Origin IGS: tgacttttcacttctatgttattcgaaacgagaatataaaagtctatgcacacagggttggcatgaagagacatgccggaaatgtgcttttttataacaattaaacagtagatgga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tccatctactgtttaattgttataaaaaagcacatttccggcatgtctcttcatgccaaccctgtgtgcatagacttttatattctcgtttcgaataacatagaagtgaaaagtca Mask Tandem Repeat Region ================================================ tgacttttcacttctatgttattcgaaacgagaatataaaagtctatgcacacagggttggcatgaagagacatgccggaaatgtgcttttttataacaattaaacagtagatgga Find is-nt database================================================ Query_seq: TF3119:TF3120|TF3119:TF3120:conserved hypothetical protein:HD superfamily hydrolase:->->:3353193..3353308 116 tgacttttcacttctatgttattcgaaacgagaatataaaagtctatgcacacagggttggcatgaagagacatgccggaaatgtgcttttttataacaattaaacagtagatgga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF3119:TF3120|TF3119:TF3120:conserved hypothetical protein:HD superfamily hydrolase:->->:3353193..3353308 116 tgacttttcacttctatgttattcgaaacgagaatataaaagtctatgcacacagggttggcatgaagagacatgccggaaatgtgcttttttataacaattaaacagtagatgga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF3119:TF3120|TF3119:TF3120:conserved hypothetical protein:HD superfamily hydrolase:->->:3353193..3353308 116 tgacttttcacttctatgttattcgaaacgagaatataaaagtctatgcacacagggttggcatgaagagacatgccggaaatgtgcttttttataacaattaaacagtagatgga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgacttttcacttctatgttattcgaaacgagaatataaaagtctatgcacacagggttggcatgaagagacatgccggaaatgtgcttttttataacaattaaacagtagatgga Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: - Start: 3 End: 113 .. S K V E I N N S V L I Y F D I C V P N A H L S M G S I H K K I V I L C Y M ... tgacttttcacttctatgttattcgaaacgagaatataaaagtctatgcacacagggttggcatgaagagacatgccggaaatgtgcttttttataacaattaaacagtagatgga 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================================================ tgacttttcacttctatgttattcgaaacgagaatataaaagtctatgcacacagggttggcatgaagagacatgccggaaatgtgcttttttataacaattaaacagtagatgga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF3119:TF3120|TF3119:TF3120:conserved hypothetical protein:HD superfamily hydrolase:->->:3353193..3353308 116 tgacttttcacttctatgttattcgaaacgagaatataaaagtctatgcacacagggttggcatgaagagacatgccggaaatgtgcttttttataacaattaaacagtagatgga Intra-Species Hit: Count: 1 Min: 1 Max: 116 Len: 116 Subject: tfor_TF3119_TF3120|conserved hypothetical protein:HD superfamily hydrolase|POSITIVE:POSITIVE|[3353193,3353308]|116 HSP 1 e-value: 8.0E-60 bit: 230.0 Len: 116 Query Start:1 Query End:116 Subject Strand: POSITIVE Subject Start: 1 Subject End: 116 tgacttttcacttctatgttattcgaaacgagaatataaaagtctatgcacacagggttggcatgaagagacatgccggaaatgtgcttttttataacaattaaacagtagatgga tgacttttcacttctatgttattcgaaacgagaatataaaagtctatgcacacagggttggcatgaagagacatgccggaaatgtgcttttttataacaattaaacagtagatgga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACUUUUCACUUCUAUGUUAUUCGAAACGAGAAUAUAAAAGUCUAUGCACACAGGGUUGGCAUGAAGAGACAUGCCGGAAAUGUGCUUUUUUAUAACAAUUAAACAGUAGAUGGA .(((((((...((((.((((......))))))))...)))))))...(((((.....((((((((......))))))))...)))))............................. (-26.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCAUCUACUGUUUAAUUGUUAUAAAAAAGCACAUUUCCGGCAUGUCUCUUCAUGCCAACCCUGUGUGCAUAGACUUUUAUAUUCUCGUUUCGAAUAACAUAGAAGUGAAAAGUCA .............................((((((....((((((......))))))......))))))...(((((((...((((.(((......)))..))))...))))))). (-28.