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| ID | Project | Category | View Status | Date Submitted | Last Update | ||||
| 0001822 | MEGA | Alignment Explorer | public | 2020-03-05 10:03 | 2020-03-09 09:15 | ||||
| Reporter | guest | ||||||||
| Assigned To | gstecher | ||||||||
| Priority | normal | Severity | minor | Reproducibility | have not tried | ||||
| Status | resolved | Resolution | no change required | ||||||
| Platform | Mac | OS | OS X | ||||||
| Product Version | |||||||||
| Target Version | Fixed in Version | ||||||||
| Summary | 0001822: Error sign_Invalid base found: \ in line 6 | ||||||||
| Description | When I complete an MSA using the ClustalW within MEGAX, and import the aligned data to run phylogeny using any of the methods, it always give me an error warning Invalid base found: \ in line xx. Can you please let me know how to resolve this issue? Thank you for the help, Baozhong Meng Associate Professor University of Guelph Ontario, Canada | ||||||||
| Tags | No tags attached. | ||||||||
| Attach Tags | (Separate by ",") | ||||||||
| First Name | Baozhong | ||||||||
| Last Name | Meng | ||||||||
| bmeng@uoguelph.ca | |||||||||
| Confirm Email | bmeng@uoguelph.ca | ||||||||
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(0001592) agasky (reporter) 1969-12-31 17:33 |
Sent user updated snippet from MEGA5's help file which has is correct. |
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(0004419) gstecher (administrator) 2020-03-09 09:15 |
Hi Baozhong, The error is not in MEGA but in the data file. It is not a FASTA formatted file. I have no idea what format it is but no version of MEGA can work with it as parsing it leads to backslash characters in the sequence data. If you open the file in a text editor you will see. On 3/7/2020 11:03 AM, Baozhong Meng wrote: > Hi Glen, > > Thanks for getting back to me and your willing to help. I believe I have already discarded the meg file since it did not work after several attempts but will check this out when I go to my office on Monday. > > I attach the .fasta file for you here so that you can start from the MSA, if you would like to. It will take quite while to complete the alignment since the data set is quite large (at least on my own computer). It contains 65 genomes of coronaviruses from bats, each nearly 30 kb in length. > > Please let me know what you will find out. |
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Issue History |
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| Date Modified | Username | Field | Change |
| 1969-12-31 17:33 | user19 | Status | new => assigned |
| 1969-12-31 17:33 | user19 | Assigned To | => agasky |
| 1969-12-31 17:33 | agasky | Note Added: 0001592 | |
| 1969-12-31 17:33 | agasky | Status | assigned => resolved |
| 1969-12-31 17:33 | agasky | Resolution | open => fixed |
| 2020-03-05 10:03 | guest | New Issue | |
| 2020-03-09 09:15 | gstecher | Note Added: 0004419 | |
| 2020-03-09 09:15 | gstecher | Status | new => resolved |
| 2020-03-09 09:15 | gstecher | Resolution | open => no change required |
| 2020-03-09 09:15 | gstecher | Assigned To | => gstecher |
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Issue History |
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