * * * * *
21596 GTAGACATTCAACTATAGTCTATATTAACCAAAAATGTAAAAAAAATTCAA-TCTAAAATCAATT
130 GCAGGCATTCAATTATAGTCTGTTTTAA-TAAAAA--TATAAAAAATTCAACT-TAAAATCAAGT
* * * *
21660 ATGAGATTATAAAACCATTTAAAGCGACTAATAAGGGTTTTGAAAGAATGAGTGACTATAAATGG
191 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGG
* *** * * * * *****
21725 ACTTTTGTCGTCAATAAATATCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATANNNNN
256 ACTTTTTTTACCAATGAATGTCTTTCTCTTCAGGTTTCTCGAGGTAGACATTCAATTATAGTCTG
***** * *
21790 NNNNNAC-CAAAATGT-A
321 TTTTAACAAAAAATATAA
* * * * *
21806 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC-AGGTTAAAACGAGTAATAAGGCTTTT
1 AAAAATACAACTTAAAATCAATTATGAGATTCTAAAACTA-TTTACAGCGAGTAATAAGGCTTTT
* * * * * *
21870 GAAAGAATGAGTGACTATAAATGGATTTTTCTTACCCATGAATGCTTTTTTCTTCATGTTTCTTG
65 GAAAGAATGAGTGAGTATAAATGGACTTTTCTT-TCAATGAATGC-CTTTTCTTCATGTTTTTTG
* * * ** * * * *
21935 GGGTAGACTTTTGATTATAGTCTGTTTTAACAAAAAATGTAAAAAATTTAACTTAAAATCAATTA
128 GGGCAGGCATTCAATTATAGTCTGTTTTAA-TAAAAATATAAAAAATTCAACTTAAAATCAAGTA
* * ** *
22000 T-AGCATTATAAAATCATTTAAAGCGAGGAATAAGGCTTTTGCAA-GAATAAGTTACTATAAATG
192 TGAG-ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG-AAGGAATGGGTGACTATAAATG
* * * * * * * * *
22063 AACTTTTCTTGCCCATGAATG-CTTTTTTCTACATGTTTCTCAAGGTAGACATTCAATTTTAGTC
255 GACTTTTTTTACCAATGAATGTC-TTTCTCTTCAGGTTTCTCGAGGTAGACATTCAATTATAGTC
22127 TGTTTTAACAAAAAATAT-A
319 TGTTTTAACAAAAAATATAA
********** * * * **
22146 NNNNNNNNNNCTTAAAATCAATTATGAGATTATAAAACCATTTGA-AGCAAGTAATAACACTTTT
1 AAAAATACAACTTAAAATCAATTATGAGATTCTAAAACTATTT-ACAGCGAGTAATAAGGCTTTT
* * * * **
22210 GAAAGAATGGGTGACTATAAATGGACCTTTCTTCTCAATAAATCGTATTTTCTATACA--TTTTT
65 GAAAGAATGAGTGAGTATAAATGGACTTTTCTT-TCAATGAAT-GCCTTTTCT-T-CATGTTTTT
* ** * ** * * * * ********
22273 CGATGTAGATATTCAATTATAGTCTATTTTAACCAAAAATGTAAAAAAATTTAACTTNNNNNNNN
126 TGGGGCAGGCATTCAATTATAGTCTGTTTTAA-TAAAAATAT-AAAAAATTCAACTTAAAATCAA
** * * * *
22338 NNATGAGATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTCA-TAATAAG
189 GTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACT-ATAAA
* * * * * * * *
22402 TAGACTTTTCTTACTAATGACTGTCTTT-TCCTTCACGTTTTGTCAATGTAGACATTCAATTATA
253 TGGACTTTTTTTACCAATGAATGTCTTTCT-CTTCA-GGTTTCTCGAGGTAGACATTCAATTATA
* * * *
22466 ATTTGTTTTCACCAAACAAGTA-AA
316 GTCTGTTTT-AACAAA-AAATATAA
* * * ********* * *
22490 AAAAAT-GAACTTAAAATCAATTTTGAGATTGTANNNNNNNNNNA-AGTGAGTAATAAGACTTTT
1 AAAAATACAACTTAAAATCAATTATGAGATTCTA-AAACTATTTACAGCGAGTAATAAGGCTTTT
* * * *** * * ** *
22553 GAAGGAATGGGTGA-TAATAAATGGACTTTTCTTGCTAATGAATATATTTTTCTTTATATTACTC
65 GAAAGAATGAGTGAGT-ATAAATGGACTTTTCTTTC-AATGAAT-GCCTTTTCTTCATGTTTTTT
*** * * * * * * * * ****
22617 AATGTAGACATTCAGTTATAATATGTTTTAACAAAAAAGTAAAAAAAATTGAACTTAAAATNNNN
127 GGGGCAGGCATTCAATTATAGTCTGTTTTAA-TAAAAA-TATAAAAAATTCAACTTAAAATCAAG
****** * * ** *
22682 NNNNNNATTATAAAATCATTTAAATCGAGTAATAATACTTTTGAAGGAATGGGAGACTATAAATG
190 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATG
* * * * *
22747 GAAATTTCTTGA-CAATGAATGTCTTTTTCTTCAGGTTTCTCGAGTTAGACATTCAATTATAGTC
255 G-ACTTTTTTTACCAATGAATGTCTTTCTCTTCAGGTTTCTCGAGGTAGACATTCAATTATAGTC
* *
22811 TGTTTTAACCAAAAATGTAA
319 TGTTTTAACAAAAAATATAA
* * * *
22831 AAAAA-AAAACTTAAAATCAATTATAAG-TATATAAAA-TCATTTACAACGAGTAATAAGGCTTT
1 AAAAATACAACTTAAAATCAATTATGAGAT-TCTAAAACT-ATTTACAGCGAGTAATAAGGCTTT
* * * * **
22893 TGAAAGAATGAGTGAGTGTAAATGAACTTTTCTTTCCAATGAATATCATTTTCTTCAAATTTTTT
64 TGAAAGAATGAGTGAGTATAAATGGACTTTTCTTT-CAATGAAT-GCCTTTTCTTCATGTTTTTT
* * * * **
22958 GAGGCAAGCATTCAATTATAGTATGTTTTAACTAAAAATATAAAAAATTTAACTTAAAATCAANN
127 GGGGCAGGCATTCAATTATAGTCTGTTTTAA-TAAAAATATAAAAAATTCAACTTAAAATCAAGT
******** * *
23023 NNNNNNNNATAAAACCATTTAAAGCGAGTAATAAGGATTTTGAAGGAATGGGTGACTACAAATGG
191 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGG
* * * ** * * * **
23088 ACTTTTTTTGCCAATGAATATCTTGT-TTTTCACATTTCTCAAGATAGACATTGAACAATAGTCT
256 ACTTTTTTTACCAATGAATGTCTT-TCTCTTCAGGTTTCTCGAGGTAGACATTCAATTATAGTCT
**
23152 GTTTTAATGAAAAATATAA
320 GTTTTAACAAAAAATATAA
* * *
23171 AACAACT-CAACTTAAAATCAATTATGAGA-TCATAAAACTATTTAAAGCGAGTAATTAGGCTTT
1 AA-AAATACAACTTAAAATCAATTATGAGATTC-TAAAACTATTTACAGCGAGTAATAAGGCTTT
* * * * *
23234 T-AAAGGAATGGGTGATTACAAATGGACTTTTCTTACTAATAAATGCCTTTTTCTTCATG-TTTT
64 TGAAA-GAATGAGTGAGTATAAATGGACTTTTCTTTC-AATGAATGCC-TTTTCTTCATGTTTTT
* * ** * *
23297 TGAAGGTC-GACATTCAAAAATAGTCTATTTTAATGAAAAACATAAAAATATTCAACTTAAAATC
126 TG--GGGCAGGCATTCAATTATAGTCTGTTTTAAT-AAAAATATAAAAA-ATTCAACTTAAAATC
* ********** *
23361 AAGTATGAGATTATAAAATCATNNNNNNNNNNTAATAAGGCTTTTGAAAGAATGGGTGACTATAA
187 AAGTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAA
* * * *
23426 ATAGACTTTATTTTACTAATGAATGTCTTTCTCTTCAGGTTTCTTGAGGTAGACATTTAATTATA
252 ATGGACTTT-TTTTACCAATGAATGTCTTTCTCTTCAGGTTTCTCGAGGTAGACATTCAATTATA
23491 GTCTGTTTTAACAAAAAATATAA
316 GTCTGTTTTAACAAAAAATATAA
* * **
23514 AAAAATACAACTTAAAATTAACTATGAGATTCTAAAACTATTTACAGTAAGTAATAAGGCTTTTG
1 AAAAATACAACTTAAAATCAATTATGAGATTCTAAAACTATTTACAGCGAGTAATAAGGCTTTTG
*
23579 AAAGAATGAGTGGGTATAAATGGA-TTGTTCTTGTCAATGAATGCCTTGTTCTTCATGTTTTTTG
66 AAAGAATGAGTGAGTATAAATGGACTT-TTCTT-TCAATGAATGCCTT-TTCTTCATGTTTTTTG
* * * * * *
23643 GGGCAGGCATTCAATTATATTCCGTTTTAACCAAAAGTGTAAATAAATTCAACTTAAAATCAATT
128 GGGCAGGCATTCAATTATAGTCTGTTTTAA-TAAAAATATAAA-AAATTCAACTTAAAATCAAGT
* ** *
23708 ATGAGATTA-AAAAGCCATTTAAAGCGAGCAATAAGGCTTTTGAACTAATGGGTGACAATAAATG
191 ATGAGATTATAAAA-CCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATG
* * * * * *
23772 GACATTTCTTACCAATGAATGCCTTTCTCTTCATGTTTCTTGATGTAGACATTCAATTATA
255 GACTTTTTTTACCAATGAATGTCTTTCTCTTCAGGTTTCTCGAGGTAGACATTCAATTATA
23833 NNNNNNNNNN
Statistics
Matches: 1578, Mismatches: 384, Indels: 128
0.76 0.18 0.06
Matches are distributed among these distances:
338 3 0.00
339 132 0.08
340 384 0.24
341 383 0.24
342 200 0.13
343 448 0.28
344 28 0.02
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.35
Consensus pattern (338 bp):
AAAAATACAACTTAAAATCAATTATGAGATTCTAAAACTATTTACAGCGAGTAATAAGGCTTTTG
AAAGAATGAGTGAGTATAAATGGACTTTTCTTTCAATGAATGCCTTTTCTTCATGTTTTTTGGGG
CAGGCATTCAATTATAGTCTGTTTTAATAAAAATATAAAAAATTCAACTTAAAATCAAGTATGAG
ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTT
TTTTACCAATGAATGTCTTTCTCTTCAGGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTA
ACAAAAAATATAA
Found at i:23790 original size:171 final size:170
Alignment explanation
Indices: 21466--23832 Score: 1736
Period size: 171 Copynumber: 13.9 Consensus size: 170
21456 NNNNNNNNNN
* * * * *
21466 AAAAATTCAACTTAAAATAAATTATGAGATTATAAAACTATTTAAAGTGAGTAACAAGGATTTTG
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * ** ** ** * *
21531 AAGGAATGGGTGACTATAAATAGAAGTTTCTTGTCAATGAAT-ATTTTTTCTTCACGTTTCTTGA
66 AAAGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTCGA
* * *
21595 GGTAGACATTCAACTATAGTCTATATTAACCAAAAATGTAAA
131 GGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT--A
* *
21637 AAAAATTCAA-TCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGACTAATAAGGGTTTT
1 AAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * *** * **
21701 GAAAGAATGAGTGACTATAAATGGACTTTTGTCGTCAATAAATATCTTTTTCTTCATGTTTCTCG
65 GAAAGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTCG
**********
21766 AGGTAGACATTCAATTATANNNNNNNNNNACC-AAAATGTA
130 AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTA
* *
21806 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-CAGGTTAAAACGAGTAATAAGGCTTTT
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA-TTTAAAGCGAGTAATAAGGCTTTT
* * * * *
21870 GAAAGAATGAGTGACTATAAATGGATTTTTCTTACCCATGAATGCTTTTTTCTTCATGTTTCTTG
65 GAAAGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTCG
* * ** *
21935 GGGTAGACTTTTGATTATAGTCTGTTTTAACAAAAAATGTA
130 AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTA
* * *
21976 AAAAATTTAACTTAAAATCAATTAT-AGCATTATAAAATCATTTAAAGCGAGGAATAAGGCTTTT
1 AAAAATTCAACTTAAAATCAATTATGAG-ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* ** * * * * * * *
22040 GCAAGAATAAGTTACTATAAATGAACTTTTCTTGCCCATGAATGCTTTTTTCTACATGTTTCTCA
65 GAAAGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTCG
* * *
22105 AGGTAGACATTCAATTTTAGTCTGTTTTAACAAAAAATATA
130 AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTA
********** * * **
22146 NNNNNNNNNNCTTAAAATCAATTATGAGATTATAAAACCATTTGAAGCAAGTAATAACACTTTTG
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * *
22211 AAAGAATGGGTGACTATAAATGGACCTTTCTT-CTCAATAAAT-CGTATTTTCTATACAT-TTT-
66 AAAGAATGGGTGACTATAAATGGACTTTTCTTAC-CAATGAATGCCT-TTTTCT-T-CATGTTTC
* * *
22272 TCGATGTAGATATTCAATTATAGTCTATTTTAACCAAAAATGTAA
127 TCGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT-A
* ********** *
22317 AAAAATTTAACTTNNNNNNNNNNATGAGATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * * * * * * * * *
22382 AAGGAATGAGTCA-TAATAAGTAGACTTTTCTTACTAATGACTGTCTTTTCCTTCACGTTTTGTC
66 AAAGAATGGGTGACT-ATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCATG-TTTCTC
* * * * *
22446 AATGTAGACATTCAATTATAATTTGTTTTCACCAAACAA-GTAA
129 GAGGTAGACATTCAATTATAGTCTGTTTTAACCAAA-AATGT-A
* * * * ********** * *
22489 AAAAAATGAACTTAAAATCAATTTTGAGATTGTANNNNNNNNNNAAGTGAGTAATAAGACTTTTG
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * *** * * * *
22554 AAGGAATGGGTGA-TAATAAATGGACTTTTCTTGCTAATGAATATATTTTTCTTTATATTACTCA
66 AAAGAATGGGTGACT-ATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTCG
* * * * *
22618 ATGTAGACATTCAGTTATAATATGTTTTAA-CAAAAAAGTAAA
130 AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT--A
* ********** * * **
22660 AAAAATTGAACTTAAAATNNNNNNNNNNATTATAAAATCATTTAAATCGAGTAATAATACTTTTG
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * ** * *
22725 AAGGAATGGGAGACTATAAATGGAAATTTCTTGA-CAATGAATGTCTTTTTCTTCAGGTTTCTCG
66 AAAGAATGGGTGACTATAAATGGACTTTTCTT-ACCAATGAATGCCTTTTTCTTCATGTTTCTCG
*
22789 AGTTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTA
130 AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTA
