Origin IGS: attcctgttcttttaaagaaaactgcggttttcttgttgtcttagacccgacaaatataaattagtttactcacaaaaatagttaaaatcgctttcgatttagcgtattcttcatcgccccaacgtaaaaaatgccgtatctttgggtgctcaaaagtttataaccgat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atcggttataaacttttgagcacccaaagatacggcattttttacgttggggcgatgaagaatacgctaaatcgaaagcgattttaactatttttgtgagtaaactaatttatatttgtcgggtctaagacaacaagaaaaccgcagttttctttaaaagaacaggaat Mask Tandem Repeat Region ================================================ attcctgttcttttaaagaaaactgcggttttcttgttgtcttagacccgacaaatataaattagtttactcacaaaaatagttaaaatcgctttcgatttagcgtattcttcatcgccccaacgtaaaaaatgccgtatctttgggtgctcaaaagtttataaccgat Find is-nt database================================================ Query_seq: TF3114:TF3115|TF3114:TF3115:hypothetical protein:possible sugar kinase:->->:3350399..3350567 169 attcctgttcttttaaagaaaactgcggttttcttgttgtcttagacccgacaaatataaattagtttactcacaaaaatagttaaaatcgctttcgatttagcgtattcttcatcgccccaacgtaaaaaatgccgtatctttgggtgctcaaaagtttataaccgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF3114:TF3115|TF3114:TF3115:hypothetical protein:possible sugar kinase:->->:3350399..3350567 169 attcctgttcttttaaagaaaactgcggttttcttgttgtcttagacccgacaaatataaattagtttactcacaaaaatagttaaaatcgctttcgatttagcgtattcttcatcgccccaacgtaaaaaatgccgtatctttgggtgctcaaaagtttataaccgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF3114:TF3115|TF3114:TF3115:hypothetical protein:possible sugar kinase:->->:3350399..3350567 169 attcctgttcttttaaagaaaactgcggttttcttgttgtcttagacccgacaaatataaattagtttactcacaaaaatagttaaaatcgctttcgatttagcgtattcttcatcgccccaacgtaaaaaatgccgtatctttgggtgctcaaaagtttataaccgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attcctgttcttttaaagaaaactgcggttttcttgttgtcttagacccgacaaatataaattagtttactcacaaaaatagttaaaatcgctttcgatttagcgtattcttcatcgccccaacgtaaaaaatgccgtatctttgggtgctcaaaagtttataaccgat Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 61 End: 168 ............................................................ M S L L T K I V K I A F D L A Y S S S P Q R K K C R I F G C S K V Y N R . Protein_Len: 32 Strand: - Start: 45 End: 140 ............................................ V R C I Y I L K S V F I T L I A K S K A Y E E D G W R L F H R M ............................. attcctgttcttttaaagaaaactgcggttttcttgttgtcttagacccgacaaatataaattagtttactcacaaaaatagttaaaatcgctttcgatttagcgtattcttcatcgccccaacgtaaaaaatgccgtatctttgggtgctcaaaagtttataaccgat 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================================================ attcctgttcttttaaagaaaactgcggttttcttgttgtcttagacccgacaaatataaattagtttactcacaaaaatagttaaaatcgctttcgatttagcgtattcttcatcgccccaacgtaaaaaatgccgtatctttgggtgctcaaaagtttataaccgat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF3114:TF3115|TF3114:TF3115:hypothetical protein:possible sugar kinase:->->:3350399..3350567 169 attcctgttcttttaaagaaaactgcggttttcttgttgtcttagacccgacaaatataaattagtttactcacaaaaatagttaaaatcgctttcgatttagcgtattcttcatcgccccaacgtaaaaaatgccgtatctttgggtgctcaaaagtttataaccgat Intra-Species Hit: Count: 1 Min: 1 Max: 169 Len: 169 Subject: tfor_TF3114_TF3115|hypothetical protein:possible sugar kinase|POSITIVE:POSITIVE|[3350399,3350567]|169 HSP 1 e-value: 3.0E-91 bit: 335.0 Len: 169 Query Start:1 Query End:169 Subject Strand: POSITIVE Subject Start: 1 Subject End: 169 attcctgttcttttaaagaaaactgcggttttcttgttgtcttagacccgacaaatataaattagtttactcacaaaaatagttaaaatcgctttcgatttagcgtattcttcatcgccccaacgtaaaaaatgccgtatctttgggtgctcaaaagtttataaccgat attcctgttcttttaaagaaaactgcggttttcttgttgtcttagacccgacaaatataaattagtttactcacaaaaatagttaaaatcgctttcgatttagcgtattcttcatcgccccaacgtaaaaaatgccgtatctttgggtgctcaaaagtttataaccgat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCCUGUUCUUUUAAAGAAAACUGCGGUUUUCUUGUUGUCUUAGACCCGACAAAUAUAAAUUAGUUUACUCACAAAAAUAGUUAAAAUCGCUUUCGAUUUAGCGUAUUCUUCAUCGCCCCAACGUAAAAAAUGCCGUAUCUUUGGGUGCUCAAAAGUUUAUAACCGAU ...............((((((((....)))))))).(((((........))))).((((((((..................((((((.(((....)))))))))............(((((((.(...............).))))).)).....))))))))