Origin IGS: taaaattccttttgcgatttatctcccgcaaattgtttctgataaatcacaactgtgatttatctcccgctatgccggtttctccggaaatctctatctttgcctttcaaacggcttacagtttgtaatttgtaataaac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtttattacaaattacaaactgtaagccgtttgaaaggcaaagatagagatttccggagaaaccggcatagcgggagataaatcacagttgtgatttatcagaaacaatttgcgggagataaatcgcaaaaggaatttta Mask Tandem Repeat Region ================================================ taaaattccttttgcgatttatctcccgcaaattgtttctgataaatcacaactgtgatttatctcccgctatgccggtttctccggaaatctctatctttgcctttcaaacggcttacagtttgtaatttgtaataaac Find is-nt database================================================ Query_seq: TF2517:TF2518|TF2517:TF2518:hypothetical protein:ATP-dependent DNA helicase:->->:2695541..2695680 140 taaaattccttttgcgatttatctcccgcaaattgtttctgataaatcacaactgtgatttatctcccgctatgccggtttctccggaaatctctatctttgcctttcaaacggcttacagtttgtaatttgtaataaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2517:TF2518|TF2517:TF2518:hypothetical protein:ATP-dependent DNA helicase:->->:2695541..2695680 140 taaaattccttttgcgatttatctcccgcaaattgtttctgataaatcacaactgtgatttatctcccgctatgccggtttctccggaaatctctatctttgcctttcaaacggcttacagtttgtaatttgtaataaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2517:TF2518|TF2517:TF2518:hypothetical protein:ATP-dependent DNA helicase:->->:2695541..2695680 140 taaaattccttttgcgatttatctcccgcaaattgtttctgataaatcacaactgtgatttatctcccgctatgccggtttctccggaaatctctatctttgcctttcaaacggcttacagtttgtaatttgtaataaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaattccttttgcgatttatctcccgcaaattgtttctgataaatcacaactgtgatttatctcccgctatgccggtttctccggaaatctctatctttgcctttcaaacggcttacagtttgtaatttgtaataaac Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 12 End: 125 ........... M R F I S R K L F L I N H N C D L S P A M P V S P E I S I F A F Q T A Y S L ............... taaaattccttttgcgatttatctcccgcaaattgtttctgataaatcacaactgtgatttatctcccgctatgccggtttctccggaaatctctatctttgcctttcaaacggcttacagtttgtaatttgtaataaac 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================================================ taaaattccttttgcgatttatctcccgcaaattgtttctgataaatcacaactgtgatttatctcccgctatgccggtttctccggaaatctctatctttgcctttcaaacggcttacagtttgtaatttgtaataaac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2517:TF2518|TF2517:TF2518:hypothetical protein:ATP-dependent DNA helicase:->->:2695541..2695680 140 taaaattccttttgcgatttatctcccgcaaattgtttctgataaatcacaactgtgatttatctcccgctatgccggtttctccggaaatctctatctttgcctttcaaacggcttacagtttgtaatttgtaataaac Intra-Species Hit: Count: 1 Min: 1 Max: 140 Len: 140 Subject: tfor_TF2517_TF2518|hypothetical protein:ATP-dependent DNA helicase|POSITIVE:POSITIVE|[2695541,2695680]|140 HSP 1 e-value: 5.0E-74 bit: 278.0 Len: 140 Query Start:1 Query End:140 Subject Strand: POSITIVE Subject Start: 1 Subject End: 140 taaaattccttttgcgatttatctcccgcaaattgtttctgataaatcacaactgtgatttatctcccgctatgccggtttctccggaaatctctatctttgcctttcaaacggcttacagtttgtaatttgtaataaac taaaattccttttgcgatttatctcccgcaaattgtttctgataaatcacaactgtgatttatctcccgctatgccggtttctccggaaatctctatctttgcctttcaaacggcttacagtttgtaatttgtaataaac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUUCCUUUUGCGAUUUAUCUCCCGCAAAUUGUUUCUGAUAAAUCACAACUGUGAUUUAUCUCCCGCUAUGCCGGUUUCUCCGGAAAUCUCUAUCUUUGCCUUUCAAACGGCUUACAGUUUGUAAUUUGUAAUAAAC ...........((((((.((.......(((((((((....((((((((((....))))))))))..........((((.....))))..............(((........)))..))))))))))).))))))..... (-30.71) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUAUUACAAAUUACAAACUGUAAGCCGUUUGAAAGGCAAAGAUAGAGAUUUCCGGAGAAACCGGCAUAGCGGGAGAUAAAUCACAGUUGUGAUUUAUCAGAAACAAUUUGCGGGAGAUAAAUCGCAAAAGGAAUUUUA ((((...............((((..(((........)))..............((((.....))))....))))..((((((((((....))))))))))..))))..(((((((........))))))).......... (-35.