Origin IGS: ctttcgctccttaaatcactaccggcaattaggatactttcatttgtaacaaaaaaaaacttcattcttcgcaaaatgtttagatttttgaactcggtcacaaaagtttgtgacattacgtaaaccggtcatagaccatagaaatataacgaagtataaacaaaaaaagtgcggtcggttttcagattgtttttcgggtatgaaaaacgtctggaaaaccgaccgcacttttacctttactaaaatta .........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 taattttagtaaaggtaaaagtgcggtcggttttccagacgtttttcatacccgaaaaacaatctgaaaaccgaccgcactttttttgtttatacttcgttatatttctatggtctatgaccggtttacgtaatgtcacaaacttttgtgaccgagttcaaaaatctaaacattttgcgaagaatgaagtttttttttgttacaaatgaaagtatcctaattgccggtagtgatttaaggagcgaaag Mask Tandem Repeat Region ================================================ ctttcgctccttaaatcactaccggcaattaggatactttcatttgtaacaaaaaaaaacttcattcttcgcaaaatgtttagatttttgaactcggtcacaaaagtttgtgacattacgtaaaccggtcatagaccatagaaatataacgaagtataaacaaaaaaagtgcggtcggttttcagattgtttttcgggtatgaaaaacgtctggaaaaccgaccgcacttttacctttactaaaatta Find is-nt database================================================ Query_seq: AA00817:AA00819|AA00817:AA00819:MutT-family protein:D-alanyl-D-alanine carboxypeptidase:->->:562536..562783 248 ctttcgctccttaaatcactaccggcaattaggatactttcatttgtaacaaaaaaaaacttcattcttcgcaaaatgtttagatttttgaactcggtcacaaaagtttgtgacattacgtaaaccggtcatagaccatagaaatataacgaagtataaacaaaaaaagtgcggtcggttttcagattgtttttcgggtatgaaaaacgtctggaaaaccgaccgcacttttacctttactaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00817:AA00819|AA00817:AA00819:MutT-family protein:D-alanyl-D-alanine carboxypeptidase:->->:562536..562783 248 ctttcgctccttaaatcactaccggcaattaggatactttcatttgtaacaaaaaaaaacttcattcttcgcaaaatgtttagatttttgaactcggtcacaaaagtttgtgacattacgtaaaccggtcatagaccatagaaatataacgaagtataaacaaaaaaagtgcggtcggttttcagattgtttttcgggtatgaaaaacgtctggaaaaccgaccgcacttttacctttactaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00817:AA00819|AA00817:AA00819:MutT-family protein:D-alanyl-D-alanine carboxypeptidase:->->:562536..562783 248 ctttcgctccttaaatcactaccggcaattaggatactttcatttgtaacaaaaaaaaacttcattcttcgcaaaatgtttagatttttgaactcggtcacaaaagtttgtgacattacgtaaaccggtcatagaccatagaaatataacgaagtataaacaaaaaaagtgcggtcggttttcagattgtttttcgggtatgaaaaacgtctggaaaaccgaccgcacttttacctttactaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttcgctccttaaatcactaccggcaattaggatactttcatttgtaacaaaaaaaaacttcattcttcgcaaaatgtttagatttttgaactcggtcacaaaagtttgtgacattacgtaaaccggtcatagaccatagaaatataacgaagtataaacaaaaaaagtgcggtcggttttcagattgtttttcgggtatgaaaaacgtctggaaaaccgaccgcacttttacctttactaaaatta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 28 End: 120 ........................... M R I L S F V T K K N F I L R K M F R F L N S V T K V C D I T ................................................................................................................................ Protein_Len: 46 Strand: + Start: 110 End: 247 ............................................................................................................. M T L R K P V I D H R N I T K Y K Q K K C G R F S D C F S G M K N V W K T D R T F T F T K I . Protein_Len: 60 Strand: - Start: 43 End: 246 .......................................... K A F H K S K Q V R D C F N T V N R L G T M S W L F I V F Y L C F F H P R N E S Q K E P I F F T Q F V S R V K V K V L M .. Protein_Len: 38 Strand: - Start: 3 End: 116 .. E S R L D S G A I L I S E N T V F F F K M R R L I N L N K F E T V F T Q S M .................................................................................................................................... ctttcgctccttaaatcactaccggcaattaggatactttcatttgtaacaaaaaaaaacttcattcttcgcaaaatgtttagatttttgaactcggtcacaaaagtttgtgacattacgtaaaccggtcatagaccatagaaatataacgaagtataaacaaaaaaagtgcggtcggttttcagattgtttttcgggtatgaaaaacgtctggaaaaccgaccgcacttttacctttactaaaatta 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================================================ ctttcgctccttaaatcactaccggcaattaggatactttcatttgtaacaaaaaaaaacttcattcttcgcaaaatgtttagatttttgaactcggtcacaaaagtttgtgacattacgtaaaccggtcatagaccatagaaatataacgaagtataaacaaaaaaagtgcggtcggttttcagattgtttttcgggtatgaaaaacgtctggaaaaccgaccgcacttttacctttactaaaatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -11.5 