The Profile (.PRO) format is designed to describe the simulated characteristics of each transcript from the reference annotation, one per line. After each step of a simulation run, tab-separated are added to the file.
| Column Number | Name | Value | Description |
|---|---|---|---|
| 1 | LOCUS_ID | chrom:start-end[W|C] | identifier for the intrinsic splicing locus, given by the chromosome (chrom), start and end position and the strand (Watson or Crick). |
| 2 | TRANSCRIPT_ID | String | transcript identifier from the reference annotation. |
| 3 | CODING | [CDS|NC] | specifies whether the transcript has an annotated CDS or not (NC) |
| 4 | LENGTH | Integer | the spliced length of the transcript molecule as annotated in the reference annotation |
| 5 | RFREQ_EXP | Float | relative frequency of RNA copies of this transcript after simulated expression |
| 6 | AFREQ_EXP | Integer | absolute number of expressed RNA molecules |
| 7 | RFREQ_LIB | Float | relative frequency of cDNA molecules derived from this transcript after library construction |
| 8 | AFREQ_LIB | Integer | absolute number of cDNA molecules generated from this transcript |
| 9 | RFREQ_SEQ | Float | relative frequency of reads sequenced from this transcript |
| 10 | AFREQ_SEQ | Integer | absolute number of reads sequenced from this transcript |
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