Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397526.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_783.0, 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: 10021
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.29
Warning! 1772 characters in sequence are not A, C, G, or T
Found at i:7446 original size:171 final size:169
Alignment explanation
Indices: 4819--7445 Score: 2013
Period size: 171 Copynumber: 15.5 Consensus size: 169
4809 NNNNNNNNNN
* ** * *
4819 AATTATGAGACTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAG
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
** * * ** * *
4884 ATAAACTTTTCTGCTCAATGAATAGCTTTTTCTACAGGTTTCCCAAGGTAGGCATTCAATTATTA
66 ATGGACTTTTCTTCTCAATGAAT-GCTTTTTCTTCACTTTTCTCAAGGTAGACATTCAATTA-TA
* ** * *
4949 -TCTGTTTTAA-TGAAAATACAAAAAAATTCAACATAAAATC
129 GTCTATTTTAACCAAAAAT-GAAAAAAATTCAACTTAAAATC
************************
4989 AATTATGAGATTATAAAACCATTTAAAGCGAGTNNNNNNNNNNNNNNNNNNNNNNNNGACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
* * * * ** * **
5054 ATGGACTTTTTTTGCT-AGTGAATACCTTTTCTTCA-TGTTTCTTGAGGTA-ACGTTCAACCATA
66 ATGGACTTTTCTT-CTCAATGAATGCTTTTTCTTCACT-TTTCTCAAGGTAGACATTCAATTATA
* * *
5116 GTCTGTTTTAACTAAAAATGTAAAAAAATTCAATTTAAAATC
129 GTCTATTTTAACCAAAAATG-AAAAAAATTCAACTTAAAATC
* * * *
5158 AATTATTAGATTATAAAACCATTTAAAGCAAGTAATATGGCTTTTGAAGAAAT-GAGTGACTATA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAG-GTGACTATA
* * * * *
5222 AAT--AGTCTTCTTGC-CAATGAATGTCTTTTTCTTTA-TGTTTCTCAAGCTAGACATTCAATAA
65 AATGGACTTTTCTT-CTCAATGAATG-CTTTTTCTTCACT-TTTCTCAAGGTAGACATTCAATTA
* * * * * *
5283 TAATGTGTTTTAACCAATAATGTAAAAAAAATTGAACCTAAAATC
127 TAGTCTATTTTAACCAAAAATG--AAAAAAATTCAACTTAAAATC
* * * * * * *
5328 AATTTTGAGGTTATAAAACCATTTAAAACGAGTAAAAAGGGTTTTGAAGGAATAAGAGACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
* * *
5393 ATGGACTTTTCTTAC-CAATGAATG-----T-TT--GTTTT-TCAAGGTACACATTCAATTATAA
66 ATGGACTTTTCTT-CTCAATGAATGCTTTTTCTTCACTTTTCTCAAGGTAGACATTCAATTATAG
* *
5448 TCTATTTTAACCAATAATGTAATAAAAATT-GACTTAAAATC
130 TCTATTTTAACCAAAAATG-AA-AAAAATTCAACTTAAAATC
* * * * * * *
5489 AATTATGAGATTATAAAACAATTTAAAACGAGTAGTAAGGCTTTTAAAGAAATGGGTGACAATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
* * * *
5554 ATGGGCTTTTCTTCTCAATGGATGGCTTTTT-TTACACGTTTTC-C-ATGTAAAACATTCAATTA
66 ATGGACTTTTCTTCTCAATGAAT-GCTTTTTCTT-CAC-TTTTCTCAAGGT-AGACATTCAATTA
* * * *
5616 TAGTCTGTTTTAGCCCAAAATGTAAAAAAATTTAACTTAAAATC
127 TAGTCTATTTTAACCAAAAATG-AAAAAAATTCAACTTAAAATC
* * * * *
5660 AATTGTGAGATTATAAAACAATTGAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGACTAGAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
* * * * ** * * * *
5725 ATGAACTTTTCTTGTTAATGAATGTCTATTTCTTCAGGTTTCACGAGCTAGACATTCAATTATAA
