Origin IGS: ttttagaataacgctcgaagaaaaatggggtccccctgtaagacgcccttatggaaatgcaatttttagctaaatttcgcctgtttgagcgaagcgagttcgaaatttagtgtgaagaaaattgtgttggaataaggataagcggcttatccggggtcgcctttcttttggttacttttctttggcgaagcaaagaaaaggagcttgtactaaacaatattgagtacgaaataccaaccttaacagaaaacaaacgatt .........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 aatcgtttgttttctgttaaggttggtatttcgtactcaatattgtttagtacaagctccttttctttgcttcgccaaagaaaagtaaccaaaagaaaggcgaccccggataagccgcttatccttattccaacacaattttcttcacactaaatttcgaactcgcttcgctcaaacaggcgaaatttagctaaaaattgcatttccataagggcgtcttacagggggaccccatttttcttcgagcgttattctaaaa Mask Tandem Repeat Region ================================================ ttttagaataacgctcgaagaaaaatggggtccccctgtaagacgcccttatggaaatgcaatttttagctaaatttcgcctgtttgagcgaagcgagttcgaaatttagtgtgaagaaaattgtgttggaataaggataagcggcttatccggggtcgcctttcttttggttacttttctttggcgaagcaaagaaaaggagcttgtactaaacaatattgagtacgaaataccaaccttaacagaaaacaaacgatt Find is-nt database================================================ Query_seq: AA00570:AA00573|AA00570:AA00573:hypothetical protein:chloramphenicol-sensitive protein RarD:->->:391846..392104 259 ttttagaataacgctcgaagaaaaatggggtccccctgtaagacgcccttatggaaatgcaatttttagctaaatttcgcctgtttgagcgaagcgagttcgaaatttagtgtgaagaaaattgtgttggaataaggataagcggcttatccggggtcgcctttcttttggttacttttctttggcgaagcaaagaaaaggagcttgtactaaacaatattgagtacgaaataccaaccttaacagaaaacaaacgatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00570:AA00573|AA00570:AA00573:hypothetical protein:chloramphenicol-sensitive protein RarD:->->:391846..392104 259 ttttagaataacgctcgaagaaaaatggggtccccctgtaagacgcccttatggaaatgcaatttttagctaaatttcgcctgtttgagcgaagcgagttcgaaatttagtgtgaagaaaattgtgttggaataaggataagcggcttatccggggtcgcctttcttttggttacttttctttggcgaagcaaagaaaaggagcttgtactaaacaatattgagtacgaaataccaaccttaacagaaaacaaacgatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00570:AA00573|AA00570:AA00573:hypothetical protein:chloramphenicol-sensitive protein RarD:->->:391846..392104 259 ttttagaataacgctcgaagaaaaatggggtccccctgtaagacgcccttatggaaatgcaatttttagctaaatttcgcctgtttgagcgaagcgagttcgaaatttagtgtgaagaaaattgtgttggaataaggataagcggcttatccggggtcgcctttcttttggttacttttctttggcgaagcaaagaaaaggagcttgtactaaacaatattgagtacgaaataccaaccttaacagaaaacaaacgatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttagaataacgctcgaagaaaaatggggtccccctgtaagacgcccttatggaaatgcaatttttagctaaatttcgcctgtttgagcgaagcgagttcgaaatttagtgtgaagaaaattgtgttggaataaggataagcggcttatccggggtcgcctttcttttggttacttttctttggcgaagcaaagaaaaggagcttgtactaaacaatattgagtacgaaataccaaccttaacagaaaacaaacgatt Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 122 End: 220 ......................................................................................................................... M C W N K D K R L I R G R L S F G Y F S L A K Q R K G A C T K Q Y ....................................... Protein_Len: 42 Strand: + Start: 132 End: 257 ................................................................................................................................... M R I S G L S G V A F L L V T F L W R S K E K E L V L N N I E Y E I P T L T E N K R .. Protein_Len: 48 Strand: - Start: 110 End: 253 ............................................................................................................. H S S F Q T P I L I L P K D P T A K R K T V K R Q R L L S F S S T S F L I S Y S I G V K V S F M ...... Protein_Len: 35 Strand: - Start: 2 End: 106 . K S Y R E F F F P T G R Y S A R I S I C N K A L N R R N S R L S N S M ......................................................................................................................................................... ttttagaataacgctcgaagaaaaatggggtccccctgtaagacgcccttatggaaatgcaatttttagctaaatttcgcctgtttgagcgaagcgagttcgaaatttagtgtgaagaaaattgtgttggaataaggataagcggcttatccggggtcgcctttcttttggttacttttctttggcgaagcaaagaaaaggagcttgtactaaacaatattgagtacgaaataccaaccttaacagaaaacaaacgatt 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================================================ ttttagaataacgctcgaagaaaaatggggtccccctgtaagacgcccttatggaaatgcaatttttagctaaatttcgcctgtttgagcgaagcgagttcgaaatttagtgtgaagaaaattgtgttggaataaggataagcggcttatccggggtcgcctttcttttggttacttttctttggcgaagcaaagaaaaggagcttgtactaaacaatattgagtacgaaataccaaccttaacagaaaacaaacgatt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 77 HP_score: -9.5 Tail_Score: -3.61517 Start: 136 End: 152 Full_Region: aagaaaggcgacccc ggataag ccg cttatcc ttattccaacacaat .......................................................................................................................................ggataagccgcttatcc........................................................................................................... Find igs database================================================ Query_seq: AA00570:AA00573|AA00570:AA00573:hypothetical protein:chloramphenicol-sensitive protein RarD:->->:391846..392104 259 ttttagaataacgctcgaagaaaaatggggtccccctgtaagacgcccttatggaaatgcaatttttagctaaatttcgcctgtttgagcgaagcgagttcgaaatttagtgtgaagaaaattgtgttggaataaggataagcggcttatccggggtcgcctttcttttggttacttttctttggcgaagcaaagaaaaggagcttgtactaaacaatattgagtacgaaataccaaccttaacagaaaacaaacgatt Intra-Species Hit: Count: 1 Min: 1 Max: 259 Len: 259 Subject: aact_AA00570_AA00573|hypothetical protein:chloramphenicol-sensitive protein RarD|POSITIVE:POSITIVE|[391846,392104]|259 HSP 1 e-value: 1.0E-145 bit: 513.0 Len: 259 Query Start:1 Query End:259 Subject Strand: POSITIVE Subject Start: 1 Subject End: 259 ttttagaataacgctcgaagaaaaatggggtccccctgtaagacgcccttatggaaatgcaatttttagctaaatttcgcctgtttgagcgaagcgagttcgaaatttagtgtgaagaaaattgtgttggaataaggataagcggcttatccggggtcgcctttcttttggttacttttctttggcgaagcaaagaaaaggagcttgtactaaacaatattgagtacgaaataccaaccttaacagaaaacaaacgatt ttttagaataacgctcgaagaaaaatggggtccccctgtaagacgcccttatggaaatgcaatttttagctaaatttcgcctgtttgagcgaagcgagttcgaaatttagtgtgaagaaaattgtgttggaataaggataagcggcttatccggggtcgcctttcttttggttacttttctttggcgaagcaaagaaaaggagcttgtactaaacaatattgagtacgaaataccaaccttaacagaaaacaaacgatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAGAAUAACGCUCGAAGAAAAAUGGGGUCCCCCUGUAAGACGCCCUUAUGGAAAUGCAAUUUUUAGCUAAAUUUCGCCUGUUUGAGCGAAGCGAGUUCGAAAUUUAGUGUGAAGAAAAUUGUGUUGGAAUAAGGAUAAGCGGCUUAUCCGGGGUCGCCUUUCUUUUGGUUACUUUUCUUUGGCGAAGCAAAGAAAAGGAGCUUGUACUAAACAAUAUUGAGUACGAAAUACCAACCUUAACAGAAAACAAACGAUU .(((((.((((.((((.((((((...((.(.((((..(((((.(((((((((...((((((((((((.(((((((((((.((((((.....)))).))..))))))))))).....))))))))))))...))))))....))).)))))..)))).).)))))))).......((((((((((......)))))))))))))))))).))))).....(((.(((.....))))))...................... (-74.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUCGUUUGUUUUCUGUUAAGGUUGGUAUUUCGUACUCAAUAUUGUUUAGUACAAGCUCCUUUUCUUUGCUUCGCCAAAGAAAAGUAACCAAAAGAAAGGCGACCCCGGAUAAGCCGCUUAUCCUUAUUCCAACACAAUUUUCUUCACACUAAAUUUCGAACUCGCUUCGCUCAAACAGGCGAAAUUUAGCUAAAAAUUGCAUUUCCAUAAGGGCGUCUUACAGGGGGACCCCAUUUUUCUUCGAGCGUUAUUCUAAAA ...((((((.............(((((.....(((((.(((...))).)))))......((((((((((......))))))))))..)))))..(.((((((.(((.(((((((...)))))))...........(((((((.......((((((((((.....................))))))))))...)))))))...........))))))))).).(((....))).........))))))........... (-57.