*** * *
22830 AAAAAAAAAACTTAAAATCAATTATAAG-TATATAAAATCATTTACAA-CGAGTAATAAGGCTTT
1 AAAAATTCAACTTAAAATCAATTATGAGAT-TATAAAACCATTTA-AAGCGAGTAATAAGGCTTT
* * * * * ** * ** * *
22893 TGAAAGAATGAGTGAGTGTAAATGAACTTTTCTTTCCAATGAATATCATTTTCTTCAAATTTTTT
64 TGAAAGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTC
* * * *
22958 GAGGCA-AGCATTCAATTATAGTATGTTTTAACTAAAAATATA
129 GAGGTAGA-CATTCAATTATAGTCTGTTTTAACCAAAAATGTA
* ********** *
23000 AAAAATTTAACTTAAAATCAANNNNNNNNNNATAAAACCATTTAAAGCGAGTAATAAGGATTTTG
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * * ** ** *
23065 AAGGAATGGGTGACTACAAATGGACTTTTTTTGCCAATGAATATCTTGTTT-TTCACATTTCTCA
66 AAAGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTT-TTTCTTCATGTTTCTCG
* * ** ** *
23129 AGATAGACATTGAACAATAGTCTGTTTTAATGAAAAATATA
130 AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTA
* * * *
23170 AAACAACTCAACTTAAAATCAATTATGAGATCATAAAACTATTTAAAGCGAGTAATTAGGCTTTT
1 AAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * * *
23235 -AAAGGAATGGGTGATTACAAATGGACTTTTCTTACTAATAAATGCCTTTTTCTTCATGTTT-TT
65 GAAA-GAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTC
* ** * ** **
23298 GAAGGTCGACATTCAAAAATAGTCTATTTTAATGAAAAACATA
129 G-AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTA
* * **********
23341 AAAATATTCAACTTAAAATCAAGTATGAGATTATAAAATCATNNNNNNNNNNTAATAAGGCTTTT
1 AAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * * * * *
23406 GAAAGAATGGGTGACTATAAATAGACTTTATTTTACTAATGAATGTCTTTCTCTTCAGGTTTCTT
65 GAAAGAATGGGTGACTATAAATGGACTTT-TCTTACCAATGAATGCCTTTTTCTTCATGTTTCTC
* * *
23471 GAGGTAGACATTTAATTATAGTCTGTTTTAACAAAAAATATAA
129 GAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT-A
* * * * * * **
23514 AAAAATACAACTTAAAATTAACTATGAGATTCTAAAACTATTTACAGTAAGTAATAAGGCTTTTG
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* ** ** * * *
23579 AAAGAATGAGTGGGTATAAATGGA-TTGTTCTTGTCAATGAATGCCTTGTTCTTCATGTTTTTTG
66 AAAGAATGGGTGACTATAAATGGACTT-TTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTCG
* * * * * *
23643 GGGCAGGCATTCAATTATATTCCGTTTTAACCAAAAGTGTA
130 AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTA
*
23684 AATAAATTCAACTTAAAATCAATTATGAGATTA-AAAAGCCATTTAAAGCGAGCAATAAGGCTTT
1 AA-AAATTCAACTTAAAATCAATTATGAGATTATAAAA-CCATTTAAAGCGAGTAATAAGGCTTT
** * * * *
23748 TGAACTAATGGGTGACAATAAATGGACATTTCTTACCAATGAATGCCTTTCTCTTCATGTTTCTT
64 TGAAAGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTC
*
23813 GATGTAGACATTCAATTATA
129 GAGGTAGACATTCAATTATA
23833 NNNNNNNNNN
Statistics
Matches: 1710, Mismatches: 440, Indels: 92
0.76 0.20 0.04
Matches are distributed among these distances:
168 2 0.00
169 140 0.08
170 553 0.32
171 705 0.41
172 300 0.18
173 10 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.35
Consensus pattern (170 bp):
AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
AAAGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTCGA
GGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTA
Found at i:26554 original size:512 final size:513
Alignment explanation
Indices: 25938--27078 Score: 1168
Period size: 512 Copynumber: 2.2 Consensus size: 513
25928 NNNNNNNNNN
* *
25938 AGTAATAAGGCTTTTG-AAGAAATCGA-TGATAATAAATGGACTTTTCTTGCCAATGAATGTCC-
1 AGTAATAAAGCTTTTGAAAG-AAT-GAGTGAT-ATAAATGGACTTTTCTTGCCAATAAATG-CCT
* ** * * * *
26000 TTCTCTTCACCTTTCTCGTCGTAAACATTCAATTATAATCTGTTTTAACTAAATAACAAAAAAAA
62 TTTTCTTCATGTTTCTCGACGTAGACATTCAATTATAATCTGTTTTAACCAAAGAACAAAAAAAA
* *
26065 ATTGAACTTAAAATCAATTTTGAGATGATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAA-
127 ATTAAACTTAAAATCAATTTTGAGATGATAAAACTATTTAAAGCGAGTAATAAGGC-TTTCAAAG
********** * * * *
26129 GANNNNNNNNNNATAAATGGACTTTTCTTGCCAAAGAATGCCTTTTTCTTCATGTTT-TCCGAGG
191 GAATGGGTGATAATAAATAGACTTTTATTGCCAAAGAATGCATTTTTCTTCATGTTTCT-CAAGG
* * * * *
26193 CAAG-TATTCAATTATAGTTTATTTTAACCAAAAATGT-AAACAAATTTAACTTAAAATCAATTA
255 -AAGATATTCAATTATAATATATTTTAACCAAAAAAGTAAAAAAAATTGAACTTAAAATCAATTA
********** * * * * *
26256 TGAGATNNNNNNNNNNTTTAAAGCGAGCAATAAGGCTTTTGAAGGAATAGGTGACTATAAATGGA
319 TGAGATTATGAAACCTTTTAAAGCAAACAATAAGGATTTTGAAAGAATAGGTGACTATAAATAGA
*
26321 -TTTTTTTGCCAATGAATGCCTTTTCTTCACATTTCTCGAGGCAAGCATTCAACAATAGTCTGTT
384 TTTTTTTTGCCAATGAATGCCTTTTCTTCACATTTCTCAAGGCAAGCATTCAACAATAGTCTGTT
* *
26385 TTAACTAAAAATGTAAAAAAAATCAACTTAAAATTAATTATGAGAGTATAAAACCATTTAAAGCG
449 GTAACCAAAAATGTAAAAAAAATCAACTTAAAATTAATTATGAGAGTATAAAACCATTTAAAGCG
*
26450 AGTAATAAAGCTTTTGAAAGAATGAGTGAGTATAAATGGACTTTTCTTGCTAATAAATGCCTTTT
1 AGTAATAAAGCTTTTGAAAGAATGAGTGA-TATAAATGGACTTTTCTTGCCAATAAATGCCTTTT
* * * **
26515 TCTTCATGTTTCTAGACGTAGATATTGAATTATAATCTGTTTTAACCAAAGAAGTAAAAAAAATT
65 TCTTCATGTTTCTCGACGTAGACATTCAATTATAATCTGTTTTAACCAAAGAACAAAAAAAAATT
* ***********
26580 AAACTTAAAATTAATTTTGAGATTNNNNNNNNNNTTAAAGCGAGTAATAAGGCTTTCAAAGGAAT
130 AAACTTAAAATCAATTTTGAGATGATAAAACTATTTAAAGCGAGTAATAAGGCTTTCAAAGGAAT
* * * *
26645 GGGTGATAATAAATAGACTTTTATTGCTAATGAATGCATTTTTCTTCATGTTTCTCAATGTAGAT
195 GGGTGATAATAAATAGACTTTTATTGCCAAAGAATGCATTTTTCTTCATGTTTCTCAAGGAAGAT
* * * *
26710 ATTTAGTTATAATATGTTTTAATCAAAAAAGTAAAAAAAATTGAACTTAAAATCAATTATGAGAT
260 ATTCAATTATAATATATTTTAACCAAAAAAGTAAAAAAAATTGAACTTAAAATCAATTATGAGAT
* *
26775 TATGAAACCTTTTAAAGCAAATAATAAGGATTTTGAAAGAATGGGTGACTATAAATAGATTTTTT
325 TATGAAACCTTTTAAAGCAAACAATAAGGATTTTGAAAGAATAGGTGACTATAAATAGATTTTTT
* * *** *
26840 TTGTCAATGAATGCCTTTTCTTCACATTTCTTAAGGTGGGCATTTAACAATAGTCTGTTGTAACC
390 TTGCCAATGAATGCCTTTTCTTCACATTTCTCAAGGCAAGCATTCAACAATAGTCTGTTGTAACC
* * ********** * *
26905 AAAAATGTAAAACAATTCAANNNNNNNNNNATTATGAGATTATAAAACCATTTACAGCG
455 AAAAATGTAAAAAAAATCAACTTAAAATTAATTATGAGAGTATAAAACCATTTAAAGCG
* * * * *
26964 AGCAATAATGCTTTTGAAAGAATGAGTGACTATGAATGGGCTTCTCTTGCCAATGAAA-GCCTTT
1 AGTAATAAAGCTTTTGAAAGAATGAGTGA-TATAAATGGACTTTTCTTGCCAAT-AAATGCCTTT
* * * *
27028 TTCTTC-TAGTTTCTCGAGGTAGACATTCAATCATAGTCCGTTTTAACCAAA
64 TTCTTCAT-GTTTCTCGACGTAGACATTCAATTATAATCTGTTTTAACCAAA
27079 AATGTAAAAA
Statistics
Matches: 508, Mismatches: 110, Indels: 20
0.80 0.17 0.03
Matches are distributed among these distances:
511 12 0.02
512 214 0.42
513 78 0.15
514 201 0.40
515 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.34
Consensus pattern (513 bp):
AGTAATAAAGCTTTTGAAAGAATGAGTGATATAAATGGACTTTTCTTGCCAATAAATGCCTTTTT
CTTCATGTTTCTCGACGTAGACATTCAATTATAATCTGTTTTAACCAAAGAACAAAAAAAAATTA
AACTTAAAATCAATTTTGAGATGATAAAACTATTTAAAGCGAGTAATAAGGCTTTCAAAGGAATG
GGTGATAATAAATAGACTTTTATTGCCAAAGAATGCATTTTTCTTCATGTTTCTCAAGGAAGATA
TTCAATTATAATATATTTTAACCAAAAAAGTAAAAAAAATTGAACTTAAAATCAATTATGAGATT
ATGAAACCTTTTAAAGCAAACAATAAGGATTTTGAAAGAATAGGTGACTATAAATAGATTTTTTT
TGCCAATGAATGCCTTTTCTTCACATTTCTCAAGGCAAGCATTCAACAATAGTCTGTTGTAACCA
AAAATGTAAAAAAAATCAACTTAAAATTAATTATGAGAGTATAAAACCATTTAAAGCG
Found at i:27978 original size:171 final size:165
Alignment explanation
Indices: 25432--29121 Score: 1285
Period size: 171 Copynumber: 21.7 Consensus size: 165
25422 NNNNNNNNNN
* * * * * *
25432 TAAGGCTTTCGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCTAATGAATGTCTTTCTCTTT
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATCTTTTTCTTC
* * * *
25497 ATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAAAGGTAAAAAAATTCAACT
65 ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACT-AAAAATGTAAAAAAATTTAACT
* **********
25562 TAAAATCAATTATGAGATTATAAAATCATTTANNNNNNNNNN
129 T--AA--AATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * ** * * *
25604 NAAGGCTTTTGCAAGAATCAGTGACTATAAATGGACTTTTCTTGCCCATGAAT-GCTTTTTCTAC
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATCTTTTTCTTC
* * ** * * * *
25668 ACGTTTCTTGAACTACACATTCAATTATAGTCTG-TTTAACCAAAAATGTAAAAAAATTTGAGTT
65 ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTTAACTT
*
25732 AGAAAGAATTATGAGATTATAAAATCATTTAAAGCGAGTAA
130 ---AA-AATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * ** * * *
25773 TAATGCTTTTGAAAAAATGGGTGTCTATAAATAAACTTTT-TTTCTTAATAA-ATGGTATTTT-T
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGC-CAATAATAT-CT-TTTTCT
* * ** ** * * *
25835 TAAATATTTCTCGAGACAGATTTTCAATTAAAGTTTGTTTTAA--AGAAAATGTAAAAAAATTCA
63 T-CATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTA-AAAATGTAAAAAAATTTA
* * **********
25898 ATTTATTATCAATTATGAGATTACAAAACCNNNNNNNNNNAGTAA
126 ACTTA--A--AATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * *
25943 TAAGGCTTTTG-AAGAAATCGATGA-TAATAAATGGACTTTTCTTGCCAATGAATGTCCTTCTCT
1 TAAGGCTTTTGAAAG-AATGGGTGACT-ATAAATGGACTTTTCTTGCCAAT-AATATCTTTTTCT
** ** * * *** *
26006 TCACCTTTCTCGTCGTAAACATTCAATTATAATCTGTTTTAACTAAATAACAAAAAAAAATTGAA
63 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAA-AATGTAAAAAAATTTAA
* *
26071 CTTAAAATCAATTTTGAGATGATAAAACTATTTAAAGCGAGTAA
127 CTT--AA--AA-TTTGAGATTATAAAACCATTTAAAGCGAGTAA
********** * **
26115 TAAGGCTTTTGAAAGANNNNNNNNNNATAAATGGACTTTTCTTGCCAAAGAATGCCTTTTTCTTC
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCC-AATAATATCTTTTTCTTC
* * * * * *
26180 ATGTTT-TCCGAGGCA-AGTATTCAATTATAGTTTATTTTAACCAAAAATGTAAACAAATTTAAC
65 ATGTTTCT-CGAGGTAGA-CATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTTAAC
********** *
26243 TTAAAATCAATTATGAGATNNNNNNNNNNTTTAAAGCGAGCAA
128 TT--AA--AATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * *
26286 TAAGGCTTTTGAAGGAATAGGTGACTATAAATGGA-TTTTTTTGCCAATGAAT-GCCTTTTCTTC
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATCTTTTTCTTC
** * ** * *
26349 ACATTTCTCGAGGCA-AGCATTCAACAATAGTCTGTTTTAACTAAAAATGTAAAAAAAATCAACT
65 ATGTTTCTCGAGGTAGA-CATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTTAACT
*
26413 TAAAATTAATTATGAGAGTATAAAACCATTTAAAGCGAGTAA
129 T--AA--AATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * *
26455 TAAAGCTTTTGAAAGAATGAGTGAGTATAAATGGACTTTTCTTGCTAATAA-ATGCCTTTTTCTT
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAATAT--CTTTTTCTT
* * * * * * *
26519 CATGTTTCTAGACGTAGATATTGAATTATAATCTGTTTTAACCAAAGAA-GTAAAAAAAATTAAA
