Origin IGS: tgagaagagcttagaaattaaaaatcagcctgctgttttcatatatatgagtcaactctacattggattattcaacacggacgatttttttatgctgtattttttgcatctcttaaaatctttcttacttttgcacctgtaaaccgaccgctcggtc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gaccgagcggtcggtttacaggtgcaaaagtaagaaagattttaagagatgcaaaaaatacagcataaaaaaatcgtccgtgttgaataatccaatgtagagttgactcatatatatgaaaacagcaggctgatttttaatttctaagctcttctca Mask Tandem Repeat Region ================================================ tgagaagagcttagaaattaaaaatcagcctgctgttttcatatatatgagtcaactctacattggattattcaacacggacgatttttttatgctgtattttttgcatctcttaaaatctttcttacttttgcacctgtaaaccgaccgctcggtc Find is-nt database================================================ Query_seq: TF0851:TF0852|TF0851:TF0852:helicase SNF2 family:transcriptional regulator, TetR family:->->:903229..903385 157 tgagaagagcttagaaattaaaaatcagcctgctgttttcatatatatgagtcaactctacattggattattcaacacggacgatttttttatgctgtattttttgcatctcttaaaatctttcttacttttgcacctgtaaaccgaccgctcggtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0851:TF0852|TF0851:TF0852:helicase SNF2 family:transcriptional regulator, TetR family:->->:903229..903385 157 tgagaagagcttagaaattaaaaatcagcctgctgttttcatatatatgagtcaactctacattggattattcaacacggacgatttttttatgctgtattttttgcatctcttaaaatctttcttacttttgcacctgtaaaccgaccgctcggtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0851:TF0852|TF0851:TF0852:helicase SNF2 family:transcriptional regulator, TetR family:->->:903229..903385 157 tgagaagagcttagaaattaaaaatcagcctgctgttttcatatatatgagtcaactctacattggattattcaacacggacgatttttttatgctgtattttttgcatctcttaaaatctttcttacttttgcacctgtaaaccgaccgctcggtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgagaagagcttagaaattaaaaatcagcctgctgttttcatatatatgagtcaactctacattggattattcaacacggacgatttttttatgctgtattttttgcatctcttaaaatctttcttacttttgcacctgtaaaccgaccgctcggtc Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 17 End: 139 ................ M K N Q P A V F I Y M S Q L Y I G L F N T D D F F M L Y F L H L L K S F L L L H L .................. Protein_Len: 38 Strand: + Start: 43 End: 156 .......................................... M Y E S T L H W I I Q H G R F F Y A V F F A S L K I F L T F A P V N R P L G . tgagaagagcttagaaattaaaaatcagcctgctgttttcatatatatgagtcaactctacattggattattcaacacggacgatttttttatgctgtattttttgcatctcttaaaatctttcttacttttgcacctgtaaaccgaccgctcggtc 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================================================ tgagaagagcttagaaattaaaaatcagcctgctgttttcatatatatgagtcaactctacattggattattcaacacggacgatttttttatgctgtattttttgcatctcttaaaatctttcttacttttgcacctgtaaaccgaccgctcggtc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0851:TF0852|TF0851:TF0852:helicase SNF2 family:transcriptional regulator, TetR family:->->:903229..903385 157 tgagaagagcttagaaattaaaaatcagcctgctgttttcatatatatgagtcaactctacattggattattcaacacggacgatttttttatgctgtattttttgcatctcttaaaatctttcttacttttgcacctgtaaaccgaccgctcggtc Intra-Species Hit: Count: 1 Min: 1 Max: 157 Len: 157 Subject: tfor_TF0851_TF0852|helicase SNF2 family:transcriptional regulator, TetR family|POSITIVE:POSITIVE|[903229,903385]|157 HSP 1 e-value: 1.0E-71 bit: 270.0 Len: 157 Query Start:1 Query End:157 Subject Strand: POSITIVE Subject Start: 1 Subject End: 157 tgagaagagcttagaaattaaaaatcagcctgctgttttcatatatatgagtcaactctacattggattattcaacacggacgannnnnnnatgctgtattttttgcatctcttaaaatctttcttacttttgcacctgtaaaccgaccgctcggtc tgagaagagcttagaaattaaaaatcagcctgctgttttcatatatatgagtcaactctacattggattattcaacacggacgatttttttatgctgtattttttgcatctcttaaaatctttcttacttttgcacctgtaaaccgaccgctcggtc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGAAGAGCUUAGAAAUUAAAAAUCAGCCUGCUGUUUUCAUAUAUAUGAGUCAACUCUACAUUGGAUUAUUCAACACGGACGAUUUUUUUAUGCUGUAUUUUUUGCAUCUCUUAAAAUCUUUCUUACUUUUGCACCUGUAAACCGACCGCUCGGUC ((((((((....(((....(((((((..((((.((..((((.......(((....))).....)))).....)).)).))..)))))))..((((..........)))).))).....)).))))))..(((((....)))))..((((....)))) (-25.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GACCGAGCGGUCGGUUUACAGGUGCAAAAGUAAGAAAGAUUUUAAGAGAUGCAAAAAAUACAGCAUAAAAAAAUCGUCCGUGUUGAAUAAUCCAAUGUAGAGUUGACUCAUAUAUAUGAAAACAGCAGGCUGAUUUUUAAUUUCUAAGCUCUUCUCA ((((....)))).....................