Origin IGS: ttcaacatcccccttttataattttttaactcgtaaatacgctaacttacaaccgtactacactgcttaagcagcaaaagcttaaaaaaaattttattttttataatttttgttaattatattttctttccggggcaaagtaaaaatatttctcggttttcacgagggaacttgttctttgtcaataattagataggcgtaacccgttcaagtgagttcaaataggcgaaaaatcaaggagaaattgctatttagcctgttttctgctaaaaagtgcggtcataaaacgcaacgttttttaaggagaaaacc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggttttctccttaaaaaacgttgcgttttatgaccgcactttttagcagaaaacaggctaaatagcaatttctccttgatttttcgcctatttgaactcacttgaacgggttacgcctatctaattattgacaaagaacaagttccctcgtgaaaaccgagaaatatttttactttgccccggaaagaaaatataattaacaaaaattataaaaaataaaattttttttaagcttttgctgcttaagcagtgtagtacggttgtaagttagcgtatttacgagttaaaaaattataaaagggggatgttgaa Mask Tandem Repeat Region ================================================ ttcaacatcccccttttataattttttaactcgtaaatacgctaacttacaaccgtactacactgcttaagcagcaaaagcttaaaaaaaattttattttttataatttttgttaattatattttctttccggggcaaagtaaaaatatttctcggttttcacgagggaacttgttctttgtcaataattagataggcgtaacccgttcaagtgagttcaaataggcgaaaaatcaaggagaaattgctatttagcctgttttctgctaaaaagtgcggtcataaaacgcaacgttttttaaggagaaaacc Find is-nt database================================================ Query_seq: AA02984:AA02987|AA02984:AA02987:formate transporter:histidine triad protein homolog:->->:2088595..2088906 312 ttcaacatcccccttttataattttttaactcgtaaatacgctaacttacaaccgtactacactgcttaagcagcaaaagcttaaaaaaaattttattttttataatttttgttaattatattttctttccggggcaaagtaaaaatatttctcggttttcacgagggaacttgttctttgtcaataattagataggcgtaacccgttcaagtgagttcaaataggcgaaaaatcaaggagaaattgctatttagcctgttttctgctaaaaagtgcggtcataaaacgcaacgttttttaaggagaaaacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02984:AA02987|AA02984:AA02987:formate transporter:histidine triad protein homolog:->->:2088595..2088906 312 ttcaacatcccccttttataattttttaactcgtaaatacgctaacttacaaccgtactacactgcttaagcagcaaaagcttaaaaaaaattttattttttataatttttgttaattatattttctttccggggcaaagtaaaaatatttctcggttttcacgagggaacttgttctttgtcaataattagataggcgtaacccgttcaagtgagttcaaataggcgaaaaatcaaggagaaattgctatttagcctgttttctgctaaaaagtgcggtcataaaacgcaacgttttttaaggagaaaacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02984:AA02987|AA02984:AA02987:formate transporter:histidine triad protein homolog:->->:2088595..2088906 312 ttcaacatcccccttttataattttttaactcgtaaatacgctaacttacaaccgtactacactgcttaagcagcaaaagcttaaaaaaaattttattttttataatttttgttaattatattttctttccggggcaaagtaaaaatatttctcggttttcacgagggaacttgttctttgtcaataattagataggcgtaacccgttcaagtgagttcaaataggcgaaaaatcaaggagaaattgctatttagcctgttttctgctaaaaagtgcggtcataaaacgcaacgttttttaaggagaaaacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttcaacatcccccttttataattttttaactcgtaaatacgctaacttacaaccgtactacactgcttaagcagcaaaagcttaaaaaaaattttattttttataatttttgttaattatattttctttccggggcaaagtaaaaatatttctcggttttcacgagggaacttgttctttgtcaataattagataggcgtaacccgttcaagtgagttcaaataggcgaaaaatcaaggagaaattgctatttagcctgttttctgctaaaaagtgcggtcataaaacgcaacgttttttaaggagaaaacc Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 91 End: 189 .......................................................................................... M L F F I I F V N Y I F F P G Q S K N I S R F S R G N L F F V N N ........................................................................................................................... Protein_Len: 