66 ATGGACTTTTCTTCTCAATGAATG-CTTTTTCTTCACTTTTCTCAAGGTAGACATTCAATTATAG
* * ** ** * *
5790 TATTTTTTAATGACTAATGTAAAAAAAATTGAACCTAAAATC
130 TCTATTTTAACCAAAAATG--AAAAAAATTCAACTTAAAATC
* * * * *
5832 AATTTTGAGATTCTAAAACCATTTAAAGAGAGTAATAAAGCTTTTGAAGGAATAGGAGACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
* * *
5897 ATAGACTTGTCTT-TCCAATGAATGCTTGTTTCTACACGTTTTCT-AAGGTAGACATTCAATTAT
66 ATGGACTTTTCTTCT-CAATGAATGCTT-TTTCTTCAC-TTTTCTCAAGGTAGACATTCAATTAT
* *
5960 AGTCTATTTTAACCCAAAATAT-AAAAAAAATCAACTTAAAATA
128 AGTCTATTTTAA-CCAAAA-ATGAAAAAAATTCAACTTAAAATC
* * ** * *
6003 AATTATGAGATTATAAAACTATTTAAAGTGAACAATAAAGCTTTTGAAGGACT-GGTGACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
* * * * * *
6067 ATGGGCTTTTCTTGTCAATGAATGCCTTTTTTTTTACGTTTCTCGAGGTAGACATTCAATTATAG
66 ATGGACTTTTCTTCTCAATGAATG-CTTTTTCTTCACTTTTCTCAAGGTAGACATTCAATTATAG
* * * * *
6132 TCTGTTTTAACTAAGAATAT-AAAAAAATTTAACTCAAAACC
130 TCTATTTTAACCAA-AA-ATGAAAAAAATTCAACTTAAAATC
* * ** * *
6173 AATCATAAGATTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGAAAT-GGCTAACTATA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGG-TGACTATA
* * *
6237 AATGGACTTTTCTTCTCAATGAATGGCTTTTTCTAT-ATGTTTTC-CAAGGTAGGCATTCAATTC
65 AATGGACTTTTCTTCTCAATGAAT-GCTTTTTCT-TCA-CTTTTCTCAAGGTAGACATTCAATTA
** * *
6300 TCA-TCTATTTTAA-TGAAAATGTAAAAAATGTCAATTTAAAATC
127 T-AGTCTATTTTAACCAAAAATGAAAAAAAT-TCAACTTAAAATC
* * * * * *
6343 GACTATGAGATTATAAAATCATTTAAATCGAGTAATAAGGCTTTTGAAGGAATGGGTCACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
* **
6408 ATGGACTTTTCTTCTCAATGAATGCTTTTT-TTCACGTTTT-TCGATATAGACATTCAATTATAG
66 ATGGACTTTTCTTCTCAATGAATGCTTTTTCTTCAC-TTTTCTCAAGGTAGACATTCAATTATAG
*
6471 TCTATTTTAACCAAAAAT-ATATAAAAATTCAACTCAAAATC
130 TCTATTTTAACCAAAAATGA-A-AAAAATTCAACTTAAAATC
*
6512 AATTATGAGATTATAAAA-CATTTTAAAGTGAGTAATAAGGCTTTTTGAAGGAAT-GGCTGACTA
1 AATTATGAGATTATAAAACCA-TTTAAAGCGAGTAATAAGGC-TTTTGAAGGAATAGG-TGACTA
* * * * * *
6575 TAAATGGATTTTTCTTCTCAATGAATGGTTTTTCTAT-TCGTTTCCCAAGGCAGGA-ATTCAATT
63 TAAATGGACTTTTCTTCTCAATGAATGCTTTTTCT-TCACTTTTCTCAAGGTA-GACATTCAATT
* * * * ** *
6638 CTCATTTTTTTTTAA-TGAAAATGCAAAAAAAATTTAACTTAAAATC
126 AT-AGTCTATTTTAACCAAAAATG--AAAAAAATTCAACTTAAAATC
* * * *
6684 AACTATGAGATTATAAAACCATTTAAATCGAGTAATAAGGCTTTTGAAGGAATAGGTCACCATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
* * * * *
6749 ATAGACTTTTTTTCTCAATGAATGCTTTTTTCATT-A-TGCTTCTCGAGGTAGATATTCAATTAT
66 ATGGACTTTTCTTCTCAATGAATGC-TTTTTC-TTCACT-TTTCTCAAGGTAGACATTCAATTAT
* * *
6812 AGTCTACTTTATCCAAAAATGTGAAAAAATTCAACTTAAAATC
128 AGTCTATTTTAACCAAAAATG-AAAAAAATTCAACTTAAAATC
********** * * *
6855 AATTATGAGATTATAANNNNNNNNNNAGCGAGTAATAAGGCTTTTAAAGGAATAAGAGACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
