Origin IGS: attaacaccccaaaagtaagcaaaaatctcgaatcgcctgttcgcatcgccattttttccccgattttctttcgggctaatgcacggtcggactattgtattcctcctttacttctcttaacccattcaccttgtttttaaaagcgactgtgcgaagtttaaagaaaatcatataaatttgcagcaaaattaagaattatataaaaaacgtttaatggtcggttacgcgccgt .........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 acggcgcgtaaccgaccattaaacgttttttatataattcttaattttgctgcaaatttatatgattttctttaaacttcgcacagtcgcttttaaaaacaaggtgaatgggttaagagaagtaaaggaggaatacaatagtccgaccgtgcattagcccgaaagaaaatcggggaaaaaatggcgatgcgaacaggcgattcgagatttttgcttacttttggggtgttaat Mask Tandem Repeat Region ================================================ attaacaccccaaaagtaagcaaaaatctcgaatcgcctgttcgcatcgccattttttccccgattttctttcgggctaatgcacggtcggactattgtattcctcctttacttctcttaacccattcaccttgtttttaaaagcgactgtgcgaagtttaaagaaaatcatataaatttgcagcaaaattaagaattatataaaaaacgtttaatggtcggttacgcgccgt Find is-nt database================================================ Query_seq: TF1948:TF1949|TF1948:TF1949:conserved hypothetical protein:leucyl-tRNA synthetase:->->:2096856..2097088 233 attaacaccccaaaagtaagcaaaaatctcgaatcgcctgttcgcatcgccattttttccccgattttctttcgggctaatgcacggtcggactattgtattcctcctttacttctcttaacccattcaccttgtttttaaaagcgactgtgcgaagtttaaagaaaatcatataaatttgcagcaaaattaagaattatataaaaaacgtttaatggtcggttacgcgccgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1948:TF1949|TF1948:TF1949:conserved hypothetical protein:leucyl-tRNA synthetase:->->:2096856..2097088 233 attaacaccccaaaagtaagcaaaaatctcgaatcgcctgttcgcatcgccattttttccccgattttctttcgggctaatgcacggtcggactattgtattcctcctttacttctcttaacccattcaccttgtttttaaaagcgactgtgcgaagtttaaagaaaatcatataaatttgcagcaaaattaagaattatataaaaaacgtttaatggtcggttacgcgccgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1948:TF1949|TF1948:TF1949:conserved hypothetical protein:leucyl-tRNA synthetase:->->:2096856..2097088 233 attaacaccccaaaagtaagcaaaaatctcgaatcgcctgttcgcatcgccattttttccccgattttctttcgggctaatgcacggtcggactattgtattcctcctttacttctcttaacccattcaccttgtttttaaaagcgactgtgcgaagtttaaagaaaatcatataaatttgcagcaaaattaagaattatataaaaaacgtttaatggtcggttacgcgccgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attaacaccccaaaagtaagcaaaaatctcgaatcgcctgttcgcatcgccattttttccccgattttctttcgggctaatgcacggtcggactattgtattcctcctttacttctcttaacccattcaccttgtttttaaaagcgactgtgcgaagtttaaagaaaatcatataaatttgcagcaaaattaagaattatataaaaaacgtttaatggtcggttacgcgccgt Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 26 End: 118 ......................... M S N R L F A S P F F P R F S F G L M H G R T I V F L L Y F S ................................................................................................................... Protein_Len: 46 Strand: + Start: 1 End: 138 M N T P K V S K N L E S P V R I A I F S P I F F R A N A R S D Y C I P P L L L L T H S P C F ............................................................................................... Protein_Len: 37 Strand: - Start: 80 End: 190 ............................................................................... H V T P S N Y E E K V E R L G N V K N K F A V T R L K F F I M Y I Q L L M ........................................... Protein_Len: 32 Strand: - Start: 1 End: 96 N V G W F Y A F I E F R R N A D G N K G R N E K P S I C P R V M ......................................................................................................................................... attaacaccccaaaagtaagcaaaaatctcgaatcgcctgttcgcatcgccattttttccccgattttctttcgggctaatgcacggtcggactattgtattcctcctttacttctcttaacccattcaccttgtttttaaaagcgactgtgcgaagtttaaagaaaatcatataaatttgcagcaaaattaagaattatataaaaaacgtttaatggtcggttacgcgccgt 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================================================ attaacaccccaaaagtaagcaaaaatctcgaatcgcctgttcgcatcgccattttttccccgattttctttcgggctaatgcacggtcggactattgtattcctcctttacttctcttaacccattcaccttgtttttaaaagcgactgtgcgaagtttaaagaaaatcatataaatttgcagcaaaattaagaattatataaaaaacgtttaatggtcggttacgcgccgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1948:TF1949|TF1948:TF1949:conserved hypothetical protein:leucyl-tRNA synthetase:->->:2096856..2097088 233 attaacaccccaaaagtaagcaaaaatctcgaatcgcctgttcgcatcgccattttttccccgattttctttcgggctaatgcacggtcggactattgtattcctcctttacttctcttaacccattcaccttgtttttaaaagcgactgtgcgaagtttaaagaaaatcatataaatttgcagcaaaattaagaattatataaaaaacgtttaatggtcggttacgcgccgt Intra-Species Hit: Count: 1 Min: 1 Max: 233 Len: 233 Subject: tfor_TF1948_TF1949|conserved hypothetical protein:leucyl-tRNA synthetase|POSITIVE:POSITIVE|[2096856,2097088]|233 HSP 1 e-value: 1.0E-129 bit: 462.0 Len: 233 Query Start:1 Query End:233 Subject Strand: POSITIVE Subject Start: 1 Subject End: 233 attaacaccccaaaagtaagcaaaaatctcgaatcgcctgttcgcatcgccattttttccccgattttctttcgggctaatgcacggtcggactattgtattcctcctttacttctcttaacccattcaccttgtttttaaaagcgactgtgcgaagtttaaagaaaatcatataaatttgcagcaaaattaagaattatataaaaaacgtttaatggtcggttacgcgccgt attaacaccccaaaagtaagcaaaaatctcgaatcgcctgttcgcatcgccattttttccccgattttctttcgggctaatgcacggtcggactattgtattcctcctttacttctcttaacccattcaccttgtttttaaaagcgactgtgcgaagtttaaagaaaatcatataaatttgcagcaaaattaagaattatataaaaaacgtttaatggtcggttacgcgccgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAACACCCCAAAAGUAAGCAAAAAUCUCGAAUCGCCUGUUCGCAUCGCCAUUUUUUCCCCGAUUUUCUUUCGGGCUAAUGCACGGUCGGACUAUUGUAUUCCUCCUUUACUUCUCUUAACCCAUUCACCUUGUUUUUAAAAGCGACUGUGCGAAGUUUAAAGAAAAUCAUAUAAAUUUGCAGCAAAAUUAAGAAUUAUAUAAAAAACGUUUAAUGGUCGGUUACGCGCCGU ...................(((((.....(((((.....)))))..................((((((((((.(((((..((((((((((.......(((.........)))..................(((........))))))))))))).))))))))))))))).......)))))................................(((((((....)).))))) (-40.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGGCGCGUAACCGACCAUUAAACGUUUUUUAUAUAAUUCUUAAUUUUGCUGCAAAUUUAUAUGAUUUUCUUUAAACUUCGCACAGUCGCUUUUAAAAACAAGGUGAAUGGGUUAAGAGAAGUAAAGGAGGAAUACAAUAGUCCGACCGUGCAUUAGCCCGAAAGAAAAUCGGGGAAAAAAUGGCGAUGCGAACAGGCGAUUCGAGAUUUUUGCUUACUUUUGGGGUGUUAAU ..(((((....((((.((((...((((((((..........(((.((((...)))).)))..(((((((((((.............(((((((.......)))))))..(((((((.....(((..(..(((.........)))..)..))).))))))).)))))))))))...))))))))..)))).....((((((..........))))))....)))).)))))... (-45.