Origin IGS: taacgtggcgggtttttcgttgtgttgcatcgttcgattattttatccctgctcctcttattcgacgttaatcactatctttgcgccccggttcgggctttaattgggttttaaattaataagaagcaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attgcttcttattaatttaaaacccaattaaagcccgaaccggggcgcaaagatagtgattaacgtcgaataagaggagcagggataaaataatcgaacgatgcaacacaacgaaaaacccgccacgtta Mask Tandem Repeat Region ================================================ taacgtggcgggtttttcgttgtgttgcatcgttcgattattttatccctgctcctcttattcgacgttaatcactatctttgcgccccggttcgggctttaattgggttttaaattaataagaagcaat Find is-nt database================================================ Query_seq: TF2152:TF2153|TF2152:TF2153:uronate isomerase:6-phosphofructokinase:->->:2328122..2328251 130 taacgtggcgggtttttcgttgtgttgcatcgttcgattattttatccctgctcctcttattcgacgttaatcactatctttgcgccccggttcgggctttaattgggttttaaattaataagaagcaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2152:TF2153|TF2152:TF2153:uronate isomerase:6-phosphofructokinase:->->:2328122..2328251 130 taacgtggcgggtttttcgttgtgttgcatcgttcgattattttatccctgctcctcttattcgacgttaatcactatctttgcgccccggttcgggctttaattgggttttaaattaataagaagcaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2152:TF2153|TF2152:TF2153:uronate isomerase:6-phosphofructokinase:->->:2328122..2328251 130 taacgtggcgggtttttcgttgtgttgcatcgttcgattattttatccctgctcctcttattcgacgttaatcactatctttgcgccccggttcgggctttaattgggttttaaattaataagaagcaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacgtggcgggtttttcgttgtgttgcatcgttcgattattttatccctgctcctcttattcgacgttaatcactatctttgcgccccggttcgggctttaattgggttttaaattaataagaagcaat Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 5 End: 100 .... M A G F S L C C I V R L F Y P C S S Y S T L I T I F A P R F G L .............................. Protein_Len: 30 Strand: + Start: 22 End: 111 ..................... M L H R S I I L S L L L L F D V N H Y L C A P V R A L I G F ................... taacgtggcgggtttttcgttgtgttgcatcgttcgattattttatccctgctcctcttattcgacgttaatcactatctttgcgccccggttcgggctttaattgggttttaaattaataagaagcaat 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================================================ taacgtggcgggtttttcgttgtgttgcatcgttcgattattttatccctgctcctcttattcgacgttaatcactatctttgcgccccggttcgggctttaattgggttttaaattaataagaagcaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2152:TF2153|TF2152:TF2153:uronate isomerase:6-phosphofructokinase:->->:2328122..2328251 130 taacgtggcgggtttttcgttgtgttgcatcgttcgattattttatccctgctcctcttattcgacgttaatcactatctttgcgccccggttcgggctttaattgggttttaaattaataagaagcaat Intra-Species Hit: Count: 1 Min: 1 Max: 130 Len: 130 Subject: tfor_TF2152_TF2153|uronate isomerase:6- phosphofructokinase|POSITIVE:POSITIVE|[2328122, 2328251]|130 HSP 1 e-value: 4.0E-68 bit: 258.0 Len: 130 Query Start:1 Query End:130 Subject Strand: POSITIVE Subject Start: 1 Subject End: 130 taacgtggcgggtttttcgttgtgttgcatcgttcgattattttatccctgctcctcttattcgacgttaatcactatctttgcgccccggttcgggctttaattgggttttaaattaataagaagcaat taacgtggcgggtttttcgttgtgttgcatcgttcgattattttatccctgctcctcttattcgacgttaatcactatctttgcgccccggttcgggctttaattgggttttaaattaataagaagcaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACGUGGCGGGUUUUUCGUUGUGUUGCAUCGUUCGAUUAUUUUAUCCCUGCUCCUCUUAUUCGACGUUAAUCACUAUCUUUGCGCCCCGGUUCGGGCUUUAAUUGGGUUUUAAAUUAAUAAGAAGCAAU (((((..((((.....))))..)))))......................((((..(((((((.....((((...(((.......((((......))))......)))...))))...))))))))))).. (-25.62) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGCUUCUUAUUAAUUUAAAACCCAAUUAAAGCCCGAACCGGGGCGCAAAGAUAGUGAUUAACGUCGAAUAAGAGGAGCAGGGAUAAAAUAAUCGAACGAUGCAACACAACGAAAAACCCGCCACGUUA .(((((((((......................((((......)))).....(((.((.....)))))......)))))))))..............((((..((.................))