| We tested PMGmap with two datasets. Dataset 1 contains 387 mitochondrial genomes obtained on May 23, 2023. All these mitogenomes had only one chromosome. In contrast, Dataset 2 contains 18 mitochondrial genomes obtained on May 23, 2023. All these mitogenomes had more than one chromosomes.
The input files, intermediate files and the output files are presented species by species. For each species, the following five folders are provided. The contents of these folders are described below. 01.Input data before processing contains raw input data downloaded from GenBank 02.Input data after processing contains the GenBank file(s) obtained after PMGmap Preprocess 03.result01 contains the results for PMGmap run with the following parameters: Interval_ratio of genome map=1, Scattered repeat sequence threshold=5000, Ratio of cis-trans splicing genes map=0.02, Whether choose to draw exons or not=Yes, Ratio of cis-trans splicing genes map=0.02, whether choose to draw exons or not= yes, Whether to draw the shadow or not=Yes. 04.result02: contains the results for PMGmap run with the following parameters: Interval_ratio of genome map=1, Scattered repeat sequence threshold=5000, Ratio of cis-trans splicing genes map=0.02, Whether choose to draw exons or not=Yes, Ratio of cis-trans splicing genes map=0.02, whether choose to draw exons or not= yes, Whether to draw the shadow or not=Yes. 05.result03: contains the results for PMGmap run with the following parameters: Interval_ratio of genome map=1, Scattered repeat sequence threshold=5000, Ratio of cis-trans splicing genes map=0.02, Whether choose to draw exons or not=Yes, Ratio of cis-trans splicing genes map=0.02, whether choose to draw exons or not= yes, Whether to draw the shadow or not=Yes. Lastly, the results run by OGDraw are also provided so they can be compared with those produced with PMGmap. Last updated: 2023/10/11 | ||||
|---|---|---|---|---|
| 123.fas | ||||
| 123.fas.2.7.7.80.10.50.500.1.html | ||||
| 123.fas.2.7.7.80.10.50.500.1.txt.html | ||||
| 123.fas.2.7.7.80.10.50.500.2.html | ||||
| 123.fas.2.7.7.80.10.50.500.2.txt.html | ||||
| 123.fas.2.7.7.80.10.50.500.3.html | ||||
| 123.fas.2.7.7.80.10.50.500.3.txt.html | ||||
| 123.fas.2.7.7.80.10.50.500.4.html | ||||
| 123.fas.2.7.7.80.10.50.500.4.txt.html | ||||
| 123.fas.2.7.7.80.10.50.500.5.html | ||||
| 123.fas.2.7.7.80.10.50.500.5.txt.html | ||||
| 123.fas.2.7.7.80.10.50.500.dat | ||||
| 123.fas.2.7.7.80.10.50.500.dat.afterfiltering | ||||
| 123.fas.2.7.7.80.10.50.500.mask | ||||
| 123.fas.al1 | ||||
| 123.fas.bck | ||||
| 123.fas.bwt | ||||
| 123.fas.des | ||||
| 123.fas.lcp | ||||
| 123.fas.llv | ||||
| 123.fas.misa | ||||
| 123.fas.ois | ||||
| 123.fas.prj | ||||
| 123.fas.sds | ||||
| 123.fas.sti1 | ||||
| 123.fas.suf | ||||
| 123.fas.tis | ||||
| 123.misa.ini | ||||
| 123.misa.ini.statistics | ||||
| 123_vmatch.txt | ||||