Origin IGS: tgagacctctgcaaaagtgactacataatgcgtttttatcgatattcgcattaacgatggtgcctcgcttgacaatcacgccttttatttccaactgacagctgatttcgttcagaaccgtatcatcccaaattatacgatagggattttggggtttagatttatgggggtaatcccatcgtccgatgaaccattttcggcgttttttagtaagtgctattttta .........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 taaaaatagcacttactaaaaaacgccgaaaatggttcatcggacgatgggattacccccataaatctaaaccccaaaatccctatcgtataatttgggatgatacggttctgaacgaaatcagctgtcagttggaaataaaaggcgtgattgtcaagcgaggcaccatcgttaatgcgaatatcgataaaaacgcattatgtagtcacttttgcagaggtctca Mask Tandem Repeat Region ================================================ tgagacctctgcaaaagtgactacataatgcgtttttatcgatattcgcattaacgatggtgcctcgcttgacaatcacgccttttatttccaactgacagctgatttcgttcagaaccgtatcatcccaaattatacgatagggattttggggtttagatttatgggggtaatcccatcgtccgatgaaccattttcggcgttttttagtaagtgctattttta Find is-nt database================================================ Query_seq: TF0176:TF0177|TF0176:TF0177:hypothetical protein:hypothetical protein:->->:186840..187064 225 tgagacctctgcaaaagtgactacataatgcgtttttatcgatattcgcattaacgatggtgcctcgcttgacaatcacgccttttatttccaactgacagctgatttcgttcagaaccgtatcatcccaaattatacgatagggattttggggtttagatttatgggggtaatcccatcgtccgatgaaccattttcggcgttttttagtaagtgctattttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0176:TF0177|TF0176:TF0177:hypothetical protein:hypothetical protein:->->:186840..187064 225 tgagacctctgcaaaagtgactacataatgcgtttttatcgatattcgcattaacgatggtgcctcgcttgacaatcacgccttttatttccaactgacagctgatttcgttcagaaccgtatcatcccaaattatacgatagggattttggggtttagatttatgggggtaatcccatcgtccgatgaaccattttcggcgttttttagtaagtgctattttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0176:TF0177|TF0176:TF0177:hypothetical protein:hypothetical protein:->->:186840..187064 225 tgagacctctgcaaaagtgactacataatgcgtttttatcgatattcgcattaacgatggtgcctcgcttgacaatcacgccttttatttccaactgacagctgatttcgttcagaaccgtatcatcccaaattatacgatagggattttggggtttagatttatgggggtaatcccatcgtccgatgaaccattttcggcgttttttagtaagtgctattttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgagacctctgcaaaagtgactacataatgcgtttttatcgatattcgcattaacgatggtgcctcgcttgacaatcacgccttttatttccaactgacagctgatttcgttcagaaccgtatcatcccaaattatacgatagggattttggggtttagatttatgggggtaatcccatcgtccgatgaaccattttcggcgttttttagtaagtgctattttta Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 38 End: 223 ..................................... M D I R I N D G A S L D N H A F Y F Q L T A D F V Q N R I I P N Y T I G I L G F R F M G V I P S S D E P F S A F F S K C .. Protein_Len: 60 Strand: - Start: 2 End: 220 . I N A N V I T G R K V I V G K I E L Q C S I E N L V T D D W I I R Y P N Q P K S K H P Y D W R G I F W K R R K K T L A M ..... tgagacctctgcaaaagtgactacataatgcgtttttatcgatattcgcattaacgatggtgcctcgcttgacaatcacgccttttatttccaactgacagctgatttcgttcagaaccgtatcatcccaaattatacgatagggattttggggtttagatttatgggggtaatcccatcgtccgatgaaccattttcggcgttttttagtaagtgctattttta 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================================================ tgagacctctgcaaaagtgactacataatgcgtttttatcgatattcgcattaacgatggtgcctcgcttgacaatcacgccttttatttccaactgacagctgatttcgttcagaaccgtatcatcccaaattatacgatagggattttggggtttagatttatgggggtaatcccatcgtccgatgaaccattttcggcgttttttagtaagtgctattttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0176:TF0177|TF0176:TF0177:hypothetical protein:hypothetical protein:->->:186840..187064 225 tgagacctctgcaaaagtgactacataatgcgtttttatcgatattcgcattaacgatggtgcctcgcttgacaatcacgccttttatttccaactgacagctgatttcgttcagaaccgtatcatcccaaattatacgatagggattttggggtttagatttatgggggtaatcccatcgtccgatgaaccattttcggcgttttttagtaagtgctattttta Intra-Species Hit: Count: 1 Min: 1 Max: 225 Len: 225 Subject: tfor_TF0176_TF0177|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[186840,187064]|225 HSP 1 e-value: 1.0E-124 bit: 446.0 Len: 225 Query Start:1 Query End:225 Subject Strand: POSITIVE Subject Start: 1 Subject End: 225 tgagacctctgcaaaagtgactacataatgcgtttttatcgatattcgcattaacgatggtgcctcgcttgacaatcacgccttttatttccaactgacagctgatttcgttcagaaccgtatcatcccaaattatacgatagggattttggggtttagatttatgggggtaatcccatcgtccgatgaaccattttcggcgttttttagtaagtgctattttta tgagacctctgcaaaagtgactacataatgcgtttttatcgatattcgcattaacgatggtgcctcgcttgacaatcacgccttttatttccaactgacagctgatttcgttcagaaccgtatcatcccaaattatacgatagggattttggggtttagatttatgggggtaatcccatcgtccgatgaaccattttcggcgttttttagtaagtgctattttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGACCUCUGCAAAAGUGACUACAUAAUGCGUUUUUAUCGAUAUUCGCAUUAACGAUGGUGCCUCGCUUGACAAUCACGCCUUUUAUUUCCAACUGACAGCUGAUUUCGUUCAGAACCGUAUCAUCCCAAAUUAUACGAUAGGGAUUUUGGGGUUUAGAUUUAUGGGGGUAAUCCCAUCGUCCGAUGAACCAUUUUCGGCGUUUUUUAGUAAGUGCUAUUUUUA .........................(((((((..(........)..)))))))..(((((..(...((.((.....)).))............(((((..(((((....((((((((((.((..(((((.............)))))..)).))))).(((..((((((....)))))).)))...))))).....))))).....)))))..)..))))).... (-49.22) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAUAGCACUUACUAAAAAACGCCGAAAAUGGUUCAUCGGACGAUGGGAUUACCCCCAUAAAUCUAAACCCCAAAAUCCCUAUCGUAUAAUUUGGGAUGAUACGGUUCUGAACGAAAUCAGCUGUCAGUUGGAAAUAAAAGGCGUGAUUGUCAAGCGAGGCACCAUCGUUAAUGCGAAUAUCGAUAAAAACGCAUUAUGUAGUCACUUUUGCAGAGGUCUCA ...........(((((......(((((.......(((((..(((..(((((......)))))...))).((((.....(((((.............))))).....)))).)))))....(((((.....)))))........)))))....)).))).(((((..(.....(((((((..............))))))).((((......)))).)..))))). (-51.06) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 720 220 171 187 138 tfor:TF3162|5end_hypothetical_protein_3397624..3397854_POSITIVE 720 220 171 205 156 tfor:TF1770|5end_hypothetical_protein_1908439..1908669_POSITIVE 720 220 171 133 84 tfor:TF0530|5end_hypothetical_protein_with_TPR_domain_556072..556302_POSITIVE 402 200 151 185 126 tfor:TF0238|5end_outer_membrane_protein_266871..267101_POSITIVE 376 110 62 58 1 tfor:TF0312|5end_outer_membrane_protein_336473..336703_POSITIVE 359 110 62 180 131 tfor:TF1970|5end_oxaloacetate_decarboxylase,_beta_subunit_2116804..2117034_POSITIVE 357 218 174 222 177 tfor:TF2291|5end_outer_membrane_protein_2446098..2446328_POSITIVE 334 100 57 74 38 tfor:TF0051|5end_hypothetical_protein_57327..57557_POSITIVE 