Table S3.
Oligonucleotides used in this study
| Name | Description | Sequence |
| HV100 | HindIII upstream primer | 5′-TATAAAGCTTGTTCAGAGTTCTACAGTCCGACGA-3′ |
| HV101 | BamHI downstream primer | 5′-TGCCGGATCCattgttatccgctcacATCAGCGcacATTATAcgagccga-3′ |
| HV102 | BamHI downstream primer | 5′-TGCCGGATCCattgttatccgctcacATTAGCGcacATTATAcgagccga-3′ |
| HV103 | BamHI downstream primer | 5′-TGCCGGATCCattgttatccgctcacATGAGCGcacATTATAcgagccga-3′ |
| HV104 | BamHI downstream primer | 5′-TGCCGGATCCattgttatccgctcacATAAGCGcacATTATAcgagccga-3′ |
| HV105 | BamHI downstream primer | 5′-TGCCGGATCCattgttatccgctcacTGCCGTTcacATTATAcgagccga-3′ |
| HV106 | BamHI downstream primer | 5′-TGCCGGATCCattgttatccgctcacTGTCGTTcacATTATAcgagccga-3′ |
| HV107 | BamHI downstream primer | 5′-TGCCGGATCCattgttatccgctcacTGGCGTTcacATTATAcgagccga-3′ |
| HV108 | BamHI downstream primer | 5′-TGCCGGATCCattgttatccgctcacTGACGTTcacATTATAcgagccga-3′ |
| HV117 | −100 HindIII upstream primer, secE | 5′-TATAAAGCTTctttttgcacgctttcgtaccag-3′ |
| HV118 | +15 BamHI downstream primer, secE | 5′-TGCCGGATCCgaaacgcgtattagcttttcg-3′ |
| HV119 | −100 HindIII upstream primer, hemC | 5′-TATAAAGCTTtcaggatccactgccagacctc-3′ |
| HV120 | +15 BamHI downstream primer, hemC | 5′-TGCCGGATCCccgtcattatcatccgtggt-3′ |
| HV121 | Biotinylated upstream primer for making IVT templates (anneals 35 base pairs upstream of HindIII site in BN493) | 5′-/5Biosg/GTTGTAATTCTCATGTTTGACAGC-3′ |
| HV122 | Downstream primer for making IVT templates | 5′-GGTCCTCGCCGAAAATGACCCAG-3′ |
| HV123 | For primer extension analyses of RNAs produced from promoter-tR' fusions | 5′-CCTCTCTGCCGGATCC-3′ |
| BN436 | Sequencing primer | 5′-GATTTCAGTGCAATTTATCTC-3′ |
| s1086 | Illumina RA5+6N | 5′-GUUCAGAGUUCUACAGUCCGACGAUCNNNNNN-3′(all bases are RNA) |
| s1082 | Illumina RTP+9N | 5′-GCCTTGGCACCCGAGAATTCCANNNNNNNNN-3′ |
| Illumina RP1 | 5′-AATGATACGGCGACCACCGAGATCTACACGTTCAGAGTTCTACAGTCCGA-3′ | |
| Illumina RPI1 | 5′-CAAGCAGAAGACGGCATACGAGATCGTGATGTGACTGGAGTTCCTTGGCACCCGAGAATTCCA-3′ | |
| s1206 | Illumina RA5+15N | 5′-GUUCAGAGUUCUACAGUCCGACGAUCNNNNNNNNNNNNNNN-3′(all bases are RNA) |
| s128 | RT primer used for generation of MASTER libraries | 5′-CCTTGGCACCCGAGAATTCC-3′ |
| s1115 | Custom primer used for Illumina sequencing | 5′-CTACACGTTCAGAGTTCTACAGTCCGACGATC-3′ |