Origin IGS: taagcgcacgtacaggaaaaacgatagagagctacctccacaaaaagggtagctctttttttgtggttaagcggtgcaatggttttttggatttctatttatgaatagaaaggattttcatgtacctttccttccgtgagtttttctaaaaagaaatctttcttacaactttcgaataacatgattaaacaacagataaa .........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 tttatctgttgtttaatcatgttattcgaaagttgtaagaaagatttctttttagaaaaactcacggaaggaaaggtacatgaaaatcctttctattcataaatagaaatccaaaaaaccattgcaccgcttaaccacaaaaaaagagctaccctttttgtggaggtagctctctatcgtttttcctgtacgtgcgctta Mask Tandem Repeat Region ================================================ taagcgcacgtacaggaaaaacgatagagagctacctccacaaaaagggtagctctttttttgtggttaagcggtgcaatggttttttggatttctatttatgaatagaaaggattttcatgtacctttccttccgtgagtttttctaaaaagaaatctttcttacaactttcgaataacatgattaaacaacagataaa Find is-nt database================================================ Query_seq: TF0305:TF0306|TF0305:TF0306:peptidyl-prolyl cis-trans isomerase:transglutaminase-like enzyme/cysteine protease:->->:331173..331372 200 taagcgcacgtacaggaaaaacgatagagagctacctccacaaaaagggtagctctttttttgtggttaagcggtgcaatggttttttggatttctatttatgaatagaaaggattttcatgtacctttccttccgtgagtttttctaaaaagaaatctttcttacaactttcgaataacatgattaaacaacagataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0305:TF0306|TF0305:TF0306:peptidyl-prolyl cis-trans isomerase:transglutaminase-like enzyme/cysteine protease:->->:331173..331372 200 taagcgcacgtacaggaaaaacgatagagagctacctccacaaaaagggtagctctttttttgtggttaagcggtgcaatggttttttggatttctatttatgaatagaaaggattttcatgtacctttccttccgtgagtttttctaaaaagaaatctttcttacaactttcgaataacatgattaaacaacagataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0305:TF0306|TF0305:TF0306:peptidyl-prolyl cis-trans isomerase:transglutaminase-like enzyme/cysteine protease:->->:331173..331372 200 taagcgcacgtacaggaaaaacgatagagagctacctccacaaaaagggtagctctttttttgtggttaagcggtgcaatggttttttggatttctatttatgaatagaaaggattttcatgtacctttccttccgtgagtttttctaaaaagaaatctttcttacaactttcgaataacatgattaaacaacagataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagcgcacgtacaggaaaaacgatagagagctacctccacaaaaagggtagctctttttttgtggttaagcggtgcaatggttttttggatttctatttatgaatagaaaggattttcatgtacctttccttccgtgagtttttctaaaaagaaatctttcttacaactttcgaataacatgattaaacaacagataaa Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 102 End: 197 ..................................................................................................... S Y F P N E H V K G E T L K E L F F D K K C S E F L M I L C C M ... Protein_Len: 32 Strand: - Start: 3 End: 98 .. A C T C S F R Y L A V E V F L T A R K K H N L P A I T K Q I E M ...................................................................................................... taagcgcacgtacaggaaaaacgatagagagctacctccacaaaaagggtagctctttttttgtggttaagcggtgcaatggttttttggatttctatttatgaatagaaaggattttcatgtacctttccttccgtgagtttttctaaaaagaaatctttcttacaactttcgaataacatgattaaacaacagataaa 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================================================ taagcgcacgtacaggaaaaacgatagagagctacctccacaaaaagggtagctctttttttgtggttaagcggtgcaatggttttttggatttctatttatgaatagaaaggattttcatgtacctttccttccgtgagtttttctaaaaagaaatctttcttacaactttcgaataacatgattaaacaacagataaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 45 HP_score: -2.6 Tail_Score: -3.2082 Start: 27 End: 57 Full_Region: gcttaaccacaaaaa aagagctaccct