Origin IGS: tactatggggtaatcttaagtctatcaaagtctatagaaggattttgctttatagataaaacatctcctacggctttaccatacgcattgataatttcaatcctgtgggggaatacaatgccatgtaccgatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgatcggtacatggcattgtattcccccacaggattgaaattatcaatgcgtatggtaaagccgtaggagatgttttatctataaagcaaaatccttctatagactttgatagacttaagattaccccatagta Mask Tandem Repeat Region ================================================ tactatggggtaatcttaagtctatcaaagtctatagaaggattttgctttatagataaaacatctcctacggctttaccatacgcattgataatttcaatcctgtgggggaatacaatgccatgtaccgatca Find is-nt database================================================ Query_seq: TF1749:TF1750|TF1749:TF1750:outer membrane protein, TonB dependent receptor:hypothetical protein:->->:1885860..1885993 134 tactatggggtaatcttaagtctatcaaagtctatagaaggattttgctttatagataaaacatctcctacggctttaccatacgcattgataatttcaatcctgtgggggaatacaatgccatgtaccgatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1749:TF1750|TF1749:TF1750:outer membrane protein, TonB dependent receptor:hypothetical protein:->->:1885860..1885993 134 tactatggggtaatcttaagtctatcaaagtctatagaaggattttgctttatagataaaacatctcctacggctttaccatacgcattgataatttcaatcctgtgggggaatacaatgccatgtaccgatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1749:TF1750|TF1749:TF1750:outer membrane protein, TonB dependent receptor:hypothetical protein:->->:1885860..1885993 134 tactatggggtaatcttaagtctatcaaagtctatagaaggattttgctttatagataaaacatctcctacggctttaccatacgcattgataatttcaatcctgtgggggaatacaatgccatgtaccgatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tactatggggtaatcttaagtctatcaaagtctatagaaggattttgctttatagataaaacatctcctacggctttaccatacgcattgataatttcaatcctgtgggggaatacaatgccatgtaccgatca Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 13 End: 132 ............ M L S L S K S I E G F C F I D K T S P T A L P Y A L I I S I L W G N T M P C T D .. Protein_Len: 39 Strand: - Start: 6 End: 119 ..... * P T I K L R D F D I S P N Q K I S L V D G V A K G Y A N I I E I R H P F V M ............... tactatggggtaatcttaagtctatcaaagtctatagaaggattttgctttatagataaaacatctcctacggctttaccatacgcattgataatttcaatcctgtgggggaatacaatgccatgtaccgatca 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================================================ tactatggggtaatcttaagtctatcaaagtctatagaaggattttgctttatagataaaacatctcctacggctttaccatacgcattgataatttcaatcctgtgggggaatacaatgccatgtaccgatca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1749:TF1750|TF1749:TF1750:outer membrane protein, TonB dependent receptor:hypothetical protein:->->:1885860..1885993 134 tactatggggtaatcttaagtctatcaaagtctatagaaggattttgctttatagataaaacatctcctacggctttaccatacgcattgataatttcaatcctgtgggggaatacaatgccatgtaccgatca Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: tfor_TF1749_TF1750|outer membrane protein, TonB dependent receptor:hypothetical protein|POSITIVE:POSITIVE|[1885860,1885993]|134 HSP 1 e-value: 2.0E-70 bit: 266.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 tactatggggtaatcttaagtctatcaaagtctatagaaggattttgctttatagataaaacatctcctacggctttaccatacgcattgataatttcaatcctgtgggggaatacaatgccatgtaccgatca tactatggggtaatcttaagtctatcaaagtctatagaaggattttgctttatagataaaacatctcctacggctttaccatacgcattgataatttcaatcctgtgggggaatacaatgccatgtaccgatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACUAUGGGGUAAUCUUAAGUCUAUCAAAGUCUAUAGAAGGAUUUUGCUUUAUAGAUAAAACAUCUCCUACGGCUUUACCAUACGCAUUGAUAAUUUCAAUCCUGUGGGGGAAUACAAUGCCAUGUACCGAUCA (((.((((.((........((((((((((((((......))))))))....))))))......((((((((((...........(.(((((.....)))))))))))))))).....)).)))))))....... (-31.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUCGGUACAUGGCAUUGUAUUCCCCCACAGGAUUGAAAUUAUCAAUGCGUAUGGUAAAGCCGUAGGAGAUGUUUUAUCUAUAAAGCAAAAUCCUUCUAUAGACUUUGAUAGACUUAAGAUUACCCCAUAGUA (((((....((((((((((...(((......)))..........)))))).)))).((((((..((((((.(((((((....))))))).....))))))