Origin IGS: aatagcctaagcagaaagaagagcaattaccattcatcacgttttcgcagcatctcatcgctctcttcacgcaggagaaaataaaggacaatgatgtgatgagtcgagtcgtcatatccaaacccaaactaagataaagaaacgggagtatccaatattttggtatactcccgtttctttta .........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 taaaagaaacgggagtataccaaaatattggatactcccgtttctttatcttagtttgggtttggatatgacgactcgactcatcacatcattgtcctttattttctcctgcgtgaagagagcgatgagatgctgcgaaaacgtgatgaatggtaattgctcttctttctgcttaggctatt Mask Tandem Repeat Region ================================================ aatagcctaagcagaaagaagagcaattaccattcatcacgttttcgcagcatctcatcgctctcttcacgcaggagaaaataaaggacaatgatgtgatgagtcgagtcgtcatatccaaacccaaactaagataaagaaacgggagtatccaatattttggtatactcccgtttctttta Find is-nt database================================================ Query_seq: TF2362:TF2363|TF2362:TF2363:conserved hypothetical protein:conserved hypothetical protein:->->:2529229..2529410 182 aatagcctaagcagaaagaagagcaattaccattcatcacgttttcgcagcatctcatcgctctcttcacgcaggagaaaataaaggacaatgatgtgatgagtcgagtcgtcatatccaaacccaaactaagataaagaaacgggagtatccaatattttggtatactcccgtttctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2362:TF2363|TF2362:TF2363:conserved hypothetical protein:conserved hypothetical protein:->->:2529229..2529410 182 aatagcctaagcagaaagaagagcaattaccattcatcacgttttcgcagcatctcatcgctctcttcacgcaggagaaaataaaggacaatgatgtgatgagtcgagtcgtcatatccaaacccaaactaagataaagaaacgggagtatccaatattttggtatactcccgtttctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2362:TF2363|TF2362:TF2363:conserved hypothetical protein:conserved hypothetical protein:->->:2529229..2529410 182 aatagcctaagcagaaagaagagcaattaccattcatcacgttttcgcagcatctcatcgctctcttcacgcaggagaaaataaaggacaatgatgtgatgagtcgagtcgtcatatccaaacccaaactaagataaagaaacgggagtatccaatattttggtatactcccgtttctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatagcctaagcagaaagaagagcaattaccattcatcacgttttcgcagcatctcatcgctctcttcacgcaggagaaaataaaggacaatgatgtgatgagtcgagtcgtcatatccaaacccaaactaagataaagaaacgggagtatccaatattttggtatactcccgtttctttta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 36 End: 134 ................................... M T F S Q H L I A L F T Q E K I K D N D V M S R V V I S K P K L R ................................................ Protein_Len: 55 Strand: - Start: 2 End: 166 . Y G L C F S S C N G N M V N E C C R M A R K V C S F I F S L S T I L R T T M D L G L S L Y L F P L I W Y K P M ................ aatagcctaagcagaaagaagagcaattaccattcatcacgttttcgcagcatctcatcgctctcttcacgcaggagaaaataaaggacaatgatgtgatgagtcgagtcgtcatatccaaacccaaactaagataaagaaacgggagtatccaatattttggtatactcccgtttctttta 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================================================ aatagcctaagcagaaagaagagcaattaccattcatcacgttttcgcagcatctcatcgctctcttcacgcaggagaaaataaaggacaatgatgtgatgagtcgagtcgtcatatccaaacccaaactaagataaagaaacgggagtatccaatattttggtatactcccgtttctttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2362:TF2363|TF2362:TF2363:conserved hypothetical protein:conserved hypothetical protein:->->:2529229..2529410 182 aatagcctaagcagaaagaagagcaattaccattcatcacgttttcgcagcatctcatcgctctcttcacgcaggagaaaataaaggacaatgatgtgatgagtcgagtcgtcatatccaaacccaaactaagataaagaaacgggagtatccaatattttggtatactcccgtttctttta Intra-Species Hit: Count: 1 Min: 1 Max: 182 Len: 182 Subject: tfor_TF2362_TF2363|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[2529229,2529410]|182 HSP 1 e-value: 5.0E-99 bit: 361.0 Len: 182 Query Start:1 Query End:182 Subject Strand: POSITIVE Subject Start: 1 Subject End: 182 aatagcctaagcagaaagaagagcaattaccattcatcacgttttcgcagcatctcatcgctctcttcacgcaggagaaaataaaggacaatgatgtgatgagtcgagtcgtcatatccaaacccaaactaagataaagaaacgggagtatccaatattttggtatactcccgtttctttta aatagcctaagcagaaagaagagcaattaccattcatcacgttttcgcagcatctcatcgctctcttcacgcaggagaaaataaaggacaatgatgtgatgagtcgagtcgtcatatccaaacccaaactaagataaagaaacgggagtatccaatattttggtatactcccgtttctttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAGCCUAAGCAGAAAGAAGAGCAAUUACCAUUCAUCACGUUUUCGCAGCAUCUCAUCGCUCUCUUCACGCAGGAGAAAAUAAAGGACAAUGAUGUGAUGAGUCGAGUCGUCAUAUCCAAACCCAAACUAAGAUAAAGAAACGGGAGUAUCCAAUAUUUUGGUAUACUCCCGUUUCUUUUA .....(((..((...((((.((((...................................))))))))...)))))..........((.....((((((((((......)))))))))).....))..........