Origin IGS: attgttaaaattttaaatggtaagtaatttgtttacccttttgacgtacgtctcgaaaaaaagttacactcaataaacggcccttctcttttttccgtca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgacggaaaaaagagaagggccgtttattgagtgtaactttttttcgagacgtacgtcaaaagggtaaacaaattacttaccatttaaaattttaacaat Mask Tandem Repeat Region ================================================ attgttaaaattttaaatggtaagtaatttgtttacccttttgacgtacgtctcgaaaaaaagttacactcaataaacggcccttctcttttttccgtca Find is-nt database================================================ Query_seq: TF1773:TF1774|TF1773:TF1774:hypothetical protein:arylsulfatase precursor:->->:1911466..1911565 100 attgttaaaattttaaatggtaagtaatttgtttacccttttgacgtacgtctcgaaaaaaagttacactcaataaacggcccttctcttttttccgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1773:TF1774|TF1773:TF1774:hypothetical protein:arylsulfatase precursor:->->:1911466..1911565 100 attgttaaaattttaaatggtaagtaatttgtttacccttttgacgtacgtctcgaaaaaaagttacactcaataaacggcccttctcttttttccgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1773:TF1774|TF1773:TF1774:hypothetical protein:arylsulfatase precursor:->->:1911466..1911565 100 attgttaaaattttaaatggtaagtaatttgtttacccttttgacgtacgtctcgaaaaaaagttacactcaataaacggcccttctcttttttccgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attgttaaaattttaaatggtaagtaatttgtttacccttttgacgtacgtctcgaaaaaaagttacactcaataaacggcccttctcttttttccgtca Predict ORF larger than 30AA ================================================ attgttaaaattttaaatggtaagtaatttgtttacccttttgacgtacgtctcgaaaaaaagttacactcaataaacggcccttctcttttttccgtca 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================================================ attgttaaaattttaaatggtaagtaatttgtttacccttttgacgtacgtctcgaaaaaaagttacactcaataaacggcccttctcttttttccgtca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1773:TF1774|TF1773:TF1774:hypothetical protein:arylsulfatase precursor:->->:1911466..1911565 100 attgttaaaattttaaatggtaagtaatttgtttacccttttgacgtacgtctcgaaaaaaagttacactcaataaacggcccttctcttttttccgtca Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: tfor_TF1773_TF1774|hypothetical protein:arylsulfatase precursor|POSITIVE:POSITIVE|[1911466,1911565]|100 HSP 1 e-value: 8.0E-38 bit: 157.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 attgttaaaattttaaatggtaagtaatttgtttacccttttgacgtacgtctcgnnnnnnngttacactcaataaacggcccttctcttttttccgtca attgttaaaattttaaatggtaagtaatttgtttacccttttgacgtacgtctcgaaaaaaagttacactcaataaacggcccttctcttttttccgtca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGUUAAAAUUUUAAAUGGUAAGUAAUUUGUUUACCCUUUUGACGUACGUCUCGAAAAAAAGUUACACUCAAUAAACGGCCCUUCUCUUUUUUCCGUCA ...(((((((...((((..(........)..))))...)))))))........((.(((((((........................))))))).))... ( -9.26) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACGGAAAAAAGAGAAGGGCCGUUUAUUGAGUGUAACUUUUUUUCGAGACGUACGUCAAAAGGGUAAACAAAUUACUUACCAUUUAAAAUUUUAACAAU ...((((((((((....(.((((.....)).)).)..)))))))))).(((....))).....(((((.........))))).................. (-15.