Origin IGS: tatggaatcgatctaaaagagagggtcggatgtcgttttttttcatttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgacttttttttattcttggggaatagggaatgaaaaagactgcaacatatttgaatcgaatagatgtattattattttttaaaattaataattaaaccagt .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 actggtttaattattaattttaaaaaataataatacatctattcgattcaaatatgttgcagtctttttcattccctattccccaagaataaaaaaaagtcgcccaggcaggtcttctgactttttcaaggttttgcgatcttcccgttgccattgatgcggcatacagtgatcaaaaagaatgcagaaccattctactgaaattacagctgagggtacagttccggactcgcaccggattcccttttcaatccatcatccatgagcgcatgatgaatcacctgtgacgggggcaaaggaaatcagtattttccgatcgaacaagaataaatgaaaaaaaacgacatccgaccctctcttttagatcgattccata Mask Tandem Repeat Region ================================================ tatggaatcgatctaaaagagagggtcggatgtcgttttttttcatttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgacttttttttattcttggggaatagggaatgaaaaagactgcaacatatttgaatcgaatagatgtattattattttttaaaattaataattaaaccagt Find is-nt database================================================ Query_seq: TF2484:TF2485|TF2484:TF2485:hypothetical protein:conserved hypothetical protein:->->:2660367..2660742 376 tatggaatcgatctaaaagagagggtcggatgtcgttttttttcatttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgacttttttttattcttggggaatagggaatgaaaaagactgcaacatatttgaatcgaatagatgtattattattttttaaaattaataattaaaccagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2484:TF2485|TF2484:TF2485:hypothetical protein:conserved hypothetical protein:->->:2660367..2660742 376 tatggaatcgatctaaaagagagggtcggatgtcgttttttttcatttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgacttttttttattcttggggaatagggaatgaaaaagactgcaacatatttgaatcgaatagatgtattattattttttaaaattaataattaaaccagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2484:TF2485|TF2484:TF2485:hypothetical protein:conserved hypothetical protein:->->:2660367..2660742 376 tatggaatcgatctaaaagagagggtcggatgtcgttttttttcatttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgacttttttttattcttggggaatagggaatgaaaaagactgcaacatatttgaatcgaatagatgtattattattttttaaaattaataattaaaccagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tatggaatcgatctaaaagagagggtcggatgtcgttttttttcatttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgacttttttttattcttggggaatagggaatgaaaaagactgcaacatatttgaatcgaatagatgtattattattttttaaaattaataattaaaccagt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 7 End: 96 ...... M D L K E R V G C R 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: 81 End: 170 ................................................................................ M P P S Q V I H H A L M D D G L K R E S G A S P E L Y P Q L .............................................................................................................................................................................................................. Protein_Len: 58 Strand: + Start: 125 End: 298 ............................................................................................................................ 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 W Q R E D R K T L K K S E D L P G R L F F I L G E .............................................................................. Protein_Len: 49 Strand: + Start: 208 End: 354 ............................................................................................................................................................................................................... M Y A A S M A T G R S Q N L E K V R R P A W A T F F Y S W G I G N E K D C N I F E S N R C I I I F ...................... Protein_Len: 46 Strand: - Start: 223 End: 360 .............................................................................................................................................................................................................................. H C R S S R L V K F F D S S R G P R S K K I R P S Y P I F F V A V Y K F R I S T N N N K L M ................ Protein_Len: 56 Strand: - Start: 93 End: 260 ............................................................................................ 