332 202 166 44 10 tfor:TF2990|5end_nicotinate-nucleotide_pyrophosphorylase_3205464..3205694_POSITIVE 314 205 167 88 48 tfor:TF2114|5end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase,_GcpE_2283006..2283236_POSITIVE 313 78 45 69 38 tfor:TF0386|5end_transcriptional_regulator,_possible_LuxR_family_406900..407130_POSITIVE 310 190 142 60 9 tfor:TF0323|5end_NAD-dependent_epimerase/dehydratase_family_protein_349933..350163_POSITIVE 308 210 166 180 138 tfor:TF2785|5end_RNA_polymerase_sigma_factor,_ECF_subfamily_(sigma-70)_2969277..2969507_POSITIVE 306 83 46 231 196 tfor:TF3149|5end_conserved_hypothetical_protein_3384424..3384654_POSITIVE 306 100 56 66 20 tfor:TF1965|5end_conserved_hypothetical_protein_2114313..2114543_POSITIVE 303 200 151 204 150 tfor:TF0950|5end_ribosomal_large_subunit_pseudouridine_synthase_D_(pseudouridylate_synthase)_(uracil_hydrolyase)_994630..994860_POSITIVE 302 68 28 183 132 tfor:TF0302|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_328641..328871_POSITIVE 301 82 45 59 16 tfor:TF1293|5end_ATPase,_possible_AAA_superfamily_1374579..1374809_POSITIVE 300 125 81 107 55 tfor:TF3109|5end_hypothetical_protein_3341998..3342228_POSITIVE 300 110 61 89 29 tfor:TF2544|5end_cytidine_deaminase_2728322..2728552_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 641 197 153 151 108 tfor:TF3161|3end_transposase_3397691..3397841_POSITIVE 641 197 153 151 108 tfor:TF2387|3end_transposase_2555881..2556031_POSITIVE 641 197 153 151 108 tfor:TF2011|3end_transposase_2165310..2165460_POSITIVE 641 197 153 151 108 tfor:TF1769|3end_transposase_1908488..1908638_POSITIVE 641 197 153 151 108 tfor:TF0529|3end_transposase_556193..556343_POSITIVE 334 202 165 36 4 tfor:TF0007|3end_3-oxoacyl-[acyl-carrier-protein]_synthase_III_3599..3749_POSITIVE 314 205 167 88 48 tfor:TF2113|3end_phosphoribosylaminoimidazole_carboxylase_2283086..2283236_POSITIVE 313 78 45 69 38 tfor:TF0385|3end_conserved_hypothetical_protein_406980..407130_POSITIVE 308 210 166 120 78 tfor:TF2783|3end_aminotransferase,_PatB_family_2969297..2969447_POSITIVE 306 100 56 53 7 tfor:TF1964|3end_MotA/TolQ/ExbB_proton_channel_family_2114380..2114530_POSITIVE 305 90 45 143 77 tfor:TF2547|3end_hypothetical_protein_2730947..2731097_POSITIVE 300 125 81 59 7 tfor:TF3108|3end_glutamine-hydrolyzing_carbamoyl-phosphate_synthase,_large_subunit_3342030..3342180_POSITIVE 297 137 92 124 71 tfor:TF3154|3end_conserved_hypothetical_protein_3390489..3390639_POSITIVE 297 206 165 92 40 tfor:TF0401|3end_hypothetical_protein_421593..421743_POSITIVE 293 208 167 113 72 tfor:TF1245|3end_LemA_protein_1329462..1329612_POSITIVE 292 206 163 107 50 tfor:TF1558|3end_possible_heme_biosynthesis_protein_1665959..1666109_POSITIVE 289 85 45 150 113 tfor:TF3142|3end_conserved_hypothetical_protein_3377510..3377660_POSITIVE 289 119 73 58 6 tfor:TF2340|3end_hypothetical_protein_2500915..2501065_POSITIVE 288 199 158 142 94 tfor:TF1150|3end_pyruvate-formate_lyase_1232952..1233102_POSITIVE 285 218 173 134 90 tfor:TF2891|3end_lipoprotein_3079381..3079531_POSITIVE