ttttgt ggaggtagctctc tatcgtttttcctgt ..........................aagagctaccctttttgtggaggtagctctc............................................................................................................................................... TransTerm Strand: - Conf: 53 HP_score: -5.2 Tail_Score: -3.15182 Start: 29 End: 55 Full_Region: ttaaccacaaaaaaa gagctaccct ttttgt ggaggtagctc tctatcgtttttcct ............................gagctaccctttttgtggaggtagctc................................................................................................................................................. Find igs database================================================ Query_seq: TF0305:TF0306|TF0305:TF0306:peptidyl-prolyl cis-trans isomerase:transglutaminase-like enzyme/cysteine protease:->->:331173..331372 200 taagcgcacgtacaggaaaaacgatagagagctacctccacaaaaagggtagctctttttttgtggttaagcggtgcaatggttttttggatttctatttatgaatagaaaggattttcatgtacctttccttccgtgagtttttctaaaaagaaatctttcttacaactttcgaataacatgattaaacaacagataaa Intra-Species Hit: Count: 1 Min: 1 Max: 200 Len: 200 Subject: tfor_TF0305_TF0306|peptidyl-prolyl cis-trans isomerase:transglutaminase-like enzyme/cysteine protease|POSITIVE:POSITIVE|[331173,331372]|200 HSP 1 e-value: 4.0E-97 bit: 355.0 Len: 200 Query Start:1 Query End:200 Subject Strand: POSITIVE Subject Start: 1 Subject End: 200 taagcgcacgtacaggaaaaacgatagagagctacctccacaaaaagggtagctcnnnnnnngtggttaagcggtgcaatggttttttggatttctatttatgaatagaaaggattttcatgtacctttccttccgtgagtttttctaaaaagaaatctttcttacaactttcgaataacatgattaaacaacagataaa taagcgcacgtacaggaaaaacgatagagagctacctccacaaaaagggtagctctttttttgtggttaagcggtgcaatggttttttggatttctatttatgaatagaaaggattttcatgtacctttccttccgtgagtttttctaaaaagaaatctttcttacaactttcgaataacatgattaaacaacagataaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCGCACGUACAGGAAAAACGAUAGAGAGCUACCUCCACAAAAAGGGUAGCUCUUUUUUUGUGGUUAAGCGGUGCAAUGGUUUUUUGGAUUUCUAUUUAUGAAUAGAAAGGAUUUUCAUGUACCUUUCCUUCCGUGAGUUUUUCUAAAAAGAAAUCUUUCUUACAACUUUCGAAUAACAUGAUUAAACAACAGAUAAA ...((((.(((....((...((((.((((((((((((.........))))))))))))..))))..))..)))))))....((.....((((((((.((((.(((..((((((((......)).))))))....(....)...))))))).)))))))).....)).................................. (-47.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUCUGUUGUUUAAUCAUGUUAUUCGAAAGUUGUAAGAAAGAUUUCUUUUUAGAAAAACUCACGGAAGGAAAGGUACAUGAAAAUCCUUUCUAUUCAUAAAUAGAAAUCCAAAAAACCAUUGCACCGCUUAACCACAAAAAAAGAGCUACCCUUUUUGUGGAGGUAGCUCUCUAUCGUUUUUCCUGUACGUGCGCUUA ....((((((..............((((..((((.(.((((((....)))))).)...))))..)))).(((((((...........))))))).......))))))................((((.((..............(((((((((((......)).)))))))))..............))..))))..... (-40.29) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 327 49 6 114 73 tfor:TF0471|5end_conserved_hypothetical_protein_487516..487746_POSITIVE 304 87 47 83 38 tfor:TF2153|5end_6-phosphofructokinase_2328112..2328342_POSITIVE 300 90 47 230 184 tfor:TF0591|5end_RNA_polymerase,_ECF-type_sigma_factor_624578..624808_POSITIVE 297 96 51 182 130 tfor:TF0552|5end_Bacteroides_aerotolerance_protein,_BatE_583698..583928_POSITIVE 296 92 51 175 136 tfor:TF2242|5end_hypothetical_protein_2416947..2417177_POSITIVE 293 160 112 65 12 tfor:TF1908|5end_possible_phosphoglycerate_mutase_2062695..2062925_POSITIVE 293 65 31 84 55 