* * * * * *
6920 ATGGACTTTTGTTAC-AAATGAATGCTTGTTTATTTA-TGTTTCTCAATGTAGACATTTAATTAT
66 ATGGACTTTTCTT-CTCAATGAATGCTT-TTTCTTCACT-TTTCTCAAGGTAGACATTCAATTAT
* * * ** * *
6983 AGTTTGTTCTAAATAAAAAAGTG-AAAAAATTTAACTTCAAATC
128 AGTCTATT-TTAACCAAAAA-TGAAAAAAATTCAACTTAAAATC
* ** ** * * *
7026 AATTACGAGATTATAAAATAATTTAAAATGAGTAATAAGTCTTTTGAAGGAATAAGAGACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
* * * * *
7091 AAGGACTTTTCTTGTCAATGAATGCTTGTTTCTTTA-TGTTTCTCTAGGTAGACATTCAAATATA
66 ATGGACTTTTCTTCTCAATGAATGCTT-TTTCTTCACT-TTTCTCAAGGTAGACATTCAATTATA
* * **********
7155 GTCTGTTTTAACCAAAAATATAAAAAAATTCANNNNNNNNNN
129 GTCTATTTTAACCAAAAAT-GAAAAAAATTCAACTTAAAATC
* *
7197 AATTATGAGATTATAAAACCATTTAAATCGAGTAATAAGGCTTTTAAAGG-ATAGGGTGACTATA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATA-GGTGACTATA
* * * *
7261 AATGGACTTTTCTTGTCAATAAATACCTTTTTCTTCACTTTTCTCAAGGTAGACGTTCAATTATA
65 AATGGACTTTTCTTCTCAATGAAT-GCTTTTTCTTCACTTTTCTCAAGGTAGACATTCAATTATA
* *
7326 GTCAATTTTAACTAAAAATGAAAAACAATTCAACTTAAAATC
129 GTCTATTTTAACCAAAAATGAAAAA-AATTCAACTTAAAATC
* ** * *
7368 AATTATAAGATTATAAAATTATTTATAGCGAGTAATATGGCTTTTGAAGGAATAGGTGACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
7433 ATGGACTTTTCTT
66 ATGGACTTTTCTT
7446 GCAAATGAAT
Statistics
Matches: 1939, Mismatches: 429, Indels: 177
0.76 0.17 0.07
Matches are distributed among these distances:
160 1 0.00
161 83 0.04
162 45 0.02
163 3 0.00
164 1 0.00
165 2 0.00
166 1 0.00
167 21 0.01
168 72 0.04
169 188 0.10
170 435 0.22
171 805 0.42
172 267 0.14
173 12 0.01
174 3 0.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (169 bp):
AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAA
ATGGACTTTTCTTCTCAATGAATGCTTTTTCTTCACTTTTCTCAAGGTAGACATTCAATTATAGT
CTATTTTAACCAAAAATGAAAAAAATTCAACTTAAAATC
Found at i:8374 original size:171 final size:171
Alignment explanation
Indices: 7856--9322 Score: 1470
Period size: 172 Copynumber: 8.6 Consensus size: 171
7846 NNNNNNNNNN
* * * * ** *
7856 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCATGGCAATGAATACCTTTCTCTT
1 ATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTT
* * * * ** * * * **
7921 CA-CTTTCACAAGGT-AGACGTTCAATGT-CAGCCTGATTGAACAAAAAATACAAAAAAAATTCA
66 CATGTTTCTCAAGGTAAG-CATTCAAT-TATAATCTGTTTTAACCAAAAAT-GTAAAAAAATTCA
* * *
7983 ACTTAAAATTAATTATGAGATTATAAAATCATTTAAAGCGAGAA
128 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * * *
8027 ACATGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTTTTGCCAATGAATGTATTTTTCTT
1 ATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTT
** * * ** * * * *
8092 CACATTTCTGAAGCTAAAAATTTAATTATAATCTGTTTTAACCAATAATTTTAAAAAAATTGAAC
66 CATGTTTCTCAAGGTAAGCATTCAATTATAATCTGTTTTAACCAA-AAATGTAAAAAAATTCAAC
* *