33 Strand: + Start: 212 End: 310 ................................................................................................................................................................................................................... M S S N R R K I K E K L L F S L F S A K K C G H K T Q R F L R R K .. ttcaacatcccccttttataattttttaactcgtaaatacgctaacttacaaccgtactacactgcttaagcagcaaaagcttaaaaaaaattttattttttataatttttgttaattatattttctttccggggcaaagtaaaaatatttctcggttttcacgagggaacttgttctttgtcaataattagataggcgtaacccgttcaagtgagttcaaataggcgaaaaatcaaggagaaattgctatttagcctgttttctgctaaaaagtgcggtcataaaacgcaacgttttttaaggagaaaacc 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: 81 Start: 244 End: 273 ...................................................................................................................................................................................................................................................ATTGCTATTTAGCCTGTTTTCTGCTAAAAA....................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttcaacatcccccttttataattttttaactcgtaaatacgctaacttacaaccgtactacactgcttaagcagcaaaagcttaaaaaaaattttattttttataatttttgttaattatattttctttccggggcaaagtaaaaatatttctcggttttcacgagggaacttgttctttgtcaataattagataggcgtaacccgttcaagtgagttcaaataggcgaaaaatcaaggagaaattgctatttagcctgttttctgctaaaaagtgcggtcataaaacgcaacgttttttaaggagaaaacc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 77 HP_score: -4.5 Tail_Score: -5.2204 Start: 82 End: 106 Full_Region: TTAAGCAGCAAAAGC TTAAAAAAAAT TTT ATTTTTTATAA TTTTTGTTAATTATA .................................................................................TTAAAAAAAATTTTATTTTTTATAA.............................................................................................................................................................................................................. TransTerm Strand: + Conf: 72 HP_score: -2.5 Tail_Score: -5.47914 Start: 83 End: 96 Full_Region: TAAGCAGCAAAAGCT TAAAA AAAA TTTTA TTTTTTATAATTTTT ..................................................................................TAAAAAAAATTTTA........................................................................................................................................................................................................................ Find igs database================================================ Query_seq: AA02984:AA02987|AA02984:AA02987:formate transporter:histidine triad protein homolog:->->:2088595..2088906 312 ttcaacatcccccttttataattttttaactcgtaaatacgctaacttacaaccgtactacactgcttaagcagcaaaagcttaaaaaaaattttattttttataatttttgttaattatattttctttccggggcaaagtaaaaatatttctcggttttcacgagggaacttgttctttgtcaataattagataggcgtaacccgttcaagtgagttcaaataggcgaaaaatcaaggagaaattgctatttagcctgttttctgctaaaaagtgcggtcataaaacgcaacgttttttaaggagaaaacc Intra-Species Hit: Count: 1 Min: 1 Max: 312 Len: 312 Subject: aact_AA02984_AA02987|formate transporter:histidine triad protein homolog|POSITIVE:POSITIVE|[2088595,2088906]|312 HSP 1 e-value: 2.0E-99 bit: 363.0 Len: 183 Query Start:130 Query End:312 Subject Strand: POSITIVE Subject Start: 130 Subject End: 312 .................................................................................................................................ccggggcaaagtaaaaatatttctcggttttcacgagggaacttgttctttgtcaataattagataggcgtaacccgttcaagtgagttcaaataggcgaaaaatcaaggagaaattgctatttagcctgttttctgctaaaaagtgcggtcataaaacgcaacgttttttaaggagaaaacc .................................................................................................................................ccggggcaaagtaaaaatatttctcggttttcacgagggaacttgttctttgtcaataattagataggcgtaacccgttcaagtgagttcaaataggcgaaaaatcaaggagaaattgctatttagcctgttttctgctaaaaagtgcggtcataaaacgcaacgttttttaaggagaaaacc HSP 2 e-value: 1.0E-39 bit: 165.0 Len: 83 Query Start:1 Query End:83 Subject Strand: POSITIVE Subject Start: 1 Subject End: 83 ttcaacatcccccttttataattttttaactcgtaaatacgctaacttacaaccgtactacactgcttaagcagcaaaagctt..................................................................................................................................................................................................................................... ttcaacatcccccttttataattttttaactcgtaaatacgctaacttacaaccgtactacactgcttaagcagcaaaagctt..................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCAACAUCCCCCUUUUAUAAUUUUUUAACUCGUAAAUACGCUAACUUACAACCGUACUACACUGCUUAAGCAGCAAAAGCUUAAAAAAAAUUUUAUUUUUUAUAAUUUUUGUUAAUUAUAUUUUCUUUCCGGGGCAAAGUAAAAAUAUUUCUCGGUUUUCACGAGGGAACUUGUUCUUUGUCAAUAAUUAGAUAGGCGUAACCCGUUCAAGUGAGUUCAAAUAGGCGAAAAAUCAAGGAGAAAUUGCUAUUUAGCCUGUUUUCUGCUAAAAAGUGCGGUCAUAAAACGCAACGUUUUUUAAGGAGAAAACC .......................................(((((((((((............((((....)))).....(((((.................(((((((......)))))))...(((......(((((((.((.....(..((((.......))))..).....))))))))).......)))))))).............)))))))......))))........(((..((((....))))..)))(((((((.((((((((((((.........))))...)))))).)).))))))). (-56.92) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGUUUUCUCCUUAAAAAACGUUGCGUUUUAUGACCGCACUUUUUAGCAGAAAACAGGCUAAAUAGCAAUUUCUCCUUGAUUUUUCGCCUAUUUGAACUCACUUGAACGGGUUACGCCUAUCUAAUUAUUGACAAAGAACAAGUUCCCUCGUGAAAACCGAGAAAUAUUUUUACUUUGCCCCGGAAAGAAAAUAUAAUUAACAAAAAUUAUAAAAAAUAAAAUUUUUUUUAAGCUUUUGCUGCUUAAGCAGUGUAGUACGGUUGUAAGUUAGCGUAUUUACGAGUUAAAAAAUUAUAAAAGGGGGAUGUUGAA .(((((((.((..(((((.((.(((((....)).)))))))))))).)))))))...........((((.((((((((((((((.(((..((..(......)..))..)))(((((.((.((.........(((((...((((...(((((....).))))....))))...)))))..(((.(((((((((((((((......)))))))..........))))))))..(((..((((((....)))))).))).))).....)).)))))))...........)))))))).....)))))).)))).. (-56.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 456 300 251 227 170 aact:AA02168|5end_possible_protease;_heat_shock_protein_1483529..1483759_POSITIVE 352 302 264 137 100 aact:AA01648|5end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1115170..1115400_POSITIVE 338 299 268 98 67 aact:AA02199|5end_hypothetical_protein_1497627..1497857_POSITIVE 338 280 233 107 56 aact:AA02060|5end_cardiolipin_synthase_1401956..1402186_POSITIVE 330 308 264 221 178 aact:AA02932|5end_lytic_murein_transglycosylase_A_2052349..2052579_POSITIVE 326 301 271 196 166 aact:AA02024|5end_acyl_carrier_protein_phosphodiesterase_1378144..1378374_POSITIVE 321 305 262 177 134 