Origin IGS: taacttgtttattagcatatcttcatcctctttcagacagaaaacaaatatggaatctgtctaaaagagcgtatcggatgtcattttttttcatttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaaggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgactttttttca .........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 tgaaaaaaagtcgcccaggcaggtcttctgactttttcaaggttttgcgatcttcccgtagccttgatgtggcatacagtgatcaaaaagaatgcaaaaccattctactgaaattacagctgagggtacagttccggactcgcaccggattcccttttcaatccatcatccatgaacgcatgatgaatcacctgtgacggggacaaaggaaatcagtattttccgatcgaacaagaataaatgaaaaaaaatgacatccgatacgctcttttagacagattccatatttgttttctgtctgaaagaggatgaagatatgctaataaacaagtta Mask Tandem Repeat Region ================================================ taacttgtttattagcatatcttcatcctctttcagacagaaaacaaatatggaatctgtctaaaagagcgtatcggatgtcattttttttcatttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaaggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgactttttttca Find is-nt database================================================ Query_seq: TF2489:TF2491|TF2489:TF2491:hypothetical protein:hypothetical protein:->->:2664759..2665092 334 taacttgtttattagcatatcttcatcctctttcagacagaaaacaaatatggaatctgtctaaaagagcgtatcggatgtcattttttttcatttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaaggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgactttttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2489:TF2491|TF2489:TF2491:hypothetical protein:hypothetical protein:->->:2664759..2665092 334 taacttgtttattagcatatcttcatcctctttcagacagaaaacaaatatggaatctgtctaaaagagcgtatcggatgtcattttttttcatttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaaggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgactttttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2489:TF2491|TF2489:TF2491:hypothetical protein:hypothetical protein:->->:2664759..2665092 334 taacttgtttattagcatatcttcatcctctttcagacagaaaacaaatatggaatctgtctaaaagagcgtatcggatgtcattttttttcatttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaaggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgactttttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacttgtttattagcatatcttcatcctctttcagacagaaaacaaatatggaatctgtctaaaagagcgtatcggatgtcattttttttcatttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaaggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgactttttttca Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 19 End: 144 .................. M F I L F Q T E N K Y G I C L K E R I G C H F F S F I L V R S E N T D F L C P R H R .............................................................................................................................................................................................. Protein_Len: 30 Strand: + Start: 129 End: 218 ................................................................................................................................ M S P S Q V I H H A F M D D G L K R E S G A S P E L Y P Q L .................................................................................................................... Protein_Len: 41 Strand: + Start: 173 End: 295 ............................................................................................................................................................................ M E K G I R C E S G T V P S A V I S V E W F C I L F D H C M P H Q G Y G K I A K P ....................................... Protein_Len: 50 Strand: - Start: 141 End: 290 ............................................................................................................................................ L H N M M R E H I I S Q F P F G T R T R F Q V R L Q L K L L I T K C E K Q D S Y A V D L S R S S R M ............................................ taacttgtttattagcatatcttcatcctctttcagacagaaaacaaatatggaatctgtctaaaagagcgtatcggatgtcattttttttcatttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaaggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgactttttttca 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================================================ taacttgtttattagcatatcttcatcctctttcagacagaaaacaaatatggaatctgtctaaaagagcgtatcggatgtcattttttttcatttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaaggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgactttttttca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 51 HP_score: -2.3 Tail_Score: -3.87815 Start: 111 End: 127 Full_Region: TATTCTTGTTCGATC GGAAA ATACTGA TTTCC TTTGTCCCCGTCACA ..............................................................................................................GGAAAATACTGATTTCC............................................................................................................................................................................................................... TransTerm Strand: + Conf: 67 HP_score: -3.3 Tail_Score: -4.76041 Start: 230 End: 245 Full_Region: GCTGTAATTTCAGTA GAATG GTTTTG CATTC TTTTTGATCACTGTA .....................................................................................................................................................................................................................................GAATGGTTTTGCATTC......................................................................................... Find igs database================================================ Query_seq: TF2489:TF2491|TF2489:TF2491:hypothetical protein:hypothetical protein:->->:2664759..2665092 334 taacttgtttattagcatatcttcatcctctttcagacagaaaacaaatatggaatctgtctaaaagagcgtatcggatgtcattttttttcatttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaaggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgactttttttca Intra-Species Hit: Count: 2 Min: 1 Max: 325 Len: 325 Subject: tfor_TF2489_TF2491|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2664759,2665092]|334 HSP 1 e-value: 1.0E-169 bit: 597.0 Len: 325 Query Start:1 Query End:325 Subject Strand: POSITIVE Subject Start: 1 Subject End: 325 taacttgtttattagcatatcttcatcctctttcagacagaaaacaaatatggaatctgtctaaaagagcgtatcggatgtcannnnnnnncatttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaaggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgac......... taacttgtttattagcatatcttcatcctctttcagacagaaaacaaatatggaatctgtctaaaagagcgtatcggatgtcattttttttcatttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaaggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgac......... Subject: tfor_TF2484_TF2485|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[2660367,2660742]|376 HSP 1 e-value: 1.0E-113 bit: 410.0 Len: 234 Query Start:92 Query End:325 Subject Strand: POSITIVE Subject Start: 44 Subject End: 278 ...........................................................................................catttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaa-ggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgac......... ...........................................................................................catttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgac......... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUUGUUUAUUAGCAUAUCUUCAUCCUCUUUCAGACAGAAAACAAAUAUGGAAUCUGUCUAAAAGAGCGUAUCGGAUGUCAUUUUUUUUCAUUUAUUCUUGUUCGAUCGGAAAAUACUGAUUUCCUUUGUCCCCGUCACAGGUGAUUCAUCAUGCGUUCAUGGAUGAUGGAUUGAAAAGGGAAUCCGGUGCGAGUCCGGAACUGUACCCUCAGCUGUAAUUUCAGUAGAAUGGUUUUGCAUUCUUUUUGAUCACUGUAUGCCACAUCAAGGCUACGGGAAGAUCGCAAAACCUUGAAAAAGUCAGAAGACCUGCCUGGGCGAC ....(((((((...(((..(((((...((((((.(((((((...((....))...))))))).))))))................((((((((.........((((...((((...((((((((((((((....((......)).((((((((((.((....)).))))))))))..))))))))).)))))....)))))))).......((.((((......)))).))..((((((((..(((((.......(((((.(((.......)))))))))))))..)))))))).))))))))...)))))..))).))))))). (-93.71) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUCGCCCAGGCAGGUCUUCUGACUUUUUCAAGGUUUUGCGAUCUUCCCGUAGCCUUGAUGUGGCAUACAGUGAUCAAAAAGAAUGCAAAACCAUUCUACUGAAAUUACAGCUGAGGGUACAGUUCCGGACUCGCACCGGAUUCCCUUUUCAAUCCAUCAUCCAUGAACGCAUGAUGAAUCACCUGUGACGGGGACAAAGGAAAUCAGUAUUUUCCGAUCGAACAAGAAUAAAUGAAAAAAAAUGACAUCCGAUACGCUCUUUUAGACAGAUUCCAUAUUUGUUUUCUGUCUGAAAGAGGAUGAAGAUAUGCUAAUAAACAAGUUA ........((((.((((((....(((((((..(((((.(((((.((((((.(((.......))).(((((((((.....((((((......))))))............(..(((((......(((((.......)))))..)))))..)....((((((.(......).)))))).)))).))))))))))).....