Origin IGS: ttctttatagttattttagttatacctctatcgcaatacataatcgtgtatcatattgtttgattatttttttcggtttcagcggactccactggagcaaattca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaatttgctccagtggagtccgctgaaaccgaaaaaaataatcaaacaatatgatacacgattatgtattgcgatagaggtataactaaaataactataaagaa Mask Tandem Repeat Region ================================================ ttctttatagttattttagttatacctctatcgcaatacataatcgtgtatcatattgtttgattatttttttcggtttcagcggactccactggagcaaattca Find is-nt database================================================ Query_seq: TF0631:TF0632|TF0631:TF0632:hypothetical protein:hypothetical protein:->->:667687..667791 105 ttctttatagttattttagttatacctctatcgcaatacataatcgtgtatcatattgtttgattatttttttcggtttcagcggactccactggagcaaattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0631:TF0632|TF0631:TF0632:hypothetical protein:hypothetical protein:->->:667687..667791 105 ttctttatagttattttagttatacctctatcgcaatacataatcgtgtatcatattgtttgattatttttttcggtttcagcggactccactggagcaaattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0631:TF0632|TF0631:TF0632:hypothetical protein:hypothetical protein:->->:667687..667791 105 ttctttatagttattttagttatacctctatcgcaatacataatcgtgtatcatattgtttgattatttttttcggtttcagcggactccactggagcaaattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttctttatagttattttagttatacctctatcgcaatacataatcgtgtatcatattgtttgattatttttttcggtttcagcggactccactggagcaaattca Predict ORF larger than 30AA ================================================ ttctttatagttattttagttatacctctatcgcaatacataatcgtgtatcatattgtttgattatttttttcggtttcagcggactccactggagcaaattca Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttctttatagttattttagttatacctctatcgcaatacataatcgtgtatcatattgtttgattatttttttcggtttcagcggactccactggagcaaattca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0631:TF0632|TF0631:TF0632:hypothetical protein:hypothetical protein:->->:667687..667791 105 ttctttatagttattttagttatacctctatcgcaatacataatcgtgtatcatattgtttgattatttttttcggtttcagcggactccactggagcaaattca Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: tfor_TF0631_TF0632|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[667687,667791]|105 HSP 1 e-value: 9.0E-41 bit: 167.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 ttctttatagttattttagttatacctctatcgcaatacataatcgtgtatcatattgtttgattannnnnnncggtttcagcggactccactggagcaaattca ttctttatagttattttagttatacctctatcgcaatacataatcgtgtatcatattgtttgattatttttttcggtttcagcggactccactggagcaaattca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUUUAUAGUUAUUUUAGUUAUACCUCUAUCGCAAUACAUAAUCGUGUAUCAUAUUGUUUGAUUAUUUUUUUCGGUUUCAGCGGACUCCACUGGAGCAAAUUCA ......(((((((...(((........))).....((((((....)))))).........)))))))........(((((((.((...)).)))))))....... (-14.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUUUGCUCCAGUGGAGUCCGCUGAAACCGAAAAAAAUAAUCAAACAAUAUGAUACACGAUUAUGUAUUGCGAUAGAGGUAUAACUAAAAUAACUAUAAAGAA .....((((..((((((...)))))).......................(((((((.....)))))))...)))).............................. (-12.