Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402287.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_537.0, 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: 21830
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.27
Warning! 4849 characters in sequence are not A, C, G, or T
Found at i:4560 original size:172 final size:171
Alignment explanation
Indices: 4212--5055 Score: 893
Period size: 171 Copynumber: 4.9 Consensus size: 171
4202 TAAGGCTTTT
* ** ** ***
4212 GGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACATTTCTGTTGGTAGA-A
1 GGTGACTATAAATGGACTTTTCTTGTCAATGAATATCTTTTTCGACATGTTTCTCAAGGTAGACA
* * * * * *
4276 ATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTCAAATCAATGATAAGATT
66 A-TCAATTATAATCTATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCGATTATGAGATT
* * *
4341 ATAAAACCATTTAAAGCGAGTCATAAGG-TTTTCGAAGGCATA
130 ATAAAACCATTTAAAGCAAGTAATAAGGCTTTT-AAAGGCATA
* *
4383 GGTGACAATAAATGGACTTTTCTTGTCAATGAATATCTTTTTCGACGTGTTTC-CTAAGGTAGAC
1 GGTGACTATAAATGGACTTTTCTTGTCAATGAATATCTTTTTCGACATGTTTCTC-AAGGTAGAC
4447 AATCAATTATAATCTATTTTAATAAAAAAATATAAAAAAATTCAACTTAAAATCGATTATGAGAT
65 AATCAATTATAATCTATTTTAAT-AAAAAATATAAAAAAATTCAACTTAAAATCGATTATGAGAT
4512 TATAAAACCATTTAAAGCGAA-TAATAAGGCTTTTAAAGGCATA
129 TATAAAACCATTTAAAGC-AAGTAATAAGGCTTTTAAAGGCATA
* * ** ** * * * *
4555 GGTGACTATAAATAGACTTTTCTTTTCAACAAATATCTTTTTCTTCATGATTCCCCAGGTAAACA
1 GGTGACTATAAATGGACTTTTCTTGTCAATGAATATCTTTTTCGACATGTTTCTCAAGGTAGACA
* * *
4620 TTCAATTATAATCTATTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATAGATTATGAGATTA
66 ATCAATTATAATCTATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCGATTATGAGATTA
* * ** * *
4685 TAAAAACAATTAAAGCAAGTAATAAGGCTTTCGAAGACATG
131 TAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAGGCATA
* ** ** * * *
4726 GGTGACTATAAATAGAC-TTT-TTCACAAATGAATGGCTTTGTCTC-A-AAGTTTCTCGAGGTAC
1 GGTGACTATAAATGGACTTTTCTTGTC-AATGAATATCTTT-T-TCGACATGTTTCTCAAGGTAG
* * ** * *
4787 ACAATCAATTATAGTCTATTTTGACCAAAAATGA-AAAAACAATT-AACTT-AAGTCAATTATGA
63 ACAATCAATTATAATCTATTTTAATAAAAAAT-ATAAAAA-AATTCAACTTAAAATCGATTATGA
*
4849 GATTATAAAACCATTTAAGGCAAGTAATAAGGCTTTTAAAGGCATA
126 GATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAGGCATA
** *** *
4895 AATGACTATAAATGGACTTTTCTTG-CAAATGAATATCTTTTTCTTGATGTTTCTCAATGTAGAC
1 GGTGACTATAAATGGACTTTTCTTGTC-AATGAATATCTTTTTCGACATGTTTCTCAAGGTAGAC
* * * * * * *
4959 ATTTAATTATAATTTGTTTTAAGAAAAAATATAAAAAAATTTAACTTGAAATCGATTATGAGATT
65 AATCAATTATAATCTATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCGATTATGAGATT
* *
5024 ATAAAAACAATTAAAGCAAGTAATAAGGCTTT
130 ATAAAACCATTTAAAGCAAGTAATAAGGCTTT
5056 CGANNNNNNN
Statistics
Matches: 563, Mismatches: 91, Indels: 38
0.81 0.13 0.05
Matches are distributed among these distances:
168 2 0.00
169 72 0.13
170 124 0.22
171 213 0.38
172 146 0.26
173 6 0.01
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (171 bp):
GGTGACTATAAATGGACTTTTCTTGTCAATGAATATCTTTTTCGACATGTTTCTCAAGGTAGACA
ATCAATTATAATCTATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCGATTATGAGATTA
TAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAGGCATA
Found at i:5973 original size:12 final size:12
Alignment explanation
Indices: 5956--5981 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5946 ATGATTTTAA
5956 AATCTCCCTCTC
1 AATCTCCCTCTC
5968 AATCTCCCTCTC
1 AATCTCCCTCTC
5980 AA
1 AA
5982 CATATGCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (12 bp):
AATCTCCCTCTC
Found at i:11483 original size:171 final size:168
Alignment explanation
Indices: 11083--14571 Score: 2705
Period size: 171 Copynumber: 20.5 Consensus size: 168
11073 NNNNNNNNNN
* * * * * * * * * * *
11083 ATAAATGGACTTTACCTACCAATAAATACCTTTTTCTTTATGTTTCCCGAGGTAGACTTTCGATC
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTT-CTGAGGTAGACATTCAATT
* * * * * *
11148 ACAATCTCTTTCAATAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGGGATTATAAAGCTA
65 ATAATCTGTTTTAATAAAAAAG-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTA
* * * * *
11213 TTTAAAGTGCGCAATAAGGCTTTTGATGGAAT-GAGTGACT
129 TTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAG-GTGACT
* * ** *
11253 ATAAATAGACTTTTCTAGCCAATGAATGGCTTTTTCTTCACGTTTCTGTAGGAAGACATTCAATT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTTCTG-AGGTAGACATTCAATT
* * * * * *
11318 ATAATTTGTTTTAACCAAAAAAGAGAAGAAATGCAACTTAAAGTCAATTATGAGATTATAAAACC
65 ATAATCTGTTTTAA-TAAAAAAGA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT
* * * *
11383 ATTTTAAGCGAGTAATAAGGCTTTCGAAGGCATAGATAACT
128 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* * * * *
11424 ATAAATAGACTTTTCTTGTCAATAAATATCATTTTCTTCACATTTCCTGAGGTAGACATTCAATT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTT-CTGAGGTAGACATTCAATT
* *
11489 ATAATCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCTATTATGAGATTATAAAAAT
65 ATAATCTGTTTTAATAAAAAA-G-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT
* * * * * * *
11554 AATTAAAGCAAGTAATAAGGGTTTCGAAGGTATGGGTGAGT
128 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* ** * * * *
11595 ATAAATAGACTTTTCTCACCAATAAATGA-CTTTGTT-TCCACGTATCTCGAGGTAAACAATT-A
1 ATAAATGGACTTTTCTTGCCAATGAAT-ATCTTT-TTCTTCACGTTTCT-GAGGTAGAC-ATTCA
* * ** ** * *
11657 ATTACAGTCTGTTTTGACCAAAAGTGAAAACAGATT-AACTTAAAGTCAATT-TGGAGATTATAA
62 ATTATAATCTGTTTT-AATAAAAAAGAAAA-AAATTCAACTTAAAATCAATTAT-GAGATTATAA
* *
11720 AA-TCATTTAAAGCGACTAATAAGGCTTTTGAAGGCATGGGTGACT
124 AACT-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* * * * * *
11765 ATACATGAAATTTTCTTGTCGATGAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTT-CTGAGGTAGACATTCAATT
* * * * *
11830 ATAATCTGTTTTAATAAAAACTATAAAAATATTTAGCTTAAAATCAATTATGGGATTATAAAACT
65 ATAATCTGTTTTAATAAAAA--AGAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT
* * *
11895 ATTTAAA-CAAGTAATAAGGCTTTTGAAGGTATGGGTGACT
128 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* ** * * * * ** *
11935 ATAAATGAACTTTTCTTGCCAATGAATGGCTTTTTCTTAACATTGCTCAAGAAAGACATTTAATT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTTCT-GAGGTAGACATTCAATT
* * * *
12000 ATAATCTGTTTTAAGCAAAAATTAAAAAAAAAATTCAACTTAAAGTCAATTATGAGATCATAAAA
65 ATAATCTGTTTTAA--TAAAA--AAGAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* **
12065 CTATTTAAAGCGAGTAATAAGGCTTTTGAATGCATAATTGACT
126 CTATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
** * * *
12108 ATAAATAAACTTTTCTTGTCAATGAATATCTTTTTCTTCACGTTTTCTGAGGTCGACAATCAATT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACG-TTTCTGAGGTAGACATTCAATT
* * * * * * *
12173 CTAATCTATCTTAATAAAAAATATAAAAAAATTTAACATAAAATCAATTATGAGATTATAAAAAT
65 ATAATCTGTTTTAAT-AAAAA-AGAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT
* *** ** * *
12238 AATTAAATTAAGTAATAAGGCTTTCAAAGGCATGGGTGAAT
128 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
** * ** * * *
12279 ATAAATGGACTTTTCTCACCAATAAATGGCTTTTTCTTCACGTTTCTCAAGGTAAACATTTAATT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTTCT-GAGGTAGACATTCAATT
* *
12344 GTAATCTGATTTAACTAAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
65 ATAATCTGTTTTAA-T-AAAAAA-G-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
*
12409 TTATTTAAAGCGAGTGAA-AAGGCTTTTGAAGGCATAGGTGACT
126 CTATTTAAAGCGAGT-AATAAGGCTTTTGAAGGCATAGGTGACT
* * * * *
12452 ATAAATGGACTTTGCTTGCAAACT-AATA-CATTTTTC-TCATGTTTCCCGAGGTAGAGATTCAA
1 ATAAATGGACTTTTCTTGCCAA-TGAATATC-TTTTTCTTCACGTTT-CTGAGGTAGACATTCAA
* * * * * * **
12514 TTATAATCTGTTATAACAAAAAATATAAAAGAATTCAACTTCAAATCAGTTATGAAATTACGAAA
63 TTATAATCTGTTTTAATAAAAAAGA-AAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * *
12579 CCAATTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACT
126 CTATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* * ** * **
12622 ATAAATGGACTTTTCTAGCGAATGAATGGCTTTTTCTTCACATTTCTGTAGAAAGACATTCAATT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTTCTG-AGGTAGACATTCAATT
* * * * * * ********** *
