Origin IGS: ttctaaatagctatagttacttatgaaaagctgaaccctacgttccaaaaatcgactgcaaagcaacaaaataacttgaacataacaccgtctcttcggcaacaaatacatttcttttaagattcattctgaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttcagaatgaatcttaaaagaaatgtatttgttgccgaagagacggtgttatgttcaagttattttgttgctttgcagtcgatttttggaacgtagggttcagcttttcataagtaactatagctatttagaa Mask Tandem Repeat Region ================================================ ttctaaatagctatagttacttatgaaaagctgaaccctacgttccaaaaatcgactgcaaagcaacaaaataacttgaacataacaccgtctcttcggcaacaaatacatttcttttaagattcattctgaaa Find is-nt database================================================ Query_seq: TF1340:TF1341|TF1340:TF1341:pantoate--beta-alanine ligase:glycogen synthase:->->:1422257..1422390 134 ttctaaatagctatagttacttatgaaaagctgaaccctacgttccaaaaatcgactgcaaagcaacaaaataacttgaacataacaccgtctcttcggcaacaaatacatttcttttaagattcattctgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1340:TF1341|TF1340:TF1341:pantoate--beta-alanine ligase:glycogen synthase:->->:1422257..1422390 134 ttctaaatagctatagttacttatgaaaagctgaaccctacgttccaaaaatcgactgcaaagcaacaaaataacttgaacataacaccgtctcttcggcaacaaatacatttcttttaagattcattctgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1340:TF1341|TF1340:TF1341:pantoate--beta-alanine ligase:glycogen synthase:->->:1422257..1422390 134 ttctaaatagctatagttacttatgaaaagctgaaccctacgttccaaaaatcgactgcaaagcaacaaaataacttgaacataacaccgtctcttcggcaacaaatacatttcttttaagattcattctgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttctaaatagctatagttacttatgaaaagctgaaccctacgttccaaaaatcgactgcaaagcaacaaaataacttgaacataacaccgtctcttcggcaacaaatacatttcttttaagattcattctgaaa Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 7 End: 117 ...... M A I V T Y E K L N P T F Q K S T A K Q Q N N L N I T P S L R Q Q I H F F ................. Protein_Len: 41 Strand: - Start: 1 End: 123 E L Y S Y N S I F L Q V R R E L F R S C L L L I V Q V Y C R R K P L L Y M E K L M ........... ttctaaatagctatagttacttatgaaaagctgaaccctacgttccaaaaatcgactgcaaagcaacaaaataacttgaacataacaccgtctcttcggcaacaaatacatttcttttaagattcattctgaaa 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================================================ ttctaaatagctatagttacttatgaaaagctgaaccctacgttccaaaaatcgactgcaaagcaacaaaataacttgaacataacaccgtctcttcggcaacaaatacatttcttttaagattcattctgaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1340:TF1341|TF1340:TF1341:pantoate--beta-alanine ligase:glycogen synthase:->->:1422257..1422390 134 ttctaaatagctatagttacttatgaaaagctgaaccctacgttccaaaaatcgactgcaaagcaacaaaataacttgaacataacaccgtctcttcggcaacaaatacatttcttttaagattcattctgaaa Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: tfor_TF1340_TF1341|pantoate--beta-alanine ligase:glycogen synthase|POSITIVE:POSITIVE|[1422257,1422390]|134 HSP 1 e-value: 2.0E-70 bit: 266.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 ttctaaatagctatagttacttatgaaaagctgaaccctacgttccaaaaatcgactgcaaagcaacaaaataacttgaacataacaccgtctcttcggcaacaaatacatttcttttaagattcattctgaaa ttctaaatagctatagttacttatgaaaagctgaaccctacgttccaaaaatcgactgcaaagcaacaaaataacttgaacataacaccgtctcttcggcaacaaatacatttcttttaagattcattctgaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUAAAUAGCUAUAGUUACUUAUGAAAAGCUGAACCCUACGUUCCAAAAAUCGACUGCAAAGCAACAAAAUAACUUGAACAUAACACCGUCUCUUCGGCAACAAAUACAUUUCUUUUAAGAUUCAUUCUGAAA ((((((.((((....)))).))).)))..((((((....(((..............(((...))).(((......)))..........)))...))))))...................(((.....))).... (-11.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCAGAAUGAAUCUUAAAAGAAAUGUAUUUGUUGCCGAAGAGACGGUGUUAUGUUCAAGUUAUUUUGUUGCUUUGCAGUCGAUUUUUGGAACGUAGGGUUCAGCUUUUCAUAAGUAACUAUAGCUAUUUAGAA ........(((((((((..(....)......(((.(((((((..((((((...((.((((....))))..))...))).))).)))))))))).)))))))))