Origin IGS: taaaccctccccctccattcatccgacgcttccgacagtacatggagatagaatcagatggcatgtttttcggaagtcaaaaataaggaaatccgtgagctatccgaatattttttgtatttttgcacgattattaccatttttgaccaagta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tacttggtcaaaaatggtaataatcgtgcaaaaatacaaaaaatattcggatagctcacggatttccttatttttgacttccgaaaaacatgccatctgattctatctccatgtactgtcggaagcgtcggatgaatggagggggagggttta Mask Tandem Repeat Region ================================================ taaaccctccccctccattcatccgacgcttccgacagtacatggagatagaatcagatggcatgtttttcggaagtcaaaaataaggaaatccgtgagctatccgaatattttttgtatttttgcacgattattaccatttttgaccaagta Find is-nt database================================================ Query_seq: TF1011:TF1012|TF1011:TF1012:cell division protein; rod shape-determining protein:lysyl-tRNA synthetase (lysine--tRNA ligase):->->:1068230..1068382 153 taaaccctccccctccattcatccgacgcttccgacagtacatggagatagaatcagatggcatgtttttcggaagtcaaaaataaggaaatccgtgagctatccgaatattttttgtatttttgcacgattattaccatttttgaccaagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1011:TF1012|TF1011:TF1012:cell division protein; rod shape-determining protein:lysyl-tRNA synthetase (lysine--tRNA ligase):->->:1068230..1068382 153 taaaccctccccctccattcatccgacgcttccgacagtacatggagatagaatcagatggcatgtttttcggaagtcaaaaataaggaaatccgtgagctatccgaatattttttgtatttttgcacgattattaccatttttgaccaagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1011:TF1012|TF1011:TF1012:cell division protein; rod shape-determining protein:lysyl-tRNA synthetase (lysine--tRNA ligase):->->:1068230..1068382 153 taaaccctccccctccattcatccgacgcttccgacagtacatggagatagaatcagatggcatgtttttcggaagtcaaaaataaggaaatccgtgagctatccgaatattttttgtatttttgcacgattattaccatttttgaccaagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaccctccccctccattcatccgacgcttccgacagtacatggagatagaatcagatggcatgtttttcggaagtcaaaaataaggaaatccgtgagctatccgaatattttttgtatttttgcacgattattaccatttttgaccaagta Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 17 End: 151 ................ M H P T L P T V H G D R I R W H V F R K S K I R K S V S Y P N I F C I F A R L L P F L T K .. Protein_Len: 32 Strand: + Start: 58 End: 153 ......................................................... M A C F S E V K N K E I R E L S E Y F L Y F C T I I T I F D Q V taaaccctccccctccattcatccgacgcttccgacagtacatggagatagaatcagatggcatgtttttcggaagtcaaaaataaggaaatccgtgagctatccgaatattttttgtatttttgcacgattattaccatttttgaccaagta 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================================================ taaaccctccccctccattcatccgacgcttccgacagtacatggagatagaatcagatggcatgtttttcggaagtcaaaaataaggaaatccgtgagctatccgaatattttttgtatttttgcacgattattaccatttttgaccaagta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1011:TF1012|TF1011:TF1012:cell division protein; rod shape-determining protein:lysyl-tRNA synthetase (lysine--tRNA ligase):->->:1068230..1068382 153 taaaccctccccctccattcatccgacgcttccgacagtacatggagatagaatcagatggcatgtttttcggaagtcaaaaataaggaaatccgtgagctatccgaatattttttgtatttttgcacgattattaccatttttgaccaagta Intra-Species Hit: Count: 1 Min: 1 Max: 153 Len: 153 Subject: tfor_TF1011_TF1012|cell division protein; rod shape-determining protein:lysyl-tRNA synthetase (lysine--tRNA ligase)|POSITIVE:POSITIVE|[1068230,1068382]|153 HSP 1 e-value: 9.0E-82 bit: 303.0 Len: 153 Query Start:1 Query End:153 Subject Strand: POSITIVE Subject Start: 1 Subject End: 153 taaaccctccccctccattcatccgacgcttccgacagtacatggagatagaatcagatggcatgtttttcggaagtcaaaaataaggaaatccgtgagctatccgaatattttttgtatttttgcacgattattaccatttttgaccaagta taaaccctccccctccattcatccgacgcttccgacagtacatggagatagaatcagatggcatgtttttcggaagtcaaaaataaggaaatccgtgagctatccgaatattttttgtatttttgcacgattattaccatttttgaccaagta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACCCUCCCCCUCCAUUCAUCCGACGCUUCCGACAGUACAUGGAGAUAGAAUCAGAUGGCAUGUUUUUCGGAAGUCAAAAAUAAGGAAAUCCGUGAGCUAUCCGAAUAUUUUUUGUAUUUUUGCACGAUUAUUACCAUUUUUGACCAAGUA .......(((.....((((((((.((..((..(..((.....))..)..))..)).))))).)))......))).(((((((((..((.(((.((((....((.((((.....)))).)).....))))...))).)))))))))))...... (-26.