Origin IGS: taactagtttattttatacaagaatttctttggatattgttttttttaattattcaaagaaattcttgtctttacttagtgtaatcttttttacttattgtttgagtcttccccataagtattttgaaaattacacaaaacaatcattcgtctacaataagttgtaaacaaataaaataaattggttttagtgtttttagagcagatttattatttttttttaaaatatattaaaa .........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 ttttaatatattttaaaaaaaaataataaatctgctctaaaaacactaaaaccaatttattttatttgtttacaacttattgtagacgaatgattgttttgtgtaattttcaaaatacttatggggaagactcaaacaataagtaaaaaagattacactaagtaaagacaagaatttctttgaataattaaaaaaaacaatatccaaagaaattcttgtataaaataaactagtta Mask Tandem Repeat Region ================================================ taactagtttattttatacaagaatttctttggatattgttttttttaattattcaaagaaattcttgtctttacttagtgtaatcttttttacttattgtttgagtcttccccataagtattttgaaaattacacaaaacaatcattcgtctacaataagttgtaaacaaataaaataaattggttttagtgtttttagagcagatttattatttttttttaaaatatattaaaa Find is-nt database================================================ Query_seq: TF1093:TF1094|TF1093:TF1094:hypothetical protein:conserved hypothetical protein:->->:1162980..1163215 236 taactagtttattttatacaagaatttctttggatattgttttttttaattattcaaagaaattcttgtctttacttagtgtaatcttttttacttattgtttgagtcttccccataagtattttgaaaattacacaaaacaatcattcgtctacaataagttgtaaacaaataaaataaattggttttagtgtttttagagcagatttattatttttttttaaaatatattaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1093:TF1094|TF1093:TF1094:hypothetical protein:conserved hypothetical protein:->->:1162980..1163215 236 taactagtttattttatacaagaatttctttggatattgttttttttaattattcaaagaaattcttgtctttacttagtgtaatcttttttacttattgtttgagtcttccccataagtattttgaaaattacacaaaacaatcattcgtctacaataagttgtaaacaaataaaataaattggttttagtgtttttagagcagatttattatttttttttaaaatatattaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1093:TF1094|TF1093:TF1094:hypothetical protein:conserved hypothetical protein:->->:1162980..1163215 236 taactagtttattttatacaagaatttctttggatattgttttttttaattattcaaagaaattcttgtctttacttagtgtaatcttttttacttattgtttgagtcttccccataagtattttgaaaattacacaaaacaatcattcgtctacaataagttgtaaacaaataaaataaattggttttagtgtttttagagcagatttattatttttttttaaaatatattaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taactagtttattttatacaagaatttctttggatattgttttttttaattattcaaagaaattcttgtctttacttagtgtaatcttttttacttattgtttgagtcttccccataagtattttgaaaattacacaaaacaatcattcgtctacaataagttgtaaacaaataaaataaattggttttagtgtttttagagcagatttattatttttttttaaaatatattaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 24 End: 164 ....................... M S L D I V F F N Y S K K F L S L L S V I F F T Y C L S L P H K Y F E N Y T K Q S F V Y N K L ........................................................................ Protein_Len: 38 Strand: - Start: 94 End: 207 ............................................................................................. K N N S D E G Y T N Q F N C L V I M R R C Y T T F L Y F L N T K T N K S C M ............................. taactagtttattttatacaagaatttctttggatattgttttttttaattattcaaagaaattcttgtctttacttagtgtaatcttttttacttattgtttgagtcttccccataagtattttgaaaattacacaaaacaatcattcgtctacaataagttgtaaacaaataaaataaattggttttagtgtttttagagcagatttattatttttttttaaaatatattaaaa 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================================================ taactagtttattttatacaagaatttctttggatattgttttttttaattattcaaagaaattcttgtctttacttagtgtaatcttttttacttattgtttgagtcttccccataagtattttgaaaattacacaaaacaatcattcgtctacaataagttgtaaacaaataaaataaattggttttagtgtttttagagcagatttattatttttttttaaaatatattaaaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 71 HP_score: -6.5 Tail_Score: -3.98683 Start: 17 End: 70 Full_Region: AACTAGTTTATTTTA TACAAGAATTTCTTTGGATATTG TTTTTTT TAATTATTCAAAGAAATTCTTGTC TTTACTTAGTGTAAT ................TACAAGAATTTCTTTGGATATTGTTTTTTTTAATTATTCAAAGAAATTCTTGTC...................................................................................................................................................................... TransTerm Strand: + Conf: 80 HP_score: -9.1 Tail_Score: -3.57915 Start: 19 End: 68 Full_Region: CTAGTTTATTTTATA CAAGAATTTCTTTGGATATTG TTTTTTT TAATTATTCAAAGAAATTCTTG TCTTTACTTAGTGTA ..................CAAGAATTTCTTTGGATATTGTTTTTTTTAATTATTCAAAGAAATTCTTG........................................................................................................................................................................ TransTerm Strand: - Conf: 44 HP_score: -2.7 Tail_Score: -3.50393 Start: 22 End: 65 Full_Region: actaagtaaagacaa gaatttctttgaataat taaaaaaaac aatatccaaagaaattc ttgtataaaataaac .....................gaatttctttgaataattaaaaaaaacaatatccaaagaaattc........................................................................................................................................................................... TransTerm Strand: - Conf: 76 HP_score: -6.8 Tail_Score: -4.40652 Start: 144 End: 175 Full_Region: taaaaccaatttatt ttatttgtttacaa ctta ttgtagacgaatga ttgttttgtgtaatt ...............................................................................................................................................ttatttgtttacaacttattgtagacgaatga............................................................. Find igs database================================================ Query_seq: TF1093:TF1094|TF1093:TF1094:hypothetical protein:conserved hypothetical protein:->->:1162980..1163215 236 taactagtttattttatacaagaatttctttggatattgttttttttaattattcaaagaaattcttgtctttacttagtgtaatcttttttacttattgtttgagtcttccccataagtattttgaaaattacacaaaacaatcattcgtctacaataagttgtaaacaaataaaataaattggttttagtgtttttagagcagatttattatttttttttaaaatatattaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 213 Len: 213 Subject: tfor_TF1093_TF1094|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1162980,1163215]|236 HSP 1 e-value: 1.0E-103 bit: 375.0 Len: 213 Query Start:1 Query End:213 Subject Strand: POSITIVE Subject Start: 1 Subject End: 213 taactagtttattttatacaagaatttctttggatattgnnnnnnnnaattattcaaagaaattcttgtctttacttagtgtaatcttttttacttattgtttgagtcttccccataagtattttgaaaattacacaaaacaatcattcgtctacaataagttgtaaacaaataaaataaattggttttagtgtttttagagcagatttatta....................... taactagtttattttatacaagaatttctttggatattgttttttttaattattcaaagaaattcttgtctttacttagtgtaatcttttttacttattgtttgagtcttccccataagtattttgaaaattacacaaaacaatcattcgtctacaataagttgtaaacaaataaaataaattggttttagtgtttttagagcagatttatta....................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUAGUUUAUUUUAUACAAGAAUUUCUUUGGAUAUUGUUUUUUUUAAUUAUUCAAAGAAAUUCUUGUCUUUACUUAGUGUAAUCUUUUUUACUUAUUGUUUGAGUCUUCCCCAUAAGUAUUUUGAAAAUUACACAAAACAAUCAUUCGUCUACAAUAAGUUGUAAACAAAUAAAAUAAAUUGGUUUUAGUGUUUUUAGAGCAGAUUUAUUA .((((((((((((((((((((((((((((((((((((((.......))).))))))))))))))))))).........(((((((.(((..(((((((.(............).)))))))....))).))))))).............((.(((((....))))).))..))))))))))))))))....(((((...)))))......... (-49.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAAUCUGCUCUAAAAACACUAAAACCAAUUUAUUUUAUUUGUUUACAACUUAUUGUAGACGAAUGAUUGUUUUGUGUAAUUUUCAAAAUACUUAUGGGGAAGACUCAAACAAUAAGUAAAAAAGAUUACACUAAGUAAAGACAAGAAUUUCUUUGAAUAAUUAAAAAAAACAAUAUCCAAAGAAAUUCUUGUAUAAAAUAAACUAGUUA .....................((((.............((((((((((((((....))))))))))))))(((((((((((((((((.....(((((((.(((....))).....)))))))...)))))))))).........(((((((((((((((.(((..............))).)))))))))))))))..)))))))