aact:AA01003|5end_conserved_hypothetical_protein_700120..700350_POSITIVE 318 301 269 133 101 aact:AA01954|5end_excinuclease_ABC,_subunit_C_1320468..1320698_POSITIVE 306 302 266 36 1 aact:AA01646|5end_hypothetical_protein_1115069..1115299_POSITIVE 306 282 244 150 112 aact:AA00552|5end_periplasmic_nitrate_reductase_precursor_377331..377561_POSITIVE 306 282 244 44 6 aact:AA00551|5end_hypothetical_protein_377225..377455_POSITIVE 305 300 254 189 145 aact:AA00988|5end_conserved_hypothetical_protein_690898..691128_POSITIVE 304 305 269 138 100 aact:AA02288|5end_conserved_hypothetical_protein_1558590..1558820_POSITIVE 302 303 263 111 75 aact:AA02449|5end_hypothetical_protein_1687575..1687805_POSITIVE 301 306 270 134 93 aact:AA00892|5end_selenocysteine-specific_elongation_factor_(SelB_translation_factor)_618023..618253_POSITIVE 300 299 258 175 139 aact:AA02050|5end_1-deoxy-D-xylulose_5-phosphate_synthase_1395625..1395855_POSITIVE 300 299 258 76 40 aact:AA02049|5end_hypothetical_protein_1395526..1395756_POSITIVE 298 280 233 231 179 aact:AA02821|5end_ribosomal-protein-alanine_acetyltransferase_1982255..1982485_POSITIVE 297 290 246 70 35 aact:AA02689|5end_hydrogenase-4_component_F_1874620..1874850_POSITIVE 297 302 269 151 118 aact:AA02666|5end_DNA_helicase_II_1854410..1854640_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 456 300 251 92 35 aact:AA02167|3end_hypothetical_protein_1483474..1483624_POSITIVE 352 302 264 149 112 aact:AA01646|3end_hypothetical_protein_1115262..1115412_POSITIVE 352 302 264 71 34 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 338 299 268 83 52 aact:AA02196|3end_oxaloacetate_decarboxylase_beta_chain_1497692..1497842_POSITIVE 326 301 271 87 57 aact:AA02023|3end_NADH_dehydrogenase_1378115..1378265_POSITIVE 306 282 244 142 104 aact:AA00551|3end_hypothetical_protein_377403..377553_POSITIVE 302 303 263 39 3 aact:AA02446|3end_conserved_hypothetical_protein_1687583..1687733_POSITIVE 301 306 270 85 44 aact:AA00890|3end_conserved_hypothetical_protein_618054..618204_POSITIVE 300 299 258 49 13 aact:AA02048|3end_galactitol_utilization_operon_repressor_1395579..1395729_POSITIVE 297 290 246 62 27 aact:AA02688|3end_hydrogenase_4_component_E_1874692..1874842_POSITIVE 296 250 201 73 20 aact:AA00525|3end_hypothetical_protein_359459..359609_POSITIVE 296 294 265 74 43 aact:AA00373|3end_CoA-transferase_(beta)_251755..251905_POSITIVE 295 300 255 68 12 aact:AA02899|3end_oligopeptide_ABC_transporter,_ATP-binding_protein_2031138..2031288_POSITIVE 295 228 184 138 96 aact:AA00407|3end_trk_system_potassium_uptake_protein_272309..272459_POSITIVE 294 289 245 52 2 aact:AA02237|3end_molybdopterin_biosynthesis_protein_E_chain_1523292..1523442_POSITIVE 293 308 269 83 49 aact:AA03010|3end_thiophene_and_furan_oxidation_protein_2102534..2102684_POSITIVE 292 308 264 84 40 aact:AA01537|3end_possible_glucokinase_regulatory_protein_1031607..1031757_POSITIVE 291 307 265 85 38 aact:AA00251|3end_lipoate_biosynthesis_protein_B_177238..177388_POSITIVE 289 280 235 45 6 aact:AA02146|3end_iron(III)_ABC_transporter,_ATP-binding_protein_1469477..1469627_POSITIVE 288 299 251 100 49 aact:AA02175|3end_anthranilate_synthase_component_II_1488966..1489116_POSITIVE