64 CATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAA-AATGT-AAAAAAATTTAA
**********
26583 CTTAAAATTAATTTTGAGATTNNNNNNNNNNTTAAAGCGAGTAA
127 CTT--AA--AA-TTTGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * *
26627 TAAGGC-TTTCAAAGGAATGGGTGA-TAATAAATAGACTTTTATTGCTAATGAAT-GCATTTTTC
1 TAAGGCTTTTGAAA-GAATGGGTGACT-ATAAATGGACTTTTCTTGCCAAT-AATATC-TTTTTC
* * * * * * * * *
26689 TTCATGTTTCTCAATGTAGATATTTAGTTATAATATGTTTTAA-TCAAAAAAGTAAAAAAAATTG
62 TTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACT-AAAAATGT-AAAAAAATTT
* * * *
26753 AACTTAAAATCAATTATGAGATTATGAAACCTTTTAAAGCAAATAA
125 AACTT--AA--AATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * *
26799 TAAGGATTTTGAAAGAATGGGTGACTATAAATAGATTTTTTTTGTCAATGAAT-GCCTTTTCTTC
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATCTTTTTCTTC
** ** * * * ** * * * *
26863 ACATTTCTTAAGGTGGGCATTTAACAATAGTCTGTTGTAACCAAAAATGTAAAACAATTCAANNN
65 ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTTAA---
****** * *
26928 NNNNNNNATTATGAGATTATAAAACCATTTACAGCGAGCAA
127 -CTTAAAATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * *
26969 TAATGCTTTTGAAAGAATGAGTGACTATGAATGGGCTTCTCTTGCCAATGAA-AGCCTTTTTCTT
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATA-TCTTTTTCTT
* * *
27033 C-TAGTTTCTCGAGGTAGACATTCAATCATAGTCCGTTTTAACCAAAAATGTAAAAAAATANNNN
64 CAT-GTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAAT-----
****** * *
27097 NNNNNNT-CAATTATGAGATTATAAAACCATTTGAAGCGAGTAA
123 TTAACTTAAAATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * * *
27140 TAAGACTCTTGAAAGAATGGGTGACTGTAAATGGACTTTACTTACCAATGAATGTCTTTTCCTTT
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATCTTTTTCTTC
* * * *
27205 GTGTTTCTCGA-ATAGACATTCAATTATAGTCTGTTTTAACCAAAAAAGTAAAAAAATTTAACTT
65 ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTTAACTT
****** *
27269 AANNNNNNNNNNNAGATTATAAAATCATTTAAAGC-ACGTAA
130 AA-----AATTTGAGATTATAAAACCATTTAAAGCGA-GTAA
* * * *
27310 TAAGGCTTTTGAAAGAATGAGTGACTGTAAGA-GGACTTTTCTTGCCCATGAAT-GCTTTTTTCT
1 TAAGGCTTTTGAAAGAATGGGTGACTATAA-ATGGACTTTTCTTGCCAAT-AATATC-TTTTTCT
* * * * * *
27373 TCATGATTCCCAAGGTAAACATTCATTTATAGTCTGTTTTAA-TAAAAAATG-AAAACAAATTCA
63 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACT-AAAAATGTAAAA-AAATTTA
* *********
27436 ACTTAAAA--TCA-ATTATGNNNNNNNNNNNNNNNNTAAAGCGAGTAA
126 ACTTAAAATTTGAGATTAT--------AAAACCATTTAAAGCGAGTAA
* * * * * ** *
27481 TAAGGCTTTTGAAGGAATAGGTGACAATAAATAGACTTTTCTTGCTAAATAATGCCCTTTTCTTC
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGC-CAATAATATCTTTTTCTTC
** * * *
27546 ACATTTTTTGAGGTAGACATTCAATTATAGTCTG-TTT---T---AA-G-AAAACAAATTCAACT
65 ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAA-AAATTTAACT
* ********** *
27602 TAAAATCAATTAGGAAATTATAAAACCNNNNNNNNNNAGCAA
129 TAAAAT---TT--GAGATTATAAAACCATTTAAAGCGAGTAA
* *
27644 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGATTTTTCTTGCTAATGAATATCTTTTTCTTC
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATCTTTTTCTTC
* * * * *
27709 GTATTTCTCGAGGTAGACATTCAATTATAGCCTATTTTAACTAAAAATGTAAAAAAATTTAATTT
65 ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTTAACTT
***** *
27774 ANNNNNNNNNNTGAGATTATAAAATCATTTAAAGCGAGTAA
130 A-----AAATTTGAGATTATAAAACCATTTAAAGCGAGTAA
* * * *
27815 TAAGGCTTTTGAAAGAATAGGTCACTATAAATGGACTTTTCTTACCAATAATTGTCTTTTTCTTC
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAA-TATCTTTTTCTTC
* *
27880 ATGTTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTCACTAAAAATGTAAAAAAATTTAACTT
65 ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTTAACTT
***** *
27945 AAAATTNNNNNNNNNNTTATAAAACCGTTTAAAGCGAGTAA
130 AAAATT-----TGAGATTATAAAACCATTTAAAGCGAGTAA
*** * * * * * * *
27986 TAAAAATTTTGAAGGAATGGGTGGCTATAAATAGACTTTTCATGTCAATAAATACCTTTTTCTCC
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATCTTTTTCTTC
* * * * * * *******
28051 ATGTTTCTCAAGGTAGACTTTCAACTATAATCTGTTTTAACCAAAAATATAAAAAGANNNNNNNN
65 ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAA-A-ATTTAAC
** *
28116 NNAATCAATTATGAGATTATAAAACCATTCAAAGCGAGTAA
128 TTAA--AATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
** * * * * * * * **
28157 TATTGCTGTTGAAAGAGTGAGTGGCTATAAAT-GACCTTTTCTTACTAATGAAT-GCTTTTTNNN
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGA-CTTTTCTTGCCAAT-AATATCTTTTT-CT
******* * ** *
28220 NNNNNNNT-T-GAGGTAGACATTCAATTATAGTATGTTTTAACTAAAAACAT-AAAAAATTCAAC
63 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTTAAC
********** *
28282 TTAAAATCAATTATGAGATNNNNNNNNNNTTTAAAGTGAGTAA
128 TT--AA--AATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * *
28325 TAAAGCTTTT-AAAGGAATGGGTGACAATAAATGAACTTTTCTTGCCAATGAATGTCTTTTTCTT
1 TAAGGCTTTTGAAA-GAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATCTTTTTCTT
* * * * ** ** * *
28389 CATATTT-TCTAAGGTAGGCATTCAATTATAGTTTGTTTTAAGGAAAAATACAAACAAATTCAAC
64 CATGTTTCTC-GAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTTAAC
** * *
28453 TTAAAATTATTTATGAGATTATAAAATAATTTAAAGTGAGGAA
128 TT-AAA--A-TT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * * *
28496 TAAGGGTTTTGAAGGAATGGGTGACTATAAATAGATTTTTCTTGCTACTGAAT-GCCTTTTCTTC
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATCTTTTTCTTC
* * * ** * *
28560 ATGTTTCTCAACGTAGGCATTCAACAATAGTCTATTTTAA-TGAAAAATGTAAAAAAATTCAACT
65 ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACT-AAAAATGTAAAAAAATTTAACT
* ********************
28624 TAAAA--TCA-ATTATGANNNNNNNNNNNNNNNNNNNNN
129 TAAAATTTGAGATTAT-A-AAACCATTTAAAGCGAGTAA
****** * *
28660 NNNNNNTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGTCAATGAATATCTTTTTCTTC
1 TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATCTTTTTCTTC
* * * * *****
28725 AGGTTTCTAGAGGTAAACATTCAATTATAGTTTGTTTTAAGC-AAAAATGTAAAAAAANNNNNNN
65 ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAA-CTAAAAATGTAAAAAAA--TTTAA
*** * * *
28789 NNNAATCAATTATGAGATTATAAAATCGTTTAAAGCAAGTAA
127 CTTAA--AATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * *
28831 TATGGCTTTTGAATA-AATGAGTGACTATAAATGGACTTTTCTTGCC-ATGAAT-GCTTTTTTGT
1 TAAGGCTTTTGAA-AGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATC-TTTTTCT
* * * * * * * * *
28893 TCACGCTTCTCGAGGTAGACATTCAATTATTGTCTATTTTCACCAAAAA--TAAAAAAAATCAAT
63 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTTAAC
* * *
28956 TTAAATCTGTTATGAGATTATAAAACCTTTTAAAGTGAGTAA
128 TTAAA---ATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * ** * * * *
28998 TAACG-TTGTTGAAGGAATGAGTGACTATAAATAAATTTTTTTTGCCAGTGAAT-GCATTTTTCT
1 TAAGGCTT-TTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AATATC-TTTTTCT
** * * *
29061 TCACATTTCTCGAAGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAACAATT
63 TCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATT
29122 CAACNNNNNN
Statistics
Matches: 2595, Mismatches: 761, Indels: 326
0.70 0.21 0.09
Matches are distributed among these distances:
162 8 0.00
163 116 0.04
164 47 0.02
165 55 0.02
166 4 0.00
167 73 0.03
168 142 0.05
169 257 0.10
170 550 0.21
171 925 0.36
172 387 0.15
173 26 0.01
174 1 0.00
175 4 0.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.34
Consensus pattern (165 bp):
TAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAATATCTTTTTCTTCA
TGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTTAACTTA
AAATTTGAGATTATAAAACCATTTAAAGCGAGTAA
Found at i:29020 original size:167 final size:168
Alignment explanation
Indices: 28798--29110 Score: 423
Period size: 167 Copynumber: 1.9 Consensus size: 168
28788 NNNNAATCAA
* ** *
28798 TTATGAGATTATAAAATCGTTTAAAGCAAGTAATATGGCTTTTGAATAAATGAGTGACTATAAAT
1 TTATGAGATTATAAAACCGTTTAAAGCAAGTAATAACGCTTTTGAAGAAATGAGTGACTATAAAT
** * * * * *
28863 GGACTTTTCTTGCCA-TGAATGCTTTTTTGTTCACGCTTCTCGAGGTAGACATTCAATTATTGTC
66 AAACTTTTCTTGCCAGTGAATGCATTTTTCTTCACACTTCTCGAAGTAGACATTCAATTATAGTC
*
28927 TATTTTCACCAAAAATAAAAAAAATCAATTTAAATCTG
131 TATTTTAACCAAAAATAAAAAAAATCAATTTAAATCTG
* ** *
28965 TTATGAGATTATAAAACCTTTTAAAGTGAGTAATAACG-TTGTTGAAGGAATGAGTGACTATAAA
1 TTATGAGATTATAAAACCGTTTAAAGCAAGTAATAACGCTT-TTGAAGAAATGAGTGACTATAAA
* * *
29029 TAAATTTTTTTTGCCAGTGAATGCATTTTTCTTCACATTTCTCGAAGTAGACATTCAATTATAGT
65 TAAACTTTTCTTGCCAGTGAATGCATTTTTCTTCACACTTCTCGAAGTAGACATTCAATTATAGT
*
29094 CTGTTTTAACCAAAAAT
130 CTATTTTAACCAAAAAT
29111 GTAAAACAAT
Statistics
Matches: 124, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
166 2 0.02
167 65 0.52
168 57 0.46
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (168 bp):
TTATGAGATTATAAAACCGTTTAAAGCAAGTAATAACGCTTTTGAAGAAATGAGTGACTATAAAT
AAACTTTTCTTGCCAGTGAATGCATTTTTCTTCACACTTCTCGAAGTAGACATTCAATTATAGTC
TATTTTAACCAAAAATAAAAAAAATCAATTTAAATCTG
Found at i:30174 original size:171 final size:170
Alignment explanation
Indices: 29359--31031 Score: 976
Period size: 171 Copynumber: 9.8 Consensus size: 170
29349 NNNNNNNNNN
* * * * * *
29359 ACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGTACTTTTCTT-CTG
1 ACCATTTAAAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGC-A
* ** * *
29423 AATAAATGCTTTTTTCAAC-ATGTTTC-CATGGTA-AGCATTCAATTATAGTTTGTTTTAATGAA
65 AATAAATGCCTTTTTCTTCTA-GTTTCTCAAGGTAGA-CATTCAATTATAGTCTGTTTTAAT-AA
* * *
29485 AAATAT-AAAAAATTCAACGTAAAATTAATTATGAGATTATAAA
127 AAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * * * * *
29528 ACCATTTGAAGTGGGTAATAAGGGTTTT-AAAGGAATG-GTTGACTATAAATAGACTTTTCTTTC
1 ACCATTTAAAGCGAGCAATAAGGCTTTTGAAA-GAATGAG-TGACTATAAATGGACTTTTCTTGC
** * * * * * ** * * *
29591 CTATGACTGCTTTTTTCTTCTCGTTTCTCGATATAGACATTCAACTATAATCTGTTTTAACCAAA
64 AAATAAATGCCTTTTTCTTCTAGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAA-TAAA
* **********
29656 AATGTAAAAAAAATCAACTNNNNNNNNNNTATGAGATTATAAA
128 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
** * * ** *
29699 ATTATTTAAAGCGAGTAATAAGGATTTT-AAACGAATG-GCTGACTATAAATAAACTTTTCTTAT
1 ACCATTTAAAGCGAGCAATAAGGCTTTTGAAA-GAATGAG-TGACTATAAATGGACTTTTCTT-G
* ** * * * ***