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 647 47 1 206 162 aact:AA00239|5end_hypothetical_protein_171213..171443_POSITIVE 461 178 134 53 14 aact:AA00237|5end_hypothetical_protein_170934..171164_POSITIVE 411 207 176 32 1 aact:AA00042|5end_hypothetical_protein_33810..34040_POSITIVE 356 184 142 148 110 aact:AA00763|5end_hemoglobin_binding_protein_A_524976..525206_POSITIVE 343 160 114 113 62 aact:AA00862|5end_conserved_hypothetical_protein_596465..596695_POSITIVE 338 199 152 55 6 aact:AA02487|5end_hypothetical_protein_1726277..1726507_POSITIVE 334 190 142 228 180 aact:AA01183|5end_conserved_hypothetical_protein_810442..810672_POSITIVE 333 137 94 168 126 aact:AA02489|5end_hypothetical_protein_1726454..1726684_POSITIVE 331 200 152 170 120 aact:AA02491|5end_topoisomerase_IV,_subunit_A_1726827..1727057_POSITIVE 324 163 121 79 35 aact:AA02861|5end_conserved_hypothetical_protein_2007721..2007951_POSITIVE 322 200 152 192 144 aact:AA00241|5end_formate_acetyltransferase_activating_enzyme_(anaerobic_ribonucleoside-triphosphate_reductase_activating_protein)_171546..171776_POSITIVE 319 190 142 225 157 aact:AA02949|5end_hypothetical_protein_2061944..2062174_POSITIVE 314 187 141 103 50 aact:AA01056|5end_conserved_hypothetical_protein_733867..734097_POSITIVE 310 99 54 54 14 aact:AA01188|5end_conserved_hypothetical_protein_813912..814142_POSITIVE 306 189 143 206 151 aact:AA01314|5end_hypothetical_protein_890021..890251_POSITIVE 305 95 51 230 185 aact:AA01879|5end_glutamyl-tRNA_reductase_1265717..1265947_POSITIVE 304 172 135 154 103 aact:AA00959|5end_nitrate/nitrite_response_regulator_664596..664826_POSITIVE 304 71 31 120 84 aact:AA00570|5end_hypothetical_protein_391613..391843_POSITIVE 303 154 122 185 153 aact:AA00803|5end_hypothetical_protein_549526..549756_POSITIVE 302 159 121 56 14 aact:AA02090|5end_glucose-1-phosphate_adenylyltransferase_1423162..1423392_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 647 47 1 82 38 aact:AA00237|3end_hypothetical_protein_171169..171319_POSITIVE 493 168 127 110 67 aact:AA02727|3end_hypothetical_protein_1909925..1910075_POSITIVE 461 178 134 60 21 aact:AA00236|3end_anaerobic_ribonucleoside-triphosphate_reductase_171021..171171_POSITIVE 383 189 141 99 50 aact:AA02734|3end_leucine-responsive_regulatory_protein_1915692..1915842_POSITIVE 356 184 142 105 67 aact:AA00762|3end_hemoglobin_binding_protein_A_525013..525163_POSITIVE 319 190 142 75 7 aact:AA02947|3end_riboflavin_biosynthesis_protein_2061874..2062024_POSITIVE 315 187 143 136 96 aact:AA02202|3end_transferrin-binding_protein_1_precursor_1500543..1500693_POSITIVE 314 187 141 96 43 aact:AA01054|3end_conserved_hypothetical_protein_733940..734090_POSITIVE 310 99 54 54 14 aact:AA01187|3end_conserved_hypothetical_protein_813992..814142_POSITIVE 304 172 135 141 90 aact:AA00958|3end_adenylate_cyclase_664663..664813_POSITIVE 303 154 122 118 86 aact:AA00801|3end_lysine--tRNA_ligase_549539..549689_POSITIVE 302 187 142 116 65 aact:AA00789|3end_DNA_topoisomerase_III_542545..542695_POSITIVE 300 136 94 151 110 aact:AA02487|3end_hypothetical_protein_1726518..1726668_POSITIVE 298 170 124 82 29 aact:AA00740|3end_citrate_lyase_related_biosynthesis_protein_(2-(5'-triphosphoribosyl)-3'-dephosphocoenzyme-A_synthase)_506749..506899_POSITIVE 296 97 59 44 1 aact:AA01878|3end_hydroxyacylglutathione_hydrolase_1265609..1265759_POSITIVE 295 173 132 50 13 aact:AA01814|3end_endonuclease_III_1222593..1222743_POSITIVE 289 161 124 77 38 aact:AA02101|3end_penicillin-binding_protein_7_1431188..1431338_POSITIVE 288 60 13 133 75 aact:AA00196|3end_conserved_hypothetical_protein_138015..138165_POSITIVE 284 172 132 147 95 aact:AA01901|3end_hypothetical_protein_1282870..1283020_POSITIVE 281 162 126 73 34 aact:AA01987|3end_hypothetical_protein_1350620..1350770_POSITIVE