12687 ATAATATGTTTTAACCAAAAATGAGAAGAAATGCAACTTAAAGTCAATNNNNNNNNNNTAAAACC
65 ATAATCTGTTTTAA-TAAAAAAGA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT
* * * * *
12752 ATTTTAAGCGAGTAATAAGACTTTTGAAGGTATAGATAACT
128 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* * * * * * *
12793 ATAAATAGACTTTTCTTGTCAATAAATATCATTTTCGTCACATTTCCTGAGGTAAACATTCAATT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTT-CTGAGGTAGACATTCAATT
* * * *
12858 ATAATCTATTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCGATTATGAGATCATAAAAAT
65 ATAATCTGTTTTAATAAAAAA-G-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT
* * * * * * *
12923 AATTAAAGCAAGTAATAAGGGTTTCGAAGGTATGGGTGAGT
128 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* * ** * * * * * *
12964 ATAAATAGAATTTTCTCACCAATAAATGAT-TTTGTCTCCACGTTTCTCAAGGTAAACAATCAAT
1 ATAAATGGACTTTTCTTGCCAATGAAT-ATCTTTTTCTTCACGTTTCT-GAGGTAGACATTCAAT
* ** ** * *
13028 TATAGTCTGTTTTGACCAAAAGTGAAAAAAAATT-AACTTAAAGTCAATTAGGAGATTAT-AAAC
64 TATAATCTGTTTT-AATAAAAAAG-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC
* * *
13091 CATTTAAAGCGACTAATAAGGCTTTTGAAGGCAT-GAATGACT
127 TATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAG-GTGACT
* * * * * * ** *
13133 ATACATGAAATTTTCTTGTCGATGAATATCCTTTTCTTCATATTTCCAGAGGTAGACATTCAATT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTT-CTGAGGTAGACATTCAATT
* * * *
13198 ATAATCTGTTTTAATAAAAACTGTAAAAATATTTAGCTTAAAATCAATTAT-ACGATTATAAAAC
65 ATAATCTGTTTTAATAAAAA-AG-AAAAAAATTCAACTTAAAATCAATTATGA-GATTATAAAAC
* * * *
13262 CATTTAAA-CAAGTAATAAGGCTTTTGAAGGTATGGGTGACT
127 TATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
** * * * * * * * *
13303 ATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTAACATTGCTCAAGGAAGATATTTAGTT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTTCT-GAGGTAGACATTCAATT
* *
13368 ATAATCTGTTTTAAGTAAAAATTA-AAAAAAATTCAACTTAAAGTCAATTATGAGATCATAAAAC
65 ATAATCTGTTTTAA-TAAAAA--AGAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC
* * **
13432 AATTTAAAGCGAGTAATAAGGCTTTTGAATGCATAATTGACT
127 TATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
** *
13474 ATAAATGGACTTTTCTTATCAATGAATATCTTTTTCTTCACGTTTTCTGAGGTAGACAATCAATT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACG-TTTCTGAGGTAGACATTCAATT
* * * * * *
13539 CTAATCTATCTTAATAAAAAATATAAAAAAATTCAACATAAAATCAATTATGAGATTATAAAAAT
65 ATAATCTGTTTTAAT-AAAAA-AGAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT
* *** * ** *
13604 AATTAAATTAAGTAACAAGGCTTTCAAAGGCATAGGTGAAT
128 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
** * ** * *
13645 ATAAATGGACTTTTCTCACCTATGAATGGCTTTTTCTTCACGTTTCTCAAGGTAAACATT-AATT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTTCT-GAGGTAGACATTCAATT
* *
13709 GTAATCTGATTTAACTAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-
65 ATAATCTGTTTTAA-TAAAAAA-G-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC
* *
13773 TCATTTAAAGCGAGTGACAAGGCTTTTGAAGGCATAGGTGACT
127 T-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* * * * * *
13816 ATAAATAGACTTTTCTTGCCAACGAATATCTTTTTCTTCATGTTTATGAGGTAGATATTCAATTT
1 ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTTCTGAGGTAGACATTCAATTA
* * * ** *
13881 TAATCTATTTTAATAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTAAAAAAAGAA
66 TAATCTGTTTTAATAAAAAA-GAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTAT
* * * * *
13946 TTAAAGCAAGTGATAAGGCTTTCGAAGGCATGGGTGAGT
130 TTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* * ***** ** * * *
13985 ATAAGTGGATTTTTCCCATTAATGAATGA-CTTTTTCTTCATATTTCTCTAGGTAAACATTAAAT
1 ATAAATGGACTTTTCTTGCCAATGAAT-ATCTTTTTCTTCACGTTTCT-GAGGTAGACATTCAAT
* * * ** * * * * *
14049 TAGAGTATGTTTTGACCAAAAATGAAACAAAA--AAACTTCAAGTCAGTTATGAGATTATAAAAC
64 TATAATCTGTTTT-AATAAAAAAGAAA-AAAATTCAACTTAAAATCAATTATGAGATTATAAAAC
* * * *
14112 TATTTAAAGCGAGTGATAAGCCTTTTGAAGGTATAAGTGACT
127 TATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* * * * *
14154 ATAAATGGACTTTGCTTGCAAACT-AATA-CATTTTTC-TCATGTTTCCCGAGGTAGAGATTCAA
1 ATAAATGGACTTTTCTTGCCAA-TGAATATC-TTTTTCTTCACGTTT-CTGAGGTAGACATTCAA
* * * * * * **
14216 TTATAATCTGTTATAACAAAAAATATAAAAGAATTCAACTTCAAATCAGTTATGAAATTACGAAA
63 TTATAATCTGTTTTAATAAAAAAGA-AAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * **********
14281 CCAATTAAAGCGAGTAATAAGGCTTTCGAANNNNNNNNNNACT
126 CTATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* * * * *
14324 ATAAATGGACTTTTCTTGCTAATGAAT-TGCTTGTTCTTCATGTTTCTTGAGGTACACATTTAAT
1 ATAAATGGACTTTTCTTGCCAATGAATAT-CTTTTTCTTCACGTTTC-TGAGGTAGACATTCAAT
* * * * *
14388 TATAATCTGTTTTTAA-AAAAATGTAAAAAGATTCAACTTAAAGTCAATTATGAGATTGTAGAAC
64 TATAATCTG-TTTTAATAAAAAAG-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC
* * * *
14452 TATTTGAAGAGAGTAATAA-------GATGGCATAGGTGACA
127 TATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
* * * **
14487 ATAAATAGG-CTTTTCTTGCCAACGAATATCCTTTTCTTCACGTTTCTCAAGACAGACATTCAAT
1 ATAAAT-GGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTTCT-GAGGTAGACATTCAAT
*
14551 TATAATCTATTTTAATAAAAA
64 TATAATCTGTTTTAATAAAAA
14572 NNNNNNNNNN
Statistics
Matches: 2611, Mismatches: 608, Indels: 207
0.76 0.18 0.06
Matches are distributed among these distances:
162 7 0.00
163 64 0.02
164 3 0.00
167 10 0.00
168 43 0.02
169 314 0.12
170 751 0.29
171 1091 0.42
172 139 0.05
173 181 0.07
174 8 0.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (168 bp):
ATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCACGTTTCTGAGGTAGACATTCAATTA
TAATCTGTTTTAATAAAAAAGAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATT
TAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACT
Found at i:11744 original size:341 final size:340
Alignment explanation
Indices: 11102--14571 Score: 3414
Period size: 341 Copynumber: 10.2 Consensus size: 340
11092 CTTTACCTAC
* * * * * * * * *
11102 CAATAAATACCTTTTTCTTTATGTTTCCCGAGGTAGACTTTCGATCACAATCTCTTTCAAT-AAA
1 CAATAAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
* * ** * *** *
11166 AATGTAAAAAAATTCAACTTAAAATCAATTATGGGATTATAAAGCTATTTAAAGTGCGCAATAAG
66 AATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAATAATTAAAGCAAGTAATAAG
* * * * *
11231 GCTTTTGATGGAATGAGTGACTATAAATAGACTTTTCT-AGCCAATGAATGGCTTTTTCTTCACG
131 GCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTCA-CCAATGAATGGCTTTTTCTTCACG
** * * * * *
11295 TTTCTGTAGG-AAGAC-ATTCAATTATAATTTGTTTTAACCAAAAAAGAGAAGAAATGCAACTTA
195 TTTCTCAAGGTAA-ACAATT-AATTATAATCTGTTTTAACCAAAAATGAAAAAAAAT-TAACTTA
* * *
11358 AAGTCAATTATGAGATTATAAAACCATTTTAAGCGAGTAATAAGGCTTTCGAAGGCATAGATAAC
257 AAGTCAATTATGAGATTATAAAA-CATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGATGAC
11423 TATAAATAGACTTTTCTTGT
321 TATAAATAGACTTTTCTTGT
* **
11443 CAATAAATATCATTTTCTTCACATTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
1 CAATAAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
* *
11508 AATGTAAAAAAATTCAACTTAAAATCTATTATGAGATTATAAAAATAATTAAAGCAAGTAATAAG
66 AATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAATAATTAAAGCAAGTAATAAG
* * * * * * *
11573 GGTTTCGAAGGTATGGGTGAGTATAAATAGACTTTTCTCACCAATAAATGACTTTGTT-TCCACG
131 GCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTCACCAATGAATGGCTTT-TTCTTCACG
* * * * * * * *
11637 TATCTCGAGGTAAACAATTAATTACAGTCTGTTTTGACCAAAAGTGAAAACAGATTAACTTAAAG
195 TTTCTCAAGGTAAACAATTAATTATAATCTGTTTTAACCAAAAATGAAAAAAAATTAACTTAAAG
* * *
11702 TCAATT-TGGAGATTATAAAATCATTTAAAGCGACTAATAAGGCTTTTGAAGGCATGGGTGACTA
260 TCAATTAT-GAGATTATAAAA-CATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGATGACTA
* *
11766 TACAT-GAAATTTTCTTGT
323 TAAATAG-ACTTTTCTTGT
* *
11784 CGATGAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
1 CAATAAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
* * * * * * *
11849 ACTATAAAAATATTTAGCTTAAAATCAATTATGGGATTATAAAACTATTTAAA-CAAGTAATAAG
66 AATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAATAATTAAAGCAAGTAATAAG
* * * ** * *
11913 GCTTTTGAAGGTATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGGCTTTTTCTTAACAT
131 GCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTCACCAATGAATGGCTTTTTCTTCACGT
* * * * *
11978 TGCTCAA-GAAAGACATTTAATTATAATCTGTTTTAAGCAAAAATTAAAAAAAAAATTCAACTTA
196 TTCTCAAGGTAA-ACAATTAATTATAATCTGTTTTAACCAAAAA-T-GAAAAAAAATT-AACTTA
* *
12042 AAGTCAATTATGAGATCATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAATGCATA-ATTGA
257 AAGTCAATTATGAGATTATAAAAC-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGA-TGA
*
12106 CTATAAATAAACTTTTCTTGT
320 CTATAAATAGACTTTTCTTGT
* * * * * * * *
12127 CAATGAATATCTTTTTCTTCACGTTTTCTGAGGTCGACAATCAATTCTAATCTATCTTAATAAAA
1 CAATAAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
* * **
12192 AATATAAAAAAATTTAACATAAAATCAATTATGAGATTATAAAAATAATTAAATTAAGTAATAAG
66 AATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAATAATTAAAGCAAGTAATAAG
* * *
12257 GCTTTCAAAGGCATGGGTGAATATAAATGGACTTTTCTCACCAATAAATGGCTTTTTCTTCACGT
131 GCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTCACCAATGAATGGCTTTTTCTTCACGT
* * * * *
12322 TTCTCAAGGTAAACATTTAATTGTAATCTGATTTAACTAAAAAAATGTAAAAAAATTCAACTTAA
196 TTCTCAAGGTAAACAATTAATTATAATCTGTTTTAAC--CAAAAATGAAAAAAAATT-AACTTAA
* * *
12387 AATCAATTATGAGATTATAAAATTATTTAAAGCGAGTGAA-AAGGCTTTTGAAGGCATAGGTGAC
258 AGTCAATTATGAGATTATAAAA-CATTTAAAGCGAGT-AATAAGGCTTTTGAAGGCATAGATGAC
* *
12451 TATAAATGGACTTTGCTTG-
321 TATAAATAGACTTTTCTTGT
* * * *
12470 CAA-ACTAATA-CATTTTTC-TCATGTTTCCCGAGGTAGAGATTCAATTATAATCTGTTATAACA
1 CAATA--AATATC-TTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATA
* * * * ** ** *
12532 AAAAATATAAAAGAATTCAACTTCAAATCAGTTATGAAATTACGAAACCAATTAAAGCGAGTAAT
63 AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAATAATTAAAGCAAGTAAT
*
12597 AAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCT-AGCGAATGAATGGCTTTTTCTTC
128 AAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTCA-CCAATGAATGGCTTTTTCTTC
* ** * * * * *
12661 ACATTTCTGTA-G-AAAGACATTCAATTATAATATGTTTTAACCAAAAATGAGAAGAAATGCAAC
192 ACGTTTCTCAAGGTAAACA-ATT-AATTATAATCTGTTTTAACCAAAAATGAAAAAAAAT-TAAC
********** * * *
12724 TTAAAGTCAATNNNNNNNNNNTAAAACCATTTTAAGCGAGTAATAAGACTTTTGAAGGTATAGAT
254 TTAAAGTCAATTATGAGATTATAAAA-CATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGAT
*
12789 AACTATAAATAGACTTTTCTTGT
318 GACTATAAATAGACTTTTCTTGT
* * ** * *
12812 CAATAAATATCATTTTCGTCACATTTCCTGAGGTAAACATTCAATTATAATCTATTTTAATAAAA
1 CAATAAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
* * *
12877 AATGTAAAAAAATTCAACTTAAAATCGATTATGAGATCATAAAAATAATTAAAGCAAGTAATAAG
66 AATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAATAATTAAAGCAAGTAATAAG
* * * * * * * *
12942 GGTTTCGAAGGTATGGGTGAGTATAAATAGAATTTTCTCACCAATAAAT-GATTTTGTCTCCACG
131 GCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTCACCAATGAATGGCTTTT-TCTTCACG
* * * *
13006 TTTCTCAAGGTAAACAATCAATTATAGTCTGTTTTGACCAAAAGTGAAAAAAAATTAACTTAAAG
195 TTTCTCAAGGTAAACAATTAATTATAATCTGTTTTAACCAAAAATGAAAAAAAATTAACTTAAAG
* * *
13071 TCAATTAGGAGATTATAAACCATTTAAAGCGACTAATAAGGCTTTTGAAGGCAT-GAATGACTAT
260 TCAATTATGAGATTATAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAG-ATGACTAT
* *
13135 ACAT-GAAATTTTCTTGT
324 AAATAG-ACTTTTCTTGT
* * * * *
13152 CGATGAATATCCTTTTCTTCATATTTCCAGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
1 CAATAAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
* * * * * ** *
13217 ACTGTAAAAATATTTAGCTTAAAATCAATTAT-ACGATTATAAAACCATTTAAA-CAAGTAATAA
66 AATATAAAAAAATTCAACTTAAAATCAATTATGA-GATTATAAAAATAATTAAAGCAAGTAATAA
* * ** * *
13280 GGCTTTTGAAGGTATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTAACA
130 GGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTCACCAATGAATGGCTTTTTCTTCACG
* * * * ** *
13345 TTGCTCAAGG-AAGATATTTAGTTATAATCTGTTTTAAGTAAAAATTAAAAAAAATTCAACTTAA
195 TTTCTCAAGGTAA-ACAATTAATTATAATCTGTTTTAACCAAAAATGAAAAAAAATT-AACTTAA
* *
13409 AGTCAATTATGAGATCATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAATGCATA-ATTGAC
258 AGTCAATTATGAGATTATAAAAC-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGA-TGAC
* *
13473 TATAAATGGACTTTTCTTAT
321 TATAAATAGACTTTTCTTGT
* * * * * * *
13493 CAATGAATATCTTTTTCTTCACGTTTTCTGAGGTAGACAATCAATTCTAATCTATCTTAATAAAA
1 CAATAAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
* ** *
13558 AATATAAAAAAATTCAACATAAAATCAATTATGAGATTATAAAAATAATTAAATTAAGTAACAAG
66 AATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAATAATTAAAGCAAGTAATAAG
* * * *
13623 GCTTTCAAAGGCATAGGTGAATATAAATGGACTTTTCTCACCTATGAATGGCTTTTTCTTCACGT
131 GCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTCACCAATGAATGGCTTTTTCTTCACGT
* * * *
13688 TTCTCAAGGTAAAC-ATTAATTGTAATCTGATTTAACTAAAAAATGTAAAAAAATTCAACTTAAA
196 TTCTCAAGGTAAACAATTAATTATAATCTGTTTTAAC-CAAAAATGAAAAAAAATT-AACTTAAA
* * * *
13752 ATCAATTATGAGATTATAAAATCATTTAAAGCGAGTGACAAGGCTTTTGAAGGCATAGGTGACTA
259 GTCAATTATGAGATTATAAAA-CATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGATGACTA
*
13817 TAAATAGACTTTTCTTGC
323 TAAATAGACTTTTCTTGT
** * * * *
13835 CAACGAATATCTTTTTCTTCATGTTT-ATGAGGTAGATATTCAATTTTAATCTATTTTAATAAAA
1 CAATAAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
* * * *
13899 AATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTAAAAAAAGAATTAAAGCAAGTGATAAG
66 AATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAATAATTAAAGCAAGTAATAAG
* * * * ** * **
13963 GCTTTCGAAGGCATGGGTGAGTATAAGTGGATTTTTCCCATTAATGAATGACTTTTTCTTCATAT
131 GCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTCACCAATGAATGGCTTTTTCTTCACGT
* * * * * *
14028 TTCTCTAGGTAAAC-ATTAAATTAGAGTATGTTTTGACCAAAAATGAAACAAAAA--AACTTCAA
196 TTCTCAAGGTAAACAATT-AATTATAATCTGTTTTAACCAAAAATGAAA-AAAAATTAACTTAAA
* * * *
14090 GTCAGTTATGAGATTATAAAACTATTTAAAGCGAGTGATAAGCCTTTTGAAGGTATA-AGTGACT
259 GTCAATTATGAGATTATAAAAC-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGA-TGACT
* *
14154 ATAAATGGACTTTGCTTG-
322 ATAAATAGACTTTTCTTGT
* * * *
14172 CAA-ACTAATA-CATTTTTC-TCATGTTTCCCGAGGTAGAGATTCAATTATAATCTGTTATAACA
1 CAATA--AATATC-TTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATA
* * * * ** ** *
14234 AAAAATATAAAAGAATTCAACTTCAAATCAGTTATGAAATTACGAAACCAATTAAAGCGAGTAAT
63 AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAATAATTAAAGCAAGTAAT
********** ** * * *
14299 AAGGCTTTCGAANNNNNNNNNNACTATAAATGGACTTTTCTTGCTAATGAATTGCTTGTTCTTCA
128 AAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTCACCAATGAATGGCTTTTTCTTCA
* ** * * * *
14364 TGTTTCTTGAGGTACACATTTAATTATAATCTGTTTTTAA--AAAAATGTAAAAAGATTCAACTT
193 CGTTTCTCAAGGTAAACAATTAATTATAATCTG-TTTTAACCAAAAATGAAAAAAAATT-AACTT
* * * * * *
14427 AAAGTCAATTATGAGATTGTAGAACTATTTGAAGAGAGTAATAA-------GATGGCATAGGTGA
256 AAAGTCAATTATGAGATTATAAAAC-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGATGA
* * *
14485 CAATAAATAGGCTTTTCTTGC
320 CTATAAATAGACTTTTCTTGT
** * * * ** *
14506 CAACGAATATCCTTTTCTTCACGTTT-CTCAAGACAGACATTCAATTATAATCTATTTTAATAAA
1 CAATAAATATCTTTTTCTTCATGTTTCCT-GAGGTAGACATTCAATTATAATCTGTTTTAATAAA
14570 AA
65 AA
14572 NNNNNNNNNN
Statistics
Matches: 2573, Mismatches: 481, Indels: 157
0.80 0.15 0.05
Matches are distributed among these distances:
333 36 0.01
334 41 0.02
337 17 0.01
338 134 0.05
339 220 0.09
340 455 0.18
341 567 0.22
342 530 0.21
343 367 0.14
344 195 0.08
345 6 0.00
346 5 0.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (340 bp):
CAATAAATATCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAA
AATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAATAATTAAAGCAAGTAATAAG
GCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTCACCAATGAATGGCTTTTTCTTCACGT
TTCTCAAGGTAAACAATTAATTATAATCTGTTTTAACCAAAAATGAAAAAAAATTAACTTAAAGT
CAATTATGAGATTATAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGATGACTATAA
ATAGACTTTTCTTGT
Found at i:15311 original size:170 final size:170
Alignment explanation
Indices: 15014--18120 Score: 2828
Period size: 170 Copynumber: 18.3 Consensus size: 170