tfor:TF1760|5end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase_1897081..1897311_POSITIVE 290 49 2 223 172 tfor:TF0001|5end_hypothetical_protein_-116..114_POSITIVE 288 90 43 144 103 tfor:TF2754|5end_hypothetical_protein_2940446..2940676_POSITIVE 281 78 31 59 11 tfor:TF2317|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_II_2474418..2474648_POSITIVE 276 84 48 190 144 tfor:TF1539|5end_conserved_hypothetical_protein_1644067..1644297_POSITIVE 276 77 35 203 152 tfor:TF1357|5end_hypothetical_protein_1437428..1437658_POSITIVE 275 90 47 157 114 tfor:TF2737|5end_conserved_hypothetical_protein;_TPR-repeat-containing_protein_2918397..2918627_POSITIVE 275 89 41 185 129 tfor:TF1048|5end_permease_1109241..1109471_POSITIVE 274 50 3 69 30 tfor:TF0032|5end_sugar_phosphate_permease,_major_facilitator_superfamily_27911..28141_POSITIVE 271 84 41 191 144 tfor:TF0695|5end_possible_phosphatidylglycerophosphate_synthase_739021..739251_POSITIVE 269 78 31 194 157 tfor:TF2265|5end_transfer_region-related_protein,_TraP;_DNA_primase_involved_in_conjugation_2433474..2433704_POSITIVE 269 45 1 58 13 tfor:TF0218|5end_translation_initiation_factor_3_(IF-3)_243182..243412_POSITIVE 268 78 46 181 142 tfor:TF2420|5end_hypothetical_protein_2599235..2599465_POSITIVE 268 90 47 142 104 tfor:TF1688|5end_conserved_hypothetical_protein;_possible_periplasmic_protein_1803354..1803584_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 374 59 15 63 20 tfor:TF2349|3end_conserved_hypothetical_protein_2514921..2515071_POSITIVE 345 68 21 86 29 tfor:TF2515|3end_outer_membrane_protein,_TonB_dependent_receptor_2694865..2695015_POSITIVE 326 72 31 60 19 tfor:TF0305|3end_peptidyl-prolyl_cis-trans_isomerase_331112..331262_POSITIVE 293 68 21 64 15 tfor:TF2385|3end_conserved_hypothetical_protein;_possible_MazG_family_protein_2551544..2551694_POSITIVE 293 65 31 67 38 tfor:TF1759|3end_membrane-bound_lytic_murein_transglycosylase_D_precursor_1897144..1897294_POSITIVE 290 49 2 59 8 tfor:TF3165|3end_thiol:disulfide_interchange_protein,_thioredoxin_family_protein_3405343..3405493_POSITIVE 288 90 43 66 25 tfor:TF2753|3end_zinc_protease_2940448..2940598_POSITIVE 282 90 45 147 95 tfor:TF1747|3end_hypothetical_protein_1881497..1881647_POSITIVE 281 78 31 59 11 tfor:TF2315|3end_thioesterase_2474498..2474648_POSITIVE 276 77 35 149 98 tfor:TF1356|3end_cysteine_synthase_A_1437454..1437604_POSITIVE 275 90 47 138 95 tfor:TF2736|3end_methylglyoxal_synthase_2918458..2918608_POSITIVE 274 50 3 44 5 tfor:TF0031|3end_N-acylglucosamine_2-epimerase_27966..28116_POSITIVE 270 82 50 151 116 tfor:TF2417|3end_outer_membrane_protein,_TonB_dependent_receptor_2596960..2597110_POSITIVE 268 78 46 41 2 tfor:TF2419|3end_conserved_hypothetical_protein;_possible_DNA_uptake-related_protein_2599175..2599325_POSITIVE 264 36 3 103 60 tfor:TF0247|3end_conserved_hypothetical_protein_278348..278498_POSITIVE 263 77 34 70 33 tfor:TF2746|3end_hypothetical_protein_2928246..2928396_POSITIVE 263 79 31 148 87 tfor:TF0008|3end_hypothetical_protein_4336..4486_POSITIVE 261 76 37 136 98 tfor:TF0475|3end_possible_transcriptional_regulator,_AraC_family_494825..494975_POSITIVE 260 96 52 120 61 tfor:TF2282|3end_hypothetical_protein_2439822..2439972_POSITIVE 260 78 46 151 107 tfor:TF0082|3end_transcriptional_regulator,_TetR_family_89264..89414_POSITIVE