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 333 86 45 85 44 tfor:TF0409|5end_conserved_hypothetical_protein_426240..426470_POSITIVE 281 57 18 65 25 tfor:TF2581|5end_50S_ribosomal_protein_L17_2748814..2749044_POSITIVE 268 99 77 230 208 tfor:TF3149|5end_conserved_hypothetical_protein_3384424..3384654_POSITIVE 264 88 42 209 154 tfor:TF2664|5end_hypothetical_protein_2841399..2841629_POSITIVE 259 66 37 47 18 tfor:TF3025|5end_hypothetical_protein_3248772..3249002_POSITIVE 257 100 71 183 142 tfor:TF2789|5end_enoyl-[acyl-carrier-protein]_reductase_2972431..2972661_POSITIVE 254 99 70 142 111 tfor:TF1251|5end_riboflavin_synthase,_alpha_subunit_1333744..1333974_POSITIVE 253 88 43 89 46 tfor:TF1322|5end_conserved_hypothetical_protein;_possible_surface_protein_1401864..1402094_POSITIVE 252 89 47 79 23 tfor:TF2906|5end_phosphatidylserine_decarboxylase_3102182..3102412_POSITIVE 252 99 66 193 154 tfor:TF2612|5end_conserved_hypothetical_protein_2788070..2788300_POSITIVE 247 80 38 211 174 tfor:TF2728|5end_outer_membrane_protein,_TonB_dependent_receptor_2904608..2904838_POSITIVE 246 83 41 117 68 tfor:TF2296|5end_hypothetical_protein_2448892..2449122_POSITIVE 244 98 54 209 169 tfor:TF0198|5end_transposase_related_sequence_221054..221284_POSITIVE 241 97 51 62 16 tfor:TF2159|5end_conserved_hypothetical_protein_2334446..2334676_POSITIVE 241 72 39 99 69 tfor:TF2003|5end_dihydrofolate_reductase_2155859..2156089_POSITIVE 230 100 64 59 19 tfor:TF3116|5end_conserved_hypothetical_protein_3352136..3352366_POSITIVE 230 86 41 52 15 tfor:TF2853|5end_2-C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_3040172..3040402_POSITIVE 230 86 43 185 140 tfor:TF0823|5end_conserved_hypothetical_protein_880660..880890_POSITIVE 229 55 28 31 6 tfor:TF2267|5end_lysozyme-related_protein_2434869..2435099_POSITIVE 227 65 30 58 19 tfor:TF2787|5end_30S_ribosomal_protein_S1_2970376..2970606_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 333 86 45 89 48 tfor:TF0408|3end_possible_gliding_motility-related_lipoprotein_426324..426474_POSITIVE 281 57 18 55 15 tfor:TF2580|3end_RNA_polymerase,_alpha_subunit_2748884..2749034_POSITIVE 267 86 43 99 54 tfor:TF3106|3end_hypothetical_protein_3338608..3338758_POSITIVE 258 88 46 53 9 tfor:TF2663|3end_hypothetical_protein_2841323..2841473_POSITIVE 254 99 70 119 88 tfor:TF1250|3end_possible_cation_efflux_pump_1333801..1333951_POSITIVE 253 88 43 59 16 tfor:TF1321|3end_conserved_hypothetical_protein_1401914..1402064_POSITIVE 252 99 66 112 73 tfor:TF2611|3end_conserved_hypothetical_protein_2788069..2788219_POSITIVE 247 80 38 57 20 tfor:TF2727|3end_outer_membrane_protein,_possibly_involved_in_nutrient_binding_2904534..2904684_POSITIVE 244 98 54 112 72 tfor:TF0196|3end_conserved_hypothetical_protein_221037..221187_POSITIVE 241 97 51 120 74 tfor:TF2158|3end_conserved_hypothetical_protein_2334584..2334734_POSITIVE 241 72 39 91 61 tfor:TF2001|3end_conserved_hypothetical_protein_2155931..2156081_POSITIVE 239 99 79 67 42 tfor:TF1164|3end_two-component_system_sensor_histidine_kinase_1244778..1244928_POSITIVE 234 86 43 79 34 tfor:TF2547|3end_hypothetical_protein_2730947..2731097_POSITIVE 231 56 11 123 78 tfor:TF2186|3end_outer_membrane_protein_2361909..2362059_POSITIVE 229 55 28 31 6 tfor:TF2266|3end_transfer_region-related_protein,_TraQ_2434949..2435099_POSITIVE 219 99 53 79 23 tfor:TF2757|3end_hypothetical_protein_2942335..2942485_POSITIVE 219 90 44 57 5 tfor:TF1211|3end_phosphoserine_aminotransferase_1299847..1299997_POSITIVE 217 99 73 125 96 tfor:TF0712|3end_TPR-repeat-containing_protein_763512..763662_POSITIVE 216 96 62 97 63 tfor:TF3164|3end_hypothetical_protein_3404141..3404291_POSITIVE 216 100 66 136 102 tfor:TF0207|3end_conserved_hypothetical_protein_233505..233655_POSITIVE