15004 NNNNNNNNNN
* * * *
15014 AAAGCAAGTAATAAGGTTTTCGAAGGCAT-GAGTGACTATAAATGGACTTTTCTTACCACTGAAT
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAG-GTGACTATAAATGGACTTTTCTTGCCAATGAAT
** ** ** * * *
15078 AGGTTGCTC-TCAGTATTTCTTGAGGAAGACATTTAATTATAATCAGTTTTAACAAAAAATAAAA
65 ATCTTTTTCTTCA-TATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATAAAA
* *
15142 AAAAGTCAACTTAAAGTCAATTATGAGAGTATAAAACCATTT
129 AAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* ** * * *
15184 AAAAG-GAGTAATAAGGCTTTCAAAGGCA-AGGGTGTGTATAAATGCACTTTTCTCGCTAATGAA
1 -AAAGCGAGTAATAAGGCTTTCGAAGGCATA-GGTGACTATAAATGGACTTTTCTTGCCAATGAA
* * * * * * *
15247 TAACTTTTTCTTCAAATTTCTCAACGTAGACA-ACTAATTATAATATGATTTAACCAAAAATAAA
64 TATCTTTTTCTTCATATTTCTCAAGGTAGACATTC-AATTATAATCTGTTTTAACAAAAAATAAA
*
15311 AAAAATTCAACTTAAAGTCAATTATGAGATTACAAAACCATTT
128 AAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * *
15354 AAAGCGAGTAATAAGGCCTTT-GAAGGCATAGATGGCTATAAATGGACTTTTCTTGCCAACGAAT
1 AAAGCGAGTAATAAGG-CTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
* ** * * *
15418 ATCTTTTTCTTCATCTTTCTTGAGGCAGACATTCAATTATAATCTGTTTGAATAAAAAATATATA
65 ATCTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATA-A-A
* * *
15483 AAAAA-TCAACTTTAAA-TCAATCATGAGGTTATAAAACTATTT
128 AAAAATTCAAC-TTAAAGTCAATTATGAGATTATAAAACCATTT
* * ** *
15525 AAATCGAGTAATAAAGCTTTTAAAGGCAT-GAGTGACTATAAATGGACTTTTCTTGCCATTGAAT
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAG-GTGACTATAAATGGACTTTTCTTGCCAATGAAT
** * * * * * * * *
15589 GGCCTGTTCTTCATGTTTC-CTGAGGTAGACATTTAA-TATGATCAGTTTTAATAAAAAATGAAA
65 ATCTTTTTCTTCATATTTCTC-AAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAAT-AAA
* * * **
15652 AAAAAATCAACCTAAAGTCATTTATGAGATTATAAAATAATTT
128 AAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * * * *
15695 AAAGTGAGTAATAAGGCTTTCGAAGGCCTAAGTGACTACAAATAGG-CTTTTCTTGCCAATAAAT
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAAT-GGACTTTTCTTGCCAATGAAT
* * * *
15759 ATCTTTTTATTCATATTTTTCGAGATAGACATTCAATTATAATCTGTTTTAA-AAAAATATATAA
65 ATCTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAA-ATA-AA
* ** * *
15823 AAAAGTTTGACTTAAAGTCAATTATGAGATTATAAAAACAATT
128 AAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * * * * **
15866 AAAGCAAGCAATAAGGCTTTCGAAGGCATGGGTAAGTATAAATGCG-CTTTTCTCACCAATGAAT
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATG-GACTTTTCTTGCCAATGAAT
* * * * * * * * *
15930 AGCTCTTTCTTCACATTTCTCGAGGTAGATATTCAATTACAGTCTATTTTGATC-AAAAATGAAA
65 ATCTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTT-AACAAAAAAT-AAA
* * *
15994 AAAAA-TAAACTTAAAGTCAATTAGGAGATTATAAAACTATTT
128 AAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * * ** * *
16036 AGAGCGAGTAATAAGGCTTTTGAAGGTATAGGTGACTATAAATGGACTTTTCTTATCAACGAAAA
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATA
* * *
16101 TCTTTTTCTTTATATTT-TCTAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAACATGAA
66 TCTTTTTCTTCATATTTCTC-AAGGTAGACATTCAATTATAATCTGTTTTAA-CAAAAA-ATAAA
* * **
16165 AAAAATTCAACTTCAAA-TAAATCATGAGATTATAAAACTTTTT
128 AAAAATTCAACTT-AAAGTCAATTATGAGATTATAAAACCATTT
** * * * * *
16208 AAAGCGAGTAGCAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTTTTCTTCCCACTGAATG
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATA
* * * ** * * * *
16273 GCTTGTTCTTCATATTTTTTGAGCTAAACATTTAATTATAATCAGTTTTAACAAAAAATAAAAAA
66 TCTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATAAAAAA
* * *
16338 AATTCAACCTAAAGTCATTTATGAGATTATAAAACTATTT
131 AATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * * * *
16378 AAAGCGA-TGAATAAGGCTTCCGTAGGCATAGGTGACTATAAA-GAGACTTCTCATACCAATGAA
1 AAAGCGAGT-AATAAGGCTTTCGAAGGCATAGGTGACTATAAATG-GACTTTTCTTGCCAATGAA
* * * * * *
16441 TATCTTTTTCTGCACGT-TTTCT-AGGGTAGACATTCAATTATATTATGTTCTAATAAAAAATAT
64 TATCTTTTTCTTCA--TATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATA-
* * * *
16504 AAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAAACAATT
126 AAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * * * * * * * ** **
16549 AATGCAAGTAATAAGGCTTTTGAAGGTATGGGTGAGTACAAATGCACTTTTCTCACCAATGAAGG
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATA
* * * * * * *
16614 GCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAGTCTATTTTGACCAAAAAT-GAAAA
66 TCTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATAAAAAA
* * *
16678 CA---AACTTAAAGTCAATTATGAGATTTTAAAACTATTT
131 AATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * * **
16715 AAAGTGAGTAATAAGGCTTTCGAAGGCATAAGTGACTATAAATGGACTTTCCTTGTGAATGAATA
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATA
* * * * * * * *
16780 TCAATTTT-TTCATGTTTTTTAAGGTAGAGATTCAATTATAATCTGTTTTGATAAAAAATGTAAG
66 TC-TTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAA--TAAA
* *
16844 AAAATTTCAACTTCAAA-TCAATCATGAGATTATAAAACCATTT
128 AAAAATTCAACTT-AAAGTCAATTATGAGATTATAAAACCATTT
* * *
16887 AAAGCGAGTAATAAGGCTTTCGAAGGCATAAGTGACTATAAATGGACTTTTCTTGCCACTGAATG
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATA
* * ** * *
16952 GCTTGTTCTTCATATTTCTTGAGGTAGACATTTAATTATAATCAG-TTTAACAAAAAATGAAAAA
66 TCTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAAT-AAAAA
* ** * *
17016 ATATTTGACCTAAAGTCAATTATGAGACTATAAAACCATTT
130 AAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * * ** *
17057 AAAGCGAGTAATAAGACTTCCGAAGGCATAAGTGACTATAAATAGG-CTTTTCTTATCAATAAAT
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAAT-GGACTTTTCTTGCCAATGAAT
* * * ******
17121 ATCTTTTTTTGTACAT-TTT-TCAATGTAGACATTCAATTATAATCTGTTTTAATAAANNNNNNN
65 ATCTTTTTCT-T-CATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAA-AAATAA
*** * * * *
17184 NNNAAATTCAACTTAAAATCAATTATAAGATTATAAAAACAATT
127 AAAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
** * * * * * *
17228 AAAGTAAATAATAAGGCATTCGAAAGCATGGGTGAGTATAAATGGACTTTTC--GCACTAGTGAA
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGC-C-AATGAA
* * * * *
17291 TATCTTTTTCTTCGTATTTCTCAAGGTGGACATTCAATTATAGTCTGTTTTGACCAAAAATAAAA
64 TATCTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAAT-AAA
* * *
17356 AAAAAGTT-AACTTAAAGTCAATTATAAGAATATAAAACTATTT
128 AAAAA-TTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * * ** * *
17399 AAAGCGAGTAATAAGGCTTTTGAAAGCATAGGTGACTATAAATGGACTTTCCTTGTGAACGACTA
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATA
* ** * * *
17464 TCTTTTTCTACACGTTTCTCATGGTAGACATTCAATTATAATCTATTTTAATAAAAAATATAAAA
66 TCTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATA-AAAA
* * * * * * *
17529 AATTTTAACTTCAAA-ACAATCAAGAGATTATAAAAACAATT
130 AAATTCAACTT-AAAGTCAATTATGAGATTATAAAACCATTT
* * * * *
17570 AAAGCAAGTAATAAGGCTTTCTAAGGCA-CGAGTGAGTATAAATGGAC-TTTCTTACCAATGAAT
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAG-GTGACTATAAATGGACTTTTCTTGCCAATGAAT
** * * * * * *
17633 GGCTTTTTCTTCACGT-TTTTTGAA-TTAGACA-TCTAATTATAATATGATTTAACCAAAAATAA
65 ATCTTTTTCTTCA--TATTTCTCAAGGTAGACATTC-AATTATAATCTGTTTTAACAAAAAATAA
* *
17695 AAAAAA-TCAACTTAAAGTCAATTATAAGATTATAAAACTATTT
127 AAAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * * ** * *
17738 AAAGTGAGTAATAAGGCTTTTGAATGCATAGGTGACTATAAATCAACTTTTTTTGCTAATGAATA
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATA
* *
17803 TCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATAAAAAA
66 TCTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATAAAAAA
*
17868 AATTCAACTTAAAGTCAATAATGAGATTATAAAACCATTT
131 AATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * * * * *
17908 AAAGCGAGTAATAAGGCTTTTGAAAGTATAAGTGACTATAAATGAACTTTTCTTGCCAATAAATA
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATA
* * * *
17973 TCTTTTTCTTCATGTTTC-CTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAA
66 TCTTTTTCTTCATATTTCTC-AAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATAAAAA
* * * *
18037 AAATTCAACATAAAATCAATTATGAGATTATAAAAACAATT
130 AAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
* * * *
