Origin IGS: taaatcgttcatgatcaaccactcttttttaccttgtgttaattcctctcacagatggcttgttccttgattttatttctatctttgccccaacgtatttattaattaacaacataattaaaagagct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agctcttttaattatgttgttaattaataaatacgttggggcaaagatagaaataaaatcaaggaacaagccatctgtgagaggaattaacacaaggtaaaaaagagtggttgatcatgaacgattta Mask Tandem Repeat Region ================================================ taaatcgttcatgatcaaccactcttttttaccttgtgttaattcctctcacagatggcttgttccttgattttatttctatctttgccccaacgtatttattaattaacaacataattaaaagagct Find is-nt database================================================ Query_seq: TF1210:TF1211|TF1210:TF1211:conserved hypothetical protein:phosphoserine aminotransferase:->->:1298712..1298839 128 taaatcgttcatgatcaaccactcttttttaccttgtgttaattcctctcacagatggcttgttccttgattttatttctatctttgccccaacgtatttattaattaacaacataattaaaagagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1210:TF1211|TF1210:TF1211:conserved hypothetical protein:phosphoserine aminotransferase:->->:1298712..1298839 128 taaatcgttcatgatcaaccactcttttttaccttgtgttaattcctctcacagatggcttgttccttgattttatttctatctttgccccaacgtatttattaattaacaacataattaaaagagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1210:TF1211|TF1210:TF1211:conserved hypothetical protein:phosphoserine aminotransferase:->->:1298712..1298839 128 taaatcgttcatgatcaaccactcttttttaccttgtgttaattcctctcacagatggcttgttccttgattttatttctatctttgccccaacgtatttattaattaacaacataattaaaagagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaatcgttcatgatcaaccactcttttttaccttgtgttaattcctctcacagatggcttgttccttgattttatttctatctttgccccaacgtatttattaattaacaacataattaaaagagct Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 36 End: 128 ................................... M L I P L T D G L F L D F I S I F A P T Y L L I N N I I K R A taaatcgttcatgatcaaccactcttttttaccttgtgttaattcctctcacagatggcttgttccttgattttatttctatctttgccccaacgtatttattaattaacaacataattaaaagagct 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================================================ taaatcgttcatgatcaaccactcttttttaccttgtgttaattcctctcacagatggcttgttccttgattttatttctatctttgccccaacgtatttattaattaacaacataattaaaagagct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1210:TF1211|TF1210:TF1211:conserved hypothetical protein:phosphoserine aminotransferase:->->:1298712..1298839 128 taaatcgttcatgatcaaccactcttttttaccttgtgttaattcctctcacagatggcttgttccttgattttatttctatctttgccccaacgtatttattaattaacaacataattaaaagagct Intra-Species Hit: Count: 1 Min: 1 Max: 128 Len: 128 Subject: tfor_TF1210_TF1211|conserved hypothetical protein:phosphoserine aminotransferase|POSITIVE:POSITIVE|[1298712,1298839]|128 HSP 1 e-value: 6.0E-67 bit: 254.0 Len: 128 Query Start:1 Query End:128 Subject Strand: POSITIVE Subject Start: 1 Subject End: 128 taaatcgttcatgatcaaccactcttttttaccttgtgttaattcctctcacagatggcttgttccttgattttatttctatctttgccccaacgtatttattaattaacaacataattaaaagagct taaatcgttcatgatcaaccactcttttttaccttgtgttaattcctctcacagatggcttgttccttgattttatttctatctttgccccaacgtatttattaattaacaacataattaaaagagct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUCGUUCAUGAUCAACCACUCUUUUUUACCUUGUGUUAAUUCCUCUCACAGAUGGCUUGUUCCUUGAUUUUAUUUCUAUCUUUGCCCCAACGUAUUUAUUAAUUAACAACAUAAUUAAAAGAGCU .....................(((((((......((((((((((.........(.(((...((.....(((.........)))...)).))).).........))))))).))).....))))))).. (-13.67) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCUCUUUUAAUUAUGUUGUUAAUUAAUAAAUACGUUGGGGCAAAGAUAGAAAUAAAAUCAAGGAACAAGCCAUCUGUGAGAGGAAUUAACACAAGGUAAAAAAGAGUGGUUGAUCAUGAACGAUUUA .((((((((.((..(((.(((((((..(...((((....(((.....((....))...((...))....)))...))))..)..))))))))))..))..))))))))....((((......)))).. (-19.