(((((.......))))))))))....)))))...))))))).................((((((((((((((...((....))...))))))))))))))...)))))).))))............. (-91.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 459 319 272 93 47 tfor:TF2038|5end_hypothetical_protein_2198978..2199208_POSITIVE 377 200 152 68 9 tfor:TF0042|5end_anaerobic_cobalt_chelatase_CbiK_45828..46058_POSITIVE 370 319 276 156 113 tfor:TF0919|5end_conserved_hypothetical_protein_957541..957771_POSITIVE 367 180 134 116 68 tfor:TF0758|5end_peptidyl-tRNA_hydrolase_805307..805537_POSITIVE 364 200 154 69 17 tfor:TF1932|5end_pigmentation_and_extracellular_proteinase_regulator_2078542..2078772_POSITIVE 363 200 153 227 173 tfor:TF0969|5end_oxidoreductase_1019550..1019780_POSITIVE 356 218 171 216 156 tfor:TF2846|5end_cobyric_acid_synthase_3034896..3035126_POSITIVE 356 218 171 64 4 tfor:TF2847|5end_hypothetical_protein_3034744..3034974_POSITIVE 355 221 188 219 174 tfor:TF1782|5end_conserved_hypothetical_protein_1922003..1922233_POSITIVE 348 202 162 168 127 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 345 170 127 203 161 tfor:TF1948|5end_conserved_hypothetical_protein_2095942..2096172_POSITIVE 344 210 162 129 79 tfor:TF2820|5end_argininosuccinate_synthetase_3009876..3010106_POSITIVE 343 205 161 84 42 tfor:TF1282|5end_tRNA_delta-2_isopentenylpyrophosphate_transferase_1366437..1366667_POSITIVE 342 209 162 61 8 tfor:TF1901|5end_conserved_hypothetical_protein_2056467..2056697_POSITIVE 338 200 153 171 119 tfor:TF2368|5end_uridine_phosphorylase_2533666..2533896_POSITIVE 338 230 181 229 182 tfor:TF2317|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_II_2474418..2474648_POSITIVE 337 319 273 150 88 tfor:TF0884|5end_hypothetical_protein_937603..937833_POSITIVE 333 200 154 212 162 tfor:TF2248|5end_transfer_region-related_protein,_TraB_2422551..2422781_POSITIVE 333 177 132 207 147 tfor:TF0588|5end_outer_membrane_protein_619879..620109_POSITIVE 330 146 101 111 51 tfor:TF2844|5end_possible_phosphatase_or_hydrolase_3033680..3033910_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 641 220 171 151 107 tfor:TF2038|3end_hypothetical_protein_2199222..2199372_POSITIVE 377 200 152 102 43 tfor:TF0041|3end_outer_membrane_protein,_TonB_dependent_receptor_45942..46092_POSITIVE 370 319 276 107 64 tfor:TF0918|3end_conserved_hypothetical_protein;_possible_protease_957572..957722_POSITIVE 364 200 154 69 17 tfor:TF1931|3end_ATPase/GTPase_2078622..2078772_POSITIVE 348 202 162 79 38 tfor:TF1066|3end_hypothetical_protein_1136858..1137008_POSITIVE 344 210 162 129 79 tfor:TF2819|3end_N-acetyl-gamma-glutamylphosphate_reductase_3009956..3010106_POSITIVE 343 205 161 54 12 tfor:TF1281|3end_2-dehydro-3-deoxyphosphooctonate_aldolase_(3-deoxy-D-manno-2-octulosonate-8-phosphate_synthase)_(KDO-8-phosphate_synthetase)_(KDO_8-P_synthase)_1366487..1366637_POSITIVE 343 201 161 138 102 tfor:TF1253|3end_hypothetical_protein_1336211..1336361_POSITIVE 339 169 121 149 97 tfor:TF0983|3end_nitroreductase_family_protein,__possible_NADH_dehydrogenase/NAD(P)H_nitroreductase_1040034..1040184_POSITIVE 338 200 153 135 83 tfor:TF2367|3end_delta-1-pyrroline-5-carboxylate_dehydrogenase_2533710..2533860_POSITIVE 330 146 101 111 51 tfor:TF2843|3end_conserved_hypothetical_protein;_possible_lipoprotein_3033760..3033910_POSITIVE 329 187 142 141 82 tfor:TF0705|3end_hypothetical_protein_750789..750939_POSITIVE 324 196 155 149 98 tfor:TF2399|3end_precorrin-2_methyltransferase_2572073..2572223_POSITIVE 321 280 236 84 24 tfor:TF0490|3end_conserved_hypothetical_protein_513904..514054_POSITIVE 320 196 151 58 14 tfor:TF0573|3end_DNA_polymerase_III,_delta_subunit_604852..605002_POSITIVE 319 217 172 151 93 tfor:TF3000|3end_hypothetical_protein_3216740..3216890_POSITIVE 319 237 191 65 12 tfor:TF1717|3end_DNA_mismatch_repair_protein_1840494..1840644_POSITIVE 318 319 271 62 18 tfor:TF0624|3end_Xaa-Pro_dipeptidase_(aminopeptidase_P)_661015..661165_POSITIVE 315 209 163 73 14 tfor:TF3033|3end_S1_RNA_binding_domain_protein,_S1_ribosomal_protein_3258983..3259133_POSITIVE 312 118 79 60 20 tfor:TF0202|3end_folylpolyglutamate_synthase_229104..229254_POSITIVE