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 397 76 32 158 110 tfor:TF2880|5end_phenylalanyl-tRNA_synthetase,_beta_subunit_3069052..3069282_POSITIVE 376 90 43 97 31 tfor:TF1733|5end_conserved_hypothetical_protein_1856015..1856245_POSITIVE 365 110 61 230 178 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 364 77 33 65 9 tfor:TF0757|5end_50S_ribosomal_protein_L25;_general_stress_protein_804554..804784_POSITIVE 345 76 31 88 47 tfor:TF2870|5end_hypothetical_protein_3062002..3062232_POSITIVE 340 65 26 198 159 tfor:TF1329|5end_glucose-1-phosphate_thymidyltransferase_1408578..1408808_POSITIVE 338 93 60 146 114 tfor:TF2271|5end_conserved_hypothetical_protein_2435802..2436032_POSITIVE 337 63 27 38 1 tfor:TF2654|5end_arginyl-tRNA_synthetase_2822692..2822922_POSITIVE 335 77 31 43 1 tfor:TF2998|5end_surface_antigen_BspA_3211811..3212041_POSITIVE 331 158 111 212 172 tfor:TF2315|5end_thioesterase_2473996..2474226_POSITIVE 330 90 47 66 3 tfor:TF2882|5end_conserved_hypothetical_protein_3073419..3073649_POSITIVE 317 88 45 137 86 tfor:TF2565|5end_50S_ribosomal_protein_L24_2739986..2740216_POSITIVE 317 119 72 201 153 tfor:TF0685|5end_hypothetical_protein_730852..731082_POSITIVE 316 50 9 190 147 tfor:TF2746|5end_hypothetical_protein_2927996..2928226_POSITIVE 316 89 43 196 143 tfor:TF2037|5end_conserved_hypothetical_protein;_possible_anaerobic_ribonucleoside-triphosphate_reductase_2196754..2196984_POSITIVE 314 104 62 72 19 tfor:TF2455|5end_conserved_hypothetical_protein;_possible_membrane_protein_2631959..2632189_POSITIVE 313 90 41 209 155 tfor:TF2687|5end_iron-regulated_ABC-type_transporter_membrane_component_2863509..2863739_POSITIVE 312 80 31 192 132 tfor:TF2662|5end_hypothetical_protein_2835270..2835500_POSITIVE 312 87 44 78 37 tfor:TF0888|5end_transfer_region-related_protein,_TraN_938392..938622_POSITIVE 311 87 44 51 1 tfor:TF3125|5end_recombination/repair_protein_3359808..3360038_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 397 59 16 82 38 tfor:TF0795|3end_hypothetical_protein_853199..853349_POSITIVE 368 76 34 144 95 tfor:TF1168|3end_hypothetical_protein_1249092..1249242_POSITIVE 368 90 43 127 84 tfor:TF0350|3end_hypothetical_protein_371101..371251_POSITIVE 362 51 16 80 42 tfor:TF0145|3end_glutamine_synthetase_154718..154868_POSITIVE 333 76 34 59 17 tfor:TF3118|3end_conserved_hypothetical_protein_3352824..3352974_POSITIVE 331 110 61 110 58 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 317 88 45 117 66 tfor:TF2564|3end_50S_ribosomal_protein_L14_2740046..2740196_POSITIVE 316 50 9 61 18 tfor:TF2745|3end_hypothetical_protein_2927947..2928097_POSITIVE 314 104 62 58 5 tfor:TF2454|3end_D-alanyl-D-alanine_dipeptidase_2632025..2632175_POSITIVE 312 80 31 107 47 tfor:TF2661|3end_hypothetical_protein_2835265..2835415_POSITIVE 311 58 19 69 29 tfor:TF0889|3end_conjugative_transposon_protein,_TraO_940078..940228_POSITIVE 309 70 26 103 54 tfor:TF2839|3end_ATP-dependent_exodeoxyribonuclease_3031035..3031185_POSITIVE 308 78 34 84 40 tfor:TF1185|3end_hypothetical_protein_1269563..1269713_POSITIVE 305 78 34 122 77 tfor:TF2547|3end_hypothetical_protein_2730947..2731097_POSITIVE 305 78 33 84 44 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 303 78 34 41 1 tfor:TF2621|3end_conserved_hypothetical_protein;_possible_SAM-dependent_methyltransferase_2797628..2797778_POSITIVE 303 89 46 127 77 tfor:TF2483|3end_hypothetical_protein_2660022..2660172_POSITIVE 300 78 33 77 36 tfor:TF2651|3end_hypothetical_protein_2822014..2822164_POSITIVE 296 90 41 146 85 tfor:TF1489|3end_argininosuccinate_lyase_1590318..1590468_POSITIVE 295 65 27 108 67 tfor:TF2230|3end_CTn_excision_protein_2400394..2400544_POSITIVE