29762 C-AATGAATGCCTTTTTCTTC-ATGTTTCTTGA-GTAGACATTCAACTATAATATGTTTTTACCG
63 CAAATAAATGCCTTTTTCTTCTA-GTTTCTCAAGGTAGACATTCAATTATAGTCTG-TTTTAATA
* *
29824 AAAATGTAAAAAAAGT-AACTTAAAATTAATTATGAGATTATAAA
126 AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* ********** **
29868 ACCATTCT-AAGCGAGTAATAAGGCTTTTGAAAGAATGAGNNNNNNNNNNTAAACTTTTCTTGTC
1 ACCATT-TAAAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTG-C
* * * ** *********
29932 -AATGAATGCCTTTTTCTTCTAATTTTTTGAGGTAGACATTCAATTATAGTCTNNNNNNNNNNAA
64 AAATAAATGCCTTTTTCTTCTAGTTTCTCAAGGTAGACATTCAATTATAGTCT-GTTTTAATAAA
*
29996 AATGTAAAAAAATACAACTTAAAATC-ATATATGAGATTATAAA
128 AATGTAAAAAAATTCAACTTAAAATCAAT-TATGAGATTATAAA
* * * * *
30039 ATCATTTAAAGCGAGCAATGAGGCTGTTGAAAGAATGCGTGACAATAAATGGACTTTTCTTGCAA
1 ACCATTTAAAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCAA
* * *
30104 ATGAATGTCTATTTCTTCTAGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATAAAATA
66 ATAAATGCCTTTTTCTTCTAGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATAAAA-A
* * *
30169 TGTAAACAAATTTAGCTTAAAATCAATTATGAGATTATAAA
130 TGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* ********** * * * *
30210 ATCATTTAAAGCGANNNNNNNNNNTTTTGAAGGAATGGGTGACAATAAATGGACTTTTCTTGCAT
1 ACCATTTAAAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCAA
* * * * *
30275 ATAAATGCCTTTTTCTTCATA-TTTTTCGAGGCA-AGCATTCAATTGTAGTCTGTTTTAAAACAA
66 ATAAATGCCTTTTTCTTC-TAGTTTCTCAAGGTAGA-CATTCAATTATAGTCTGTTTTAATA-AA
** *
30338 AATACAAACAAATTCAACTTAAAATCAATTATGAGATTATAAA
128 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
********** * * *
30381 ACCATTTANNNNNNNNNNTAAGGCTTTTGAAAGAATGGGTGACTATAAATGAACTTTTCTTGCTA
1 ACCATTTAAAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCAA
* ** * * * * * *
30446 ATGAATTTCTTTGTCGTC-ATGTTTCTCGAGGTAGACATTCAATTATACTCTGTTCTAACCAAAA
66 ATAAATGCCTTTTTCTTCTA-GTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAA-TAAAA
* * **********
30510 ATATAAAAAAATTCAACTTAAAGTCAATTANNNNNNNNNNAA
129 ATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * *
30552 ACCATTTAAAGTGA-CTAATAAGGCTTTTGAAAGAAT-AGGTGACTATAAATAGACTTTTCATGC
1 ACCATTTAAAGCGAGC-AATAAGGCTTTTGAAAGAATGA-GTGACTATAAATGGACTTTTCTTGC
** * * * *
30615 CGATGAATGCCTTTTTCTT-TACAGTTT-T-AGAGGCAAACATTCAATTATAGTCTGTTTTAAGA
64 AAATAAATGCCTTTTTCTTCT--AGTTTCTCA-AGGTAGACATTCAATTATAGTCTGTTTTAA-T
* **********
30677 AAAAATGTAAACAAATTCAACTTAAAATCAATNNNNNNNNNNTAAA
125 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * *
30723 ACCATTTAAAGCAAGGAATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGA-TTTTCTTGTC-
1 ACCATTTAAAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTG-CA
** * * *
30786 AATAAATGCC-TTTTCTTCATA-TTTCTTGAGGTAGGCATTCAA-CACTAGTATGTTTTAACTAA
65 AATAAATGCCTTTTTCTTC-TAGTTTCTCAAGGTAGACATTCAATTA-TAGTCTGTTTTAA-TAA
* **********
30848 AAATGTAAAAATATNNNNNNNNNNATCAATTATGAGATTATAAA
127 AAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * *
30892 ACTATGTAAAGCGAGCAATAAGGCTTTTGAAAGAATGAATGACTATAAATGGACTTTTCTTGCTA
1 ACCATTTAAAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCAA
* * * *
30957 ATAAATGTCTTTTTGTTCTAATTTCT-AGAGGTAGACATTCAATTATAGTATGTTTTAATCAAAA
66 ATAAATGCCTTTTTCTTCTAGTTTCTCA-AGGTAGACATTCAATTATAGTCTGTTTTAAT-AAAA
31021 ATGTAAAAAAA
129 ATGTAAAAAAA
31032 NNNNNNNNNN
Statistics
Matches: 1170, Mismatches: 282, Indels: 102
0.75 0.18 0.07
Matches are distributed among these distances:
168 7 0.01
169 257 0.22
170 148 0.13
171 740 0.63
172 17 0.01
173 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.34
Consensus pattern (170 bp):
ACCATTTAAAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCTTGCAA
ATAAATGCCTTTTTCTTCTAGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATAAAAAT
GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
Found at i:31684 original size:171 final size:170
Alignment explanation
Indices: 31527--31840 Score: 427
Period size: 171 Copynumber: 1.8 Consensus size: 170
31517 NNNNNNNNNN
* * * *
31527 GAAAGAATGGGTGACTATAAATAGACTTTTCTTGC-CAATGAATGTCTTTTT-TTCATGTTTCTT
1 GAAAGAACGAGTGACTACAAATAGACTTTTCTTACTC-ATGAATGTCTTTTTCTTCATGTTTCTT
* ** * * *
31590 GACGG-AGGCATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAATATTTAACTTAAAATCA
65 -AAGGTAAACATTCAATTATAGTCTATTTTAAGAAAAAAT-GAAAAAA-ATTTAACATAAAATCA
*
31654 ATTATGAGATTGTAAAATTGTTTTAAGCGAGTAATAAGGCGATT
127 ATTATGAGATTATAAAATTGTTTTAAGCGAGTAATAAGGCGATT
*
31698 GAAAGAACGAGTGACTACAAATAGACTTTTCTTACTCATGAATGTTTTTTTCTTCATGTTTCTTA
1 GAAAGAACGAGTGACTACAAATAGACTTTTCTTACTCATGAATGTCTTTTTCTTCATGTTTCTTA
* * * *
31763 AGGTAAACATTCAATTATTGTCTGTTTTCAGGAAAAATGAAAAAAATTTAACATAAAATCAATTA
66 AGGTAAACATTCAATTATAGTCTATTTTAAGAAAAAATGAAAAAAATTTAACATAAAATCAATTA
31828 TGAGATTATAAAA
131 TGAGATTATAAAA
31841 CNNNNNNNNN
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
170 31 0.25
171 53 0.43
172 40 0.32
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (170 bp):
GAAAGAACGAGTGACTACAAATAGACTTTTCTTACTCATGAATGTCTTTTTCTTCATGTTTCTTA
AGGTAAACATTCAATTATAGTCTATTTTAAGAAAAAATGAAAAAAATTTAACATAAAATCAATTA
TGAGATTATAAAATTGTTTTAAGCGAGTAATAAGGCGATT
Found at i:31884 original size:170 final size:173
Alignment explanation
Indices: 31527--31962 Score: 438
Period size: 170 Copynumber: 2.6 Consensus size: 173
31517 NNNNNNNNNN
* *
31527 GAAAGAATGGGTGACTATAAATAGACTTTTCTTGC-CAATGAATGTCTTTTT-TTCATGTTTCTT
1 GAAAGAATAGGTGACTATAAATAGACTTTTCTTACTCAATGAATGTCTTTTTCTTCATGTTTCTT
* * * * * *
31590 GACGG-AGGCATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAATATTTAACTTAAAATCA
66 -AAGGTAGACATTCAATTATAGTCTGTTTTAAGAAAAAATAGAAAAAATATTTAACATAAAATCA
* * *
31654 ATTATGAGATTGTAAAATTGTTTTAAGCGAGTAATAAGGCGATT
130 ATTATGAGATTATAAAACTGTTTTAAGCGAGTAATAAGACGATT
* * *
31698 GAAAGAA-CGAGTGACTACAAATAGACTTTTCTTACTC-ATGAATGTTTTTTTCTTCATGTTTCT
1 GAAAGAATAG-GTGACTATAAATAGACTTTTCTTACTCAATGAATGTCTTTTTCTTCATGTTTCT
* * * *
31761 TAAGGTAAACATTCAATTATTGTCTGTTTTCAGGAAAAAT-GAAAAAA-ATTTAACATAAAATCA
65 TAAGGTAGACATTCAATTATAGTCTGTTTTAAGAAAAAATAGAAAAAATATTTAACATAAAATCA
********** **
31824 ATTATGAGATTATAAAACNNNNNNNNNNGAGTAATAAGACTTTT
130 ATTATGAGATTATAAAACTGTTTTAAGCGAGTAATAAGACGATT
* * * * * ** *
31868 GAAGGAATAGGTGACTATAAATAGATTTTTTTTA-TCAATAAATGCCTTTTTCTTCACATTTCTC
1 GAAAGAATAGGTGACTATAAATAGACTTTTCTTACTCAATGAATGTCTTTTTCTTCATGTTTCTT
* *
31932 AAGGTAGATATTCAATTATAGTTTGTTTTAA
66 AAGGTAGACATTCAATTATAGTCTGTTTTAA
31963 CTAAAAATGT
Statistics
Matches: 214, Mismatches: 45, Indels: 13
0.79 0.17 0.05
Matches are distributed among these distances:
169 2 0.01
170 119 0.56
171 53 0.25
172 40 0.19
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.37
Consensus pattern (173 bp):
GAAAGAATAGGTGACTATAAATAGACTTTTCTTACTCAATGAATGTCTTTTTCTTCATGTTTCTT
AAGGTAGACATTCAATTATAGTCTGTTTTAAGAAAAAATAGAAAAAATATTTAACATAAAATCAA
TTATGAGATTATAAAACTGTTTTAAGCGAGTAATAAGACGATT
Found at i:34700 original size:171 final size:170
Alignment explanation
Indices: 34227--37831 Score: 2114
Period size: 171 Copynumber: 21.0 Consensus size: 170
34217 AATTTTAACT
* * * *
34227 GACA-TCAACTATAATCTGTTTTAACCAAAAATGCA-AAAAAAAATCAACTTAAAATCAATTATG
1 GACATTCAATTATAGTCTGTTTTAA-CAAAAAT--ATCAAAAAATTCAACTTAAAATCAATTATG
* * *
34290 AGATTATAAAACCATTCAAAGCGAGTAATAAGGCTATTGAAAGAATGAGT-AGCTATAAATGAAC
63 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGA-CTATAAATGGAC
*
34354 TTTTCTTAG-CAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTG
127 TTTTCTT-GCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
* *
34398 GACATTCAATTATAGTCTGTTTGAACCAAAAATAT-AAAAAATTCTACTTAAAATCAATTATGAG
1 GACATTCAATTATAGTCTGTTTTAA-CAAAAATATCAAAAAATTCAACTTAAAATCAATTATGAG
** * * * * * * *
34462 ATTATAAAACCATTTAAAGCGAGTAGCAAGGCTCTTAAAAGAACGGGTTACTGTAAATGAACTTT
65 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTT
* * *
34527 TCTTGCCAATGAATGTCTTTTCCTTCATGTTTCTCGAGATA
130 TCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
** *
34568 GACATTCAATTATAGTCTGTTTTAATCAAAAAGGTCAAAAAATTTAACTTAAAATCAATTATGAG
1 GACATTCAATTATAGTCTGTTTTAA-CAAAAATATCAAAAAATTCAACTTAAAATCAATTATGAG
* * * *
34633 ATTACAAAATCATTTAAAATGC-A-TAATAAGGCTCTTGAAAGAATGAGTGACTGTAAGA-GGAC
65 ATTATAAAACCATTT-AAA-GCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAA-ATGGAC
* ** * * * *
34695 TTTTCTTGCCCATGAATGTTTTTTTTTTCACGTTTCTCAAAGTA
127 TTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
* * * *
34739 GACAGTCAGTTATAGTCTATTTTAATAAAAAATAT-AAATAAATTCAACTT-AAATCAATTATGA
1 GACATTCAATTATAGTCTGTTTTAA-CAAAAATATCAAA-AAATTCAACTTAAAATCAATTATGA
* * * * * *
34802 GATTATAAAACCATTTAAAGCGAGTAATTAGACTTTTGAAGGAATGGGTGACAATAAATAGACTT
64 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTT
* * * ** * **
34867 TTTTTACCAATGAATGCCCTTTTCTTCACATTTTTTTAGGTA
129 TTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
* * *
34909 GGCATTCAATTATAGTCTGTTTTAAGGAAAAATA-CAAACAAATTCAACTTAAAATCAATTAGGA
1 GACATTCAATTATAGTCTGTTTTAA-CAAAAATATCAAA-AAATTCAACTTAAAATCAATTATGA
* * * *
34973 AATTATAAAACCATTTAAAGCAAGCAATAAGGCTTTTGAAAGAAT-AGGTGACAATAAATGGACT
64 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA-GTGACTATAAATGGACT
* * *
35037 TTTCTTACCAAT-AATTGTCTTTTTCTTCATGTTTCTCGTGGTA
128 TTTCTTGCCAATGAA-TGCCTTTTTCTTCATGTTTCTCGAGGTA
* *
35080 GATATTCAATTATAGTCTGTTTTAACTAAAAATAT-AAAAAAATCTAACTTAAAATC-ATTATGA
1 GACATTCAATTATAGTCTGTTTTAAC-AAAAATATCAAAAAATTC-AACTTAAAATCAATTATGA
* * * ** *
35143 GATAATAAAATCGTTTAAAGCGAGTAATAAGAATTTTGAAGGAATG-GT-AGCTATAAATGGACT
64 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGA-CTATAAATGGACT
* * *
35206 TTT-TATGTCAATAAATGCCTTTTTCTTCATGTTTCTCAAGGTA
128 TTTCT-TGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
* * ** * *
35249 GACTTTTAGCTATAATCTATTTTAACTAAAAATA-CAAAAACATTCAACTTAAAATCAATTATGA
1 GACATTCAATTATAGTCTGTTTTAAC-AAAAATATCAAAAA-ATTCAACTTAAAATCAATTATGA
* * * * *
35313 GATTATAAAACCATTAAAAGTGAGTAATAAGGCTGTTGAAAGAATAAGTGGCTATAAAT-GACCT
64 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGA-CT
* * * *