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACUUGGUCAAAAAUGGUAAUAAUCGUGCAAAAAUACAAAAAAUAUUCGGAUAGCUCACGGAUUUCCUUAUUUUUGACUUCCGAAAAACAUGCCAUCUGAUUCUAUCUCCAUGUACUGUCGGAAGCGUCGGAUGAAUGGAGGGGGAGGGUUUA ......((((...((((((......(((......)))........((((((.((.(((..(((......)))..))))))))))).....)))))).))))(((..((((((.(((((.((....)).))).)).))))))..)))....... (-36.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 366 70 21 218 166 tfor:TF0461|5end_ATP:cob(I)alamin_adenosyltransferase_476990..477220_POSITIVE 362 69 22 206 162 tfor:TF1440|5end_hypothetical_protein_1524599..1524829_POSITIVE 347 50 6 129 91 tfor:TF1010|5end_penicillin_binding_protein_2_1064795..1065025_POSITIVE 338 69 25 111 68 tfor:TF2413|5end_hypothetical_protein_2590376..2590606_POSITIVE 325 79 31 74 20 tfor:TF0241|5end_UDP-N-acetyl_glucosamine_-2-epimerase_271321..271551_POSITIVE 317 59 13 58 1 tfor:TF2770|5end_conserved_hypothetical_protein_2956308..2956538_POSITIVE 314 58 12 144 95 tfor:TF2189|5end_conserved_hypothetical_protein_2363455..2363685_POSITIVE 311 45 5 192 145 tfor:TF2655|5end_DNA_topoisomerase_I_2824543..2824773_POSITIVE 310 44 4 222 171 tfor:TF2259|5end_transfer_region-related_protein,_TraK_2429577..2429807_POSITIVE 308 48 4 189 130 tfor:TF0352|5end_transposase_element_371223..371453_POSITIVE 307 47 6 44 2 tfor:TF2267|5end_lysozyme-related_protein_2434869..2435099_POSITIVE 304 42 8 77 27 tfor:TF2793|5end_possible_L-lysine_2,3-aminomutase_2977661..2977891_POSITIVE 303 48 1 122 65 tfor:TF2120|5end_holliday_junction_endonuclease_2292108..2292338_POSITIVE 298 62 27 38 5 tfor:TF2809|5end_conserved_hypothetical_protein;_possible_translation_factor_(SUA5)_2999832..3000062_POSITIVE 291 60 19 65 28 tfor:TF0612|5end_conserved_hypothetical_protein_644066..644296_POSITIVE 289 60 13 150 101 tfor:TF1893|5end_hypothetical_protein_2046267..2046497_POSITIVE 289 48 7 213 163 tfor:TF1245|5end_LemA_protein_1328822..1329052_POSITIVE 288 45 8 185 151 tfor:TF0949|5end_conserved_hypothetical_protein_993863..994093_POSITIVE 287 48 5 77 35 tfor:TF0190|5end_cell_division_protein_FtsH_204029..204259_POSITIVE 286 60 11 189 126 tfor:TF2712|5end_glycosyltransferase_2885918..2886148_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 347 50 6 139 101 tfor:TF1009|3end_conserved_hypothetical_protein;_posible_rod-shape_determining_protein,_MreD_1064885..1065035_POSITIVE 338 69 25 48 5 tfor:TF2412|3end_outer_membrane_protein_2590393..2590543_POSITIVE 325 79 31 80 26 tfor:TF0240|3end_conserved_hypothetical_protein;_possible_gycosyltransferase_I_family_protein_271407..271557_POSITIVE 314 58 12 144 95 tfor:TF2188|3end_conserved_hypothetical_protein_2363535..2363685_POSITIVE 311 45 5 128 81 tfor:TF2654|3end_arginyl-tRNA_synthetase_2824559..2824709_POSITIVE 308 48 4 112 53 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 307 47 6 44 2 tfor:TF2266|3end_transfer_region-related_protein,_TraQ_2434949..2435099_POSITIVE 303 48 1 122 65 tfor:TF2119|3end_conserved_hypothetical_protein_2292188..2292338_POSITIVE 298 62 27 35 2 tfor:TF2808|3end_bacterial_sugar_transferase_2999909..3000059_POSITIVE 289 60 13 143 94 tfor:TF1892|3end_hypothetical_protein_2046340..2046490_POSITIVE 289 48 7 124 74 tfor:TF1244|3end_hypothetical_protein_1328813..1328963_POSITIVE 287 48 5 58 16 tfor:TF0189|3end_phosphatidate_cytidylytransferase_(CDP-diglyceride_synthetase)_204090..204240_POSITIVE 286 34 4 59 23 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 286 38 6 42 17 tfor:TF2449|3end_undecaprenyl_diphosphate_synthase_2626541..2626691_POSITIVE 285 50 3 123 83 tfor:TF3133|3end_conserved_hypothetical_protein_3369913..3370063_POSITIVE 284 34 7 100 68 tfor:TF2950|3end_chloromuconate_cycloisomerase_3158549..3158699_POSITIVE 284 68 30 112 63 tfor:TF2175|3end_hypothetical_protein_2348815..2348965_POSITIVE 283 67 28 95 47 tfor:TF0233|3end_DNA_polymerase_III_gamma/tau_subunit_260556..260706_POSITIVE 282 140 93 82 37 tfor:TF1733|3end_conserved_hypothetical_protein_1856562..1856712_POSITIVE 281 47 12 121 78 tfor:TF0429|3end_ABC_transporter,_ATP-binding_protein_452227..452377_POSITIVE