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 R C E K Q D S Y A A D I A V P L D C F R S F T M .................................................................................................................... tatggaatcgatctaaaagagagggtcggatgtcgttttttttcatttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgacttttttttattcttggggaatagggaatgaaaaagactgcaacatatttgaatcgaatagatgtattattattttttaaaattaataattaaaccagt 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================================================ tatggaatcgatctaaaagagagggtcggatgtcgttttttttcatttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgacttttttttattcttggggaatagggaatgaaaaagactgcaacatatttgaatcgaatagatgtattattattttttaaaattaataattaaaccagt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 47 HP_score: -2.3 Tail_Score: -3.54424 Start: 63 End: 79 Full_Region: TATTCTTGTTCGATC GGAAA ATACTGA TTTCC TTTGCCCCCGTCACA ..............................................................GGAAAATACTGATTTCC......................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 68 HP_score: -3.3 Tail_Score: -4.76041 Start: 182 End: 197 Full_Region: GCTGTAATTTCAGTA GAATG GTTCTG CATTC TTTTTGATCACTGTA .....................................................................................................................................................................................GAATGGTTCTGCATTC................................................................................................................................................................................... Find igs database================================================ Query_seq: TF2484:TF2485|TF2484:TF2485:hypothetical protein:conserved hypothetical protein:->->:2660367..2660742 376 tatggaatcgatctaaaagagagggtcggatgtcgttttttttcatttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgacttttttttattcttggggaatagggaatgaaaaagactgcaacatatttgaatcgaatagatgtattattattttttaaaattaataattaaaccagt Intra-Species Hit: Count: 2 Min: 1 Max: 376 Len: 376 Subject: tfor_TF2484_TF2485|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[2660367,2660742]|376 HSP 1 e-value: 0.0 bit: 650.0 Len: 376 Query Start:1 Query End:376 Subject Strand: POSITIVE Subject Start: 1 Subject End: 376 tatggaatcgatctaaaagagagggtcggatgtcgnnnnnnnncatttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgacnnnnnnnnattcttggggaatagggaatgaaaaagactgcaacatatttgaatcgaatagatgtattattattttttaaaattaataattaaaccagt tatggaatcgatctaaaagagagggtcggatgtcgttttttttcatttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgacttttttttattcttggggaatagggaatgaaaaagactgcaacatatttgaatcgaatagatgtattattattttttaaaattaataattaaaccagt Subject: tfor_TF2489_TF2491|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2664759,2665092]|334 HSP 1 e-value: 1.0E-113 bit: 410.0 Len: 235 Query Start:44 Query End:278 Subject Strand: POSITIVE Subject Start: 92 Subject End: 325 ...........................................catttattcttgttcgatcggaaaatactgatttcctttgcccccgtcacaggtgattcatcatgcgctcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttctgcattctttttgatcactgtatgccgcatcaatggcaacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgac.................................................................................................. ...........................................catttattcttgttcgatcggaaaatactgatttcctttgtccccgtcacaggtgattcatcatgcgttcatggatgatggattgaaaagggaatccggtgcgagtccggaactgtaccctcagctgtaatttcagtagaatggttttgcattctttttgatcactgtatgccacatcaa-ggctacgggaagatcgcaaaaccttgaaaaagtcagaagacctgcctgggcgac.................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUGGAAUCGAUCUAAAAGAGAGGGUCGGAUGUCGUUUUUUUUCAUUUAUUCUUGUUCGAUCGGAAAAUACUGAUUUCCUUUGCCCCCGUCACAGGUGAUUCAUCAUGCGCUCAUGGAUGAUGGAUUGAAAAGGGAAUCCGGUGCGAGUCCGGAACUGUACCCUCAGCUGUAAUUUCAGUAGAAUGGUUCUGCAUUCUUUUUGAUCACUGUAUGCCGCAUCAAUGGCAACGGGAAGAUCGCAAAACCUUGAAAAAGUCAGAAGACCUGCCUGGGCGACUUUUUUUUAUUCUUGGGGAAUAGGGAAUGAAAAAGACUGCAACAUAUUUGAAUCGAAUAGAUGUAUUAUUAUUUUUUAAAAUUAAUAAUUAAACCAGU ..(((..(((((((........)))))))..............(((((((((..((((((..(((((.......))))).((((...((((.(((((((((((((((.((....)).))))))))))....(((...(((((.......))))).(((.((..((.((((......)))).))..((((.(((..(((((.......((((.(((((......))))))))))))))..))).))))........)))))....))))))))))))..((((((((((((((........))))))))))))))..)))).....)))))).))))))))).(((((((...........)))))))