8157 CTAAAATCAATTTTGAGATTATAAAACCATTTAAAGCGAGTA
130 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * *
8199 ATAAGGGTTTTGAAGGAGTAGGAGACTATAAATGGACTTGTCTTACTAATAAATG-CTTGTTTCT
1 ATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGACTTTTCTTGCCAATGAATGTCTT-TTTCT
* * ** * *
8263 TCATGTTTCTCAAAGTAAGCATTCAATTATAGTCTGTTTTAATGAAAAATGTTAAACAATTCAAC
65 TCATGTTTCTCAAGGTAAGCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAAC
8328 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
130 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * *
8370 ATAAGGCTTTTGAAGGAAT-GAAGGACTATAAATGAACTTTTCTT-CCTAATGAATGCCTTTTTC
1 ATAAGGCTTTTGAAGGAATAGGA-GACTATAAATGGACTTTTCTTGCC-AATGAATGTCTTTTTC
* * * * *
8433 TTCATGTTTCTCAAGGTAGGCATTCAATTGTAATATGTTTTAACCAATAATGTAAAAAAAATTGA
64 TTCATGTTTCTCAAGGTAAGCATTCAATTATAATCTGTTTTAACCAAAAATGT-AAAAAAATTCA
* * * * * *
8498 ACCTAAAATTAATTTTGAAATTATAAAACTATTTAAAGCAAGTA
128 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * *
8542 ATAAGGCTTTTGAAGAAATTGGAGACTATAAATGAACATTTCTTGCCAACGAATG-CTTTTTTCT
1 ATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGACTTTTCTTGCCAATGAATGTC-TTTTTCT
* * * * * * * ** **
8606 TTATGTTTCTCAAGGTAAACATTCAATTACAGTCTGTATTAATCAAAAATATGGAAGCATTCAAC
65 TCATGTTTCTCAAGGTAAGCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAAC
* * *
8671 TTAAAATCAATTATGAGAATATAAAACTATTTAAAGCTAGTA
130 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* *
8713 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTT
1 ATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTT
* * *
8778 CATGTTTCTCAAGGT-AGACATTCAATTATAGTCTGTTTTAACCAAATATGTAAAAGAATTCAAC
66 CATGTTTCTCAAGGTAAG-CATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAAC
* * * *
8842 TAAAAATCAGTTATGAGACTATAAAA-TATTTTAAAGCGAGTA
130 TTAAAATCAATTATGAGATTATAAAACCA-TTTAAAGCGAGTA
* * * * * *
8884 GTGAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-CTCAATAAATGACTTTTTCT
1 ATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGACTTTTCTTGC-CAATGAATGTCTTTTTCT
* * * * * *
8948 ACTCA--TTTCTCGAGGCAAGCATTTAATTATAATCTGTTTTCACCAAAAATGCCAAAACAATTC
65 --TCATGTTTCTCAAGGTAAGCATTCAATTATAATCTGTTTTAACCAAAAATG-TAAAAAAATTC
* * *
9011 AACTTAAAATCAATTACGAGATTATAAAACTATTTAAAGCGAGTT
127 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
9056 ATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTT
1 ATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTT
* * * * * * *
9121 CATATTTCTCGAGCT-AGACAATCAATTATAATATGTTTTAA-CAAATAATGTTAAAAAACTTGA
66 CATGTTTCTCAAGGTAAG-CATTCAATTATAATCTGTTTTAACCAAA-AATG-TAAAAAAATTCA
* * ***
9184 ACCTAAAATCAATTTTGAGATTATAAAACCATTTAATTTGAGTA
128 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * * *
