| Sample . | Polymerase . | Reaction length . | DNA oligo . | RNA primer (yes/no) . | Total antisense reads . | Percent antisense reads . | Total sense reads . | Percent sense reads . | Total fastq reads (after adapter trimming, no filtering) . |
|---|---|---|---|---|---|---|---|---|---|
| hmtRNAP-0h-vlongtemp-noprimer | hmtRNAP | 0 h | AF-EG-7 | No | 464 | 76.32% | 144 | 23.68% | 105 379 |
| hmtRNAP-3h-vlongtemp-noprimer | hmtRNAP | 3 h | AF-EG-7 | No | 568 830 | 68.01% | 267 522 | 31.99% | 1 269 834 |
| hmtRNAP-3h-vlongtemp-wprimer | hmtRNAP | 3 h | AF-EG-7 | Yes | 1 025 154 | 93.75% | 68 320 | 6.25% | 2 093 382 |
| Rpo41-1min-shorttemp-noprimer | Rpo41 | 1 min | AF-EG-2 | No | 461 935 | 84.15% | 86 959 | 15.84% | 1 174 655 |
| Rpo41-1min-shorttemp-wprimer | Rpo41 | 1 min | AF-EG-2 | Yes | 410 819 | 89.99% | 45 660 | 10.00% | 859 579 |
| Sample . | Polymerase . | Reaction length . | DNA oligo . | RNA primer (yes/no) . | Total antisense reads . | Percent antisense reads . | Total sense reads . | Percent sense reads . | Total fastq reads (after adapter trimming, no filtering) . |
|---|---|---|---|---|---|---|---|---|---|
| hmtRNAP-0h-vlongtemp-noprimer | hmtRNAP | 0 h | AF-EG-7 | No | 464 | 76.32% | 144 | 23.68% | 105 379 |
| hmtRNAP-3h-vlongtemp-noprimer | hmtRNAP | 3 h | AF-EG-7 | No | 568 830 | 68.01% | 267 522 | 31.99% | 1 269 834 |
| hmtRNAP-3h-vlongtemp-wprimer | hmtRNAP | 3 h | AF-EG-7 | Yes | 1 025 154 | 93.75% | 68 320 | 6.25% | 2 093 382 |
| Rpo41-1min-shorttemp-noprimer | Rpo41 | 1 min | AF-EG-2 | No | 461 935 | 84.15% | 86 959 | 15.84% | 1 174 655 |
| Rpo41-1min-shorttemp-wprimer | Rpo41 | 1 min | AF-EG-2 | Yes | 410 819 | 89.99% | 45 660 | 10.00% | 859 579 |
This table shows the sequencing results from hmtRNAP 0- and 3-h reaction with 70-nt DNA input AF-EG-7 with and without an RNA primer, and from Rpo41 1-min reaction with a 27-nt DNA input AF-EG-2 with and without an RNA primer. Analyses were run using Polybench to determine sense and antisense counts, using the input DNA sequence as reference. Polybench can be found on the FireLabSoftware Github. All library preparations were performed in parallel using DruSeq (see “Materials and methods” section). The total reads was calculated using adapter-trimmed reads that were not otherwise filtered.
| Sample . | Polymerase . | Reaction length . | DNA oligo . | RNA primer (yes/no) . | Total antisense reads . | Percent antisense reads . | Total sense reads . | Percent sense reads . | Total fastq reads (after adapter trimming, no filtering) . |
|---|---|---|---|---|---|---|---|---|---|
| hmtRNAP-0h-vlongtemp-noprimer | hmtRNAP | 0 h | AF-EG-7 | No | 464 | 76.32% | 144 | 23.68% | 105 379 |
| hmtRNAP-3h-vlongtemp-noprimer | hmtRNAP | 3 h | AF-EG-7 | No | 568 830 | 68.01% | 267 522 | 31.99% | 1 269 834 |
| hmtRNAP-3h-vlongtemp-wprimer | hmtRNAP | 3 h | AF-EG-7 | Yes | 1 025 154 | 93.75% | 68 320 | 6.25% | 2 093 382 |
| Rpo41-1min-shorttemp-noprimer | Rpo41 | 1 min | AF-EG-2 | No | 461 935 | 84.15% | 86 959 | 15.84% | 1 174 655 |
| Rpo41-1min-shorttemp-wprimer | Rpo41 | 1 min | AF-EG-2 | Yes | 410 819 | 89.99% | 45 660 | 10.00% | 859 579 |
| Sample . | Polymerase . | Reaction length . | DNA oligo . | RNA primer (yes/no) . | Total antisense reads . | Percent antisense reads . | Total sense reads . | Percent sense reads . | Total fastq reads (after adapter trimming, no filtering) . |
|---|---|---|---|---|---|---|---|---|---|
| hmtRNAP-0h-vlongtemp-noprimer | hmtRNAP | 0 h | AF-EG-7 | No | 464 | 76.32% | 144 | 23.68% | 105 379 |
| hmtRNAP-3h-vlongtemp-noprimer | hmtRNAP | 3 h | AF-EG-7 | No | 568 830 | 68.01% | 267 522 | 31.99% | 1 269 834 |
| hmtRNAP-3h-vlongtemp-wprimer | hmtRNAP | 3 h | AF-EG-7 | Yes | 1 025 154 | 93.75% | 68 320 | 6.25% | 2 093 382 |
| Rpo41-1min-shorttemp-noprimer | Rpo41 | 1 min | AF-EG-2 | No | 461 935 | 84.15% | 86 959 | 15.84% | 1 174 655 |
| Rpo41-1min-shorttemp-wprimer | Rpo41 | 1 min | AF-EG-2 | Yes | 410 819 | 89.99% | 45 660 | 10.00% | 859 579 |
This table shows the sequencing results from hmtRNAP 0- and 3-h reaction with 70-nt DNA input AF-EG-7 with and without an RNA primer, and from Rpo41 1-min reaction with a 27-nt DNA input AF-EG-2 with and without an RNA primer. Analyses were run using Polybench to determine sense and antisense counts, using the input DNA sequence as reference. Polybench can be found on the FireLabSoftware Github. All library preparations were performed in parallel using DruSeq (see “Materials and methods” section). The total reads was calculated using adapter-trimmed reads that were not otherwise filtered.
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