....))).. (-97.51) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUGGUUUAAUUAUUAAUUUUAAAAAAUAAUAAUACAUCUAUUCGAUUCAAAUAUGUUGCAGUCUUUUUCAUUCCCUAUUCCCCAAGAAUAAAAAAAAGUCGCCCAGGCAGGUCUUCUGACUUUUUCAAGGUUUUGCGAUCUUCCCGUUGCCAUUGAUGCGGCAUACAGUGAUCAAAAAGAAUGCAGAACCAUUCUACUGAAAUUACAGCUGAGGGUACAGUUCCGGACUCGCACCGGAUUCCCUUUUCAAUCCAUCAUCCAUGAGCGCAUGAUGAAUCACCUGUGACGGGGGCAAAGGAAAUCAGUAUUUUCCGAUCGAACAAGAAUAAAUGAAAAAAAACGACAUCCGACCCUCUCUUUUAGAUCGAUUCCAUA ..(((....(((((((.((.....)).)))))))........(((((..(((...((((..((((((((((((......(((((.((((....(((((((((...(((....)))..)))))))))...(((((((((.((((....(((.((((((((...))).)))))..))).)))).))))))))).)))).......((((((.((((((......(((((.......)))))..)))...........(((((.(((....)))))))).))).)))))).)))))....(((((.......)))))...............)))))))))....)))...)))).......)))..)))))..))).. (-83.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 488 270 223 90 45 tfor:TF2038|5end_hypothetical_protein_2198978..2199208_POSITIVE 428 276 231 154 99 tfor:TF0884|5end_hypothetical_protein_937603..937833_POSITIVE 365 125 84 105 63 tfor:TF0758|5end_peptidyl-tRNA_hydrolase_805307..805537_POSITIVE 361 129 84 196 145 tfor:TF0352|5end_transposase_element_371223..371453_POSITIVE 361 248 207 189 142 tfor:TF0302|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_328641..328871_POSITIVE 359 170 121 213 160 tfor:TF1475|5end_glucose-6-phosphate_1-dehydrogenase_1568034..1568264_POSITIVE 358 120 71 70 12 tfor:TF2817|5end_hypothetical_protein_3007358..3007588_POSITIVE 357 153 112 69 19 tfor:TF0042|5end_anaerobic_cobalt_chelatase_CbiK_45828..46058_POSITIVE 356 170 123 216 156 tfor:TF2846|5end_cobyric_acid_synthase_3034896..3035126_POSITIVE 356 170 123 64 4 tfor:TF2847|5end_hypothetical_protein_3034744..3034974_POSITIVE 355 173 140 219 174 tfor:TF1782|5end_conserved_hypothetical_protein_1922003..1922233_POSITIVE 353 148 105 223 173 tfor:TF0969|5end_oxidoreductase_1019550..1019780_POSITIVE 351 148 103 73 29 tfor:TF0574|5end_AMP_nucleosidase_604787..605017_POSITIVE 348 154 114 168 127 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 347 36 5 132 101 tfor:TF1324|5end_conserved_hypothetical_protein_1403462..1403692_POSITIVE 346 150 103 109 39 tfor:TF1228|5end_conserved_hypothetical_protein_1314103..1314333_POSITIVE 345 190 143 114 60 tfor:TF1718|5end_conserved_hypothetical_protein_1840462..1840692_POSITIVE 345 120 71 135 77 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 343 157 113 84 42 tfor:TF1282|5end_tRNA_delta-2_isopentenylpyrophosphate_transferase_1366437..1366667_POSITIVE 343 170 122 186 126 tfor:TF0970|5end_2-keto-3-deoxygluconate_kinase_1020396..1020626_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 640 163 123 147 107 tfor:TF2038|3end_hypothetical_protein_2199222..2199372_POSITIVE 361 129 84 119 68 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 357 153 112 103 53 tfor:TF0041|3end_outer_membrane_protein,_TonB_dependent_receptor_45942..46092_POSITIVE 353 125 83 126 65 tfor:TF0294|3end_possible_translation_factor_321902..322052_POSITIVE 351 148 103 58 14 tfor:TF0573|3end_DNA_polymerase_III,_delta_subunit_604852..605002_POSITIVE 348 154 114 79 38 tfor:TF1066|3end_hypothetical_protein_1136858..1137008_POSITIVE 347 36 5 123 92 tfor:TF1323|3end_metallo-beta-lactamase_superfamily_protein_1403533..1403683_POSITIVE 345 190 143 66 12 tfor:TF1717|3end_DNA_mismatch_repair_protein_1840494..1840644_POSITIVE 345 120 71 135 77 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 343 157 113 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 343 153 113 138 102 tfor:TF1253|3end_hypothetical_protein_1336211..1336361_POSITIVE 343 170 122 149 89 tfor:TF0969|3end_oxidoreductase_1020439..1020589_POSITIVE 339 120 77 124 70 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE 336 140 94 64 9 tfor:TF1760|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase_1899413..1899563_POSITIVE 334 113 83 53 21 tfor:TF1314|3end_conserved_hypothetical_protein_1390302..1390452_POSITIVE 333 270 228 105 63 tfor:TF0918|3end_conserved_hypothetical_protein;_possible_protease_957572..957722_POSITIVE 330 170 133 141 102 tfor:TF2819|3end_N-acetyl-gamma-glutamylphosphate_reductase_3009956..3010106_POSITIVE 330 118 76 50 1 tfor:TF1973|3end_propionyl-CoA_carboxylase,_beta_subunit_2120990..2121140_POSITIVE 330 150 106 78 32 tfor:TF0923|3end_tetracycline_resistance_element_mobilization_regulatory_protein_961704..961854_POSITIVE 326 190 142 55 12 tfor:TF2523|3end_NAD(P)H-flavin_oxidoreductase_2702916..2703066_POSITIVE