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 97 60 119 81 tfor:TF1436|5end_phosphoglycolate_phosphatase_1521128..1521358_POSITIVE 298 65 22 198 158 tfor:TF2785|5end_RNA_polymerase_sigma_factor,_ECF_subfamily_(sigma-70)_2969277..2969507_POSITIVE 294 95 52 180 131 tfor:TF2183|5end_hypothetical_protein_2355362..2355592_POSITIVE 289 71 33 75 35 tfor:TF2833|5end_lipid_A_disaccharide_synthase_3023973..3024203_POSITIVE 285 95 53 175 137 tfor:TF2037|5end_conserved_hypothetical_protein;_possible_anaerobic_ribonucleoside-triphosphate_reductase_2196754..2196984_POSITIVE 283 96 54 212 159 tfor:TF2253|5end_conjugative_transposon_protein,_TraG_2424950..2425180_POSITIVE 278 101 61 138 96 tfor:TF0738|5end_conserved_hypothetical_protein_788643..788873_POSITIVE 268 90 48 196 148 tfor:TF2523|5end_NAD(P)H-flavin_oxidoreductase_2702114..2702344_POSITIVE 268 89 43 231 174 tfor:TF1426|5end_N-acetylymuramoylalanyl-D-glutamate-2,6-diaminopi_melate_ligase_1509873..1510103_POSITIVE 267 96 54 177 137 tfor:TF2161|5end_conserved_hypothetical_protein_2336972..2337202_POSITIVE 263 69 21 211 163 tfor:TF2536|5end_subtilisin-like_serine_protease_2719286..2719516_POSITIVE 260 91 56 181 141 tfor:TF3123|5end_dTDP-4-dehydrorhamnose_3,5-epimerase_3357775..3358005_POSITIVE 259 79 34 140 101 tfor:TF1196|5end_acetyl-coenzyme_A_synthetase_1279064..1279294_POSITIVE 255 95 53 129 89 tfor:TF0726|5end_ABC_transporter,_permease_component_777895..778125_POSITIVE 255 69 22 81 14 tfor:TF0542|5end_hypothetical_protein_571918..572148_POSITIVE 253 70 32 206 168 tfor:TF1866|5end_conserved_hypothetical_protein;_possible_transposase_2022272..2022502_POSITIVE 253 95 52 220 168 tfor:TF0894|5end_conserved_hypothetical_protein_942607..942837_POSITIVE 252 71 32 181 139 tfor:TF1488|5end_conserved_hypothetical_protein_1588464..1588694_POSITIVE 251 73 32 114 64 tfor:TF2881|5end_conserved_hypothetical_protein_3071581..3071811_POSITIVE 247 100 51 173 123 tfor:TF2891|5end_lipoprotein_3078762..3078992_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 97 60 55 17 tfor:TF1435|3end_acetate_coenzyme_A_transferase_1521144..1521294_POSITIVE 298 65 22 138 98 tfor:TF2783|3end_aminotransferase,_PatB_family_2969297..2969447_POSITIVE 294 95 52 138 89 tfor:TF2182|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_2355400..2355550_POSITIVE 268 90 48 131 83 tfor:TF2522|3end_deoxyuridine_5'-triphosphate_nucleotidohydrolase_(dUTPase)_2702129..2702279_POSITIVE 260 91 56 69 29 tfor:TF3122|3end_ABC_transporter,_ATP-binding_protein_3357743..3357893_POSITIVE 255 95 53 67 27 tfor:TF0725|3end_O-acetylhomoserine_(thiol)-lyase_777913..778063_POSITIVE 251 73 32 83 33 tfor:TF2880|3end_phenylalanyl-tRNA_synthetase,_beta_subunit_3071630..3071780_POSITIVE 246 70 21 146 90 tfor:TF1776|3end_urocanate_hydratase_1916725..1916875_POSITIVE 244 96 55 78 38 tfor:TF0664|3end_small_protein_B_(SMPB)_709570..709720_POSITIVE 240 86 41 106 54 tfor:TF2338|3end_conserved_hypothetical_protein_2500006..2500156_POSITIVE 240 70 22 100 35 tfor:TF1841|3end_hypothetical_protein_1992267..1992417_POSITIVE 233 71 32 117 64 tfor:TF2220|3end_CTn_integrase-recombinase_protein_2393853..2394003_POSITIVE 231 52 11 151 118 tfor:TF2676|3end_conserved_hypothetical_protein_2850831..2850981_POSITIVE 231 90 43 105 62 tfor:TF0450|3end_rhomboid_family_membrane_protein_470181..470331_POSITIVE 228 67 32 146 117 tfor:TF1487|3end_orotate_phosphoribosyltransferase_1588522..1588672_POSITIVE 226 88 43 110 65 tfor:TF0499|3end_hypothetical_protein_526651..526801_POSITIVE 225 59 12 126 75 tfor:TF2483|3end_hypothetical_protein_2660022..2660172_POSITIVE 224 53 12 127 76 tfor:TF1558|3end_possible_heme_biosynthesis_protein_1665959..1666109_POSITIVE 221 90 51 142 104 tfor:TF3163|3end_conserved_hypothetical_protein_3403717..3403867_POSITIVE 221 40 4 98 61 tfor:TF1043|3end_conserved_hypothetical_protein;_possible_hydrolase_1106633..1106783_POSITIVE