..).)))))..........))))).......... (-25.12) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 339 130 81 72 22 tfor:TF0001|5end_hypothetical_protein_-116..114_POSITIVE 313 130 85 84 42 tfor:TF1718|5end_conserved_hypothetical_protein_1840462..1840692_POSITIVE 302 110 64 222 160 tfor:TF1018|5end_50S_ribosomal_protein_L9_1074815..1075045_POSITIVE 301 110 61 62 18 tfor:TF0470|5end_hypothetical_protein_487253..487483_POSITIVE 293 90 42 154 102 tfor:TF0302|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_328641..328871_POSITIVE 288 48 5 69 21 tfor:TF0245|5end_bacterioferritin_comigratory_protein_275733..275963_POSITIVE 272 120 76 77 15 tfor:TF1804|5end_hypothetical_protein_1947101..1947331_POSITIVE 269 112 71 206 165 tfor:TF3033|5end_S1_RNA_binding_domain_protein,_S1_ribosomal_protein_3256786..3257016_POSITIVE 269 107 65 211 162 tfor:TF0310|5end_conserved_hypothetical_protein_334685..334915_POSITIVE 261 110 64 210 165 tfor:TF0669|5end_hypothetical_protein_713384..713614_POSITIVE 257 108 66 189 150 tfor:TF2737|5end_conserved_hypothetical_protein;_TPR-repeat-containing_protein_2918397..2918627_POSITIVE 254 107 65 56 12 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 254 107 65 49 5 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 253 110 62 187 135 tfor:TF2358|5end_possible_small-conductance_mechanosensitive_channel_2523829..2524059_POSITIVE 252 122 85 58 13 tfor:TF2840|5end_hypothetical_protein_3031060..3031290_POSITIVE 252 130 85 164 118 tfor:TF1725|5end_hypothetical_protein_1851808..1852038_POSITIVE 252 112 71 118 69 tfor:TF0136|5end_transposase_element_145627..145857_POSITIVE 251 104 63 190 150 tfor:TF3151|5end_glyoxalase_family_protein_3386221..3386451_POSITIVE 249 130 95 72 38 tfor:TF2863|5end_conserved_hypothetical_protein_3054580..3054810_POSITIVE 249 111 71 79 22 tfor:TF0303|5end_conserved_hypothetical_protein_328331..328561_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 269 128 81 66 10 tfor:TF1755|3end_periplasmic_protease_1892867..1893017_POSITIVE 263 130 84 110 45 tfor:TF2651|3end_hypothetical_protein_2822014..2822164_POSITIVE 253 130 81 72 6 tfor:TF0258|3end_hypothetical_protein_289534..289684_POSITIVE 251 104 63 134 94 tfor:TF3150|3end_conserved_hypothetical_protein_3386245..3386395_POSITIVE 247 110 64 148 96 tfor:TF2173|3end_hypothetical_protein_2346063..2346213_POSITIVE 247 110 64 148 96 tfor:TF0346|3end_hypothetical_protein_367316..367466_POSITIVE 241 105 65 47 11 tfor:TF1165|3end_conserved_hypothetical_protein_1245921..1246071_POSITIVE 241 106 65 67 30 tfor:TF0717|3end_signal_recognition_particle_769059..769209_POSITIVE 239 117 71 73 12 tfor:TF3028|3end_1-deoxy-d-xylulose-5-phosphate_reductoisomerase_3252873..3253023_POSITIVE 238 74 31 122 83 tfor:TF1317|3end_hypothetical_protein_1391835..1391985_POSITIVE 238 110 61 52 13 tfor:TF0280|3end_hypothetical_protein_309036..309186_POSITIVE 235 113 71 150 115 tfor:TF2255|3end_transfer_region-related_protein,_TraH_2427961..2428111_POSITIVE 234 110 62 60 9 tfor:TF0545|3end_glucose-inhibited_division_protein_B_576453..576603_POSITIVE 233 77 42 102 71 tfor:TF0501|3end_conserved_hypothetical_protein,_HicB-related_527361..527511_POSITIVE 231 111 71 149 121 tfor:TF3052|3end_conserved_hypothetical_protein_3278654..3278804_POSITIVE 229 130 82 101 54 tfor:TF2332|3end_signal_peptidase_I_2492613..2492763_POSITIVE 228 111 73 111 74 tfor:TF1254|3end_conserved_hypothetical_protein;_possible_transcriptional_regulator_1336705..1336855_POSITIVE 227 130 82 142 75 tfor:TF3064|3end_oxidoreductase,_aldo/keto_reductase_family_3290984..3291134_POSITIVE 227 108 64 110 67 tfor:TF2302|3end_conserved_hypothetical_protein;_possible_outer_membrane_protein_2458063..2458213_POSITIVE 226 85 41 117 61 tfor:TF2635|3end_ABC_transporter,_ATP-binding_protein/permease_component_2806101..2806251_POSITIVE