9228 ATAAGACTTTTGAAGAAATAGGACACTATAAATAGATTTTTCTTACCAATGAATG-CTTTTTTGT
1 ATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGACTTTTCTTGCCAATGAATGTC-TTTTTCT
* * * *
9292 TTATGTTTCTCGAGGTAAACATTCTATTATA
65 TCATGTTTCTCAAGGTAAGCATTCAATTATA
9323 GTCNNNNNNN
Statistics
Matches: 1079, Mismatches: 189, Indels: 55
0.82 0.14 0.04
Matches are distributed among these distances:
170 10 0.01
171 497 0.46
172 557 0.52
173 15 0.01
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (171 bp):
ATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTT
CATGTTTCTCAAGGTAAGCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACT
TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
Found at i:8493 original size:343 final size:343
Alignment explanation
Indices: 7856--9325 Score: 1647
Period size: 343 Copynumber: 4.3 Consensus size: 343
7846 NNNNNNNNNN
* * * * ** * * * *
7856 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCATGGCAATGAATACCTTTCTCTT
1 ATAAGGCTTTTGAAGAAATAGGAGACTATAAATGGACTTTTCTTACCAATAAATGCTTTTTTCTT
* * * * * * * * ** *
7921 CA-CTTTCACAAGGTAGACGTTCAATGT-CAGCCTGATTGAA-CAAAAAATACAAAAAAAATTCA
66 CATGTTTCTCAAGGTAAACATTCAAT-TATAGTCTGTTTTAATC-AAAAAT-GTAAAACAATTCA
* * * * *
7983 ACTTAAAATTAATTATGAGATTATAAAATCATTTAAAGCGAGAAACATGGCTTTTGAAGGAATGG
128 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGG
* * * * * *
8048 GTGACTATAAAT-AGACTTTTTTTGCCAATGAATGTATTTTTCTTCACATTTCTGAAGCTAAAAA
193 GTGACTATAAATGA-ACTTTTCTTGCCAATGAATGTCTTTTTCTTCATATTTCTCAAGCTAGACA
* * *
8112 TTTAATTATAATCTGTTTTAACCAATAATTTTAAAAAAATTGAACCTAAAATCAATTTTGAGATT
257 TTCAATTATAATATGTTTTAACCAATAATGTTAAAAAAATTGAACCTAAAATCAATTTTGAGATT
8177 ATAAAACCATTTAAAGCGAGTA
322 ATAAAACCATTTAAAGCGAGTA
* * * * * *
8199 ATAAGGGTTTTGAAGGAGTAGGAGACTATAAATGGACTTGTCTTACTAATAAATGCTTGTTTCTT
1 ATAAGGCTTTTGAAGAAATAGGAGACTATAAATGGACTTTTCTTACCAATAAATGCTTTTTTCTT
* * * *
8264 CATGTTTCTCAAAGTAAGCATTCAATTATAGTCTGTTTTAATGAAAAATGTTAAACAATTCAACT
66 CATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAATCAAAAATGTAAAACAATTCAACT
*
8329 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAAG-
131 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG-GGT
* * * *
8393 GACTATAAATGAACTTTTCTT-CCTAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGGCATT
195 GACTATAAATGAACTTTTCTTGCC-AATGAATGTCTTTTTCTTCATATTTCTCAAGCTAGACATT
* * * *
8457 CAATTGTAATATGTTTTAACCAATAATGTAAAAAAAATTGAACCTAAAATTAATTTTGAAATTAT
259 CAATTATAATATGTTTTAACCAATAATGTTAAAAAAATTGAACCTAAAATCAATTTTGAGATTAT
* *
8522 AAAACTATTTAAAGCAAGTA
324 AAAACCATTTAAAGCGAGTA
* * * * **
8542 ATAAGGCTTTTGAAGAAATTGGAGACTATAAATGAACATTTCTTGCCAACGAATGCTTTTTTCTT
1 ATAAGGCTTTTGAAGAAATAGGAGACTATAAATGGACTTTTCTTACCAATAAATGCTTTTTTCTT
* * * * * *
8607 TATGTTTCTCAAGGTAAACATTCAATTACAGTCTGTATTAATCAAAAATATGGAAGC-ATTCAAC