35377 TTTGTTACCAATGAATG-CTTTTTCTTCACGTTTCTCTAGGTA
128 TTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
* * *
35419 GACATTCAATTATAGTTTGTTTTAACTAAAAACAT-AAAAAATTTAACTTAAAATCAATTATGAG
1 GACATTCAATTATAGTCTGTTTTAAC-AAAAATATCAAAAAATTCAACTTAAAATCAATTATGAG
********** * * * * * * * *
35483 ANNNNNNNNNNATTTAAAACGAGTAATAAAGCTTTTGAAGGAATGGGTTACAATAAATGAACGTT
65 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTT
* *
35548 TCTTGTCAATGAATGCCTTTTTCTTCTTAT-TTTCT-GAGGCA
130 TCTTGCCAATGAATGCCTTTTTCTTC--ATGTTTCTCGAGGTA
* * * * *
35589 GGCATTTAATTATAATCTGTTTTAAGAAAAA-ATACAAACAAATTCAACTTAAAATTAATTATGA
1 GACATTCAATTATAGTCTGTTTTAACAAAAATAT-CAAA-AAATTCAACTTAAAATCAATTATGA
* * * * * * *
35653 GATTATAAAACTATTTAAAGCGAGGAATAAAGCTTTT-AAAGGAATGGGTTACTATAAATTG-TT
64 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA-GAATGAGTGACTATAAATGGACT
* * * *
35716 TTTCTTGCCACTGAATG-CGTTTTCTTCACGTTTCTCAAGGTA
128 TTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
** * * * *
35758 -AGCATTCAACAATAGTCTATTTAAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTANNN
1 GA-CATTCAATTATAGTCTGTTTTAAC-AAAAATATCAAAAAATTCAACTTAAAATCAATTA---
***************************************************
35822 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
61 --------------TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAG
***********************************************************
35887 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
112 TGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
***************** * * * * ** *
35946 NNNNNNNNNNNNNNNNGTCTGTTTTA-AGCAAAAATGTAAAAAAATTCAACTT-CAATCAATTAT
1 GACATTCAATTATAGTCTGT-TTTAACA-AAAATATCAAAAA--ATTCAACTTAAAATCAATTAT
* * * * * * ** *
36009 GAGACTATAAAACTATTTACAGCGAGTAATAAGGCTTTTGAAAGAATGAGTAAATGT-TTTAGAC
62 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGAC
* * * * * * *
36073 TTTTTTTACCAATAAATTCCTTTTTCTTTATGCTTCTCAAGGTA
127 TTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
* * * *
36117 GACATTCAATTATAATCTGTTTTAAC-TAAATATGTAAACAAATTCAACTTAAAATCAATTATGG
1 GACATTCAATTATAGTCTGTTTTAACAAAAATAT-CAAA-AAATTCAACTTAAAATCAATTATGA
* * * *
36181 GATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAACA-AATGGGTGAGTCTAAATGGACT
64 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA-AGAATGAGTGACTATAAATGGACT
* * *
36245 TTTCTTGTCAATGAAT-CTCTTTTTCTTCACGTTTCTCAAGGTA
128 TTTCTTGCCAATGAATGC-CTTTTTCTTCATGTTTCTCGAGGTA
* * * * * * * * *
36288 TACATTCAATTATATTCTATTTTTAGAATAAATATAAAACAAATTTAACTTAAAATTAATTTTGA
1 GACATTCAATTATAGTCTGTTTTAACAA-AAATATCAAA-AAATTCAACTTAAAATCAATTATGA
* * *
36353 GATTATAAAACCATTTAAAGCGAGAAATAAGGTTTTTGAAAGAATGGGTGACTATAAATGGACTT
64 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTT
* *
36418 TTTTTGCCAATGAATG--TGTTTTCTTCATGTTTCTCAAGGTA
129 TTCTTGCCAATGAATGCCT-TTTTCTTCATGTTTCTCGAGGTA
* * * * **
36459 GGCATTTAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAAATTCAACTTAAAATCAATTACAA
1 GACATTCAATTATAGTCTGTTTTAAC-AAAAATAT-CAAAAAATTCAACTTAAAATCAATTATGA
* * * *
36524 GATTATAAAATCATGTCAAA-CGAGAAATAAGGCTTTTGAAAGAATGAGTGACTATAAATTGACT
64 GATTATAAAACCAT-TTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACT
* * * ** * **
36588 TTTCTTACCCATGAATGCTTTTTTCTTCACATTTCTCAAACTA
128 TTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
* * * * * ** * * *
36631 CACAGTCAATTATTGTCTATTTTCATGAAAA-ATGAAAACAATTTAACATAAAATCAATTATGAG
1 GACATTCAATTATAGTCTGTTTTAACAAAAATATCAAAA-AATTCAACTTAAAATCAATTATGAG
* * * * *
36695 ATTATGAAATCATTTAAAGCAAGTAATAAGGCTTTTGAAGGAAT-AGGTAACTATAAATGGACTT
65 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA-GTGACTATAAATGGAC-T
* ** * ** * *
36759 TTTTTTTACAATGAATGCCTTTCTCTTCACATTTTTCGATGTA
128 TTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
* * *
36802 GGCATTCAATTATAGTCTGTTTTAAGGAAAAATGT-AAACAAATTCAACTTAAAATCAATTATGA
1 GACATTCAATTATAGTCTGTTTTAA-CAAAAATATCAAA-AAATTCAACTTAAAATCAATTATGA
* * * *
36866 G-TTAATAAAACCATTTAAAGCGA-TGAATAAGGCTTTTGAAGGAATGACTGACTATAAATAGAT
64 GATT-ATAAAACCATTTAAAGCGAGT-AATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGAC
* *
36929 TTTTCTTGCCACTGAATG-CTTTTTCTTCATGTTTCTTGAGGTA
127 TTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
* * ** * *
36972 GGCGTTCAACAATAGTCTGTTTTAACCTAAAATATAAAAAAATTC-ACTTAAAATCAATTATGAG
1 GACATTCAATTATAGTCTGTTTTAA-CAAAAATATCAAAAAATTCAACTTAAAATCAATTATGAG
*
37036 ATTATAAAACCATTTAAAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTT
65 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTT
* * * * * *
37101 TGTTGCTAATGAATGTCTTTTTCTTCAAGTTGCT-GAACGTA
130 TCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCG-AGGTA
* * * * * * * * *
37142 GACATTCAGTTATAGTTTTTTTTAAGTAAAAATGTAAAAAAATTCAACTTGAAATCGATTATGAT
1 GACATTCAATTATAGTCTGTTTTAA-CAAAAATATCAAAAAATTCAACTTAAAATCAATTATGAG
* * * * *
37207 ACTATAAAACTATTTACAA-CGAGTAATAAAGCTTTTGAAAGAATGAGTGACTATAATTAGACTT
65 ATTATAAAACCATTTA-AAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTT
* * * *** *
37271 TTGTTACCAATTAATGCCTTTTTCTTCACACTTC-CTAAGGTA
129 TTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTC-GAGGTA
* ** * *
37313 GACATTCAATTATAGTCTATTTTAACTAAAAACGTGAACAAATTCAACTTAAAATCAATTATGAG
1 GACATTCAATTATAGTCTGTTTTAAC-AAAAATATCAAAAAATTCAACTTAAAATCAATTATGAG
* * *
37378 ATTATAAAACCATTTAAAGCGAGCAATAAAGCTTTTGAACA-AATGGGTGAGC-ATAAATGGACT
65 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA-AGAATGAGTGA-CTATAAATGGACT
* ** * * * *
37441 TTTTTTATCAATTAAT-CTCTTTTTCTTCACGTTTCTCAAGGTG
128 TTTCTTGCCAATGAATGC-CTTTTTCTTCATGTTTCTCGAGGTA
* * * * * * *
37484 GACATTCAATTATATTCTATTTTGATCACAAATATAAAACAAATTTAACTTAAAATCAATTTTGA
1 GACATTCAATTATAGTCTGTTTT-AACAAAAATATCAAA-AAATTCAACTTAAAATCAATTATGA
* * * *
37549 GATTATAACACCATTTAAAACGAGAAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTT
64 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTT
* * * * * *
37614 TTCTTGCTAATAAATGTC-TTTTCTTTATGTTTGTCAAGGTA
129 TTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
* * * * *
37655 GGCATTCAATTATAGTATGTTTTAATGAAAAATGTAAGAAAAATTCAACTTAAAATCAATTATGA
1 GACATTCAATTATAGTCTGTTTTAA-CAAAAATATCA-AAAAATTCAACTTAAAATCAATTATGA
* * * * * * *
37720 GATTATAAAATCGTTTCAAGTGAGTAATAAGGCTTTTGAAAAAATTAGTGACTATAAATGAACTT
64 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTT
* * * * *
37785 TTCTTGCCCATGAATG-CTTTTTTTTCACGTTTTTCAAGGTA
129 TTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
37826 GACATT
1 GACATT
37832 TAACATAAAA
Statistics
Matches: 2590, Mismatches: 725, Indels: 238
0.73 0.20 0.07
Matches are distributed among these distances:
167 1 0.00
168 11 0.00
169 338 0.13
170 749 0.29
171 1094 0.42
172 353 0.14
173 12 0.00
187 1 0.00
188 10 0.00
189 12 0.00
190 9 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.34
Consensus pattern (170 bp):
GACATTCAATTATAGTCTGTTTTAACAAAAATATCAAAAAATTCAACTTAAAATCAATTATGAGA
TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTTT
CTTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTA
Found at i:34917 original size:341 final size:340
Alignment explanation
Indices: 34227--37831 Score: 1891
Period size: 341 Copynumber: 10.5 Consensus size: 340
34217 AATTTTAACT
* * *
34227 GACA-TCAACTATAATCTGTTTTAACCAAAAATGCAAAAAAAAATCAACTTAAAATCAATTATGA
1 GACATTCAATTATAATCTGTTTTAA-CAAAAAT--ACAAAAAATTCAACTTAAAATCAATTATGA
* * *
34291 GATTATAAAACCA-TTCAAAGCGAGTAATAAGGCTATTGAAAGAATGAGT-AGCTATAAATGAAC
63 GATTATAAAACCATTTAAAAGCAAGTAATAAGGCTATTGAAAGAATGAGTGA-CTATAAATGGAC
* * * *
34354 TTTTCTTAGCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTGGACATTCAATTATAGTCTGTT
127 TTTTCTTACCAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTT
* * *
34419 TGAACCAAAAATATAAAAAATTCTACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
192 TTAACTAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
** * * * * * ** *
34484 GTAGCAAGGCTCTTAAAAGAACGGGTTACTGTAAATGAACTTTTCTTGCCAATGAATG-TCTTTT
257 GTAATAAGACTTTTGAAGGAATGGGTTACAATAAATGAACTTTTCTTGCCAATGAATGCCCTTTT
* *
34548 CCTTCATGTTTCTCGAGATA
322 -CTTCATATTTCTCGAGGTA
* *
34568 GACATTCAATTATAGTCTGTTTTAATCAAAAAGGT-CAAAAAATTTAACTTAAAATCAATTATGA
1 GACATTCAATTATAATCTGTTTTAA-CAAAAA--TACAAAAAATTCAACTTAAAATCAATTATGA
* * * *
34632 GATTACAAAATCATTTAAAATGC-A-TAATAAGGCTCTTGAAAGAATGAGTGACTGTAAGA-GGA
63 GATTATAAAACCATTTAAAA-GCAAGTAATAAGGCTATTGAAAGAATGAGTGACTATAA-ATGGA
* * * * * * * * *
34694 CTTTTCTTGCCCATGAATGTTTTTTTTTTCACGTTTCTCAAAGTAGACAGTCAGTTATAGTCTAT
126 CTTTTCTTACCAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGT
34759 TTTAA-TAAAAAATATAAATAAATTCAACTT-AAATCAATTATGAGATTATAAAACCATTTAAAG
191 TTTAACT-AAAAATATAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * *
34822 CGAGTAATTAGACTTTTGAAGGAATGGGTGACAATAAAT-AGACTTTTTTTACCAATGAATGCCC
254 CGAGTAATAAGACTTTTGAAGGAATGGGTTACAATAAATGA-ACTTTTCTTGCCAATGAATGCCC
* * **
34886 TTTTCTTCACATTTTTTTAGGTA
318 TTTTCTTCATATTTCTCGAGGTA
* * * * *
34909 GGCATTCAATTATAGTCTGTTTTAAGGAAAAATACAAACAAATTCAACTTAAAATCAATTAGGAA
1 GACATTCAATTATAATCTGTTTTAA-CAAAAATACAAA-AAATTCAACTTAAAATCAATTATGAG
* * *
34974 ATTATAAAACCATTT-AAAGCAAGCAATAAGGCTTTTGAAAGAAT-AGGTGACAATAAATGGACT
64 ATTATAAAACCATTTAAAAGCAAGTAATAAGGCTATTGAAAGAATGA-GTGACTATAAATGGACT
* * *
35037 TTTCTTACCAAT-AATTGTCTTTTTCTTCATGTTTCTCGTGGTAGATATTCAATTATAGTCTGTT
128 TTTCTTACCAATGAA-TGTCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTT
* * * *
35101 TTAACTAAAAATATAAAAAAATCTAACTTAAAATC-ATTATGAGATAATAAAATCGTTTAAAGCG
192 TTAACTAAAAATATAAAAAATTC-AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG
* * * * * *
35165 AGTAATAAGAATTTTGAAGGAAT-GG-TAGCTATAAATGGACTTTT-TATGTCAATAAATGCCTT
256 AGTAATAAGACTTTTGAAGGAATGGGTTA-CAATAAATGAACTTTTCT-TGCCAATGAATGCCCT
* *
35227 TTTCTTCATGTTTCTCAAGGTA
319 TTTCTTCATATTTCTCGAGGTA
* * ** *
35249 GACTTTTAGCTATAATCTATTTTAACTAAAAATACAAAAACATTCAACTTAAAATCAATTATGAG
1 GACATTCAATTATAATCTGTTTTAAC-AAAAATACAAAAA-ATTCAACTTAAAATCAATTATGAG
** * * *
35314 ATTATAAAACCA-TTAAAAGTGAGTAATAAGGCTGTTGAAAGAATAAGTGGCTATAAAT-GACCT