18078 AAAGCAAGTAATAAGACTTTCGAAGGTAT-GGATGAGTATAAAT
1 AAAGCGAGTAATAAGGCTTTCGAAGGCATAGG-TGACTATAAAT
18121 CGATTGTTGG
Statistics
Matches: 2348, Mismatches: 502, Indels: 173
0.78 0.17 0.06
Matches are distributed among these distances:
166 120 0.05
167 8 0.00
168 67 0.03
169 109 0.05
170 1004 0.43
171 763 0.32
172 269 0.11
173 8 0.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (170 bp):
AAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATA
TCTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATAAAAAA
AATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTT
Found at i:15670 original size:341 final size:338
Alignment explanation
Indices: 15014--18120 Score: 2857
Period size: 341 Copynumber: 9.1 Consensus size: 338
15004 NNNNNNNNNN
* * * *
15014 AAAGCAAGTAATAAGGTTTTCGAAGGCAT-GAGTGACTATAAATGGACTTTTCTTACCACTGAAT
1 AAAGCGAGTAATAAGGCTTT-GAAGGCATAGA-TGACTATAAATGGACTTTTCTTGCCAATGAAT
** ** * * * *
15078 AGGTTGCTC-TCAGTATTTCTTGAGGAAGACATTTAATTATAATCAGTTTTAACAAAAAATA-AA
64 ATCTTTTTCTTCA-TATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAA
* * *
15141 AAAAAGTCAAC-TTAAAGTCAATTATGAGAGTATAAAACCATTTAAAAG-GAGTAATAAGGCTTT
128 AAAAATTCAACTTTAAA-TCAATCATGAGATTATAAAA-CATTT-AAAGCGAGTAATAAGGCTTT
* * * * * ** *
15204 CAAAGGCAAGGGTGTGTATAAATGCACTTTTCTCGCTAATGAATAACTTTTTCTTCAAATTTCTC
190 CAAAGGCATGGGTGAGTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATATTTCT-
* * ** * *
15269 AACGTAGACAACTAATTATAAT-ATGATTTAACCAAAAATAAAAAAAATTCAACTTAAAGTCAAT
254 GAGGTAGACATTTAATTATAATCA-GTTTTAACCAAAAATAAAAAAAAATCAACTTAAAGTCAAT
* *
15333 TATGAGATTACAAAACCATTT
318 TATGAGATTATAAAACTATTT
* *
15354 AAAGCGAGTAATAAGGCCTTTGAAGGCATAGATGGCTATAAATGGACTTTTCTTGCCAACGAATA
1 AAAGCGAGTAATAAGG-CTTTGAAGGCATAGATGACTATAAATGGACTTTTCTTGCCAATGAATA
* * *
15419 TCTTTTTCTTCATCTTTCTTGAGGCAGACATTCAATTATAATCTGTTTGAATAAAAAATATATAA
65 TCTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATA-AA
* * * *
15484 AAAA-TCAACTTTAAATCAATCATGAGGTTATAAAACTATTTAAATCGAGTAATAAAGCTTTTAA
129 AAAATTCAACTTTAAATCAATCATGAGATTATAAAAC-ATTTAAAGCGAGTAATAAGGCTTTCAA
* * * * * *
15548 AGGCATGAGTGACTATAAATGGACTTTTCTTGCCATTGAATGGCCTGTTCTTCATGTTTCCTGAG
193 AGGCATGGGTGAGTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATATTT-CTGAG
* ** * *
15613 GTAGACATTTAA-TATGATCAGTTTTAATAAAAAATGAAAAAAAAATCAACCTAAAGTCATTTAT
257 GTAGACATTTAATTATAATCAGTTTTAACCAAAAAT-AAAAAAAAATCAACTTAAAGTCAATTAT
15677 GAGATTATAAAA-TAATTT
321 GAGATTATAAAACT-ATTT
* * * *
15695 AAAGTGAGTAATAAGGCTTTCGAAGGCCTA-AGTGACTACAAATAGG-CTTTTCTTGCCAATAAA
1 AAAGCGAGTAATAAGGCTTT-GAAGGCATAGA-TGACTATAAAT-GGACTTTTCTTGCCAATGAA
* *
15758 TATCTTTTTATTCATATTT-TTCGAGATAGACATTCAATTATAATCTGTTTTAA-AAAAATATAT
63 TATCTTTTTCTTCATATTTCTT-GAGGTAGACATTCAATTATAATCTGTTTTAATAAAAA-ATAT
* ** * * * *
15821 AAAAAAGTTTGAC-TTAAAGTCAATTATGAGATTATAAAAACAATTAAAGCAAGCAATAAGGCTT
126 AAAAAAATTCAACTTTAAA-TCAATCATGAGATTAT-AAAACATTTAAAGCGAGTAATAAGGCTT
* * ** * * *
15885 TCGAAGGCATGGGTAAGTATAAATGCG-CTTTTCTCACCAATGAATAGCTCTTTCTTCACATTTC
189 TCAAAGGCATGGGTGAGTATAAATG-GACTTTTCTTGCCAATGAATGGCTTTTTCTTCATATTTC
* * * * * * * *
15949 TCGAGGTAGATATTCAATTACAGTCTA-TTTTGATCAAAAATGAAAAAAAATAAACTTAAAGTCA
253 T-GAGGTAGACATTTAATTATAATC-AGTTTTAACCAAAAATAAAAAAAAATCAACTTAAAGTCA
*
16013 ATTAGGAGATTATAAAACTATTT
316 ATTATGAGATTATAAAACTATTT
* * * ** * *
16036 AGAGCGAGTAATAAGGCTTTTGAAGGTATAGGTGACTATAAATGGACTTTTCTTATCAACGAAAA
1 AAAGCGAGTAATAAGGC-TTTGAAGGCATAGATGACTATAAATGGACTTTTCTTGCCAATGAATA
* * *
16101 TCTTTTTCTTTATATTT-TCTAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAACATGAA
65 TCTTTTTCTTCATATTTCT-TGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAT-AA
* * * **
16165 AAAAATTCAACTTCAAATAAATCATGAGATTATAAAACTTTTTAAAGCGAGTAGCAAGGCTTTCA
128 AAAAATTCAACTTTAAATCAATCATGAGATTATAAAAC-ATTTAAAGCGAGTAATAAGGCTTTCA
* * * * *
16230 AAGGCATGGGTGACTATAAATGGACTTTTCTTCCCACTGAATGGCTTGTTCTTCATATTTTTTGA
192 AAGGCATGGGTGAGTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATA-TTTCTGA
* * * * * *
16295 GCTAAACATTTAATTATAATCAGTTTTAACAAAAAATAAAAAAAATTCAACCTAAAGTCATTTAT
256 GGTAGACATTTAATTATAATCAGTTTTAACCAAAAATAAAAAAAAATCAACTTAAAGTCAATTAT
16360 GAGATTATAAAACTATTT
321 GAGATTATAAAACTATTT
* * * * * *
16378 AAAGCGA-TGAATAAGGCTTCCGTAGGCATAGGTGACTATAAA-GAGACTTCTCATACCAATGAA
1 AAAGCGAGT-AATAAGGCTT-TGAAGGCATAGATGACTATAAATG-GACTTTTCTTGCCAATGAA
* * * * *
16441 TATCTTTTTCTGCACGT-TTTCTAG-GGTAGACATTCAATTATATTATGTTCTAATAAAAAATAT
63 TATCTTTTTCTTCA--TATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAT
* * * * * *
16504 AAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAAACAATTAATGCAAGTAATAAGGCTTT
126 AAAAAAATTCAACTTTAAATCAATCATGAGATTAT-AAAACATTTAAAGCGAGTAATAAGGCTTT
** * * * ** * *
16569 TGAAGGTATGGGTGAGTACAAATGCACTTTTCTCACCAATGAAGGGCTTTTTCTTCACATTTCTC
190 CAAAGGCATGGGTGAGTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATATTTCT-
* * * * * *
16634 AAGGTAGACATTCAATTATAGTCTA-TTTTGACCAAAAAT--GAAAACA--AACTTAAAGTCAAT
254 GAGGTAGACATTTAATTATAATC-AGTTTTAACCAAAAATAAAAAAAAATCAACTTAAAGTCAAT
*
16694 TATGAGATTTTAAAACTATTT
318 TATGAGATTATAAAACTATTT
* * **
16715 AAAGTGAGTAATAAGGCTTTCGAAGGCATA-AGTGACTATAAATGGACTTTCCTTGTGAATGAAT
1 AAAGCGAGTAATAAGGCTTT-GAAGGCATAGA-TGACTATAAATGGACTTTTCTTGCCAATGAAT
* * * * * * *
16779 ATCAATTTT-TTCATGTTTTTTAAGGTAGAGATTCAATTATAATCTGTTTTGATAAAAAATGTAA
64 ATC-TTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAA
* *
16843 GAAAATTTCAACTTCAAATCAATCATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC
128 -AAAAATTCAACTTTAAATCAATCATGAGATTATAAAA-CATTTAAAGCGAGTAATAAGGCTTTC
* ** * * *
16908 GAAGGCATAAGTGACTATAAATGGACTTTTCTTGCCACTGAATGGCTTGTTCTTCATATTTCTTG
191 AAAGGCATGGGTGAGTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATATTTC-TG
* * * ** *
16973 AGGTAGACATTTAATTATAATCAG-TTTAACAAAAAATGAAAAAATATTTGACCTAAAGTCAATT
255 AGGTAGACATTTAATTATAATCAGTTTTAACCAAAAAT-AAAAAAAAATCAACTTAAAGTCAATT
* *
17037 ATGAGACTATAAAACCATTT
319 ATGAGATTATAAAACTATTT
* * ** *
17057 AAAGCGAGTAATAAGACTTCCGAAGGCATA-AGTGACTATAAATAGG-CTTTTCTTATCAATAAA
1 AAAGCGAGTAATAAGGCTT-TGAAGGCATAGA-TGACTATAAAT-GGACTTTTCTTGCCAATGAA
* ** * ******
17120 TATCTTTTTTTGTACAT-TTT-TCAATGTAGACATTCAATTATAATCTGTTTTAATAAANNNNNN
63 TATCTTTTTCT-T-CATATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAT
**** * * * * ** * *
17183 NNNNAAATTCAACTTAAAATCAATTATAAGATTATAAAAACAATTAAAGTAAATAATAAGGCATT
126 AAAAAAATTCAACTTTAAATCAATCATGAGATTAT-AAAACATTTAAAGCGAGTAATAAGGCTTT
* ** *
17248 CGAAA-GCATGGGTGAGTATAAATGGACTTTTC--GCACTAGTGAATATCTTTTTCTTCGTATTT
190 C-AAAGGCATGGGTGAGTATAAATGGACTTTTCTTGC-C-AATGAATGGCTTTTTCTTCATATTT
* * * * * * *
17310 CTCAAGGTGGACATTCAATTATAGTCTGTTTTGACCAAAAATAAAAAAAAAGTTAACTTAAAGTC
252 CT-GAGGTAGACATTTAATTATAATCAGTTTTAACCAAAAATAAAAAAAAA-TCAACTTAAAGTC
* *
17375 AATTATAAGAATATAAAACTATTT
315 AATTATGAGATTATAAAACTATTT
* * * ** * *
17399 AAAGCGAGTAATAAGGCTTTTGAAAGCATAGGTGACTATAAATGGACTTTCCTTGTGAACGACTA
1 AAAGCGAGTAATAAGGC-TTTGAAGGCATAGATGACTATAAATGGACTTTTCTTGCCAATGAATA
* ** * *
17464 TCTTTTTCTACACGTTTC-TCATGGTAGACATTCAATTATAATCTATTTTAATAAAAAATATAAA
65 TCTTTTTCTTCATATTTCTTGA-GGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAA
* * * * * * * *
17528 AAATTTTAACTTCAAAACAATCAAGAGATTATAAAAACAATTAAAGCAAGTAATAAGGCTTTCTA
129 AAAATTCAACTTTAAATCAATCATGAGATTAT-AAAACATTTAAAGCGAGTAATAAGGCTTTCAA
* * * *
17593 AGGCACGAGTGAGTATAAATGGAC-TTTCTTACCAATGAATGGCTTTTTCTTCACGT-TTTTTGA
193 AGGCATGGGTGAGTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCA--TATTTCTGA
** * *
17656 ATTAGACATCTAATTATAAT-ATGATTTAACCAAAAAT-AAAAAAAATCAACTTAAAGTCAATTA
256 GGTAGACATTTAATTATAATCA-GTTTTAACCAAAAATAAAAAAAAATCAACTTAAAGTCAATTA
*
17719 TAAGATTATAAAACTATTT
320 TGAGATTATAAAACTATTT
* * * ** * *
17738 AAAGTGAGTAATAAGGCTTTTGAATGCATAGGTGACTATAAATCAACTTTTTTTGCTAATGAATA
1 AAAGCGAGTAATAAGGC-TTTGAAGGCATAGATGACTATAAATGGACTTTTCTTGCCAATGAATA
* * *
17803 TCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATA-AAAA