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 99 51 147 88 tfor:TF2601|5end_conserved_hypothetical_protein_2774721..2774951_POSITIVE 302 99 53 153 106 tfor:TF2261|5end_transfer_region-related_protein,_TraM_2430496..2430726_POSITIVE 283 99 53 72 18 tfor:TF2882|5end_conserved_hypothetical_protein_3073419..3073649_POSITIVE 270 99 65 228 181 tfor:TF3104|5end_outer_membrane_protein,_TonB_dependent_receptor_3334185..3334415_POSITIVE 266 99 51 172 126 tfor:TF0584|5end_phosphopantetheinyl_transferase_613755..613985_POSITIVE 265 89 45 65 15 tfor:TF1931|5end_ATPase/GTPase_2078123..2078353_POSITIVE 263 95 57 230 188 tfor:TF1481|5end_ABC_transporter,_ATP-binding_protein_1574783..1575013_POSITIVE 262 86 45 151 107 tfor:TF1995|5end_exonuclease_2147148..2147378_POSITIVE 262 95 74 211 191 tfor:TF0537|5end_conserved_hypothetical_protein_563145..563375_POSITIVE 262 100 60 46 1 tfor:TF0034|5end_outer_membrane_protein_32551..32781_POSITIVE 260 99 53 148 88 tfor:TF0332|5end_conserved_hypothetical_protein_359333..359563_POSITIVE 253 86 44 204 159 tfor:TF2314|5end_conserved_hypothetical_protein_2473530..2473760_POSITIVE 252 99 58 188 142 tfor:TF1764|5end_transcriptional_regulator;_possible_MerR_family_1901409..1901639_POSITIVE 247 99 73 130 106 tfor:TF0215|5end_tRNA/rRNA_methyltransferase,_TrmH_family_241463..241693_POSITIVE 246 100 51 53 6 tfor:TF2188|5end_conserved_hypothetical_protein_2362652..2362882_POSITIVE 246 100 64 42 3 tfor:TF1527|5end_hypothetical_protein_1632599..1632829_POSITIVE 245 98 69 214 185 tfor:TF0758|5end_peptidyl-tRNA_hydrolase_805307..805537_POSITIVE 244 98 55 151 113 tfor:TF1426|5end_N-acetylymuramoylalanyl-D-glutamate-2,6-diaminopi_melate_ligase_1509873..1510103_POSITIVE 243 97 62 60 22 tfor:TF2421|5end_cytocidal_toxin_protein_2599550..2599780_POSITIVE 243 98 52 173 123 tfor:TF2081|5end_phosphopantetheine_adenylyltransferase_2248475..2248705_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 99 52 55 2 tfor:TF2600|3end_ribose-phosphate_pyrophosphokinase_2774709..2774859_POSITIVE 265 89 45 65 15 tfor:TF1930|3end_two-component_response_regulator_2078203..2078353_POSITIVE 262 86 45 151 107 tfor:TF1994|3end_acyl-CoA_synthetase_2147228..2147378_POSITIVE 260 99 53 104 44 tfor:TF0331|3end_hypothetical_protein_359369..359519_POSITIVE 245 98 69 120 91 tfor:TF0757|3end_50S_ribosomal_protein_L25;_general_stress_protein_805293..805443_POSITIVE 244 98 55 140 102 tfor:TF1425|3end_phospho-N-acetylmuramoyl_pentapeptide_transferase_1509942..1510092_POSITIVE 238 99 58 46 1 tfor:TF2266|3end_transfer_region-related_protein,_TraQ_2434949..2435099_POSITIVE 238 87 48 151 117 tfor:TF2260|3end_transfer_region-related_protein,_TraL_2430592..2430742_POSITIVE 237 99 59 81 37 tfor:TF0252|3end_hypothetical_protein_283759..283909_POSITIVE 236 99 54 136 94 tfor:TF2581|3end_50S_ribosomal_protein_L17_2749370..2749520_POSITIVE 235 100 57 33 6 tfor:TF1888|3end_RNA_polymerase_ECF-type_sigma_factor_2041559..2041709_POSITIVE 235 99 51 143 102 tfor:TF0058|3end_conserved_hypothetical_protein_60614..60764_POSITIVE 232 100 55 128 78 tfor:TF0644|3end_pyruvate_phosphate_dikinase_688581..688731_POSITIVE 230 99 55 129 81 tfor:TF0596|3end_conserved_hypothetical_protein_628652..628802_POSITIVE 228 64 25 72 33 tfor:TF1220|3end_conserved_hypothetical_protein_1307797..1307947_POSITIVE 225 88 44 64 10 tfor:TF2779|3end_fucose_permease_2965932..2966082_POSITIVE 225 98 58 85 41 tfor:TF1653|3end_hypothetical_protein_1766481..1766631_POSITIVE 225 98 58 85 41 tfor:TF0979|3end_hypothetical_protein_1033118..1033268_POSITIVE 225 98 72 30 3 tfor:TF0435|3end_DNA_mismatch_repair_protein_459064..459214_POSITIVE 224 100 52 70 10 tfor:TF2519|3end_membrane_protein,_metallopeptidase_M23/M37_family_2698997..2699147_POSITIVE