Tail_Score: -6.02919 Start: 169 End: 227 Full_Region: tagtaaaggtaaaag tgcggtcggttttccagacgtttttc ataccc gaaaaacaatctgaaaaccgaccgcac tttttttgtttatac ........................................................................................................................................................................tgcggtcggttttccagacgtttttcatacccgaaaaacaatctgaaaaccgaccgcac..................... TransTerm Strand: + Conf: 100 HP_score: -20.4 Tail_Score: -3.21904 Start: 170 End: 227 Full_Region: TATAAACAAAAAAAG TGCGGTCGGTTTTCAGATTGTTTTTCG GGTA TGAAAAACGTCTGGAAAACCGACCGCA CTTTTACCTTTACTA .........................................................................................................................................................................TGCGGTCGGTTTTCAGATTGTTTTTCGGGTATGAAAAACGTCTGGAAAACCGACCGCA..................... TransTerm Strand: + Conf: 100 HP_score: -14.4 Tail_Score: -4.37711 Start: 170 End: 228 Full_Region: TATAAACAAAAAAAG TGCGGTCGGTTTTCAGATTGTTTTTCG GGTA TGAAAAACGTCTGGAAAACCGACCGCAC TTTTACCTTTACTAA .........................................................................................................................................................................TGCGGTCGGTTTTCAGATTGTTTTTCGGGTATGAAAAACGTCTGGAAAACCGACCGCAC.................... TransTerm Strand: - Conf: 100 HP_score: -17.5 Tail_Score: -4.19311 Start: 170 End: 227 Full_Region: tagtaaaggtaaaag tgcggtcggttttccagacgtttttc ataccc gaaaaacaatctgaaaaccgaccgca ctttttttgtttata .........................................................................................................................................................................tgcggtcggttttccagacgtttttcatacccgaaaaacaatctgaaaaccgaccgca..................... Find igs database================================================ Query_seq: AA00817:AA00819|AA00817:AA00819:MutT-family protein:D-alanyl-D-alanine carboxypeptidase:->->:562536..562783 248 ctttcgctccttaaatcactaccggcaattaggatactttcatttgtaacaaaaaaaaacttcattcttcgcaaaatgtttagatttttgaactcggtcacaaaagtttgtgacattacgtaaaccggtcatagaccatagaaatataacgaagtataaacaaaaaaagtgcggtcggttttcagattgtttttcgggtatgaaaaacgtctggaaaaccgaccgcacttttacctttactaaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 248 Len: 248 Subject: aact_AA00817_AA00819|MutT-family protein:D-alanyl-D-alanine carboxypeptidase|POSITIVE:POSITIVE|[562536,562783]|248 HSP 1 e-value: 1.0E-109 bit: 396.0 Len: 248 Query Start:1 Query End:248 Subject Strand: POSITIVE Subject Start: 1 Subject End: 248 ctttcgctccttaaatcactaccggcaattaggatactttcatttgtaacnnnnnnnnncttcattcttcgcaaaatgtttagatttttgaactcggtcacaaaagtttgtgacattacgtaaaccggtcatagaccatagaaatataacgaagtataaacnnnnnnngtgcggtcggttttcagattgtttttcgggtatgaaaaacgtctggaaaaccgaccgcacttttacctttactaaaatta ctttcgctccttaaatcactaccggcaattaggatactttcatttgtaacaaaaaaaaacttcattcttcgcaaaatgtttagatttttgaactcggtcacaaaagtttgtgacattacgtaaaccggtcatagaccatagaaatataacgaagtataaacaaaaaaagtgcggtcggttttcagattgtttttcgggtatgaaaaacgtctggaaaaccgaccgcacttttacctttactaaaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUCGCUCCUUAAAUCACUACCGGCAAUUAGGAUACUUUCAUUUGUAACAAAAAAAAACUUCAUUCUUCGCAAAAUGUUUAGAUUUUUGAACUCGGUCACAAAAGUUUGUGACAUUACGUAAACCGGUCAUAGACCAUAGAAAUAUAACGAAGUAUAAACAAAAAAAGUGCGGUCGGUUUUCAGAUUGUUUUUCGGGUAUGAAAAACGUCUGGAAAACCGACCGCACUUUUACCUUUACUAAAAUUA .....(((...............)))..((((.(((((((.....((((...........((((.(((..((.....))..)))....))))....(((((((....))))))).)))).......((((...)))).............))))))).......(((((((((((((((((((((((.((((((((....)))))))))))).))))))))))))))))))).......))))..... (-67.66) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUUAGUAAAGGUAAAAGUGCGGUCGGUUUUCCAGACGUUUUUCAUACCCGAAAAACAAUCUGAAAACCGACCGCACUUUUUUUGUUUAUACUUCGUUAUAUUUCUAUGGUCUAUGACCGGUUUACGUAAUGUCACAAACUUUUGUGACCGAGUUCAAAAAUCUAAACAUUUUGCGAAGAAUGAAGUUUUUUUUUGUUACAAAUGAAAGUAUCCUAAUUGCCGGUAGUGAUUUAAGGAGCGAAAG ........(((((.(.(((((((((((((((((((.(((.(((((((......)))))))..))))))))))))))))))))))