Origin IGS: gttttaatttttataaataaaaagtggttaaaaaaaggtcaatttaatcttataaattgactttttttgttatttgtgatatgttgagttgtagtaacaataataataacataaaaaggaaggcgaaagttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaactttcgccttcctttttatgttattattattgttactacaactcaacatatcacaaataacaaaaaaagtcaatttataagattaaattgacctttttttaaccactttttatttataaaaattaaaac Mask Tandem Repeat Region ================================================ gttttaatttttataaataaaaagtggttaaaaaaaggtcaatttaatcttataaattgactttttttgttatttgtgatatgttgagttgtagtaacaataataataacataaaaaggaaggcgaaagttt Find is-nt database================================================ Query_seq: FN0307:FN0308|FN0307:FN0308:Iron(III) dicitrate transport ATP-binding protein fecE:Iron(III)-binding protein:->->:943030..943161 132 gttttaatttttataaataaaaagtggttaaaaaaaggtcaatttaatcttataaattgactttttttgttatttgtgatatgttgagttgtagtaacaataataataacataaaaaggaaggcgaaagttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0307:FN0308|FN0307:FN0308:Iron(III) dicitrate transport ATP-binding protein fecE:Iron(III)-binding protein:->->:943030..943161 132 gttttaatttttataaataaaaagtggttaaaaaaaggtcaatttaatcttataaattgactttttttgttatttgtgatatgttgagttgtagtaacaataataataacataaaaaggaaggcgaaagttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0307:FN0308|FN0307:FN0308:Iron(III) dicitrate transport ATP-binding protein fecE:Iron(III)-binding protein:->->:943030..943161 132 gttttaatttttataaataaaaagtggttaaaaaaaggtcaatttaatcttataaattgactttttttgttatttgtgatatgttgagttgtagtaacaataataataacataaaaaggaaggcgaaagttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttttaatttttataaataaaaagtggttaaaaaaaggtcaatttaatcttataaattgactttttttgttatttgtgatatgttgagttgtagtaacaataataataacataaaaaggaaggcgaaagttt Predict ORF larger than 30AA ================================================ gttttaatttttataaataaaaagtggttaaaaaaaggtcaatttaatcttataaattgactttttttgttatttgtgatatgttgagttgtagtaacaataataataacataaaaaggaaggcgaaagttt Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 86 Start: 56 End: 85 .......................................................ATTGACTTTTTTTGTTATTTGTGATATGTT............................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gttttaatttttataaataaaaagtggttaaaaaaaggtcaatttaatcttataaattgactttttttgttatttgtgatatgttgagttgtagtaacaataataataacataaaaaggaaggcgaaagttt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 95 HP_score: -6.9 Tail_Score: -6.01369 Start: 38 End: 61 Full_Region: AGTGGTTAAAAAAAG GTCAATTTA ATCTTA TAAATTGAC TTTTTTTGTTATTTG .....................................GTCAATTTAATCTTATAAATTGAC....................................................................... TransTerm Strand: - Conf: 68 HP_score: -6.9 Tail_Score: -3.83963 Start: 38 End: 61 Full_Region: caaataacaaaaaaa gtcaattta taagat taaattgac ctttttttaaccact .....................................gtcaatttataagattaaattgac....................................................................... Find igs database================================================ Query_seq: FN0307:FN0308|FN0307:FN0308:Iron(III) dicitrate transport ATP-binding protein fecE:Iron(III)-binding protein:->->:943030..943161 132 gttttaatttttataaataaaaagtggttaaaaaaaggtcaatttaatcttataaattgactttttttgttatttgtgatatgttgagttgtagtaacaataataataacataaaaaggaaggcgaaagttt Intra-Species Hit: Count: 1 Min: 1 Max: 132 Len: 132 Subject: NC_003454_FN0307_FN0308|Iron(III) dicitrate transport ATP-binding protein fecE:Iron(III)-binding protein|POSITIVE:POSITIVE|[943030,943161]|132 HSP 1 e-value: 3.0E-44 bit: 178.0 Len: 132 Query Start:1 Query End:132 Subject Strand: POSITIVE Subject Start: 1 Subject End: 132 gttttaatttttataaataaaaagtggttnnnnnnnggtcaatttaatcttataaattgacnnnnnnngttatttgtgatatgttgagttgtagtaacaataataataacataaaaaggaaggcgaaagttt gttttaatttttataaataaaaagtggttaaaaaaaggtcaatttaatcttataaattgactttttttgttatttgtgatatgttgagttgtagtaacaataataataacataaaaaggaaggcgaaagttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUAAUUUUUAUAAAUAAAAAGUGGUUAAAAAAAGGUCAAUUUAAUCUUAUAAAUUGACUUUUUUUGUUAUUUGUGAUAUGUUGAGUUGUAGUAACAAUAAUAAUAACAUAAAAAGGAAGGCGAAAGUUU ..........((((((((((..........((((((((((((((((......)))))))))))))))).))))))))))(((((((.(((((....))))).....))))))).......((((....)))) (-26.