64 ATTATAAAACCATTTAAAAGCAAGTAATAAGGCTATTGAAAGAATGAGTGACTATAAATGGA-CT
* * *
35377 TTTGTTACCAATGAATG-CTTTTTCTTCACGTTTCTCTAGGTAGACATTCAATTATAGTTTGTTT
128 TTTCTTACCAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTT
* * ********** *
35441 TAACTAAAAACATAAAAAATTTAACTTAAAATCAATTATGAGANNNNNNNNNNATTTAAAACGAG
193 TAACTAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAG
* * *
35506 TAATAA-AGCTTTTGAAGGAATGGGTTACAATAAATGAACGTTTCTTGTCAATGAATGCCTTTTT
258 TAATAAGA-CTTTTGAAGGAATGGGTTACAATAAATGAACTTTTCTTGCCAATGAATGCCCTTTT
* *
35570 CTTCTTATTT-TCTGAGGCA
322 CTTCATATTTCTC-GAGGTA
* * * *
35589 GGCATTTAATTATAATCTGTTTTAAGAAAAAATACAAACAAATTCAACTTAAAATTAATTATGAG
1 GACATTCAATTATAATCTGTTTTAA-CAAAAATACAAA-AAATTCAACTTAAAATCAATTATGAG
* * * * * * * * *
35654 ATTATAAAACTATTT-AAAGCGAGGAATAAAGCT-TTTAAAGGAATGGGTTACTATAAATTG-TT
64 ATTATAAAACCATTTAAAAGCAAGTAATAAGGCTATTGAAA-GAATGAGTGACTATAAATGGACT
* * * * ** *
35716 TTTCTTGCCACTGAATG-CGTTTTCTTCACGTTTCTCAAGGTA-AGCATTCAACAATAGTCTATT
128 TTTCTTACCAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGA-CATTCAATTATAGTCTGTT
* * ******
35779 TAAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTANNNNNNNNNNNNNNNNNNNNNNNNN
192 TTAACTAAAAATAT-AAAAAATTCAACTTAAAATCAATTA-------------------TGAGAT
*****************************************************************
35844 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
237 TATAAAACCATTTAAAGCGAGTAATAAGACTTTTGAAGGAATGGGTTACAATAAATGAACTTTTC
***************************************
35909 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
302 TTGCCAATGAATGCCCTTTTCTTCATATTTCTCGAGGTA
*************** *
35948 NNNNNNNNNNNNNNGTCTGTTTTAAGCAAAAATGTA-AAAAAATTCAACTT-CAATCAATTATGA
1 GACATTCAATTATAATCTGTTTTAA-CAAAAA--TACAAAAAATTCAACTTAAAATCAATTATGA
* * * * * * * * ** *
36011 GACTATAAAACTATTT-ACAGCGAGTAATAAGGCTTTTGAAAGAATGAGTAAATGT-TTTAGACT
63 GATTATAAAACCATTTAAAAGCAAGTAATAAGGCTATTGAAAGAATGAGTGACTATAAATGGACT
* * * * * * *
36074 TTTTTTACCAATAAAT-TCCTTTTTCTTTATGCTTCTCAAGGTAGACATTCAATTATAATCTGTT
128 TTTCTTACCAATGAATGT-CTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTT
* * * *
36138 TTAACTAAATATGTAAACAAATTCAACTTAAAATCAATTATGGGATTATAAAACTATTTAAAGCG
192 TTAACTAAAAATATAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG
* ** * *** * * *
36203 AGTAATAAGGCTTTTGAACAAATGGGTGAGTCTAAATGGACTTTTCTTGTCAATGAAT-CTCTTT
256 AGTAATAAGACTTTTGAAGGAATGGGTTACAATAAATGAACTTTTCTTGCCAATGAATGC-CCTT
** *
36267 TTCTTCACGTTTCTCAAGGTA
320 TTCTTCATATTTCTCGAGGTA
* * * * * * * * *
36288 TACATTCAATTATATTCTATTTTTAGAATAAATATAAAACAAATTTAACTTAAAATTAATTTTGA
1 GACATTCAATTATAATCTGTTTTAACAA-AAATA-CAAA-AAATTCAACTTAAAATCAATTATGA
* * * * *
36353 GATTATAAAACCATTT-AAAGCGAGAAATAAGGTTTTTGAAAGAATGGGTGACTATAAATGGACT
63 GATTATAAAACCATTTAAAAGCAAGTAATAAGGCTATTGAAAGAATGAGTGACTATAAATGGACT
* * * * * * *
36417 TTTTTTGCCAATGAATGT-GTTTTCTTCATGTTTCTCAAGGTAGGCATTTAATTATAGTCTGTTT
128 TTTCTTACCAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTT
* ** * *
36481 TAACTAAAAATGTAAAAAAAATTCAACTTAAAATCAATTACAAGATTATAAAATCATGTCAAA-C
193 TAACTAAAAA--TATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT-TTAAAGC
* * * * * * * * **
36545 GAGAAATAAGGCTTTTGAAAGAATGAGTGACTATAAATTG-ACTTTTCTTACCCATGAATGCTTT
255 GAGTAATAAGACTTTTGAAGGAATGGGTTACAATAAA-TGAACTTTTCTTGCCAATGAATGCCCT
* * **
36609 TTTCTTCACATTTCTCAAACTA
319 TTTCTTCATATTTCTCGAGGTA
* * ** * ** * * *
36631 CACAGTCAATTATTGTCTATTTTCATGAAAAATGA-AAACAATTTAACATAAAATCAATTATGAG
1 GACATTCAATTATAATCTGTTTT-AACAAAAAT-ACAAAAAATTCAACTTAAAATCAATTATGAG
* * * * *
36695 ATTATGAAATCATTT-AAAGCAAGTAATAAGGCTTTTGAAGGAAT-AGGTAACTATAAATGGACT
64 ATTATAAAACCATTTAAAAGCAAGTAATAAGGCTATTGAAAGAATGA-GTGACTATAAATGGAC-
* * * * * * *
36758 TTTTTTTTA-CAATGAATGCCTTTCTCTTCACATTTTTCGATGTAGGCATTCAATTATAGTCTGT
127 -TTTTCTTACCAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGT
** *
36822 TTTAAGGAAAAATGTAAACAAATTCAACTTAAAATCAATTATGAG-TTAATAAAACCATTTAAAG
191 TTTAACTAAAAATATAAA-AAATTCAACTTAAAATCAATTATGAGATT-ATAAAACCATTTAAAG
* ** * * * *
36886 CGA-TGAATAAGGCTTTTGAAGGAATGACTGACTATAAAT-AGATTTTTCTTGCCACTGAATG-C
254 CGAGT-AATAAGACTTTTGAAGGAATGGGTTACAATAAATGA-ACTTTTCTTGCCAATGAATGCC
* * *
36948 TTTTTCTTCATGTTTCTTGAGGTA
317 CTTTTCTTCATATTTCTCGAGGTA
* * ** *
36972 GGCGTTCAACAATAGTCTGTTTTAACCTAAAATATA-AAAAAATTC-ACTTAAAATCAATTATGA
1 GACATTCAATTATAATCTGTTTTAA-C-AAAA-ATACAAAAAATTCAACTTAAAATCAATTATGA
* * *
37035 GATTATAAAACCATTT-AAAGCGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACT
63 GATTATAAAACCATTTAAAAGCAAGTAATAAGGCTATTGAAAGAATGAGTGACTATAAATGGACT
* * * * * * * * *
37099 TTTGTTGCTAATGAATGTCTTTTTCTTCAAGTTGCT-GAACGTAGACATTCAGTTATAGTTTTTT
128 TTTCTTACCAATGAATGTCTTTTTCTTCACGTTTCTCG-AGGTAGACATTCAATTATAGTCTGTT
* * * * * * *
37163 TTAAGTAAAAATGTAAAAAAATTCAACTTGAAATCGATTATGATACTATAAAACTATTTACAA-C
192 TTAACTAAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA-AAGC
* * * * * * * * *
37227 GAGTAATAA-AGCTTTTGAAAGAATGAGTGACTAT-AATTAGACTTTTGTTACCAATTAATGCCT
255 GAGTAATAAGA-CTTTTGAAGGAATGGGTTACAATAAATGA-ACTTTTCTTGCCAATGAATGCCC
* * *
37290 TTTTCTTCACACTTC-CTAAGGTA
318 TTTTCTTCATATTTCTC-GAGGTA
* * * *
37313 GACATTCAATTATAGTCTATTTTAACTAAAAACGT-GAACAAATTCAACTTAAAATCAATTATGA
1 GACATTCAATTATAATCTGTTTTAAC-AAAAA--TACAAAAAATTCAACTTAAAATCAATTATGA
* * * * *
37377 GATTATAAAACCATTT-AAAGCGAGCAATAAAGCTTTTGAACA-AATGGGTGAGC-ATAAATGGA
63 GATTATAAAACCATTTAAAAGCAAGTAATAAGGCTATTGAA-AGAATGAGTGA-CTATAAATGGA
* * * * * * * *
37439 CTTTTTTTATCAATTAATCTCTTTTTCTTCACGTTTCTCAAGGTGGACATTCAATTATATTCTAT
126 CTTTTCTTACCAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGT
* * * * *
37504 TTTGA-TCACAAATATAAAACAAATTTAACTTAAAATCAATTTTGAGATTATAACACCATTTAAA
191 TTTAACT-AAAAATAT-AAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
* * * * * * * * * *
37568 ACGAGAAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCTAATAAATG-TC
253 GCGAGTAATAAGACTTTTGAAGGAATGGGTTACAATAAATGAACTTTTCTTGCCAATGAATGCCC
* * * *
37632 TTTTCTTTATGTTTGTCAAGGTA
318 TTTTCTTCATATTTCTCGAGGTA
* * * *
37655 GGCATTCAATTATAGTATGTTTTAATGAAAAATGTA-AGAAAAATTCAACTTAAAATCAATTATG
1 GACATTCAATTATAATCTGTTTTAA-CAAAAA--TACA-AAAAATTCAACTTAAAATCAATTATG
* * * ** * * * *
37719 AGATTATAAAATCGTTT-CAAGTGAGTAATAAGGCTTTTGAAAAAATTAGTGACTATAAATGAAC
62 AGATTATAAAACCATTTAAAAGCAAGTAATAAGGCTATTGAAAGAATGAGTGACTATAAATGGAC
* * * * *
37783 TTTTCTTGCCCATGAATG-CTTTTTTTTCACGTTTTTCAAGGTAGACATT
127 TTTTCTTACCAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGACATT
37832 TAACATAAAA
Statistics
Matches: 2477, Mismatches: 658, Indels: 257
0.73 0.19 0.08
Matches are distributed among these distances:
338 15 0.01
339 193 0.08
340 495 0.20
341 712 0.29
342 481 0.19
343 374 0.15
344 20 0.01
357 2 0.00
358 67 0.03
359 112 0.05
360 4 0.00
361 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.34
Consensus pattern (340 bp):
GACATTCAATTATAATCTGTTTTAACAAAAATACAAAAAATTCAACTTAAAATCAATTATGAGAT
TATAAAACCATTTAAAAGCAAGTAATAAGGCTATTGAAAGAATGAGTGACTATAAATGGACTTTT
CTTACCAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAA
CTAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
TAAGACTTTTGAAGGAATGGGTTACAATAAATGAACTTTTCTTGCCAATGAATGCCCTTTTCTTC
ATATTTCTCGAGGTA
Found at i:38076 original size:303 final size:303
Alignment explanation
Indices: 37526--38120 Score: 664
Period size: 303 Copynumber: 2.0 Consensus size: 303
37516 TATAAAACAA
* * *
37526 ATTTAACTTAAAATCAATTTTGAGATTATAACACCATTTAAAACGAGAAATAAGGCTTTTGAAAG
1 ATTTAACATAAAATCAATTTTGAGATTATAAAACAATTTAAAACGAGAAATAAGGCTTTTGAAAG
* * * * *
37591 AATGGGTGACTATAAATGGACTTTTCTTGCTAATAAATGTCTTTTCTTTATGTTTGTCAAGGTAG
66 AATAGGTGACTATAAATGGACTTTTCTTGCTAATAAATGTCTTTTCTTCATATTTCTCAAGGTAA
*
37656 GCATTCAATTATAGTATGTTTTAATGAAAAATGTAAGAAAAATTCAACTTAAAATCAATTATGAG
131 ACATTCAATTATAGTATGTTTTAAT-AAAAATGTAAGAAAAATTCAACTTAAAATCAATTATGAG
* * * *
37721 ATTATAAAATCGTTTCAAGTGAGTAATAAGGCTTTTGAAAAAATTAGTGACTATAAAT-GAACTT
195 ATCATAAAATCGTTTCAAATGACTAATAAGGCTTTTGAAAAAATGAGTGACTATAAATAG-ACTT
* * *
37785 TTCTTGCCCATGAAT-GCTTTTTTTTCACGTTTTTCAAGGTAGAC
259 TTCTTACCAATGAATACCTTTTTTTTCACGTTTTTCAAGGTAGAC
*
37829 ATTTAACATAAAATCAATTGTT-AGATTATAAAACAATTTAAAACGAGTAATAAGGCTTTTGAAA
1 ATTTAACATAAAATCAATT-TTGAGATTATAAAACAATTTAAAACGAGAAATAAGGCTTTTGAAA
* ** * * * *
37893 GAATAGGTGATTATAAATGGACTTTT-TTTATCAATGAATGTATTTTTCTTCGTATTTCTCGAGG
65 GAATAGGTGACTATAAATGGACTTTTCTTGCT-AATAAATGT-CTTTTCTTCATATTTCTCAAGG
* *********** * *
37957 TAAACATTCAATTATAGTCTGTTTTAACT-AANNNNNNNNNNCAATTCAACTTAAAATTATTTAT
128 TAAACATTCAATTATAGTATGTTTTAA-TAAAAATGTAAGAAAAATTCAACTTAAAATCAATTAT
* * * * *
38021 GAGCTCATAAAA-C-TATTTAGAATGACTAATAAGGCTTTTGCAGAAATGGGTGACTATAAATAG
192 GAGATCATAAAATCGT-TTCA-AATGACTAATAAGGCTTTTGAAAAAATGAGTGACTATAAATAG
* *
38084 ACTTTTCTTATCAATGAATACCTTTTTTTTCTCGTTT
255 ACTTTTCTTACCAATGAATACCTTTTTTTTCACGTTT
38121 CTCGGGATAA
Statistics
Matches: 239, Mismatches: 45, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
301 1 0.00
302 7 0.03
303 172 0.72
304 58 0.24
305 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (303 bp):
ATTTAACATAAAATCAATTTTGAGATTATAAAACAATTTAAAACGAGAAATAAGGCTTTTGAAAG
AATAGGTGACTATAAATGGACTTTTCTTGCTAATAAATGTCTTTTCTTCATATTTCTCAAGGTAA
ACATTCAATTATAGTATGTTTTAATAAAAATGTAAGAAAAATTCAACTTAAAATCAATTATGAGA
TCATAAAATCGTTTCAAATGACTAATAAGGCTTTTGAAAAAATGAGTGACTATAAATAGACTTTT
CTTACCAATGAATACCTTTTTTTTCACGTTTTTCAAGGTAGAC
Found at i:38438 original size:646 final size:646
Alignment explanation
Indices: 37209--38406 Score: 1369
Period size: 646 Copynumber: 1.9 Consensus size: 646
37199 ATTATGATAC
* * *
37209 TATAAAACTATTTACAACGAGTAATAAAGCTTTTGAAAGAATGAGTGACTATAATTAGACTTTTG
1 TATAAAACAATTTAAAACGAGTAATAAAGCTTTTGAAAGAATGAGTGACTATAAATAGACTTTTG
* * *
37274 TTACCAATTAATGCCTTTTTCTTCACACTTCCTAAGGTAGACATTCAATTATAGTCTATTTTAAC
66 TTACCAATGAATGCATTTTTCTTCACACTTCCTAAGGTAAACATTCAATTATAGTCTATTTTAAC
*
37339 TAAAAACGTGAACAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGCAA
131 TAAAAACGTGAACAAATTCAACTTAAAATCAATTATGAGATCATAAAACCATTTAAAGCGAGCAA
* * *
37404 TAAAGCTTTTGAACAAATGGGTGAGCATAAATGGACTTTTTTTATCAATTAATCTCTTTTTCTTC
196 TAAAGCTTTTGAACAAATGGGTGAGCATAAATAGACTTTTCTTATCAATGAATCTCTTTTTCTTC
** * * *
37469 ACGTTTCTCAAGGTGGACATTCAATTATATTCTATTTTGATCACAAATATAAAACAAATTTAACT
261 ACGTTTCTCAAGGTAAACATTCAATTATAATCTATTTTGACCAAAAATATAAAACAAATTTAACT
* * * * *
37534 TAAAATCAATTTTGAGATTATAACACCATTTAAAACGAGAAATAAGGCTTTTGAAAGAATGGGTG
326 AAAAATCAATTATGAGATTACAAAACCATTTAAAACGAGAAATAAGGATTTTGAAAGAATGGGTG
* * * * *
37599 ACTATAAATGGACTTTTCTTGCTAATAAATGTCTTTTCTTTATGTTTGTCAAGGTAGGCATTCAA
391 ACTATAAATGGACTTTTCTTGCCAATAAATGCCTTTTCTTTACGTTTGTCAAGATAGACATTCAA
* * ** *
37664 TTATAGTATGTTTTAATGAAAAATGTAAGAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
456 CTATAATATGTTTTAACCAAAAATGTAAGAAAAATTCAACTTAAAATAAATTATGAGATTATAAA
* * * ** *
37729 ATCGTTTCAAGTGAGTAATAAGGCTTTTGAAAAAATTAGTGACTATAAATGAACTTTTCTTGCCC
521 ACCATTTAAAGAAAATAATAAGGCTTTTGAAAAAATTAGTGACTATAAATGAACTTTTCTTGCCC
37794 ATGAATGCTTTTTTTTCACGTTTTTCAAGGTAGACATTTAACATAAAATCAATTGTTAGAT
586 ATGAATGCTTTTTTTTCACGTTTTTCAAGGTAGACATTTAACATAAAATCAATTGTTAGAT
* * *
37855 TATAAAACAATTTAAAACGAGTAATAAGGCTTTTGAAAGAAT-AGGTGATTATAAATGGACTTTT
1 TATAAAACAATTTAAAACGAGTAATAAAGCTTTTGAAAGAATGA-GTGACTATAAATAGACTTTT
* * * ** * * *
37919 TTTATCAATGAATGTATTTTTCTTCGTA-TTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTA
65 GTTACCAATGAATGCATTTTTCTTCACACTTCCT-AAGGTAAACATTCAATTATAGTCTATTTTA
********* * * * * *
37983 ACTAANNNNNNNNNNC-AATTCAACTTAAAATTATTTATGAGCTCATAAAACTATTTAGAA-TGA
129 ACTAA-AAACGTGAACAAATTCAACTTAAAATCAATTATGAGATCATAAAACCATTTA-AAGCGA
* * *
38046 -CTAATAAGGCTTTTGCAGAAATGGGTGA-CTATAAATAGACTTTTCTTATCAATGAATAC-CTT
192 GC-AATAAAGCTTTTGAACAAATGGGTGAGC-ATAAATAGACTTTTCTTATCAATGAAT-CTCTT
* * * * *
38108 TTTTTTCTCGTTTCTC-GGGATAAACATTCAATTATAATCTGTTTT-AGCCAAAAATGTAAAA-A
254 TTTCTTCACGTTTCTCAAGG-TAAACATTCAATTATAATCTATTTTGA-CCAAAAATATAAAACA
* ** * *
38170 CAATTTAACTAAAAATCAATTATGAGATTACAAAACTATTTAAAGTGGGTAATAAGGATTTTGAA
317 -AATTTAACTAAAAATCAATTATGAGATTACAAAACCATTTAAAACGAGAAATAAGGATTTTGAA
* ********** * **
38235 GGAATGGGTGNNNNNNNNNNGACTTTTCTTGCCAATGAAA-GCCTTTTTCTTCT-CGTTTTTGGA
381 AGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT-AAATGCC-TTTTCTT-TACGTTTGTCAA
* *
38298 GATAGACATTCAACTATAATCTGTTTTAACCAAAAATGTAA-AAAAGTTCAACTTAAAATAAATT
443 GATAGACATTCAACTATAATATGTTTTAACCAAAAATGTAAGAAAAATTCAACTTAAAATAAATT
*
38362 ATGAGATTATAAGACCATTTAAAGAAAATAATAAGGCTTTTGAAA
508 ATGAGATTATAAAACCATTTAAAGAAAATAATAAGGCTTTTGAAA
38407 GAATAGNNNN
Statistics
Matches: 448, Mismatches: 91, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
645 11 0.02
646 382 0.85
647 54 0.12
648 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.36
Consensus pattern (646 bp):
TATAAAACAATTTAAAACGAGTAATAAAGCTTTTGAAAGAATGAGTGACTATAAATAGACTTTTG
TTACCAATGAATGCATTTTTCTTCACACTTCCTAAGGTAAACATTCAATTATAGTCTATTTTAAC
TAAAAACGTGAACAAATTCAACTTAAAATCAATTATGAGATCATAAAACCATTTAAAGCGAGCAA
TAAAGCTTTTGAACAAATGGGTGAGCATAAATAGACTTTTCTTATCAATGAATCTCTTTTTCTTC
ACGTTTCTCAAGGTAAACATTCAATTATAATCTATTTTGACCAAAAATATAAAACAAATTTAACT
AAAAATCAATTATGAGATTACAAAACCATTTAAAACGAGAAATAAGGATTTTGAAAGAATGGGTG
ACTATAAATGGACTTTTCTTGCCAATAAATGCCTTTTCTTTACGTTTGTCAAGATAGACATTCAA
CTATAATATGTTTTAACCAAAAATGTAAGAAAAATTCAACTTAAAATAAATTATGAGATTATAAA
ACCATTTAAAGAAAATAATAAGGCTTTTGAAAAAATTAGTGACTATAAATGAACTTTTCTTGCCC
ATGAATGCTTTTTTTTCACGTTTTTCAAGGTAGACATTTAACATAAAATCAATTGTTAGAT
Found at i:38454 original size:171 final size:164
Alignment explanation
Indices: 38083--38526 Score: 369
Period size: 171 Copynumber: 2.6 Consensus size: 164
38073 ACTATAAATA
** * * *
38083 GACTTTTCTTATCAATGAATACCTTTTTTTTCTCGTTTCTCGG-GATAAACATTCAATTATAATC
1 GACTTTTCTTGCCAATGAATACCTTTTTCTTCTCGTTT-TTGGAGATAGACATTCAATTATAATC
* * * * *
38147 TGTTTTAGCCAAAAATGTAAAAACAATTTAACTAAAAATCAATTATGAGATTACAAAACTATTTA
65 TGTTTTAACCAAAAATGTAAAAA-AATTCAACTTAAAATAAATTATGAGATTACAAAACCATTTA
**** * * ***
38212 AAGTGGGTAATAAGGATTTTGAAGGAATGGGTGNNNNNNNNNN
129 AAGAAAATAATAAGGATTTTGAAAGAATAGGTG-------ATG
*
38255 GACTTTTCTTGCCAATGAA-AGCCTTTTTCTTCTCGTTTTTGGAGATAGACATTCAACTATAATC
1 GACTTTTCTTGCCAATGAATA-CCTTTTTCTTCTCGTTTTTGGAGATAGACATTCAATTATAATC
* * *
38319 TGTTTTAACCAAAAATGTAAAAAAGTTCAACTTAAAATAAATTATGAGATTATAAGACCATTTAA
65 TGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATAAATTATGAGATTACAAAACCATTTAA
* ***
38384 AGAAAATAATAAGGCTTTTGAAAGAATAGNNNNNNNNNNATG
130 AGAAAATAATAAGGATTTTGAAAGAATAG-------GTGATG
* * * * *
38426 GACTTTTCTTGCCAATGAATATCTTTTTCTT-TATGTTTCTAGATG-TAGACATTCAATTATAGT
1 GACTTTTCTTGCCAATGAATACCTTTTTCTTCT-CGTTTTTGGA-GATAGACATTCAATTATAAT
*
38489 CT-TTTT-TCCTAAAAATGTAAAAAAATTCAACTTAAAAT
64 CTGTTTTAACC-AAAAATGTAAAAAAATTCAACTTAAAAT
38527 TNNNNNNNNN
Statistics
Matches: 224, Mismatches: 35, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
169 2 0.01
170 32 0.14
171 114 0.51
172 76 0.34
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.36
Consensus pattern (164 bp):
GACTTTTCTTGCCAATGAATACCTTTTTCTTCTCGTTTTTGGAGATAGACATTCAATTATAATCT
GTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATAAATTATGAGATTACAAAACCATTTAAA
GAAAATAATAAGGATTTTGAAAGAATAGGTGATG
Found at i:39090 original size:171 final size:161
Alignment explanation
Indices: 38703--39832 Score: 637
Period size: 171 Copynumber: 6.7 Consensus size: 161
38693 NNNATCAATT
* * * * *
38703 ATGAGATTATAAAATCATTCAAAGCGAGTAATAAGACTATTGACAGAATGAGTGGCTGTAAATGA
1 ATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTATTGAAAGAATGAGTGACTGTAAATGG
* * * *
38768 ACTTTTCTTACCAATGAATGTCTTCGTCTTCACGTTTCTCAAGGTGGACATTTAATTATAGTCTG
66 ACTTTTCTTACCAATGAATGTCTT-TTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTATG
38833 TTTTAACCAAAAATGT-AAAAAATTCAACTTA
130 TTTTAACCAAAAATGTAAAAAAATTCAACTTA
* *
38864 NNNNNNNNNNTGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTCTTGAAAGAATG-GATGA
1 ---------ATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTATTGAAAGAATGAG-TGA
* * * * *
38928 CTGTAAATGGACTTTTTTTACCAATGAATGTCTTTTCCTTCATGTCTCTCGAGTTAGACATTCAA
56 CTGTAAATGGACTTTTCTTACCAATGAATGTCTTTT-CTTCACGTTTCTCAAGGTAGACATTCAA
* *
38993 TTATAGTATGTTTTAACCAAAAAGGTAAAAAAATTCAACTTNNNNNNNNNN
120 TTATAGTATGTTTTAACCAAAAATGTAAAAAAATTCAACTT---------A
* * * *
39044 ATGAGATTATAAAATCATTTAAAGCGCGTAATAAGGCTTTTGAAAGAACGAGTGACTATAAGA-G
1 ATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTATTGAAAGAATGAGTGACTGTAA-ATG
* * * * * *
39108 GACTTTTCTTGCCCATGAATGCTTTTTTTTTCAGGTTTCTCAAGGTAGACATTCAATTATAGTGT
65 GACTTTTCTTACCAATGAATG-TCTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTAT
* * * *
39173 ATTTTAACAAAAAATGTAAACAGATTCAACTTAAA
129 GTTTTAACCAAAAATGTAAAAAAATTCAACTT--A
* * * * ** * * *
39208 ATCA-ATTATGAGATTANNNNNNNNNNTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-AGGGGAC
1 ATGAGATTATAAAATCA--------TTTAAAGCGAGTAATAAGGCTATTGAAAGAATGA-GTGAC
** * * ** *
39271 AATAAATGGACTTTT-TTACCAATGAATGCCCTTTTCTTCACATTTCTTGAGGTAGGCATTCAAT
57 TGTAAATGGACTTTTCTTACCAATGAATG-TCTTTTCTTCACGTTTCTCAAGGTAGACATTCAAT
* ** * *
39335 TATAGTTTGTTTTAAGGAAAAATGCAAACAAATTCAACTTAAAATCA
121 TATAGTATGTTTTAACCAAAAATGTAAAAAAATTCAAC-T----T-A
* * * * *
39382 ATTTGAAAATTATAAAACCTTTTAAAGCGA-TCAATAAGGCTTTTGAAAGAATGAGTGACTATAA
1 A--TG-AGATTATAAAATCATTTAAAGCGAGT-AATAAGGCTATTGAAAGAATGAGTGACTGTAA
* * ** * * * * *
39446 ATGGACTTATCCTGGCAATGAATGTCTTTTTTTTTATGTTTCTCAAGGAAGACATTTAATTATAG
62 ATGGACTTTTCTTACCAATGAATGTC-TTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAG
*
39511 TATGTTTTAACTAAAAATGTAAAACAAATTCAACTTAAAACCAA
126 TATGTTTTAACCAAAAATGTAAAA-AAATTCAACTT-------A
* * * * * *
39555 TTATGAGTTTATAAAACCATTTAAAGCGAGTAATAAGGCT-TTTAGAAGAAAGAATGACTATAAA
1 --ATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTATTGA-AAGAATGAGTGACTGTAAA
* * * * * * ** * * * *
39619 TAGAGTTTTCATGCTAATGAATGCCTTTTTCTTCATATTTTTCGATGCAGACATTCAATTATAGG
63 TGGACTTTTCTTACCAATGAATGTC-TTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATA-G
* *** *
39684 T-TTTTTTAAGGGAAAATGTAAACAAANNNNNNNNNNAATCAA-TT-
126 TATGTTTTAACCAAAAATGTAAA-AAA----------ATTCAACTTA
* * * * *
39728 ATGAGATTATAAAATCATTTACAGTGAGAAATAAGGCT-TTCGAAAGAATGAGTGACTATAAATA
1 ATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTATT-GAAAGAATGAGTGACTGTAAATG
* * * *
39792 GATTTTTCTTGCCAATGAATGCCTTTTCTTCATGTTTCTCA
65 GACTTTTCTTACCAATGAATGTCTTTTCTTCACGTTTCTCA
39833 NNNNNNNNNN
Statistics
Matches: 758, Mismatches: 140, Indels: 124
0.74 0.14 0.12
Matches are distributed among these distances:
163 9 0.01
164 3 0.00
167 1 0.00
169 3 0.00
170 258 0.34
171 326 0.43
172 131 0.17
173 7 0.01
174 2 0.00
175 2 0.00
176 1 0.00
177 1 0.00
178 7 0.01
181 2 0.00
182 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.33
Consensus pattern (161 bp):
ATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTATTGAAAGAATGAGTGACTGTAAATGG
ACTTTTCTTACCAATGAATGTCTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTATGT
TTTAACCAAAAATGTAAAAAAATTCAACTTA
Found at i:39288 original size:341 final size:333
Alignment explanation
Indices: 38892--39569 Score: 742
Period size: 341 Copynumber: 2.0 Consensus size: 333
38882 TAAAATCATT
* **
38892 TAAAGCGAGTAATAAGGCTCTTGAAAGAATGGATGACTGTAAATGGACTTTTTTTACCAATGAAT
1 TAAAGCGAGTAATAAGGCTCTTGAAAGAATGGAGGACAATAAATGGACTTTTTTTACCAATGAAT
* ** * *
38957 G-TCTTTTCCTTCATGTCTCTCGAGTTAGACATTCAATTATAGTATGTTTTAACCAAAAAGGTAA
66 GCCCTTTT-CTTCACATCTCTCGAGGTAGACATTCAATTATAGTATGTTTTAACCAAAAAGGCAA
********* * * *
39021 AAAAATTCAACTTNNNNNNNNNNATG-AGATTATAAAATCATTTAAAGCGCGT-AATAAGGCTTT
130 AAAAATTCAACTT-AAAATCAATATGAAAATTATAAAACCATTTAAAGCG-ATCAATAAGGCTTT
* * *
39084 TGAAAGAACGAGTGACTATAAGA-GGACTTTTCTTGCCCATGAATG-CTTTTTTTTTCAGGTTTC
193 TGAAAGAACGAGTGACTATAA-ATGGACTTATCCTGCCAATGAATGTCTTTTTTTTT-AGGTTTC
* * * *
39147 TCAAGGTAGACATTCAATTATAGTGTATTTTAACAAAAAATGT-AAACAGATTCAACTTAAAATC
256 TCAAGGAAGACATTCAATTATAGTATATTTTAACAAAAAATGTAAAACAAATTCAACTTAAAACC
39211 AATTATGAGATTA
