Origin IGS: ggtgttttttttatgatttgtaaaattctattgttgaagaatgtaatctgtttataagctcatctttgttgcatgcaaagatacaaaagaatgaaaaataccaagactaaccgtcaattcatcggatgagagaaacagtggaatagaagtccta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taggacttctattccactgtttctctcatccgatgaattgacggttagtcttggtatttttcattcttttgtatctttgcatgcaacaaagatgagcttataaacagattacattcttcaacaatagaattttacaaatcataaaaaaaacacc Mask Tandem Repeat Region ================================================ ggtgttttttttatgatttgtaaaattctattgttgaagaatgtaatctgtttataagctcatctttgttgcatgcaaagatacaaaagaatgaaaaataccaagactaaccgtcaattcatcggatgagagaaacagtggaatagaagtccta Find is-nt database================================================ Query_seq: TF0107:TF0108|TF0107:TF0108:ion channel protein:thiamine biosynthesis protein, ThiF family:->->:115154..115307 154 ggtgttttttttatgatttgtaaaattctattgttgaagaatgtaatctgtttataagctcatctttgttgcatgcaaagatacaaaagaatgaaaaataccaagactaaccgtcaattcatcggatgagagaaacagtggaatagaagtccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0107:TF0108|TF0107:TF0108:ion channel protein:thiamine biosynthesis protein, ThiF family:->->:115154..115307 154 ggtgttttttttatgatttgtaaaattctattgttgaagaatgtaatctgtttataagctcatctttgttgcatgcaaagatacaaaagaatgaaaaataccaagactaaccgtcaattcatcggatgagagaaacagtggaatagaagtccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0107:TF0108|TF0107:TF0108:ion channel protein:thiamine biosynthesis protein, ThiF family:->->:115154..115307 154 ggtgttttttttatgatttgtaaaattctattgttgaagaatgtaatctgtttataagctcatctttgttgcatgcaaagatacaaaagaatgaaaaataccaagactaaccgtcaattcatcggatgagagaaacagtggaatagaagtccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggtgttttttttatgatttgtaaaattctattgttgaagaatgtaatctgtttataagctcatctttgttgcatgcaaagatacaaaagaatgaaaaataccaagactaaccgtcaattcatcggatgagagaaacagtggaatagaagtccta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 55 End: 144 ...................................................... L S M K T A H L S V F S H F I G L S V T L E D S S L F L P M .......... ggtgttttttttatgatttgtaaaattctattgttgaagaatgtaatctgtttataagctcatctttgttgcatgcaaagatacaaaagaatgaaaaataccaagactaaccgtcaattcatcggatgagagaaacagtggaatagaagtccta 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================================================ ggtgttttttttatgatttgtaaaattctattgttgaagaatgtaatctgtttataagctcatctttgttgcatgcaaagatacaaaagaatgaaaaataccaagactaaccgtcaattcatcggatgagagaaacagtggaatagaagtccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0107:TF0108|TF0107:TF0108:ion channel protein:thiamine biosynthesis protein, ThiF family:->->:115154..115307 154 ggtgttttttttatgatttgtaaaattctattgttgaagaatgtaatctgtttataagctcatctttgttgcatgcaaagatacaaaagaatgaaaaataccaagactaaccgtcaattcatcggatgagagaaacagtggaatagaagtccta Intra-Species Hit: Count: 1 Min: 13 Max: 154 Len: 142 Subject: tfor_TF0107_TF0108|ion channel protein:thiamine biosynthesis protein, ThiF family|POSITIVE:POSITIVE|[115154,115307]|154 HSP 1 e-value: 3.0E-75 bit: 281.0 Len: 142 Query Start:13 Query End:154 Subject Strand: POSITIVE Subject Start: 13 Subject End: 154 ............atgatttgtaaaattctattgttgaagaatgtaatctgtttataagctcatctttgttgcatgcaaagatacaaaagaatgaaaaataccaagactaaccgtcaattcatcggatgagagaaacagtggaatagaagtccta ............atgatttgtaaaattctattgttgaagaatgtaatctgtttataagctcatctttgttgcatgcaaagatacaaaagaatgaaaaataccaagactaaccgtcaattcatcggatgagagaaacagtggaatagaagtccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUGAUUUGUAAAAUUCUAUUGUUGAAGAAUGUAAUCUGUUUAUAAGCUCAUCUUUGUUGCAUGCAAAGAUACAAAAGAAUGAAAAAUACCAAGACUAACCGUCAAUUCAUCGGAUGAGAGAAACAGUGGAAUAGAAGUCCUA ..(((((.((...((((((((((..........(((((...........((((((((.....))))))))......................(((.....))).......)))))......)))))))))))).)))))... (-26.09) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGACUUCUAUUCCACUGUUUCUCUCAUCCGAUGAAUUGACGGUUAGUCUUGGUAUUUUUCAUUCUUUUGUAUCUUUGCAUGCAACAAAGAUGAGCUUAUAAACAGAUUACAUUCUUCAACAAUAGAAUUUUACAAAUCAU (((((.(((((((..((((((..((((....)).))...))))))((((((...(((..(((((..((((((((......)))))).))..)))))...)))...))))))