65 TCTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAA
* *
17867 AAATTCAAC-TTAAAGTCAATAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGA
130 AAATTCAACTTTAAA-TCAATCATGAGATTATAAAA-CATTTAAAGCGAGTAATAAGGC-TTTCA
* ** * * * ** *
17931 AA-GTATAAGTGACTATAAATGAACTTTTCTTGCCAATAAATATCTTTTTCTTCATGTTTCCTGA
192 AAGGCATGGGTGAGTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATATTT-CTGA
* * ** * * * *
17995 GGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAAATTCAACATAAAATCAATTAT
256 GGTAGACATTTAATTATAATCAGTTTTAACCAAAAATAAAAAAAAATCAACTTAAAGTCAATTAT
*
18060 GAGATTATAAAAAC-AATT
321 GAGATTAT-AAAACTATTT
* * * * *
18078 AAAGCAAGTAATAAGACTTTCGAAGGTATGGATGAGTATAAAT
1 AAAGCGAGTAATAAGGCTTT-GAAGGCATAGATGACTATAAAT
18121 CGATTGTTGG
Statistics
Matches: 2243, Mismatches: 428, Indels: 192
0.78 0.15 0.07
Matches are distributed among these distances:
335 1 0.00
336 4 0.00
337 146 0.07
338 191 0.09
339 213 0.09
340 229 0.10
341 795 0.35
342 637 0.28
343 22 0.01
344 5 0.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (338 bp):
AAAGCGAGTAATAAGGCTTTGAAGGCATAGATGACTATAAATGGACTTTTCTTGCCAATGAATAT
CTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAA
AATTCAACTTTAAATCAATCATGAGATTATAAAACATTTAAAGCGAGTAATAAGGCTTTCAAAGG
CATGGGTGAGTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATATTTCTGAGGTAG
ACATTTAATTATAATCAGTTTTAACCAAAAATAAAAAAAAATCAACTTAAAGTCAATTATGAGAT
TATAAAACTATTT
Found at i:18902 original size:171 final size:170
Alignment explanation
Indices: 18591--19293 Score: 656
Period size: 171 Copynumber: 4.2 Consensus size: 170
18581 NNNNNNNNNT
* * *
18591 TTTCTGAGGTAGACATTCAATTATAATCTGTTTGAATAAAAAATATAAAAAAATTAAAGTTAAAA
1 TTTCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAA
* * * * *
18656 TCAATTATGGGATTTTAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGACATGGGTGAGTAT
66 TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGACATGGATGACTAT
* *
18721 AAAAGGACTTTTGTAACCAATGAATGGCTTTTTCTCCATG
131 AAATGGACTTTTCTAACCAATGAATGGCTTTTTCTCCATG
* * ** *
18761 TTTCTTGAGGTCA-ACATTCAATTGTAATCTGTTTTAATAAAAAATGTAAAAAACGTCAACTTCA
1 TTTC-TGAGGT-AGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAA
* * * ** * *
18825 AATCAATTGTGAGATTATAAAATCATTTAAAGTGAGTAATAAGGCTTTTTAAGGCATTGATGACT
64 AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGACATGGATGACT
* * * * ** *
18890 GTAAATGGACTTTTTTGACTAATGAATATCTTTTTCTGCATG
129 ATAAATGGACTTTTCTAACCAATGAATGGCTTTTTCTCCATG
** * * * *
18932 TTTACCAAGGTGGACATTCAATTATAATCTATTTTAATAAAAAATATAAAAACATTCAACTTCAA
1 TTT-CTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAA
* * *
18997 ATCAGTTATGAGATTATAAAACCATTTAAAGCGAGTAACAAGGCTTTCGAAGATATGGATGACTA
65 ATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGACATGGATGACTA
** ** * * * ** *
19062 TAAATAAACTTTTCTTGCCAAGGAATGGCTTGTTATTTACG
130 TAAATGGACTTTTCTAACCAATGAATGGCTTTTTCTCCATG
* * * *
19103 TTTCTTGATGTAG------AATTATAATATGTTTTAACCAAAAAA-GTAAAAAAATTCAACTTAA
1 TTTC-TGAGGTAGACATTCAATTATAATCTGTTTTAA-TAAAAAATATAAAAAAATTCAACTTAA
* * * * * *
19161 AATCAATTATGA-ATTATAAAACCAGTTACAGTGAGTAATAAGGCTTTTGAAGGCATAGG-TAAC
64 AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGACAT-GGATGAC
* *** * **
19224 TATAAATGGACTTTTTTTGTCAACGAATATCTTTTTCTTCTCA--
128 TATAAATGGACTTTTCTAACCAATGAATGGCTTTTTC-TC-CATG
19267 TTTCTTGAGGTAGACATTCAATTATAA
1 TTTC-TGAGGTAGACATTCAATTATAA
19294 AAAATTCAAC
Statistics
Matches: 425, Mismatches: 93, Indels: 30
0.78 0.17 0.05
Matches are distributed among these distances:
164 80 0.19
165 46 0.11
166 7 0.02
170 13 0.03
171 277 0.65
172 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (170 bp):
TTTCTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAA
TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGACATGGATGACTAT
AAATGGACTTTTCTAACCAATGAATGGCTTTTTCTCCATG
Found at i:19273 original size:164 final size:164
Alignment explanation
Indices: 18609--19908 Score: 653
Period size: 171 Copynumber: 7.9 Consensus size: 164
18599 GTAGACATTC
* * * * * * *
18609 AATTATAATCTGTTTGAATAAAAAATATAAAAAAATTAAAGTTAAAATCAATTATGGGATTTTAA
1 AATTATAATCTGTTTTAATAAAAAA-GTAAAAAAATTCAACTTCAAATCAATTATGAGATTATAA
** * * * * * * *
18674 AACCATTTAAAACGAGTAATAAGGCTTTCGAAGACATGGGTGAGTATAAAAGGAC-TTTTGTAAC
65 AACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATGGACTTTTTTTGA-
* ** * *
18738 CAATGAATGGCTTTTTCTCCAT-GTTTCTTGAGGTCA-
129 CAACGAATATCTTTTTCTTC-TCGTTTCTTGACGT-AG
** *
18774 ACATTCAATTGTAATCTGTTTTAATAAAAAATGTAAAAAACGTCAACTTCAAATCAATTGTGAGA
1 A-ATT--A---TAATCTGTTTTAATAAAAAA-GTAAAAAAATTCAACTTCAAATCAATTATGAGA
* * * * *
18839 TTATAAAATCATTTAAAGTGAGTAATAAGGCTTTTTAAGGCATTGATGACTGTAAATGGAC-TTT
59 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATGGACTTTT
* * * * **
18903 TTTGACTAATGAATATCTTTTTCTGCAT-GTTTACCAAGGTGGACATTC
124 TTTGAC-AACGAATATCTTTTTCTTC-TCGTTT--C----TTGACGTAG
* *
18951 AATTATAATCTATTTTAATAAAAAA-TATAAAAACATTCAACTTCAAATCAGTTATGAGATTATA
1 AATTATAATCTGTTTTAATAAAAAAGTA-AAAAA-ATTCAACTTCAAATCAATTATGAGATTATA
* * * ** *
19015 AAACCATTTAAAGCGAGTAACAAGGCTTTCGAA-G-ATATGGATGACTATAAATAAACTTTTCTT
64 AAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATA-GG-TGACTATAAATGGACTTTTTTT
* * ** * * *
19078 GCCAAGGAATGGCTTGTTATT-TACGTTTCTTGATGTAG
127 GACAACGAATATCTTTTTCTTCT-CGTTTCTTGACGTAG
* * *
19116 AATTATAATATGTTTTAACCAAAAAAGTAAAAAAATTCAACTTAAAATCAATTATGA-ATTATAA
1 AATTATAATCTGTTTTAA-TAAAAAAGTAAAAAAATTCAACTTCAAATCAATTATGAGATTATAA
* * * *
19180 AACCAGTTACAGTGAGTAATAAGGCTTTTGAAGGCATAGGTAACTATAAATGGACTTTTTTTGTC
65 AACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATGGACTTTTTTTGAC
* *
19245 AACGAATATCTTTTTCTTCTCATTTCTTGAGGTAG
130 AACGAATATCTTTTTCTTCTCGTTTCTTGACGTAG
* * ** **
19280 -A-CAT--TC------AAT----TA-T-AAAAAATTCAACTAAAAAGAAATTATGAGATTATAAA
1 AATTATAATCTGTTTTAATAAAAAAGTAAAAAAATTCAACTTCAAATCAATTATGAGATTATAAA
* * ** * * * * *
19329 AACAATTAAAGCAAGTAATAAGACTTTCGAAGGCAT-GGATGAGTATAAATGGAC-TTTTCTCAT
66 ACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATAGG-TGACTATAAATGGACTTTTTTTGA-
* ** * *
19392 CAATGAATGGCTTTTTCTTCAT-GTTTCTCGAGGTAG
129 CAACGAATATCTTTTTCTTC-TCGTTTCTTGACGTAG
* *
19428 ACATTCAATTACAATCTGTTTTAATAAAAATGTAAAAAAATTCAAATTCAAATCAATTATGAGAT
1 A-ATT--A-T--AATCTGTTTTAATAAAAAAGTAAAAAAATTCAACTTCAAATCAATTATGAGAT
* * * * *
19493 TATAAAACCATTTAAAGCGAGTAATAACGC-TTT---CG-A-A-GT--C-ATAAGTGGACTTTTC
60 TATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATGGACTTTTT
* * * *
19548 TTG-CTAATGAATATATTTTTCTACAT-GTTT-TCTGAGGTAG
125 TTGAC-AACGAATATCTTTTTCTTC-TCGTTTCT-TGACGTAG
* * * *
19588 ACATTCAATTATAATCTATTTTAATAAAAAA-TATAAAACGATTCAACTTGAAATCAATTATGGG
1 ------AATTATAATCTGTTTTAATAAAAAAGTA-AAAA-AATTCAACTTCAAATCAATTATGAG
* * ** * * *
19652 ATTATAAAATCATTTAAA-TCGAGTAAGAAGGCTTACGAAGGTATGGGTGAGTATAAATGGAC-T
58 ATTATAAAACCATTTAAAGT-GAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATGGACTT
* * * * * * *
19715 GTTCTCACCAATGAATGGT-TTTTTC-TCTACGTTTCTTGAGGTAA
122 TTTTTGA-CAACGAAT-ATCTTTTTCTTCT-CGTTTCTTGACGTAG
*
19759 ACATTCAATTATACTTTGTTTTAATTAAAAATA-TAAAAATAATTCAACTTCAAATCAATTATGA
1 A-ATT--A-TA-A-TCTGTTTTAA-TAAAAA-AGTAAAAA-AATTCAACTTCAAATCAATTATGA
* ** * * * ***
19823 GATTAAAAAATAATTTAAAGCGAGTAATAAGGCTTCTAAAGGCATAGGTGACTGCCAATGGACTT
57 GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATGGACTT
* * *
19888 TTCTTGTCAATGAATATCTTT
122 TTTTTGACAACGAATATCTTT
19909 CTCGACACGT
Statistics
Matches: 866, Mismatches: 177, Indels: 177
0.71 0.15 0.15
Matches are distributed among these distances:
147 32 0.04
148 80 0.09
149 2 0.00
150 1 0.00
153 1 0.00
154 3 0.00
158 2 0.00
159 4 0.00
160 59 0.07
161 52 0.06
162 4 0.00
163 3 0.00
164 84 0.10
165 52 0.06
166 23 0.03
167 2 0.00
168 4 0.00
169 12 0.01
170 64 0.07
171 265 0.31
172 101 0.12
173 7 0.01
174 1 0.00
176 3 0.00
177 5 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (164 bp):
AATTATAATCTGTTTTAATAAAAAAGTAAAAAAATTCAACTTCAAATCAATTATGAGATTATAAA
ACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATGGACTTTTTTTGACA