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 372 87 46 230 197 tfor:TF0983|5end_nitroreductase_family_protein,__possible_NADH_dehydrogenase/NAD(P)H_nitroreductase_1039394..1039624_POSITIVE 310 88 41 165 120 tfor:TF0497|5end_conserved_hypothetical_protein_524058..524288_POSITIVE 309 90 48 196 152 tfor:TF2673|5end_conserved_hypothetical_protein_2846987..2847217_POSITIVE 307 89 46 49 8 tfor:TF1305|5end_UDP-glucose_4-epimerase_1385623..1385853_POSITIVE 307 87 53 62 19 tfor:TF0090|5end_conserved_hypothetical_protein_96285..96515_POSITIVE 294 87 43 188 131 tfor:TF2534|5end_conserved_hypothetical_protein_2717044..2717274_POSITIVE 294 89 43 191 149 tfor:TF2381|5end_muramidase/hemagglutinin_2545757..2545987_POSITIVE 293 87 47 46 1 tfor:TF0565|5end_hypothetical_protein_597765..597995_POSITIVE 292 69 24 229 176 tfor:TF2207|5end_exo-alpha-sialidase_(neuraminidase)_2380907..2381137_POSITIVE 292 86 52 132 95 tfor:TF1919|5end_hypothetical_protein_2070037..2070267_POSITIVE 292 86 52 92 55 tfor:TF1917|5end_hypothetical_protein_2069997..2070227_POSITIVE 291 86 42 122 74 tfor:TF2501|5end_DNA_mismatch_repair_protein_2676280..2676510_POSITIVE 289 87 47 230 181 tfor:TF0545|5end_glucose-inhibited_division_protein_B_575756..575986_POSITIVE 287 91 53 49 1 tfor:TF1494|5end_cobinamide_kinase/cobinamide_phosphate_guanylyltransferase_1594016..1594246_POSITIVE 285 89 47 39 1 tfor:TF2990|5end_nicotinate-nucleotide_pyrophosphorylase_3205464..3205694_POSITIVE 284 84 43 43 1 tfor:TF2695|5end_prephenate_dehydratase_2869618..2869848_POSITIVE 283 89 41 194 125 tfor:TF1538|5end_conserved_hypothetical_protein_1643531..1643761_POSITIVE 279 81 56 188 159 tfor:TF0606|5end_signal_peptidase_II_636816..637046_POSITIVE 278 87 42 231 169 tfor:TF3062|5end_conserved_hypothetical_protein_3286140..3286370_POSITIVE 278 87 43 47 3 tfor:TF2647|5end_transcriptional_regulator,_possible_arylsulfatase_regulator_2816796..2817026_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 309 90 48 143 99 tfor:TF2672|3end_lipoic_acid_synthetase_2847014..2847164_POSITIVE 294 87 43 78 21 tfor:TF2533|3end_adenylosuccinate_synthetase_2717014..2717164_POSITIVE 292 86 52 120 83 tfor:TF1918|3end_hypothetical_protein_2070105..2070255_POSITIVE 286 89 41 140 100 tfor:TF3079|3end_ribonucleoside-diphosphate_reductase_1,_beta_subunit_3310313..3310463_POSITIVE 286 79 46 31 1 tfor:TF2903|3end_translation_initiation_factor_SUI1_3098986..3099136_POSITIVE 283 80 32 53 6 tfor:TF2657|3end_conserved_hypothetical_protein_2830873..2831023_POSITIVE 277 87 50 145 111 tfor:TF1401|3end_Holliday_junction_DNA_helicase_1477610..1477760_POSITIVE 273 90 41 142 90 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 271 89 47 118 66 tfor:TF0755|3end_conserved_hypothetical_protein_803160..803310_POSITIVE 270 95 53 63 17 tfor:TF0664|3end_small_protein_B_(SMPB)_709570..709720_POSITIVE 266 89 42 89 33 tfor:TF1007|3end_rod_shape-determining_protein_MreB_1063450..1063600_POSITIVE 265 95 53 104 66 tfor:TF0144|3end_hypothetical_protein_151483..151633_POSITIVE 264 87 42 135 85 tfor:TF1663|3end_ABC_transporter,_permease_component_1778755..1778905_POSITIVE 263 87 51 55 3 tfor:TF3033|3end_S1_RNA_binding_domain_protein,_S1_ribosomal_protein_3258983..3259133_POSITIVE 259 86 44 61 24 tfor:TF0609|3end_conserved_hypothetical_protein_642813..642963_POSITIVE 258 87 41 58 12 tfor:TF1461|3end_DNA-damage-inducible_protein_F_1552253..1552403_POSITIVE 258 87 56 46 16 tfor:TF0980|3end_outer_membrane_TonB-dependent_receptor_1038122..1038272_POSITIVE 257 79 42 68 20 tfor:TF2344|3end_ATP/GTP_binding_protein_2508434..2508584_POSITIVE 257 87 48 53 13 tfor:TF1249|3end_phosphoglycerate_kinase_(cytosolic_phosphoglycerate_kinase)_1332356..1332506_POSITIVE 257 87 53 141 106 tfor:TF0994|3end_maltose_O-acetyltransferase_1049782..1049932_POSITIVE