321 AATTATGAGATTA
* *
39224 NNNNNNNNNNTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGG-GGACAATAAATGGAC-TTTTT
1 ----------TAAAGCGAGTAATAAGGCTCTTGAAAGAAT-GGAGGACAATAAATGGACTTTTTT
* * * * **
39287 TACCAATGAATGCCCTTTTCTTCACATTTCTTGAGGTAGGCATTCAATTATAGTTTGTTTTAAGG
55 TACCAATGAATGCCCTTTTCTTCACATCTCTCGAGGTAGACATTCAATTATAGTATGTTTTAACC
* * * *
39352 AAAAATGCAAACAAATTCAACTTAAAATCAATTTGAAAATTATAAAACCTTTTAAAGCGATCAAT
120 AAAAAGGCAAAAAAATTCAACTTAAAATCAATATGAAAATTATAAAACCATTTAAAGCGATCAAT
* *
39417 AAGGCTTTTGAAAGAATGAGTGACTATAAATGGACTTATCCTGGCAATGAATGTCTTTTTTTTTA
185 AAGGCTTTTGAAAGAACGAGTGACTATAAATGGACTTATCCTGCCAATGAATGTCTTTTTTTTTA
* * * *
39482 TGTTTCTCAAGGAAGACATTTAATTATAGTATGTTTTAACTAAAAATGTAAAACAAATTCAACTT
250 GGTTTCTCAAGGAAGACATTCAATTATAGTATATTTTAACAAAAAATGTAAAACAAATTCAACTT
*
39547 AAAACCAATTATGAGTTTA
315 AAAACCAATTATGAGATTA
39566 TAAA
1 TAAA
39570 ACCATTTAAA
Statistics
Matches: 283, Mismatches: 46, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
332 4 0.01
340 4 0.01
341 187 0.66
342 86 0.30
343 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.33
Consensus pattern (333 bp):
TAAAGCGAGTAATAAGGCTCTTGAAAGAATGGAGGACAATAAATGGACTTTTTTTACCAATGAAT
GCCCTTTTCTTCACATCTCTCGAGGTAGACATTCAATTATAGTATGTTTTAACCAAAAAGGCAAA
AAAATTCAACTTAAAATCAATATGAAAATTATAAAACCATTTAAAGCGATCAATAAGGCTTTTGA
AAGAACGAGTGACTATAAATGGACTTATCCTGCCAATGAATGTCTTTTTTTTTAGGTTTCTCAAG
GAAGACATTCAATTATAGTATATTTTAACAAAAAATGTAAAACAAATTCAACTTAAAACCAATTA
TGAGATTA
Found at i:40239 original size:171 final size:171
Alignment explanation
Indices: 39933--41749 Score: 1120
Period size: 171 Copynumber: 10.6 Consensus size: 171
39923 NNNNNNNNNN
* * * * * *
39933 TCAAAAGACTTATTACTCGCTTTAAATTG-TTTTATAATCTCATAATTGATTTTATGCTAAATGT
1 TCAAAAGCCTTATTACTCGCTTGAAA-TGATTTTATAATCTCATAATTGATTTTAAGTTGAATTT
* * * * * * *
39997 TTTTT-CATTTTTCATGAAAACAGA-TAATAATTAAATGTCTACCTTAAGAAAGGTAAAGAAAAA
65 TTTTTACATTTTTGATTAAAACAGACT-ATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAG
* * **
40060 AGCATTCATGGGTAAGAAAAGTCCATTTATAGTCACTTATTCTT
129 A-CATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTT
* * *
40104 TCAAAAGCCTTATTACTCACTTGAAACGATTTTATAATCTCATAATTGTTTTTAAGTTGAATTTT
1 TCAAAAGCCTTATTACTCGCTTGAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTT
* * * * * * *
40169 TTTTACATTTTTTATTAAAACATACTATAATTGAATGCCTACCTTAACAAACATAAAGAAAAGAC
66 TTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAGAC
*
40234 ATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCTT
131 ATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTT
* ********** * * * * *
40275 TCGAAAGCCTTATNNNNNNNNNNAAATGGTGTTATAATCTCAAAATTGATTTTAAGTTAAATTTG
1 TCAAAAGCCTTATTACTCGCTTGAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTT
* * * * * * * *
40340 TTTTATATTTGT-AGTCAAAATAGAATATAATTAAATGTCTACCTTGACAAATGTGAAGAAAAAG
66 TTTTACATTTTTGA-TTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAAG
*
40404 AGATTCATTGGCAAGAAAAGTCCATTTAT-GTTCACCCATT-TGT
129 ACATTCATTGGCAAGAAAAGTCCATTTATAG-TCACCCATTCT-T
********** * *
40447 TCAAAAGCCTTATTACTCGCTTNNNNNNNNNNTATAATATCACAATTGATTTTACA-TTGAA-TT
1 TCAAAAGCCTTATTACTCGCTTGAAATGATTTTATAATCTCATAATTGATTTTA-AGTTGAATTT
* * * ** *
40510 TGTTTACATTTTT-AGTTCAAACAGACTATAATTGAATGTCTACCTTGGGAAGTGTGAAAAAAAA
65 TTTTTACATTTTTGA-TTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTG-AAGAAAA
** * * *
40574 GACATTCATTGATAACAAAAGTCCAATTATAGTCACTCATTCTT
128 GACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTT
* * * *
40618 TCAAAAGCCTTATTCCTCGCTGTG-AATGGTTTTATAGTCTTATAATTGATTTTAAGTTGAA-TT
1 TCAAAAGCCTTATTACTCGCT-TGAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTT
* * * *
40681 TTTTTACATTTTTGCTTCAAACAAACTATAATTGAATGTCTACCTCT-AGAAACCTGAAGAAAAA
65 TTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCT-TGAGAAACGTGAAG-AAAA
*
40745 GACATTCATTGGCAAGAAAAGTCCATTTATAGTCACTCATTCTT
128 GACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTT
*************** * * *
40789 NNNNNNNNNNNNNNGCTCGCTTTAAATGATTTTATAATCTCATAATTGATTTTATGTT-AAATTT
1 TCAAAAGCCTTATTACTCGCTTGAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTT
* * * * * * * *
40853 TTTT-CAATTTTCATGAAAACAGACAATAATTGAGTGTGTACTTTGAGAAACGTGAAGAAAAAAG
66 TTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAGA-
* * * *
40917 CATTCATGGGTAAGAAAAGTCCATTTATAGTTACTCATTCTT
130 CATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTT
* * * * ******
40959 TCAAAAGCCTTATTACTTGCTTGAAACGATTTTATAATCTCGTAATTAATTTTAAGTTGNNNNNN
1 TCAAAAGCCTTATTACTCGCTTGAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTT
**** * * * * *
41024 NNNNACATTTTTGGTTAAAATAGACTATAATTGAAT-ACTTGCCTTGAGAAACATGAAGAAAACG
66 TTTTACATTTTTGATTAAAACAGACTATAATTGAATGTC-TACCTTGAGAAACGTGAAGAAAA-G
* * * * *
41088 -TATTCATTAGCAAAAAAAGTCTATTTATAGTCACCTATTCTT
129 ACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTT
* * * * *
41130 TCAAAAGCCTTATTTCTCGCTTTAAATGGTTTTATAATCT-ATAAATTGATTTTATGTTAAATTT
1 TCAAAAGCCTTATTACTCGCTTGAAATGATTTTATAATCTCAT-AATTGATTTTAAGTTGAATTT
* * * * * * * * * *
41194 GTTTTATATTTATGGTCAAAATAGAATATAATTGAATGTATACCTCGAGAAACATGAAGAAAAAG
65 TTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAAG
* * * * * *
41259 AGATTCATTAGCAACAAAAGTCCACTTATACTCGCCCA-TCTGT
129 ACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCT-T
* * ********** * *
41302 TCAAAAGCCTTATTACTCACTTTAAATNNNNNNNNNNTCCCATAATTGATTTTAAGTT-AAATTT
1 TCAAAAGCCTTATTACTCGCTTGAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTT
* * * * * *
41366 GTTTACATTTTT-AGTTAAACCAGATTATAATTGAATATCTACCTTGAGAAGCGTGAAGAAAAAA
66 TTTTACATTTTTGA-TTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAAG
* * ** * * ** * * * *
41430 AAATTTATTGATAAAAAAAGTCTA-AAACATTTACTCATTCTT
129 ACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTT
* * * * * **********
41472 TGAAAAGCCTTATTACTCAC-TGTAAATGGTTTTATAGTCTTATNNNNNNNNNNAAGTTGAA-TT
1 TCAAAAGCCTTATTACTCGCTTG-AAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTT
* * *
41535 TTTTTACATTTTT-ACTTAAAACAGACTAAAATTGAATGTCTATCTCT-AGAAACATGAAGAAAA
65 TTTTTACATTTTTGA-TTAAAACAGACTATAATTGAATGTCTACCT-TGAGAAACGTGAAG-AAA
* * * * *
41598 AGATAATT-ATTGGTAAGAAAATTCTATTTATTA-TCACCTATTCTT
127 AGA-CATTCATTGGCAAGAAAAGTCCATTTA-TAGTCACCCATTCTT
* ********** *
41643 TCAAAAGCCTTATTACTGGCTTNNNNNNNNNNTATAATCTCATAATTGATTTTAAATTG-A-TTT
1 TCAAAAGCCTTATTACTCGCTTGAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTT
*
41706 TTTTACATTTTT-AGTTAAAACAAACTATAATTGAATGTCTACCT
66 TTTTACATTTTTGA-TTAAAACAGACTATAATTGAATGTCTACCT
41750 CAAGAA
Statistics
Matches: 1246, Mismatches: 361, Indels: 79
0.74 0.21 0.05
Matches are distributed among these distances:
169 7 0.01
170 279 0.22
171 701 0.56
172 255 0.20
173 4 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.37
Consensus pattern (171 bp):
TCAAAAGCCTTATTACTCGCTTGAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTT
TTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAGAC
ATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTT
Found at i:40596 original size:343 final size:339
Alignment explanation
Indices: 39933--40788 Score: 841
Period size: 343 Copynumber: 2.5 Consensus size: 339
39923 NNNNNNNNNN
* * * * * * *
39933 TCAAAAGACTTATTACTCGCTTTAAATTGTTTTATAATCTCATAATTGATTTTATGCTAAATGTT
1 TCAAAAGCCTTATTCCTCGCTGTAAATGGTGTTATAATCTCATAATTGATTTTAAGTTAAAT-TT
* * *
39998 TTTTCAT-TTTTCA-TGAAAACAG-ATAATAATTAAATGTCTACCTTAAGAAAGGTAAAGAAAAA
65 TTTT-ATATTTT-AGTCAAAA-AGAAT-ATAATTAAATGTCTACCTT-AGAAACGTGAAGAAAAA
* * **
40060 -AGCATTCATGGGTAAGAAAAGTCCATTTATAGTCACTTATTCTTTCAAAAGCCTTATTACTCAC
125 GAG-ATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGCCTTATTACTCAC
* * * *
40124 TTGAAACGATTTTATAATCTCATAATTGTTTTTAAGTTGAATTTTTTTTACATTTTTTATTAAAA
189 TTGAAACGATTTTATAATATCACAATTGATTTTAAGTTGAATTTTGTTTACATTTTTTATTAAAA
* * *
40189 CATACTATAATTGAATGCCTACCTTAACAAACATAAAGAAAAGACATTCATTGACAAGAAAAGTC
254 CAGACTATAATTGAATGCCTACCTTAACAAACATAAAAAAAAGACATTCATTGACAACAAAAGTC
*
40254 CATTTATAGTCACCCATTCTT
319 CAATTATAGTCACCCATTCTT
* ********** *
40275 TCGAAAGCCTTATNNNNNNNNNNAAATGGTGTTATAATCTCAAAATTGATTTTAAGTTAAATTTG
1 TCAAAAGCCTTATTCCTCGCTGTAAATGGTGTTATAATCTCATAATTGATTTTAAGTTAAATTT-
* *
40340 TTTTATATTTGTAGTCAAAATAGAATATAATTAAATGTCTACCTTGACAAATGTGAAGAAAAAGA
65 TTTTATATTT-TAGTCAAAA-AGAATATAATTAAATGTCTACCTT-AGAAACGTGAAGAAAAAGA
*
40405 GATTCATTGGCAAGAAAAGTCCATTTAT-GTTCACCCATT-TGTTCAAAAGCCTTATTACTCGCT
127 GATTCATTGGCAAGAAAAGTCCATTTATAG-TCACCCATTCT-TTCAAAAGCCTTATTACTCACT
********** *
40468 TNNNNNNNNNNTATAATATCACAATTGATTTTACA-TTGAA-TTTGTTTACA-TTTTTAGTTCAA
190 TGAAACGATTTTATAATATCACAATTGATTTTA-AGTTGAATTTTGTTTACATTTTTTA-TTAAA
* *** *** *
40530 ACAGACTATAATTGAATGTCTACCTTGGGAAGTGTGAAAAAAAAGACATTCATTGATAACAAAAG
253 ACAGACTATAATTGAATGCCTACCTTAACAAACAT-AAAAAAAAGACATTCATTGACAACAAAAG
*
40595 TCCAATTATAGTCACTCATTCTT
317 TCCAATTATAGTCACCCATTCTT
* * * * *
40618 TCAAAAGCCTTATTCCTCGCTGTGAATGGTTTTATAGTCTTATAATTGATTTTAAGTTGAATTTT
1 TCAAAAGCCTTATTCCTCGCTGTAAATGGTGTTATAATCTCATAATTGATTTTAAGTTAAATTTT
* * * * *
40683 TTTACATTTTTGCTTCAAACAA-ACTATAATTGAATGTCTACCTCTAGAAACCTGAAGAAAAAGA
66 TTTATATTTTAG--TCAAA-AAGAATATAATTAAATGTCTACCT-TAGAAACGTGAAGAAAAAGA
* *
40747 CATTCATTGGCAAGAAAAGTCCATTTATAGTCACTCATTCTT
127 GATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTT
40789 NNNNNNNNNN
Statistics
Matches: 415, Mismatches: 82, Indels: 34
0.78 0.15 0.06
Matches are distributed among these distances:
341 12 0.03
342 175 0.42
343 222 0.53
344 6 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.37
Consensus pattern (339 bp):
TCAAAAGCCTTATTCCTCGCTGTAAATGGTGTTATAATCTCATAATTGATTTTAAGTTAAATTTT
TTTATATTTTAGTCAAAAAGAATATAATTAAATGTCTACCTTAGAAACGTGAAGAAAAAGAGATT
CATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGCCTTATTACTCACTTGAAAC
GATTTTATAATATCACAATTGATTTTAAGTTGAATTTTGTTTACATTTTTTATTAAAACAGACTA
TAATTGAATGCCTACCTTAACAAACATAAAAAAAAGACATTCATTGACAACAAAAGTCCAATTAT
AGTCACCCATTCTT
Done.