66 CATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAATCAAAAATGT-AAAACAATTCAAC
* * *
8671 TTAAAATCAATTATGAGAATATAAAACTATTTAAAGCTAGTAATAAGGCTTTTGAAGGAATGGGT
130 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGT
* * *
8736 GACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCATGTTTCTCAAGGTAGACATTC
195 GACTATAAATGAACTTTTCTTGCCAATGAATGTCTTTTTCTTCATATTTCTCAAGCTAGACATTC
* * * * * * *
8801 AATTATAGTCTGTTTTAACCAA-ATATG-TAAAAGAATTCAA-CTAAAAATCAGTTATGAGACTA
260 AATTATAATATGTTTTAACCAATA-ATGTTAAAAAAATTGAACCT-AAAATCAATTTTGAGATTA
*
8863 TAAAA-TATTTTAAAGCGAGTA
323 TAAAACCA-TTTAAAGCGAGTA
* * * * *
8884 GTGAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-CTCAATAAATGAC-TTTTTC
1 ATAAGGCTTTTGAAGAAATAGGAGACTATAAATGGACTTTTCTTAC-CAATAAATG-CTTTTTTC
* * * * * * * *
8947 TACTCA--TTTCTCGAGGCAAGCATTTAATTATAATCTGTTTTCACCAAAAATGCCAAAACAATT
64 T--TCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAATCAAAAATG-TAAAACAATT
* * *
9010 CAACTTAAAATCAATTACGAGATTATAAAACTATTTAAAGCGAGTTATAAGGCTTTTGAAGGAAT
126 CAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT
* * * *
9075 AGGAGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCATATTTCTCGAGCTAGAC
191 GGGTGACTATAAATGAACTTTTCTTGCCAATGAATGTCTTTTTCTTCATATTTCTCAAGCTAGAC
* * *
9140 AATCAATTATAATATGTTTTAACAAATAATGTTAAAAAACTTGAACCTAAAATCAATTTTGAGAT
256 ATTCAATTATAATATGTTTTAACCAATAATGTTAAAAAAATTGAACCTAAAATCAATTTTGAGAT
***
9205 TATAAAACCATTTAATTTGAGTA
321 TATAAAACCATTTAAAGCGAGTA
* * * * * *
9228 ATAAGACTTTTGAAGAAATAGGACACTATAAATAGATTTTTCTTACCAATGAATGCTTTTTTGTT
1 ATAAGGCTTTTGAAGAAATAGGAGACTATAAATGGACTTTTCTTACCAATAAATGCTTTTTTCTT
* * *
9293 TATGTTTCTCGAGGTAAACATTCTATTATAGTC
66 CATGTTTCTCAAGGTAAACATTCAATTATAGTC
9326 NNNNNNNNNN
Statistics
Matches: 944, Mismatches: 157, Indels: 51
0.82 0.14 0.04
Matches are distributed among these distances:
341 5 0.01
342 137 0.15
343 642 0.68
344 156 0.17
345 4 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (343 bp):
ATAAGGCTTTTGAAGAAATAGGAGACTATAAATGGACTTTTCTTACCAATAAATGCTTTTTTCTT
CATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAATCAAAAATGTAAAACAATTCAACT
TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTG
ACTATAAATGAACTTTTCTTGCCAATGAATGTCTTTTTCTTCATATTTCTCAAGCTAGACATTCA
ATTATAATATGTTTTAACCAATAATGTTAAAAAAATTGAACCTAAAATCAATTTTGAGATTATAA
AACCATTTAAAGCGAGTA
Found at i:8945 original size:21 final size:21
Alignment explanation
Indices: 8911--8952 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8901 ATGGGTGACT
*
8911 ATAAATGGACTTTTCTTCTCA
1 ATAAATGGACTTTTCTACTCA
8932 ATAAAT-GACTTTTTCTACTCA
1 ATAAATGGAC-TTTTCTACTCA
8953 TTTCTCGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (21 bp):
ATAAATGGACTTTTCTACTCA
Done.