..)))).. (-46.34) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 216 126 81 194 148 tfor:TF0599|5end_hypothetical_protein_629835..630065_POSITIVE 214 117 77 130 92 tfor:TF0586|5end_conserved_hypothetical_protein_617313..617543_POSITIVE 206 108 66 225 185 tfor:TF2664|5end_hypothetical_protein_2841399..2841629_POSITIVE 205 110 63 181 128 tfor:TF0256|5end_conserved_hypothetical_protein_287044..287274_POSITIVE 204 126 86 195 152 tfor:TF1485|5end_conserved_hypothetical_protein_1581871..1582101_POSITIVE 203 135 95 208 159 tfor:TF2086|5end_transglutaminase-related_protein_2253931..2254161_POSITIVE 197 114 89 174 147 tfor:TF2861|5end_conserved_hypothetical_protein;_possible_Rhs_family_protein_3051738..3051968_POSITIVE 195 172 141 184 142 tfor:TF2684|5end_conserved_hypothetical_protein;_possible_CvpA_family_protein_2860692..2860922_POSITIVE 192 92 51 190 151 tfor:TF3043|5end_conserved_hypothetical_protein_3271925..3272155_POSITIVE 192 110 62 160 122 tfor:TF2683|5end_translation_initiation_factor_IF-2_2857722..2857952_POSITIVE 192 129 83 200 146 tfor:TF1225|5end_conserved_hypothetical_protein_1311593..1311823_POSITIVE 191 151 121 208 175 tfor:TF2718|5end_hypothetical_protein_2892324..2892554_POSITIVE 190 112 85 32 3 tfor:TF2787|5end_30S_ribosomal_protein_S1_2970376..2970606_POSITIVE 190 120 76 183 139 tfor:TF1846|5end_hypothetical_protein_1996726..1996956_POSITIVE 190 120 76 77 33 tfor:TF1845|5end_hypothetical_protein_1996620..1996850_POSITIVE 188 99 63 92 52 tfor:TF0167|5end_conserved_hypothetical_protein_176913..177143_POSITIVE 187 119 100 195 174 tfor:TF2931|5end_3-deoxy-D-manno-2-octulosonic_acid_(Kdo_transferase)_3134275..3134505_POSITIVE 187 115 71 194 137 tfor:TF1904|5end_two-component_system_response_regulator_2058975..2059205_POSITIVE 187 42 15 124 92 tfor:TF1712|5end_conserved_hypothetical_protein_1832392..1832622_POSITIVE 186 114 79 82 45 tfor:TF1870|5end_conserved_hypothetical_protein;_possible_transposase_2023912..2024142_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 268 69 21 73 25 tfor:TF1093|3end_hypothetical_protein_1162919..1163069_POSITIVE 206 108 66 69 29 tfor:TF2663|3end_hypothetical_protein_2841323..2841473_POSITIVE 204 126 84 105 57 tfor:TF2802|3end_possible_outer_membrane_protein_2991814..2991964_POSITIVE 197 114 89 36 9 tfor:TF2860|3end_hypothetical_protein_3051680..3051830_POSITIVE 197 115 73 71 32 tfor:TF0596|3end_conserved_hypothetical_protein_628652..628802_POSITIVE 192 92 51 134 95 tfor:TF3042|3end_ferrous_iron_transport_protein_B_3271949..3272099_POSITIVE 192 110 62 128 90 tfor:TF2682|3end_N_utilization_substance_protein_A_2857770..2857920_POSITIVE 192 127 82 91 47 tfor:TF0075|3end_transcriptional_regulator_83118..83268_POSITIVE 191 151 121 134 101 tfor:TF2717|3end_glycosyltransferase_2892330..2892480_POSITIVE 191 126 95 119 88 tfor:TF1697|3end_mobilizable_transposon,_excision_protein_1819293..1819443_POSITIVE 190 120 76 70 26 tfor:TF1844|3end_hypothetical_protein_1996693..1996843_POSITIVE 188 99 63 87 47 tfor:TF0166|3end_conserved_hypothetical_protein_176988..177138_POSITIVE 187 42 15 124 92 tfor:TF1711|3end_beta-D-glucoside_glucohydrolase,_periplasmic_1832472..1832622_POSITIVE 185 114 73 74 20 tfor:TF1785|3end_histidine_ammonia-lyase_1926070..1926220_POSITIVE 183 117 75 127 66 tfor:TF1558|3end_possible_heme_biosynthesis_protein_1665959..1666109_POSITIVE 183 45 7 127 86 tfor:TF0856|3end_conserved_hypothetical_protein_908930..909080_POSITIVE 182 165 131 116 88 tfor:TF1082|3end_conserved_hypothetical_protein_1151967..1152117_POSITIVE 182 138 106 144 105 tfor:TF1009|3end_conserved_hypothetical_protein;_posible_rod-shape_determining_protein,_MreD_1064885..1065035_POSITIVE 181 137 95 46 9 tfor:TF2713|3end_glycosyltransferase_2887819..2887969_POSITIVE 180 158 130 40 11 tfor:TF1964|3end_MotA/TolQ/ExbB_proton_channel_family_2114380..2114530_POSITIVE