..).)))))..(((((.....((((..((((....((((((.(((.....(((((((....)))))))..................(((((.((((((((........))))))))...)))))...)))........))))))...))))..))))))))).. (-74.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 471 234 195 180 139 aact:AA02144|5end_iron_(III)_ABC_transporter,_permease_protein_1467583..1467813_POSITIVE 467 239 191 160 110 aact:AA00300|5end_conserved_hypothetical_protein_203785..204015_POSITIVE 464 239 194 140 96 aact:AA00454|5end_conserved_hypothetical_protein_318020..318250_POSITIVE 458 230 183 121 74 aact:AA01537|5end_possible_glucokinase_regulatory_protein_1030616..1030846_POSITIVE 451 232 196 165 121 aact:AA02249|5end_thiamine_biosynthesis_protein_1528365..1528595_POSITIVE 445 232 191 177 135 aact:AA01564|5end_transaldolase_B_1049099..1049329_POSITIVE 444 220 171 186 137 aact:AA01471|5end_type_I_restriction_enzyme_M_(modification_chain)_987321..987551_POSITIVE 441 202 164 193 156 aact:AA02261|5end_30S_ribosomal_protein_S9_1538013..1538243_POSITIVE 437 239 201 230 191 aact:AA01424|5end_threonine_deaminase_(dehydratase)_957740..957970_POSITIVE 432 231 192 40 1 aact:AA00107|5end_histidyl-tRNA_synthetase_76699..76929_POSITIVE 426 239 195 129 87 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 426 235 195 172 134 aact:AA01458|5end_aminotransferase_978820..979050_POSITIVE 423 240 191 212 162 aact:AA02944|5end_30S_ribosomal_protein_S20_2058688..2058918_POSITIVE 423 240 191 59 9 aact:AA02941|5end_hypothetical_protein_2058535..2058765_POSITIVE 405 233 191 217 173 aact:AA00711|5end_conserved_hypothetical_protein_487893..488123_POSITIVE 399 210 164 147 100 aact:AA02418|5end_peptidyl-tRNA_hydrolase_1661090..1661320_POSITIVE 397 230 189 211 174 aact:AA00347|5end_50S_ribosomal_protein_L11_232137..232367_POSITIVE 391 230 188 119 77 aact:AA02106|5end_hypothetical_protein_1433241..1433471_POSITIVE 389 239 195 116 74 aact:AA01008|5end_mazG_beta-lactamase_regulatory_protein_homolog_703470..703700_POSITIVE 382 235 203 155 122 aact:AA00324|5end_tRNA_(Uracil-5-)-methyltransferase_(tRNA(M-5-U54)-methyltransferase)_220147..220377_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 471 234 195 49 8 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 464 239 194 49 5 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 451 232 196 75 31 aact:AA02246|3end_peptidase_E_1528355..1528505_POSITIVE 441 202 164 62 25 aact:AA02260|3end_pseudouridylate_synthase_I_1537962..1538112_POSITIVE 437 239 201 90 51 aact:AA01423|3end_cell_division_protein_X,_ABC_system_permease_957680..957830_POSITIVE 427 232 193 41 1 aact:AA01563|3end_transketolase_isozyme_1_1049043..1049193_POSITIVE 426 235 195 80 42 aact:AA01457|3end_D-xylose_ABC_transporter,_membrane_spanning_protein_978808..978958_POSITIVE 423 240 191 96 46 aact:AA02940|3end_conserved_hypothetical_protein_2058652..2058802_POSITIVE 405 233 191 82 38 aact:AA00709|3end_metallocluster_assembly_(NifU_protein)_487838..487988_POSITIVE 397 230 189 52 15 aact:AA00345|3end_transcription_antitermination_protein_232058..232208_POSITIVE 391 230 188 88 46 aact:AA02105|3end_killing_protein_1433290..1433440_POSITIVE 382 235 203 150 117 aact:AA00323|3end_conserved_hypothetical_protein_(possible_SAM-dependent_methyltransferase)_220222..220372_POSITIVE 378 210 166 58 2 aact:AA00151|3end_polynucleotide_phosphorylase_111071..111221_POSITIVE 377 210 165 107 66 aact:AA01517|3end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_protein_1021791..1021941_POSITIVE 367 239 201 41 4 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 364 207 165 128 87 aact:AA00570|3end_hypothetical_protein_391785..391935_POSITIVE 362 227 195 151 117 aact:AA02143|3end_hypothetical_protein_1467641..1467791_POSITIVE 360 234 192 57 15 aact:AA02964|3end_opacity_associated_protein_A_2074128..2074278_POSITIVE 359 230 184 146 94 aact:AA01314|3end_hypothetical_protein_890196..890346_POSITIVE 358 231 196 50 14 aact:AA01313|3end_deoxyuridinetriphosphatase;_deoxyuridine_5'-triphosphate_nucleotidohydrolase_890099..890249_POSITIVE