...........))))))))))))........ (-21.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 273 139 98 214 174 tfor:TF2314|5end_conserved_hypothetical_protein_2473530..2473760_POSITIVE 267 130 91 204 175 tfor:TF2583|5end_possible_ABC_transporter,__permease_component_2750206..2750436_POSITIVE 259 139 92 82 30 tfor:TF0559|5end_methanol_dehydrogenase_regulator,_MoxR-like;_magnesium_chelatase,_subunit_I_591015..591245_POSITIVE 258 129 92 35 1 tfor:TF1742|5end_TPR_repeat-containing_protein_1873129..1873359_POSITIVE 258 74 50 147 123 tfor:TF0105|5end_DNA-binding_stress_protein,_Dps_family_113354..113584_POSITIVE 256 139 92 119 68 tfor:TF0355|5end_transposase_element_372847..373077_POSITIVE 254 118 98 226 205 tfor:TF3126|5end_glycosyltransferase,_group_2_family_3360439..3360669_POSITIVE 251 129 86 186 142 tfor:TF2774|5end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_2959133..2959363_POSITIVE 251 63 29 209 167 tfor:TF2126|5end_S-adenosylhomocysteine_hydrolase_2302501..2302731_POSITIVE 247 125 99 54 33 tfor:TF2328|5end_conserved_hypothetical_protein_2487184..2487414_POSITIVE 244 140 98 117 71 tfor:TF2296|5end_hypothetical_protein_2448892..2449122_POSITIVE 244 138 96 117 76 tfor:TF1280|5end_electron_transfer_flavoprotein,_beta_subunit_1364299..1364529_POSITIVE 243 136 92 172 129 tfor:TF1126|5end_conserved_hypothetical_protein;_possible_lipoprotein_1199978..1200208_POSITIVE 242 140 98 179 134 tfor:TF1108|5end_conserved_hypothetical_protein;_possible_lipoprotein_1177815..1178045_POSITIVE 239 133 97 229 199 tfor:TF2527|5end_RNA_polymerase_ECF-type_sigma_factor_2710097..2710327_POSITIVE 239 137 92 156 93 tfor:TF1508|5end_anti-sigma_factor_1616345..1616575_POSITIVE 234 83 46 190 146 tfor:TF3146|5end_GTP-binding_protein_Obg_3381852..3382082_POSITIVE 234 88 48 156 110 tfor:TF0323|5end_NAD-dependent_epimerase/dehydratase_family_protein_349933..350163_POSITIVE 234 139 93 206 154 tfor:TF0181|5end_ATP-dependent_DNA_helicase_192408..192638_POSITIVE 233 140 93 163 110 tfor:TF1231|5end_NAD-dependent_DNA_ligase_1315235..1315465_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 256 139 92 78 27 tfor:TF0354|3end_hypothetical_protein_372886..373036_POSITIVE 251 63 29 93 51 tfor:TF2125|3end_conserved_hypothetical_protein_2302465..2302615_POSITIVE 247 130 85 132 86 tfor:TF2461|3end_outer_membrane_protein,_TonB-related_receptor_2641792..2641942_POSITIVE 247 129 86 72 33 tfor:TF2058|3end_possible_ATP-dependent_DNA_helicase_2223798..2223948_POSITIVE 244 135 97 109 76 tfor:TF2528|3end_anti-sigma_factor_2710054..2710204_POSITIVE 244 138 96 71 30 tfor:TF1278|3end_hypothetical_protein_1364333..1364483_POSITIVE 243 136 92 149 106 tfor:TF1125|3end_conserved_hypothetical_protein_1200035..1200185_POSITIVE 238 139 98 133 84 tfor:TF0652|3end_conserved_hypothetical_protein_696522..696672_POSITIVE 234 83 46 80 36 tfor:TF3145|3end_conserved_hypothetical_protein;_possible_GTP_cyclohydrolase_I_family_3381822..3381972_POSITIVE 234 88 48 109 63 tfor:TF0322|3end_possible_YngK_protein_349966..350116_POSITIVE 232 139 92 49 2 tfor:TF0558|3end_conserved_hypothetical_protein_591062..591212_POSITIVE 232 129 86 112 73 tfor:TF0145|3end_glutamine_synthetase_154718..154868_POSITIVE 231 140 98 57 16 tfor:TF3021|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_3246194..3246344_POSITIVE 227 100 53 147 98 tfor:TF2127|3end_hypothetical_protein_2304306..2304456_POSITIVE 226 128 85 74 29 tfor:TF1254|3end_conserved_hypothetical_protein;_possible_transcriptional_regulator_1336705..1336855_POSITIVE 226 71 36 139 94 tfor:TF0118|3end_5-keto-D-gluconate_5-reductase_130636..130786_POSITIVE 226 138 91 69 9 tfor:TF0093|3end_outer_membrane_protein,_TonB_dependent_receptor_103618..103768_POSITIVE 225 74 57 21 4 tfor:TF0104|3end_redox-sensitive_transcriptional_activator,_OxyR_113308..113458_POSITIVE 224 137 101 147 113 tfor:TF1668|3end_possible_glycosylhydrolase_1783615..1783765_POSITIVE 224 134 96 52 11 tfor:TF1058|3end_N-acetylglucosamine_kinase_1126848..1126998_POSITIVE