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 389 109 66 195 159 tfor:TF2810|5end_conserved_hypothetical_protein_3000583..3000813_POSITIVE 341 109 63 200 159 tfor:TF1785|5end_histidine_ammonia-lyase_1924494..1924724_POSITIVE 330 95 54 221 181 tfor:TF2729|5end_possible_outer_membrane_protein_2908216..2908446_POSITIVE 328 119 73 161 117 tfor:TF2237|5end_two-component_system_response_regulator_involved_in_CTn_2412494..2412724_POSITIVE 323 104 64 64 9 tfor:TF0725|5end_O-acetylhomoserine_(thiol)-lyase_776556..776786_POSITIVE 322 98 63 65 17 tfor:TF2467|5end_3-dehydroquinate_dehydratase_II_2645827..2646057_POSITIVE 320 79 46 170 136 tfor:TF3098|5end_conserved_hypothetical_protein_3329913..3330143_POSITIVE 320 115 72 55 10 tfor:TF1455|5end_conserved_hypothetical_protein_1540688..1540918_POSITIVE 319 87 58 220 185 tfor:TF0525|5end_conserved_hypothetical_protein_549265..549495_POSITIVE 316 120 74 68 22 tfor:TF2722|5end_conserved_hypothetical_protein_2896792..2897022_POSITIVE 314 117 76 55 4 tfor:TF1796|5end_ABC_transporter,_ATP-binding_protein_1936492..1936722_POSITIVE 313 95 52 171 121 tfor:TF0765|5end_conserved_hypothetical_protein_811302..811532_POSITIVE 313 104 67 49 10 tfor:TF0496|5end_conserved_hypothetical_protein_522332..522562_POSITIVE 310 100 53 87 31 tfor:TF1912|5end_transcriptional_regulator,_TetR_family_2065970..2066200_POSITIVE 310 87 44 191 158 tfor:TF1859|5end_aspartate_carbamoyltransferase,_regulatory_subunit_2015711..2015941_POSITIVE 309 110 69 185 143 tfor:TF3123|5end_dTDP-4-dehydrorhamnose_3,5-epimerase_3357775..3358005_POSITIVE 308 87 48 32 1 tfor:TF0507|5end_glutamine_ABC_transporter,_periplasmic_glutamine-binding_protein_532358..532588_POSITIVE 306 99 53 214 161 tfor:TF2259|5end_transfer_region-related_protein,_TraK_2429577..2429807_POSITIVE 305 103 61 40 1 tfor:TF2893|5end_conserved_hypothetical_protein;_possible_phosphoesterase_3080766..3080996_POSITIVE 305 110 67 215 170 tfor:TF2565|5end_50S_ribosomal_protein_L24_2739986..2740216_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 554 66 21 49 4 tfor:TF0684|3end_conserved_hypothetical_protein_730564..730714_POSITIVE 389 109 66 43 7 tfor:TF2809|3end_conserved_hypothetical_protein;_possible_translation_factor_(SUA5)_3000511..3000661_POSITIVE 341 104 63 70 26 tfor:TF0434|3end_CTP_synthetase_(UTP_ammonia_ligase)_457027..457177_POSITIVE 322 98 63 65 17 tfor:TF2466|3end_pyruvate_kinase_2645907..2646057_POSITIVE 320 79 46 138 104 tfor:TF3097|3end_conserved_hypothetical_protein_3329961..3330111_POSITIVE 309 110 69 73 31 tfor:TF3122|3end_ABC_transporter,_ATP-binding_protein_3357743..3357893_POSITIVE 308 113 82 119 82 tfor:TF2395|3end_conserved_hypothetical_protein_2567664..2567814_POSITIVE 305 107 65 85 36 tfor:TF1917|3end_hypothetical_protein_2070244..2070394_POSITIVE 304 115 74 149 106 tfor:TF2721|3end_conserved_hypothetical_protein_2896956..2897106_POSITIVE 303 104 63 141 101 tfor:TF2930|3end_glutamyl-tRNA_synthetase_3134352..3134502_POSITIVE 295 96 53 57 5 tfor:TF3118|3end_conserved_hypothetical_protein_3352824..3352974_POSITIVE 295 86 54 105 68 tfor:TF2779|3end_fucose_permease_2965932..2966082_POSITIVE 295 103 64 118 81 tfor:TF2654|3end_arginyl-tRNA_synthetase_2824559..2824709_POSITIVE 290 102 65 78 36 tfor:TF2911|3end_hypothetical_protein_3106640..3106790_POSITIVE 290 109 63 115 50 tfor:TF2607|3end_conserved_hypothetical_protein_2784645..2784795_POSITIVE 289 89 48 67 10 tfor:TF2519|3end_membrane_protein,_metallopeptidase_M23/M37_family_2698997..2699147_POSITIVE 289 88 46 56 6 tfor:TF1262|3end_PDZ_domain_protein_1348831..1348981_POSITIVE 289 108 61 74 25 tfor:TF0460|3end_hypothetical_protein_477070..477220_POSITIVE 287 116 76 46 1 tfor:TF0167|3end_conserved_hypothetical_protein_178234..178384_POSITIVE 286 114 74 69 17 tfor:TF0774|3end_membrane-fusion_protein;_36_kDa_antigen_823730..823880_POSITIVE