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACUUUCGCCUUCCUUUUUAUGUUAUUAUUAUUGUUACUACAACUCAACAUAUCACAAAUAACAAAAAAAGUCAAUUUAUAAGAUUAAAUUGACCUUUUUUUAACCACUUUUUAUUUAUAAAAAUUAAAAC ...............((((((((.........((((....))))....................((((((((((((((((......)))))))).))))))))..............))))))))....... (-15.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 238 107 61 87 43 NC_003454:FN0447|5end_NIFS_protein_1089343..1089573_POSITIVE 227 85 41 77 33 NC_003454:FN0319|5end_Citrate_(pro-3S)-lyase_ligase_956855..957085_NEGATIVE 194 100 62 91 50 NC_003454:FN0696|5end_hypothetical_protein_1353694..1353924_POSITIVE 193 107 61 132 94 NC_003454:FN1439|5end_Transcriptional_regulator,_DeoR_family_2106428..2106658_POSITIVE 191 129 85 220 185 NC_003454:FN1263|5end_Cobalt_chelatase_1920576..1920806_NEGATIVE 181 112 74 163 120 NC_003454:FN0271|5end_Enoyl-CoA_hydratase_897847..898077_POSITIVE 169 130 88 146 105 NC_003454:FN0774|5end_Hypothetical_cytosolic_protein_1429692..1429922_POSITIVE 169 105 64 132 91 NC_003454:FN0416|5end_Type_III_restriction-modification_system_methylation_subunit_1054300..1054530_POSITIVE 163 126 82 117 70 NC_003454:FN1311|5end_Biopolymer_transport_exbD_protein_1966250..1966480_NEGATIVE 162 85 47 68 26 NC_003454:FN0305|5end_Iron(III)_dicitrate-binding_protein_940079..940309_POSITIVE 162 90 62 164 135 NC_003454:FN0087|5end_Ethanolamine_utilization_protein_eutN_724626..724856_POSITIVE 161 97 60 55 14 NC_003454:FN0953|5end_hypothetical_protein_1610246..1610476_NEGATIVE 160 65 22 205 161 NC_003454:FN1264|5end_hypothetical_protein_1920766..1920996_POSITIVE 156 92 55 85 44 NC_003454:FN0210|5end_Transcriptional_regulator,_COPG_family_836998..837228_POSITIVE 154 126 81 48 5 NC_003454:FN1438|5end_hypothetical_protein_2106324..2106554_POSITIVE 154 95 73 166 144 NC_003454:FN0149|5end_Malonyl-CoA-[acyl-carrier-protein]_transacylase_777486..777716_POSITIVE 153 126 82 222 185 NC_003454:FN1191|5end_hypothetical_protein_1853918..1854148_POSITIVE 153 88 63 54 26 NC_003454:FN1795|5end_hypothetical_protein_276578..276808_NEGATIVE 152 130 108 166 146 NC_003454:FN1902|5end_Deoxycytidylate_deaminase_390551..390781_NEGATIVE 151 75 39 170 137 NC_003454:FN0202|5end_Glutaconate_CoA-transferase_subunit_A_827780..828010_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 238 107 61 68 24 NC_003454:FN0446|3end_hypothetical_protein_1089404..1089554_POSITIVE 230 68 31 60 23 NC_003454:FN0307|3end_Iron(III)_dicitrate_transport_ATP-binding_protein_fecE_942969..943119_POSITIVE 182 120 74 55 1 NC_003454:FN0295|3end_Transketolase_928995..929145_POSITIVE 176 130 81 63 12 NC_003454:FN0738|3end_Hypothetical_exported_24-amino_acid_repeat_protein_1396981..1397131_POSITIVE 174 109 62 146 99 NC_003454:FN0395|3end_Transporter_1034046..1034196_POSITIVE 173 100 56 94 41 NC_003454:FN1174|3end_hypothetical_protein_1835732..1835882_POSITIVE 169 90 60 120 93 NC_003454:FN1336|3end_hypothetical_protein_1989936..1990086_NEGATIVE 167 77 33 75 30 NC_003454:FN1972|3end_hypothetical_protein_471703..471853_NEGATIVE 156 99 56 130 90 NC_003454:FN0004|3end_Inner_membrane_protein_643834..643984_POSITIVE 155 98 51 138 92 NC_003454:FN0106|3end_hypothetical_protein_741462..741612_POSITIVE 154 95 73 126 104 NC_003454:FN0148|3end_3-oxoacyl-(acyl_carrier_protein)_synthase_777526..777676_POSITIVE 152 90 55 116 79 NC_003454:FN0944|3end_Na+_driven_multidrug_efflux_pump_1597488..1597638_NEGATIVE 152 97 57 42 3 NC_003454:FN0391|3end_Hydrolase_(HAD_superfamily)_1029496..1029646_POSITIVE 152 127 81 122 78 NC_003454:FN0027|3end_hypothetical_protein_664763..664913_NEGATIVE 152 130 108 45 25 NC_003454:FN1903|3end_Coenzyme_A_disulfide_reductase/_disulfide_bond_regulator_domain_390672..390822_NEGATIVE 151 85 50 66 28 NC_003454:FN1363|3end_Dipeptide_transport_ATP-binding_protein_dppF_2015333..2015483_POSITIVE 151 107 62 79 33 NC_003454:FN1138|3end_Hypothetical_cytosolic_protein_1785980..1786130_POSITIVE 151 75 39 59 26 NC_003454:FN0201|3end_Glutaconyl-COA_decarboxylase_beta_subunit_827749..827899_POSITIVE 149 100 62 143 97 NC_003454:FN0474|3end_Acriflavin_resistance_protein_B_1122057..1122207_POSITIVE 149 95 52 83 40 NC_003454:FN1545|3end_Ferredoxin_like_protein_59497..59647_POSITIVE