ACGAATATCTTTTTCTTCTCGTTTCTTGACGTAG
Found at i:19411 original size:148 final size:147
Alignment explanation
Indices: 19145--19438 Score: 367
Period size: 148 Copynumber: 2.0 Consensus size: 147
19135 CAAAAAAGTA
* ** * * * ** * *
19145 AAAAAATTCAACTTAAAATCAATTATGAATTATAAAACCAGTTACAGTGAGTAATAAGGCTTTTG
1 AAAAAATTCAACTAAAAAGAAATTATGAATTATAAAAACAATTAAAGCAAGTAATAAGACTTTCG
* ** * *
19210 AAGGCATAGGTAACTATAAATGGACTTTTTTTGTCAACGAATATCTTTTTCTTC-TCATTTCTTG
66 AAGGCATAGGTAACTATAAATGGACTTTTCTCATCAACGAATAGCTTTTTCTTCAT-ATTTCTCG
19274 AGGTAGACATTCAATTAT
130 AGGTAGACATTCAATTAT
19292 AAAAAATTCAACTAAAAAGAAATTATGAGATTATAAAAACAATTAAAGCAAGTAATAAGACTTTC
1 AAAAAATTCAACTAAAAAGAAATTATGA-ATTATAAAAACAATTAAAGCAAGTAATAAGACTTTC
* * * * *
19357 GAAGGCAT-GGATGAGTATAAATGGACTTTTCTCATCAATGAATGGCTTTTTCTTCATGTTTCTC
65 GAAGGCATAGG-TAACTATAAATGGACTTTTCTCATCAACGAATAGCTTTTTCTTCATATTTCTC
19421 GAGGTAGACATTCAATTA
129 GAGGTAGACATTCAATTA
19439 CAATCTGTTT
Statistics
Matches: 124, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
147 27 0.22
148 96 0.77
149 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.34
Consensus pattern (147 bp):
AAAAAATTCAACTAAAAAGAAATTATGAATTATAAAAACAATTAAAGCAAGTAATAAGACTTTCG
AAGGCATAGGTAACTATAAATGGACTTTTCTCATCAACGAATAGCTTTTTCTTCATATTTCTCGA
GGTAGACATTCAATTAT
Found at i:19709 original size:643 final size:656
Alignment explanation
Indices: 18658--19908 Score: 1636
Period size: 643 Copynumber: 1.9 Consensus size: 656
18648 AGTTAAAATC
* * * * * * *
18658 AATTATGGGATTTTAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGACATGGGTGAGTATAA
1 AATTATGAGATTATAAAAACAATTAAAACAAGTAATAAGACTTTCGAAGACATGGATGAGTATAA
* * **
18723 AAGGACTTTTGTAACCAATGAATGGCTTTTTCTCCATGTTTCTTGAGGTCAACATTCAATTGTAA
66 AAGGACTTTTCTAACCAATGAATGGCTTTTTCTCCATGTTTCTCGAGGTCAACATTCAATTACAA
* * * *
18788 TCTGTTTTAATAAAAAATGTAAAAAACGTCAACTTCAAATCAATTGTGAGATTATAAAATCATTT
131 TCTGTTTTAATAAAAAATGTAAAAAAAGTCAAATTCAAATCAATTATGAGATTATAAAACCATTT
* * **
18853 AAAGTGAGTAATAAGGCTTTTTAAGGCATTGATGACTGTAAATGGACTTTTTTGACTAATGAATA
196 AAAGCGAGTAATAACGCTTTCGAAGGCATTGA-GAC-G---ATGGACTTTTTTGACTAATGAATA
* * *
18918 TCTTTTTCTGCATGTTTACCAAGGTGGACATTCAATTATAATCTATTTTAATAAAAAATATAAAA
256 TATTTTTCTACATGTTTACCAAGGTAGACATTCAATTATAATCTATTTTAATAAAAAATATAAAA
* *
18983 ACATTCAACTTCAAATCAGTTATGAGATTATAAAACCATTTAAAGCGAGTAACAAGGCTTTCGAA
321 ACATTCAACTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAACAAGGCTTACGAA
* ** * *
19048 GATATGGATGACTATAAATAAACTTTTCTTGCCAAGGAATGGCTTGTTATTTACGTTTCTTGATG
386 GATATGGATGACTATAAATAAACTGTTCTCACCAAGGAATGGCTTGTTATCTACGTTTCTTGAGG
*
19113 TAGA-ATT-A-TA-A-TATGTTTTAACCAAAAA-AGTAAAAA-AATTCAACTTAAAATCAATTAT
451 TAAACATTAATTATACTATGTTTTAACCAAAAATA-TAAAAATAATTCAACTTAAAATCAATTAT
* * * * * * *
19171 GA-ATTATAAAACCAGTTACAGTGAGTAATAAGGCTTTTGAAGGCATAGGTAACTATAAATGGAC
515 GAGATTAAAAAACAAGTTAAAGCGAGTAATAAGGCTTCTAAAGGCATAGGTAACTACAAATGGAC
*
19235 TTTTTTTGTCAACGAATATCTTTTTCTTCTCATTTCTTGAGGTAGACATTCAATTATAAAAAATT
580 TTTTCTTGTCAACGAATATCTTTTTCTTCTCATTTCTTGAGGTAGACATTCAATTATAAAAAATT
19300 CAACTAAAAAGA
645 CAACTAAAAAGA
* *
19312 AATTATGAGATTATAAAAACAATTAAAGCAAGTAATAAGACTTTCGAAGGCATGGATGAGTATAA
1 AATTATGAGATTATAAAAACAATTAAAACAAGTAATAAGACTTTCGAAGACATGGATGAGTATAA
* * * *
19377 ATGGACTTTTCTCATCAATGAATGGCTTTTTCTTCATGTTTCTCGAGGT-AGACATTCAATTACA
66 AAGGACTTTTCTAACCAATGAATGGCTTTTTCTCCATGTTTCTCGAGGTCA-ACATTCAATTACA
*
19441 ATCTGTTTTAAT-AAAAATGTAAAAAAATTCAAATTCAAATCAATTATGAGATTATAAAACCATT
130 ATCTGTTTTAATAAAAAATGTAAAAAAAGTCAAATTCAAATCAATTATGAGATTATAAAACCATT
*
19505 TAAAGCGAGTAATAACGCTTTCGAAGTCA-T-A-A-G-TGGACTTTTCTTG-CTAATGAATATAT
195 TAAAGCGAGTAATAACGCTTTCGAAGGCATTGAGACGATGGACTTTT-TTGACTAATGAATATAT
* **
19564 TTTTCTACATGTTTTCTGAGGTAGACATTCAATTATAATCTATTTTAATAAAAAATAT-AAAACG
259 TTTTCTACATGTTTACCAAGGTAGACATTCAATTATAATCTATTTTAATAAAAAATATAAAAAC-
* * * * * *
19628 ATTCAACTTGAAATCAATTATGGGATTATAAAATCATTTAAATCGAGTAAGAAGGCTTACGAAGG
323 ATTCAACTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAACAAGGCTTACGAAGA
* * ** * * * *
19693 TATGGGTGAGTATAAATGGACTGTTCTCACCAATGAATGGTTTTTTCTCTACGTTTCTTGAGGTA
388 TATGGATGACTATAAATAAACTGTTCTCACCAAGGAATGGCTTGTTATCTACGTTTCTTGAGGTA
* ** *
19758 AACATTCAATTATACTTTGTTTTAATTAAAAATATAAAAATAATTCAACTTCAAATCAATTATGA
453 AACATT-AATTATACTATGTTTTAACCAAAAATATAAAAATAATTCAACTTAAAATCAATTATGA
* * * * *
19823 GATTAAAAAATAATTTAAAGCGAGTAATAAGGCTTCTAAAGGCATAGGTGACTGCCAATGGACTT
517 GATTAAAAAACAAGTTAAAGCGAGTAATAAGGCTTCTAAAGGCATAGGTAACTACAAATGGACTT
*
19888 TTCTTGTCAATGAATATCTTT
582 TTCTTGTCAACGAATATCTTT
19909 CTCGACACGT
Statistics
Matches: 512, Mismatches: 73, Indels: 27
0.84 0.12 0.04
Matches are distributed among these distances:
642 5 0.01
643 184 0.36
644 6 0.01
646 1 0.00
647 3 0.01
648 1 0.00
649 21 0.04
650 24 0.05
651 72 0.14
652 1 0.00
653 72 0.14
654 122 0.24
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (656 bp):
AATTATGAGATTATAAAAACAATTAAAACAAGTAATAAGACTTTCGAAGACATGGATGAGTATAA
AAGGACTTTTCTAACCAATGAATGGCTTTTTCTCCATGTTTCTCGAGGTCAACATTCAATTACAA
TCTGTTTTAATAAAAAATGTAAAAAAAGTCAAATTCAAATCAATTATGAGATTATAAAACCATTT
AAAGCGAGTAATAACGCTTTCGAAGGCATTGAGACGATGGACTTTTTTGACTAATGAATATATTT
TTCTACATGTTTACCAAGGTAGACATTCAATTATAATCTATTTTAATAAAAAATATAAAAACATT
CAACTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAACAAGGCTTACGAAGATAT
GGATGACTATAAATAAACTGTTCTCACCAAGGAATGGCTTGTTATCTACGTTTCTTGAGGTAAAC
ATTAATTATACTATGTTTTAACCAAAAATATAAAAATAATTCAACTTAAAATCAATTATGAGATT
AAAAAACAAGTTAAAGCGAGTAATAAGGCTTCTAAAGGCATAGGTAACTACAAATGGACTTTTCT
TGTCAACGAATATCTTTTTCTTCTCATTTCTTGAGGTAGACATTCAATTATAAAAAATTCAACTA
AAAAGA
Found at i:19901 original size:172 final size:170
Alignment explanation
Indices: 19538--19926 Score: 417
Period size: 172 Copynumber: 2.3 Consensus size: 170
19528 AAGTCATAAG
* *
19538 TGGACTTTTCTTGCTAATGAATATATTTTTCTACATGTTTTCTGAGGTAGACATTCAATTATAAT
1 TGGACTTTTCTTGC-AATGAATATATTTTTCTACACGTTTTCTGAGGTAAACATTCAATTATAAT
* * * * *
19603 CTATTTTAATAAAAAATATAAAACGATTCAACTTGAAATCAATTATGGGATTATAAAATCATTTA
65 CTATTTTAATAAAAAATATAAAACAATTCAACTTCAAATCAATTATGAGATTAAAAAATAATTTA
* * * * * *
19668 AATCGAGTAAGAAGGCTTACGAAGGTATGGGTGAGTATAAA
130 AAGCGAGTAAGAAGGCTTACAAAGGCATAGGTGACTACAAA
* ** *
19709 TGGACTGTTCTCACCAATGAATGGT-TTTTTCT-CTACG-TTTCTTGAGGTAAACATTCAATTAT
1 TGGACTTTTCT-TGCAATGAAT-ATATTTTTCTAC-ACGTTTTC-TGAGGTAAACATTCAATTAT
* * * * *
19771 ACTTTGTTTTAATTAAAAATATAAAAATAATTCAACTTCAAATCAATTATGAGATTAAAAAATAA
62 AATCTATTTTAATAAAAAATAT-AAAACAATTCAACTTCAAATCAATTATGAGATTAAAAAATAA
* * *
19836 TTTAAAGCGAGTAATAAGGCTT-CTAAAGGCATAGGTGACTGCCAA
126 TTTAAAGCGAGTAAGAAGGCTTAC-AAAGGCATAGGTGACTACAAA
* * * *
19881 TGGACTTTTCTTGTCAATGAATATCTTTCTCGACACGTTTCCTGAG
1 TGGACTTTTCTTG-CAATGAATATATTTTTCTACACGTTTTCTGAG
19927 NNNNNNNNNN
Statistics
Matches: 176, Mismatches: 32, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
170 5 0.03
171 65 0.37
172 102 0.58
173 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (170 bp):
TGGACTTTTCTTGCAATGAATATATTTTTCTACACGTTTTCTGAGGTAAACATTCAATTATAATC
TATTTTAATAAAAAATATAAAACAATTCAACTTCAAATCAATTATGAGATTAAAAAATAATTTAA
AGCGAGTAAGAAGGCTTACAAAGGCATAGGTGACTACAAA
Found at i:20349 original size:171 final size:170
Alignment explanation
Indices: 20031--20830 Score: 801
Period size: 171 Copynumber: 4.7 Consensus size: 170
20021 NNNNNNNNNN
* ** * * *
20031 ATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAAGAAATTAAAGCAAGTAATAAGCCT
1 ATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
** * *
20096 TTCAAAGG--TACGGATGAGTATAAAGGGACTTTTCTCACCAATGAATGACTTTTTCTTCATGTT
66 TTTGAAGGCATA-GG-TGAGTATAAATGGACTTTTCTCACCAATGAAT-ACTTTTTCTTCACGTT
* * * * * * *
20159 TCTCAAGATAGAAATTCAATTATAATCTATTTTGATCATAACT
128 CCTCGAGATAGACATTCAATTATAATCTATTTTAATAAAAAAT
* * * *
20202 A-AACGAAAAATT-AACTTGAAGTCAATTATGAGATTGTAAAACCATTTAAAGCGAGTAATAGGG
1 ATAA--AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGG
* * * *
20265 CTTTTGAAGGCATAGGTAAGTATAAATAGACTTTTCTCACGAACGAATATCTTTTTCTTCACGTT
