Origin IGS: aatattaaccttaagaattcgtgaaaaacagggaaaaaattggcgcttatgttaccttattgagggtattttttctagtttaatcatagtttagacatttttaacttaacagataaaggcgggagtgattaaatatagcgaactaatttgctacattagaaaggacgacatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatgtcgtcctttctaatgtagcaaattagttcgctatatttaatcactcccgcctttatctgttaagttaaaaatgtctaaactatgattaaactagaaaaaataccctcaataaggtaacataagcgccaattttttccctgtttttcacgaattcttaaggttaatatt Mask Tandem Repeat Region ================================================ aatattaaccttaagaattcgtgaaaaacagggaaaaaattggcgcttatgttaccttattgagggtattttttctagtttaatcatagtttagacatttttaacttaacagataaaggcgggagtgattaaatatagcgaactaatttgctacattagaaaggacgacatt Find is-nt database================================================ Query_seq: AA00717:AA00718|AA00717:AA00718:methionyl-tRNA synthetase:ABC-related ATP-binding protein; MRP protein:->->:493502..493673 172 aatattaaccttaagaattcgtgaaaaacagggaaaaaattggcgcttatgttaccttattgagggtattttttctagtttaatcatagtttagacatttttaacttaacagataaaggcgggagtgattaaatatagcgaactaatttgctacattagaaaggacgacatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00717:AA00718|AA00717:AA00718:methionyl-tRNA synthetase:ABC-related ATP-binding protein; MRP protein:->->:493502..493673 172 aatattaaccttaagaattcgtgaaaaacagggaaaaaattggcgcttatgttaccttattgagggtattttttctagtttaatcatagtttagacatttttaacttaacagataaaggcgggagtgattaaatatagcgaactaatttgctacattagaaaggacgacatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00717:AA00718|AA00717:AA00718:methionyl-tRNA synthetase:ABC-related ATP-binding protein; MRP protein:->->:493502..493673 172 aatattaaccttaagaattcgtgaaaaacagggaaaaaattggcgcttatgttaccttattgagggtattttttctagtttaatcatagtttagacatttttaacttaacagataaaggcgggagtgattaaatatagcgaactaatttgctacattagaaaggacgacatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatattaaccttaagaattcgtgaaaaacagggaaaaaattggcgcttatgttaccttattgagggtattttttctagtttaatcatagtttagacatttttaacttaacagataaaggcgggagtgattaaatatagcgaactaatttgctacattagaaaggacgacatt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 2 End: 91 . M L T L R I R E K Q G K N W R L C Y L I E G I F S S L I I V ................................................................................. aatattaaccttaagaattcgtgaaaaacagggaaaaaattggcgcttatgttaccttattgagggtattttttctagtttaatcatagtttagacatttttaacttaacagataaaggcgggagtgattaaatatagcgaactaatttgctacattagaaaggacgacatt 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================================================ aatattaaccttaagaattcgtgaaaaacagggaaaaaattggcgcttatgttaccttattgagggtattttttctagtttaatcatagtttagacatttttaacttaacagataaaggcgggagtgattaaatatagcgaactaatttgctacattagaaaggacgacatt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 78 HP_score: -4.0 Tail_Score: -5.42265 Start: 53 End: 68 Full_Region: AATTGGCGCTTATGT TACCTT ATTG AGGGTA TTTTTTCTAGTTTAA ....................................................TACCTTATTGAGGGTA........................................................................................................ Find igs database================================================ Query_seq: AA00717:AA00718|AA00717:AA00718:methionyl-tRNA synthetase:ABC-related ATP-binding protein; MRP protein:->->:493502..493673 172 aatattaaccttaagaattcgtgaaaaacagggaaaaaattggcgcttatgttaccttattgagggtattttttctagtttaatcatagtttagacatttttaacttaacagataaaggcgggagtgattaaatatagcgaactaatttgctacattagaaaggacgacatt Intra-Species Hit: Count: 1 Min: 1 Max: 172 Len: 172 Subject: aact_AA00717_AA00718|methionyl-tRNA synthetase:ABC-related ATP-binding protein; MRP protein|POSITIVE:POSITIVE|[493502,493673]|172 HSP 1 e-value: 5.0E-93 bit: 341.0 Len: 172 Query Start:1 Query End:172 Subject Strand: POSITIVE Subject Start: 1 Subject End: 172 aatattaaccttaagaattcgtgaaaaacagggaaaaaattggcgcttatgttaccttattgagggtattttttctagtttaatcatagtttagacatttttaacttaacagataaaggcgggagtgattaaatatagcgaactaatttgctacattagaaaggacgacatt aatattaaccttaagaattcgtgaaaaacagggaaaaaattggcgcttatgttaccttattgagggtattttttctagtttaatcatagtttagacatttttaacttaacagataaaggcgggagtgattaaatatagcgaactaatttgctacattagaaaggacgacatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAUUAACCUUAAGAAUUCGUGAAAAACAGGGAAAAAAUUGGCGCUUAUGUUACCUUAUUGAGGGUAUUUUUUCUAGUUUAAUCAUAGUUUAGACAUUUUUAACUUAACAGAUAAAGGCGGGAGUGAUUAAAUAUAGCGAACUAAUUUGCUACAUUAGAAAGGACGACAUU ........((((........((((.((((..(((((((((..((.