((((((((((((((((((((....)))).)))))))))))))))).. (-51.05) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGAAACGGGAGUAUACCAAAAUAUUGGAUACUCCCGUUUCUUUAUCUUAGUUUGGGUUUGGAUAUGACGACUCGACUCAUCACAUCAUUGUCCUUUAUUUUCUCCUGCGUGAAGAGAGCGAUGAGAUGCUGCGAAAACGUGAUGAAUGGUAAUUGCUCUUCUUUCUGCUUAGGCUAUU ..((((((((((((((((.((((....))))))))))))))))))))....((((((((((..(((.((.(((..(((...((((...((((((((((((((.(......).)))))).)).))))))))))...)))...))).))(((.(((....))).)))..))))))))))))).. (-58.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 60 11 68 23 tfor:TF2676|5end_conserved_hypothetical_protein_2849645..2849875_POSITIVE 314 180 131 229 182 tfor:TF1999|5end_ArgK_protein_with_ATPase_and_kinase_domains_2152769..2152999_POSITIVE 306 60 11 61 3 tfor:TF1418|5end_cell_division_protein_1500027..1500257_POSITIVE 303 72 31 165 117 tfor:TF0023|5end_possible_response_element_in_two_component_regulation_19446..19676_POSITIVE 300 78 32 228 180 tfor:TF3064|5end_oxidoreductase,_aldo/keto_reductase_family_3289765..3289995_POSITIVE 300 77 33 203 139 tfor:TF1754|5end_conserved_hypothetical_protein_1890937..1891167_POSITIVE 299 79 40 120 83 tfor:TF3091|5end_50S_ribosomal_protein_L13_3324213..3324443_POSITIVE 296 180 143 67 25 tfor:TF2423|5end_papain_family_cysteine_protease_2601608..2601838_POSITIVE 294 80 35 112 64 tfor:TF2901|5end_conserved_hypothetical_protein_3090365..3090595_POSITIVE 293 77 31 171 117 tfor:TF2874|5end_conserved_hypothetical_protein_3064920..3065150_POSITIVE 293 76 33 191 145 tfor:TF1850|5end_Na+/H+-exchanging_protein_1998542..1998772_POSITIVE 292 90 46 53 12 tfor:TF2434|5end_conserved_hypothetical_protein_2613969..2614199_POSITIVE 292 110 62 41 4 tfor:TF0049|5end_membrane-associated_HD_superfamily_hydrolase_55245..55475_POSITIVE 291 81 41 44 4 tfor:TF1259|5end_hypothetical_protein_1338549..1338779_POSITIVE 290 78 39 47 4 tfor:TF3154|5end_conserved_hypothetical_protein_3389219..3389449_POSITIVE 290 67 30 102 68 tfor:TF2312|5end_conserved_hypothetical_protein;_possible_glycosyl_transferase_2471537..2471767_POSITIVE 288 88 41 197 140 tfor:TF3146|5end_GTP-binding_protein_Obg_3381852..3382082_POSITIVE 288 126 86 195 160 tfor:TF3004|5end_phosphoribosylformylglycinamidine_(FGAM)_synthase_3220819..3221049_POSITIVE 288 60 11 162 103 tfor:TF2377|5end_orotidine_5'_phosphate_decarboxylase_2541799..2542029_POSITIVE 288 75 36 73 24 tfor:TF1465|5end_modulator_of_DNA_gyrase_1554148..1554378_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 314 180 131 66 19 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE 298 60 12 146 89 tfor:TF1976|3end_RNA_polymerase_ECF-type_sigma_factor_2123133..2123283_POSITIVE 296 180 143 56 14 tfor:TF2422|3end_hypothetical_protein_2601677..2601827_POSITIVE 293 77 31 137 83 tfor:TF2873|3end_conserved_hypothetical_protein_3064966..3065116_POSITIVE 292 90 46 47 6 tfor:TF2433|3end_possible_UDP-2,3-diacylglucosamine_hydrolase_2614043..2614193_POSITIVE 290 78 39 72 29 tfor:TF3153|3end_conserved_hypothetical_protein_3389324..3389474_POSITIVE 290 67 30 97 63 tfor:TF2311|3end_conserved_hypothetical_protein_2471612..2471762_POSITIVE 288 88 41 87 30 tfor:TF3145|3end_conserved_hypothetical_protein;_possible_GTP_cyclohydrolase_I_family_3381822..3381972_POSITIVE 288 60 11 128 69 tfor:TF2375|3end_conserved_hypothetical_protein_2541845..2541995_POSITIVE 288 90 43 50 8 tfor:TF1426|3end_N-acetylymuramoylalanyl-D-glutamate-2,6-diaminopi_melate_ligase_1511413..1511563_POSITIVE 287 87 48 129 97 tfor:TF0448|3end_hypothetical_protein_467911..468061_POSITIVE 286 66 21 136 98 tfor:TF1292|3end_sensor_histidine_protein_kinase_1374554..1374704_POSITIVE 286 78 40 111 70 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE 273 70 27 67 15 tfor:TF1781|3end_imidazolonepropionase_1923384..1923534_POSITIVE 272 140 93 76 21 tfor:TF2498|3end_electron_transfer_flavoprotein,_alpha_subunit_2673885..2674035_POSITIVE 270 68 38 57 12 tfor:TF2651|3end_hypothetical_protein_2822014..2822164_POSITIVE 268 115 71 146 94 tfor:TF0140|3end_exodeoxyribonuclease_VII,_small_subunit_148483..148633_POSITIVE 266 79 36 143 103 tfor:TF0629|3end_hypothetical_protein_666710..666860_POSITIVE 264 118 71 150 108 tfor:TF0596|3end_conserved_hypothetical_protein_628652..628802_POSITIVE 263 80 32 151 91 tfor:TF2937|3end_translation_elongation_factor_Tu_3140502..3140652_POSITIVE