64 CTTTTGAAGGCATAGGTGAGTATAAATGGACTTTTCTCACCAATGAATA-CTTTTTCTTCACGTT
* * *
20330 CCTCGAGGTAGACATTCAATTATAATCTGTTTTCATAAAAAAT
128 CCTCGAGATAGACATTCAATTATAATCTATTTTAATAAAAAAT
* * * * *
20373 ATTAAAAAATTCAACTT-GAATCAATTATGGGATTATGAAACCATTTAAAGTGAGTAATAAGG-T
1 ATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
* * * ** * ** *
20436 TTTAGAAGGCATGGGTGACTAGAAATGGACTTTTCTCAGTAATGAATGGCTTTTTCTTCATTTTT
66 TTT-GAAGGCATAGGTGAGTATAAATGGACTTTTCTCACCAATGAAT-ACTTTTTCTTCACGTTC
* * * *
20501 CTTGGGGTAAACATTCAATTATAATCTATTTTAATAAAAAA-
129 CTCGAGATAGACATTCAATTATAATCTATTTTAATAAAAAAT
* * ** *
20542 ATAAAAAAAATTCAACTTCAAATTAATTATGAGATTATAAAATTATTTAAAGGGAGTAATAAGGC
1 AT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC
* * * ** * *
20607 TTCTGAAGGCATAGGTGACTATCAATGGACTTTTCTTGCTAATGAATA--TCTTCTTCACGTTTC
65 TTTTGAAGGCATAGGTGAGTATAAATGGACTTTTCTCACCAATGAATACTTTTTCTTCACG-TTC
* *
20670 CT-GAGATAGGCATTCAATCATAATCTATTTTAATAAAAAAT
129 CTCGAGATAGACATTCAATTATAATCTATTTTAATAAAAAAT
* * ** **
20711 ATAAAAAAATTCAGCTTAAAATCAATTATGAGATTATAAAAACAACTAAAGTAAGTAATAAGGCT
1 ATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
** * *
20776 TTCAAAGGCATGGGTGAGTATAAATAGACTTTTCTCACCAATGAATGACTTTTTC
66 TTTGAAGGCATAGGTGAGTATAAATGGACTTTTCTCACCAATGAAT-ACTTTTTC
20831 AATTATAGTC
Statistics
Matches: 516, Mismatches: 96, Indels: 34
0.80 0.15 0.05
Matches are distributed among these distances:
168 131 0.25
169 13 0.03
170 146 0.28
171 211 0.41
172 13 0.03
173 2 0.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (170 bp):
ATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
TTTGAAGGCATAGGTGAGTATAAATGGACTTTTCTCACCAATGAATACTTTTTCTTCACGTTCCT
CGAGATAGACATTCAATTATAATCTATTTTAATAAAAAAT
Found at i:21115 original size:171 final size:171
Alignment explanation
Indices: 20861--21830 Score: 944
Period size: 171 Copynumber: 5.7 Consensus size: 171
20851 ATAAATAAAT
* * *
20861 AAAAAATT-AACTT-AAATTCAATTATGAGATTATAAAACTATTTAAAGTGAGTAACAAGGCTTT
1 AAAAAATTCAACTTCAAA-TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
** * ** *
20924 TAAAGGCATAGGTAACTATAAATAAACTTTTCTTGCCAATGAATATCTTTTACTTCATACTTTC-
65 CGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCATACTTTCT
* * *
20988 CAAGATAAACATTCAATTATAATCTGTTTTAAGAAAAATGTA
130 CGAGATAAACATTCAATTATAATCTATTTTAAGAAAAATATA
* * * * * *
21030 AAAACAATTGACCTTCAAGTCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATGAGGCTTC
1 AAAA-AATTCAACTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* *
21095 CGAAGGCATAGGTGACTATAAATGTACTTTTCTTGCCAATAAATATCTTTTTCTGT-ATA-TTTC
65 CGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCT-TCATACTTTC
* * ** * *
21158 ACGAGGTGGATAATCAATTATAATCTATTTTACTA-AAAAATA-A
129 TCGAGATAAACATTCAATTATAATCTATTTTA--AGAAAAATATA
* * * * ** * * *
21201 AAAAAGATTCAACATAAAATCAATTACGGGATTATAAAAATAATTAAAGCAAGTAATAAGGTTTT
1 AAAAA-ATTCAACTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * * * *
21266 TGAAGGCATGGGTGAGTATAAATGGACTTTTCTCAG-CAATGAATATCCTTTTCTTC--ACTTTT
65 CGAAGGCATAGGTGACTATAAATGGACTTTTCT-TGCCAATGAATATCTTTTTCTTCATAC-TTT
* * * * * * *
21328 CTTGAAAGAGACATTTAATTATAATCTAATTTAAGAAAAAATACAA
128 CTCGAGATAAACATTCAATTATAATCTATTTTAAG-AAAAATA-TA
* * * * * *
21374 AAAAAATTCATCTTAAAATCAATTATGAGATTATTAAACCATTTAAAGCAAGTAATAATGCTTTT
1 AAAAAATTCAACTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC
* * * *
21439 GAAGGCATAGGTGACTATAAATGGACGTTTCTTGCCAATGAATAACTTTTTCTTCAT-GTTTCTT
66 GAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCATACTTTCTC
* * * *
21503 GAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATA
131 GAGATAAACATTCAATTATAATCTATTTTAA-GAAAAATATA
* *
21545 AAAAAATT-AATCTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTC
1 AAAAAATTCAA-CTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * ** * *
21609 CGAAGGTATAGGTGACTATAAATAGACTTTTCTCACCAATGAATGGT-TTTTTC-TCCT-CGTTT
65 CGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAAT-ATCTTTTTCTTCATAC-TTT
* * * *
21671 CTTGAGCTAAACATTCAATTATAATCTATTTTAATAAAAAAATA
128 CTCGAGATAAACATTCAATTATAATCTATTTTAAGAAAAATATA
* * * ** *
21715 AAAAAAGTCAACTTCAAGTCAATTATGAGATTATGAAACTTTTTAAAGTGAGTAATAAGGCTTTC
1 AAAAAATTCAACTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC
* * ** * *
21780 AAAGGCATAGGCGACTACCAATGGACTTTTCTTGCTAATAAATATCTTTTT
66 GAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTT
Statistics
Matches: 658, Mismatches: 118, Indels: 49
0.80 0.14 0.06
Matches are distributed among these distances:
169 7 0.01
170 114 0.17
171 385 0.59
172 145 0.22
173 7 0.01
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (171 bp):
AAAAAATTCAACTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC
GAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCATACTTTCTC
GAGATAAACATTCAATTATAATCTATTTTAAGAAAAATATA
Found at i:21521 original size:343 final size:337
Alignment explanation
Indices: 20861--21830 Score: 1093
Period size: 343 Copynumber: 2.8 Consensus size: 337
20851 ATAAATAAAT
* * * *
20861 AAAAAATTAACTTAAATTCAATTATGAGATTATAAAACTATTTAAAGTGAGTAACAAGGCTTTTA
1 AAAAAATTAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTG
* * * * *
20926 AAGGCATAGGTAACTATAAATAAACTTTTCT-TGCCAATGAATATCTTTTACTTCATACTTTCCA
66 AAGGCATAGGTGACTATAAATAGACTTTTCTCAG-CAATGAATATCTTTT-CTTC--ACTTTTCT
* * * * * * *
20990 AGATAAACATTCAATTATAATCTGTTTTAAG-AAAAATGTAAAAACAATTGACCTTCAAGTCAAT
127 TGAAAAACATTCAATTATAATCTATTTTAAGAAAAAAT-AAAAAAAAATTCAACTTCAAGTCAAT
* *
21054 TATGAGATTATAAAACCATTTAAAGTGAGTAATGAGGCTTCCGAAGGCATAGGTGACTATAAATG
191 TATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATG
* * *
21119 TACTTTTCTTGCCAATAAATATCTTTTTCTGTATATTTCACGAGGTGGATAATCAATTATAATCT
256 GACTTTTCTTGCCAATAAATATCTTTTTCTGTATATTTCACGAGGTAGACAATCAATTATAATCT
*
21184 ATTTTACTAAAAAATAA
321 ATTTTAATAAAAAATAA
* * * * * * *
21201 AAAAAGATTCAACATAAAATCAATTACGGGATTATAAAAATAATTAAAGCAAGTAATAAGGTTTT
1 AAAAA-ATT-AACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTT
* * *
21266 TGAAGGCATGGGTGAGTATAAATGGACTTTTCTCAGCAATGAATATCCTTTTCTTCACTTTTCTT
64 TGAAGGCATAGGTGACTATAAATAGACTTTTCTCAGCAATGAATAT-CTTTTCTTCACTTTTCTT
* * * * *
21331 GAAAGAGACATTTAATTATAATCTAATTTAAGAAAAAATACAAAAAAAATTCATCTTAAAATCAA
128 GAAA-A-ACATTCAATTATAATCTATTTTAAGAAAAAATA-AAAAAAAATTCAACTTCAAGTCAA
* ** * *
21396 TTATGAGATTATTAAACCATTTAAAGCAAGTAATAATGCTTTTGAAGGCATAGGTGACTATAAAT
190 TTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAAT
* * * * ** *
21461 GGACGTTTCTTGCCAATGAATAACTTTTTCT-TCATGTTTCTTGAGGTAGACATTCAATTATAAT
255 GGACTTTTCTTGCCAATAAATATCTTTTTCTGT-ATATTTCACGAGGTAGACAATCAATTATAAT
*
21525 CTGTTTTAATAAAAAATATA
319 CTATTTTAATAAAAAATA-A
* * * **
21545 AAAAAATTAATCTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTCC
1 AAAAAATTAA-CTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTT
* * * * * * *
21610 GAAGGTATAGGTGACTATAAATAGACTTTTCTCACCAATGAATGGTTTTTTCTCCTCGTTTCTTG
65 GAAGGCATAGGTGACTATAAATAGACTTTTCTCAGCAATGAAT-ATCTTTTCTTCACTTTTCTTG
* * * *
21675 AGCTAAACATTCAATTATAATCTATTTTAATAAAAAA-ATAAAAAAAGTCAACTTCAAGTCAATT
129 A--AAAACATTCAATTATAATCTATTTTAAGAAAAAATAAAAAAAAATTCAACTTCAAGTCAATT
* ** * * **
21739 ATGAGATTATGAAACTTTTTAAAGTGAGTAATAAGGCTTTCAAAGGCATAGGCGACTACCAATGG
192 ATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGG
*
21804 ACTTTTCTTGCTAATAAATATCTTTTT
257 ACTTTTCTTGCCAATAAATATCTTTTT
Statistics
Matches: 521, Mismatches: 95, Indels: 27
0.81 0.15 0.04
Matches are distributed among these distances:
340 14 0.03
341 102 0.20
342 112 0.21
343 284 0.55
344 8 0.02
345 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (337 bp):
AAAAAATTAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTG
AAGGCATAGGTGACTATAAATAGACTTTTCTCAGCAATGAATATCTTTTCTTCACTTTTCTTGAA
AAACATTCAATTATAATCTATTTTAAGAAAAAATAAAAAAAAATTCAACTTCAAGTCAATTATGA
GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTT
TTCTTGCCAATAAATATCTTTTTCTGTATATTTCACGAGGTAGACAATCAATTATAATCTATTTT
AATAAAAAATAA
Done.