..)))). (-22.23) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 374 110 64 214 150 tfor:TF0537|5end_conserved_hypothetical_protein_563145..563375_POSITIVE 373 100 51 71 13 tfor:TF1325|5end_L-fucose_isomerase_1404000..1404230_POSITIVE 365 99 52 224 175 tfor:TF0310|5end_conserved_hypothetical_protein_334685..334915_POSITIVE 356 49 4 73 10 tfor:TF2814|5end_prolipoprotein_diacylglyceryl_transferase_3004493..3004723_POSITIVE 346 90 47 160 120 tfor:TF3089|5end_ISPg2_(PGIS2)_transposase_3323803..3324033_POSITIVE 338 98 58 221 175 tfor:TF0403|5end_TPR_repeat_protein_422600..422830_POSITIVE 333 98 57 157 116 tfor:TF3148|5end_hypoxanthine-guanine_phosphoribosyltransferase_3383652..3383882_POSITIVE 329 90 42 151 87 tfor:TF2979|5end_possible_outer_membrane__protein_3190778..3191008_POSITIVE 325 55 11 214 160 tfor:TF2561|5end_50S_ribosomal_protein_L16_2738693..2738923_POSITIVE 325 48 3 62 7 tfor:TF0395|5end_L-lactate_permease_415416..415646_POSITIVE 323 98 55 209 152 tfor:TF2682|5end_N_utilization_substance_protein_A_2856308..2856538_POSITIVE 322 98 52 216 164 tfor:TF3136|5end_Na+-translocating_NADH-quinone_reductase,_subunit_F_3369994..3370224_POSITIVE 321 50 4 77 31 tfor:TF2527|5end_RNA_polymerase_ECF-type_sigma_factor_2710097..2710327_POSITIVE 321 67 21 164 124 tfor:TF2100|5end_hypothetical_protein_2273424..2273654_POSITIVE 321 89 47 164 111 tfor:TF1871|5end_hypothetical_protein_2024277..2024507_POSITIVE 319 41 2 227 190 tfor:TF1167|5end_hypothetical_protein_1248559..1248789_POSITIVE 318 100 51 87 38 tfor:TF1710|5end_possible_cell_filamentation_protein_1829679..1829909_POSITIVE 318 110 66 229 182 tfor:TF0504|5end_Fe-S_oxidoreductase,_family_2_528433..528663_POSITIVE 316 90 45 160 112 tfor:TF1317|5end_hypothetical_protein_1391378..1391608_POSITIVE 315 35 3 154 122 tfor:TF2848|5end_cobalamin_biosynthesis_protein_3036368..3036598_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 382 109 76 124 89 tfor:TF1654|3end_hypothetical_protein_1768705..1768855_POSITIVE 373 100 51 91 33 tfor:TF1326|3end_hypothetical_protein_1404100..1404250_POSITIVE 348 98 51 142 82 tfor:TF0536|3end_conserved_hypothetical_protein_563169..563319_POSITIVE 346 90 47 68 28 tfor:TF3088|3end_conserved_hypothetical_protein_3323791..3323941_POSITIVE 338 98 58 150 104 tfor:TF0402|3end_conserved_hypothetical_protein_422609..422759_POSITIVE 333 98 57 129 88 tfor:TF3147|3end_adenylate_kinase_3383704..3383854_POSITIVE 332 58 11 112 60 tfor:TF1914|3end_conserved_hypothetical_protein_2067656..2067806_POSITIVE 323 86 42 142 91 tfor:TF2978|3end_conserved_hypothetical_protein_3190862..3191012_POSITIVE 323 100 51 88 33 tfor:TF1204|3end_possible_metal-dependent_membrane_protease_1287461..1287611_POSITIVE 322 98 52 55 3 tfor:TF3133|3end_conserved_hypothetical_protein_3369913..3370063_POSITIVE 321 67 21 79 39 tfor:TF2099|3end_D-tyrosyl-tRNA(Tyr)_deacylase_2273419..2273569_POSITIVE 313 98 52 58 10 tfor:TF1291|3end_response_regulator_(fimR__protein)_1372647..1372797_POSITIVE 313 64 27 70 19 tfor:TF0382|3end_transcription_termination_factor_405228..405378_POSITIVE 302 100 55 133 85 tfor:TF0886|3end_conjugative_transposon_protein_fragment_938152..938302_POSITIVE 301 48 2 136 94 tfor:TF0602|3end_aminotripeptidase;_peptidase_T_633472..633622_POSITIVE 298 67 23 142 89 tfor:TF0970|3end_2-keto-3-deoxygluconate_kinase_1021540..1021690_POSITIVE 296 100 57 124 83 tfor:TF2780|3end_hypothetical_protein_2966526..2966676_POSITIVE 294 70 21 74 12 tfor:TF2959|3end_type_I_restriction_enzyme_methyltransferase,_M_protein_3170786..3170936_POSITIVE 294 96 54 77 46 tfor:TF2472|3end_GAF_domain-containing_protein_2650468..2650618_POSITIVE 292 109 61 96 58 tfor:TF0145|3end_glutamine_synthetase_154718..154868_POSITIVE