....(((.((((((.(....).))))))))) (-23.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 294 69 28 73 29 tfor:TF2276|5end_conserved_hypothetical_protein_2438226..2438456_POSITIVE 284 67 21 185 134 tfor:TF2185|5end_outer_membrane_protein,_TonB_dependent_receptor_2357262..2357492_POSITIVE 283 90 50 85 51 tfor:TF0690|5end_preprotein_translocase_subunit_735243..735473_POSITIVE 269 98 53 134 95 tfor:TF2712|5end_glycosyltransferase_2885918..2886148_POSITIVE 265 91 51 70 27 tfor:TF1245|5end_LemA_protein_1328822..1329052_POSITIVE 264 68 30 61 22 tfor:TF0287|5end_peptidase,_M23_family_315810..316040_POSITIVE 257 93 51 93 51 tfor:TF3165|5end_thiol:disulfide_interchange_protein,_thioredoxin_family_protein_3404142..3404372_POSITIVE 253 107 62 82 39 tfor:TF2512|5end_possible_abortive_infection_protein_2690247..2690477_POSITIVE 252 100 53 196 150 tfor:TF1315|5end_purine_nucleoside_phosphorylase_1390236..1390466_POSITIVE 249 100 51 55 2 tfor:TF0220|5end_conserved_hypothetical_protein_246230..246460_POSITIVE 243 83 51 81 42 tfor:TF0210|5end_DNA_polymerase_III,_beta_subunit_235769..235999_POSITIVE 240 99 52 115 79 tfor:TF2892|5end_seryl-tRNA_synthetase_3079309..3079539_POSITIVE 240 99 53 44 3 tfor:TF0476|5end_conserved_hypothetical_protein_494944..495174_POSITIVE 235 59 18 147 105 tfor:TF2457|5end_ABC_transporter,_permease_component,_zinc-binding_protein_2633147..2633377_POSITIVE 235 100 51 190 143 tfor:TF2291|5end_outer_membrane_protein_2446098..2446328_POSITIVE 234 130 85 186 137 tfor:TF2386|5end_beta-galactosidase_2551676..2551906_POSITIVE 229 100 62 181 138 tfor:TF0449|5end_transposase_467891..468121_POSITIVE 228 69 29 97 46 tfor:TF0697|5end_glycerol-3-phosphate_cytidyltransferase_740667..740897_POSITIVE 226 109 79 122 86 tfor:TF0225|5end_iron-containing_alcohol_dehydrogenase_251477..251707_POSITIVE 226 90 48 172 134 tfor:TF0131|5end_hypothetical_protein_142308..142538_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 294 69 28 67 23 tfor:TF2275|3end_conserved_hypothetical_protein_2438300..2438450_POSITIVE 269 98 53 141 102 tfor:TF2711|3end_hemolysis_secretion_protein_2886005..2886155_POSITIVE 260 100 52 131 84 tfor:TF2886|3end_RNA_methylase_SpoU_family_3076270..3076420_POSITIVE 244 101 88 123 110 tfor:TF2914|3end_hypothetical_protein_3109643..3109793_POSITIVE 240 99 52 107 71 tfor:TF2891|3end_lipoprotein_3079381..3079531_POSITIVE 235 59 18 128 86 tfor:TF2456|3end_ABC_transporter,_ATP-binding_protein_2633208..2633358_POSITIVE 235 88 46 79 33 tfor:TF2299|3end_hypothetical_protein_2450247..2450397_POSITIVE 229 100 62 121 78 tfor:TF0448|3end_hypothetical_protein_467911..468061_POSITIVE 229 117 80 132 90 tfor:TF0001|3end_hypothetical_protein_158..308_POSITIVE 228 69 29 91 40 tfor:TF0696|3end_3-oxoacyl-(acyl-carrier-protein)_reductase_740741..740891_POSITIVE 226 109 79 112 76 tfor:TF0224|3end_N-acetylglucosamine-6-phosphate_deacetylase_251547..251697_POSITIVE 223 99 53 140 95 tfor:TF0703|3end_conserved_hypothetical_protein_747955..748105_POSITIVE 218 100 51 117 66 tfor:TF2937|3end_translation_elongation_factor_Tu_3140502..3140652_POSITIVE 218 100 52 62 5 tfor:TF1002|3end_replicative_DNA_helicase_1058232..1058382_POSITIVE 215 97 55 80 39 tfor:TF1017|3end_30S_ribsomal_protein_S18_1074871..1075021_POSITIVE 210 119 74 80 29 tfor:TF2992|3end_hexapeptide_transferase_family_protein_3209691..3209841_POSITIVE 208 102 84 20 1 tfor:TF2978|3end_conserved_hypothetical_protein_3190862..3191012_POSITIVE 207 59 11 130 89 tfor:TF2855|3end_ATPase,_AAA_family_3042011..3042161_POSITIVE 207 64 28 85 57 tfor:TF2483|3end_hypothetical_protein_2660022..2660172_POSITIVE 207 102 72 80 52 tfor:TF0862|3end_conserved_hypothetical_protein_fragment_914459..914609_POSITIVE