...... (-26.96) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCGGUUAUAAACUUUUGAGCACCCAAAGAUACGGCAUUUUUUACGUUGGGGCGAUGAAGAAUACGCUAAAUCGAAAGCGAUUUUAACUAUUUUUGUGAGUAAACUAAUUUAUAUUUGUCGGGUCUAAGACAACAAGAAAACCGCAGUUUUCUUUAAAAGAACAGGAAU ...(((((....((((...((.((((.....(((..........)))))))))...))))....((((........))))....))))).(((((((..................(((((........))))).((((((((....)))))))).......))))))). (-32.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 352 139 94 138 91 tfor:TF0971|5end_conserved_hypothetical_protein_1021355..1021585_POSITIVE 323 148 102 121 65 tfor:TF0328|5end_conserved_hypothetical_protein_354182..354412_POSITIVE 314 150 103 231 189 tfor:TF2225|5end_CTn_excision_protein_2394935..2395165_POSITIVE 303 150 102 89 42 tfor:TF2487|5end_transposase_2663010..2663240_POSITIVE 303 146 103 61 11 tfor:TF1325|5end_L-fucose_isomerase_1404000..1404230_POSITIVE 302 138 91 161 121 tfor:TF2583|5end_possible_ABC_transporter,__permease_component_2750206..2750436_POSITIVE 299 153 112 224 182 tfor:TF2291|5end_outer_membrane_protein_2446098..2446328_POSITIVE 297 149 101 130 74 tfor:TF2831|5end_ABC_transporter,_permease_component_3021317..3021547_POSITIVE 289 150 103 207 148 tfor:TF1848|5end_conserved_hypothetical_protein_1997589..1997819_POSITIVE 288 147 102 220 166 tfor:TF1499|5end_3-oxyacyl-[acyl-carrier_protein]_synthase_1598394..1598624_POSITIVE 288 147 108 166 128 tfor:TF0419|5end_conserved_hypothetical_protein_435250..435480_POSITIVE 284 125 90 81 37 tfor:TF1710|5end_possible_cell_filamentation_protein_1829679..1829909_POSITIVE 283 154 113 128 89 tfor:TF1250|5end_possible_cation_efflux_pump_1332324..1332554_POSITIVE 281 148 104 69 11 tfor:TF2394|5end_integrase/recombinase_XerD_2565608..2565838_POSITIVE 281 149 104 157 106 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 281 130 82 46 3 tfor:TF1026|5end_beta-N-acetylglucosaminidase;_beta_lactamase_1082560..1082790_POSITIVE 280 130 89 134 98 tfor:TF1740|5end_hypothetical_protein_1868645..1868875_POSITIVE 278 149 103 201 163 tfor:TF3126|5end_glycosyltransferase,_group_2_family_3360439..3360669_POSITIVE 278 149 103 199 150 tfor:TF2819|5end_N-acetyl-gamma-glutamylphosphate_reductase_3008905..3009135_POSITIVE 275 119 71 199 141 tfor:TF2498|5end_electron_transfer_flavoprotein,_alpha_subunit_2672801..2673031_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 136 98 61 25 tfor:TF1112|3end_possible_response_regulator,_LytR/AlgR_family_1183015..1183165_POSITIVE 335 136 98 56 20 tfor:TF1096|3end_conserved_hypothetical_protein_1165357..1165507_POSITIVE 303 146 103 81 31 tfor:TF1326|3end_hypothetical_protein_1404100..1404250_POSITIVE 285 147 108 150 106 tfor:TF0886|3end_conjugative_transposon_protein_fragment_938152..938302_POSITIVE 285 147 108 53 9 tfor:TF0885|3end_conjugative_transposon_protein_fragment_938055..938205_POSITIVE 283 154 113 80 41 tfor:TF1249|3end_phosphoglycerate_kinase_(cytosolic_phosphoglycerate_kinase)_1332356..1332506_POSITIVE 279 149 104 148 106 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 277 139 94 71 18 tfor:TF2834|3end_cardiolipin_synthase_3027496..3027646_POSITIVE 274 147 103 77 21 tfor:TF1557|3end_glycosyltransferase_1664908..1665058_POSITIVE 272 154 116 58 22 tfor:TF2949|3end_dihydroxynaphthoate_synthase_(naphthoate_synthase)_3157479..3157629_POSITIVE 272 153 114 76 28 tfor:TF0214|3end_DNA_recombination_and_repair_protein,_RecN_241571..241721_POSITIVE 267 125 89 92 53 tfor:TF2889|3end_50S_ribosomal_protein_L27_3078688..3078838_POSITIVE 267 150 103 149 97 tfor:TF1074|3end_hypothetical_protein_1144517..1144667_POSITIVE 266 159 118 52 11 tfor:TF2880|3end_phenylalanyl-tRNA_synthetase,_beta_subunit_3071630..3071780_POSITIVE 265 150 102 151 113 tfor:TF0308|3end_hypothetical_protein_334082..334232_POSITIVE 264 137 91 101 54 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE 264 125 89 135 96 tfor:TF1405|3end_conserved_hypothetical_protein_1481819..1481969_POSITIVE 258 147 101 150 96 tfor:TF2830|3end_ABC_transporter,_ATP-binding_protein_3021419..3021569_POSITIVE 256 150 103 75 11 tfor:TF2659|3end_conserved_hypothetical_protein_2833055..2833205_POSITIVE 254 147 107 34 3 tfor:TF2841|3end_conserved_hypothetical_protein_3032156..3032306_POSITIVE