((((...........)))).))))))))))).))))..)))).((((((.(((((((..(((........)))..))))))).)))))).(((((((....))))))).......))))........ (-30.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGUCGUCCUUUCUAAUGUAGCAAAUUAGUUCGCUAUAUUUAAUCACUCCCGCCUUUAUCUGUUAAGUUAAAAAUGUCUAAACUAUGAUUAAACUAGAAAAAAUACCCUCAAUAAGGUAACAUAAGCGCCAAUUUUUUCCCUGUUUUUCACGAAUUCUUAAGGUUAAUAUU (((((...((((...((((((((..........))))))))..........(((.....((((((.(((((...............))))).))).))).....((((........))))......)))...............................))))...))))) (-17.56) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 276 68 22 163 115 aact:AA01008|5end_mazG_beta-lactamase_regulatory_protein_homolog_703470..703700_POSITIVE 272 71 35 150 113 aact:AA02866|5end_lactoylglutathione_lyase_2012624..2012854_POSITIVE 255 68 40 174 143 aact:AA02120|5end_nonheme_ferritin_1447181..1447411_POSITIVE 249 68 25 165 124 aact:AA00383|5end_chloride_channel_protein_258894..259124_POSITIVE 247 58 11 191 140 aact:AA00174|5end_ribosomal_protein_L11_methyltransferase_123072..123302_POSITIVE 247 58 11 87 36 aact:AA00173|5end_hypothetical_protein_122968..123198_POSITIVE 245 140 93 115 63 aact:AA00359|5end_50S_ribosomal_protein_L29_244232..244462_POSITIVE 241 68 22 62 18 aact:AA02362|5end_conserved_hypothetical_protein_1619905..1620135_POSITIVE 239 76 39 216 174 aact:AA01991|5end_conserved_hypothetical_protein_(possible_nitroreductase)_1352372..1352602_POSITIVE 235 55 13 118 55 aact:AA01588|5end_N-acetylmuramoyl-L-alanine_amidase_II_1068816..1069046_POSITIVE 235 141 107 117 92 aact:AA01111|5end_conserved_hypothetical_protein_764765..764995_POSITIVE 235 66 29 57 19 aact:AA00367|5end_50S_ribosomal_protein_L23_247057..247287_POSITIVE 235 66 21 131 74 aact:AA00004|5end_conserved_hypothetical_protein_(possible_methyltransferase)_3463..3693_POSITIVE 233 152 118 163 124 aact:AA01811|5end_electron_transport_complex_protein_1220336..1220566_POSITIVE 231 155 116 132 80 aact:AA02856|5end_aspartyl-tRNA_synthetase_2002684..2002914_POSITIVE 228 89 44 94 50 aact:AA00381|5end_ornithine_carbamoyltransferase_257470..257700_POSITIVE 223 151 114 107 72 aact:AA00266|5end_conserved_hypothetical_protein_(probable_metabolite_transport_protein)_186634..186864_POSITIVE 223 77 38 42 8 aact:AA00106|5end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase_75544..75774_POSITIVE 221 153 112 90 44 aact:AA02142|5end_outer_membrane_protein_OprM_precursor_1466037..1466267_POSITIVE 221 56 28 66 25 aact:AA01249|5end_conserved_hypothetical_protein_(possible_phosphoesterase)_849987..850217_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 276 68 22 59 11 aact:AA01006|3end_conserved_hypothetical_protein_(possible_cytosine_deaminas)_703446..703596_POSITIVE 249 68 25 76 35 aact:AA00382|3end_hypothetical_protein_258885..259035_POSITIVE 245 140 93 112 60 aact:AA00358|3end_30S_ribosomal_protein_S17_244309..244459_POSITIVE 235 55 13 115 52 aact:AA01586|3end_DNA_mismatch_repair_protein_1068893..1069043_POSITIVE 235 66 21 78 21 aact:AA00003|3end_DNA_replication_and_repair_protein_3490..3640_POSITIVE 234 95 57 123 88 aact:AA01904|3end_hypothetical_protein_1285049..1285199_POSITIVE 228 89 44 81 37 aact:AA00380|3end_carbamate_kinase_257537..257687_POSITIVE 226 73 32 42 3 aact:AA00366|3end_50S_ribosomal_protein_L2_247113..247263_POSITIVE 221 153 112 67 21 aact:AA02141|3end_ABC_transporter,_permease_protein_1466094..1466244_POSITIVE 218 58 13 103 59 aact:AA02727|3end_hypothetical_protein_1909925..1910075_POSITIVE 216 55 21 49 16 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 215 59 18 38 2 aact:AA00227|3end_hypothetical_sequence_156642..156792_POSITIVE 213 140 93 132 81 aact:AA02705|3end_hypothetical_protein_1886928..1887078_POSITIVE 213 67 27 132 95 aact:AA00801|3end_lysine--tRNA_ligase_549539..549689_POSITIVE 212 145 116 146 113 aact:AA02143|3end_hypothetical_protein_1467641..1467791_POSITIVE 212 80 31 131 93 aact:AA01393|3end_ABC_transporter,_ATP-binding_protein_942029..942179_POSITIVE 211 127 81 135 89 aact:AA02379|3end_hypothetical_protein_1628123..1628273_POSITIVE 211 157 119 136 98 aact:AA01046|3end_conserved_hypothetical_protein_729280..729430_POSITIVE 211 160 119 72 27 aact:AA00443|3end_hypothetical_protein_308796..308946_POSITIVE 210 66 21 150 98 aact:AA00519|3end_O-acetyltransferase_357821..357971_POSITIVE