((((((.((((.(((((...((((((.((((............((..(((((.......)))))..))((((..((((....))))...))))..)))))))))).))))))))).)))).)). (-29.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 275 80 31 223 168 tfor:TF0804|5end_possible_phosphatidylglycerophosphate_synthase_861875..862105_POSITIVE 256 65 22 112 57 tfor:TF2869|5end_hypothetical_protein_3061748..3061978_POSITIVE 254 140 92 73 27 tfor:TF0239|5end_conserved_hypothetical_protein_268894..269124_POSITIVE 248 115 78 231 194 tfor:TF2654|5end_arginyl-tRNA_synthetase_2822692..2822922_POSITIVE 245 114 75 81 48 tfor:TF0038|5end_conserved_hypothetical_protein_39907..40137_POSITIVE 243 101 62 142 94 tfor:TF2034|5end_arabinose-proton_symporter_2193258..2193488_POSITIVE 242 120 71 195 139 tfor:TF0299|5end_hypothetical_protein_324821..325051_POSITIVE 241 150 101 105 54 tfor:TF3160|5end_conserved_hypothetical_protein_3395531..3395761_POSITIVE 236 99 57 49 9 tfor:TF1224|5end_hypothetical_protein_1311203..1311433_POSITIVE 233 110 66 182 130 tfor:TF1620|5end_TPR_domain_protein_1734454..1734684_POSITIVE 232 112 71 147 111 tfor:TF1291|5end_response_regulator_(fimR__protein)_1371959..1372189_POSITIVE 232 80 32 67 12 tfor:TF0037|5end_sialic_acid-specific_9-O-acetylesterase_37836..38066_POSITIVE 231 67 22 103 57 tfor:TF2861|5end_conserved_hypothetical_protein;_possible_Rhs_family_protein_3051738..3051968_POSITIVE 231 150 118 113 75 tfor:TF0853|5end_conserved_hypothetical_protein_903914..904144_POSITIVE 230 94 56 213 175 tfor:TF2490|5end_4-hydroxyphenylacetate-3-hydroxylase/4-hydroxybut_yryl_dehydratase_2665218..2665448_POSITIVE 230 58 27 37 5 tfor:TF2240|5end__tetracycline_resistance_element_mobilization_regulatory_protein_2414723..2414953_POSITIVE 229 98 51 224 182 tfor:TF3150|5end_conserved_hypothetical_protein_3385512..3385742_POSITIVE 229 91 51 150 119 tfor:TF2114|5end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase,_GcpE_2283006..2283236_POSITIVE 226 98 53 66 20 tfor:TF2673|5end_conserved_hypothetical_protein_2846987..2847217_POSITIVE 226 126 81 85 42 tfor:TF2556|5end_conserved_hypothetical_protein_2736131..2736361_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 279 143 104 55 15 tfor:TF3077|3end_tonB-dependent_receptor_HmuY_3305766..3305916_POSITIVE 256 65 22 112 57 tfor:TF2868|3end_hypothetical_protein_3061828..3061978_POSITIVE 256 50 9 87 51 tfor:TF2850|3end_endoribonuclease_L-PSP_3038871..3039021_POSITIVE 254 140 92 56 10 tfor:TF0238|3end_outer_membrane_protein_268957..269107_POSITIVE 245 114 75 85 52 tfor:TF0037|3end_sialic_acid-specific_9-O-acetylesterase_39991..40141_POSITIVE 243 101 62 125 77 tfor:TF2033|3end_conserved_hypothetical_protein_2193321..2193471_POSITIVE 241 150 101 105 54 tfor:TF3159|3end_conserved_hypothetical_protein;_possible_transcriptional_regulator_3395611..3395761_POSITIVE 236 99 57 46 6 tfor:TF1223|3end_conserved_hypothetical_protein_1311280..1311430_POSITIVE 229 91 51 150 119 tfor:TF2113|3end_phosphoribosylaminoimidazole_carboxylase_2283086..2283236_POSITIVE 227 97 52 110 52 tfor:TF1968|3end_conserved_hypothetical_protein_2115959..2116109_POSITIVE 221 53 19 116 82 tfor:TF0300|3end_hypothetical_protein_325541..325691_POSITIVE 218 66 26 110 72 tfor:TF2302|3end_conserved_hypothetical_protein;_possible_outer_membrane_protein_2458063..2458213_POSITIVE 218 33 2 112 73 tfor:TF0520|3end_tetraacyldisaccharide_4'-kinase_545929..546079_POSITIVE 217 148 103 115 58 tfor:TF2241|3end_ATP-dependent_DNA_helicase_2417031..2417181_POSITIVE 216 80 31 40 1 tfor:TF2239|3end_hypothetical_protein_2414790..2414940_POSITIVE 215 148 106 121 80 tfor:TF2428|3end_conserved_hypothetical_protein_2610525..2610675_POSITIVE 213 150 106 119 75 tfor:TF2225|3end_CTn_excision_protein_2395602..2395752_POSITIVE 213 101 61 45 12 tfor:TF2157|3end_conserved_hypothetical_protein_2333924..2334074_POSITIVE 213 97 51 111 60 tfor:TF0589|3end_anti-sigma_factor_624603..624753_POSITIVE 212 107 63 121 64 tfor:TF2228|3end_CTn_excision_protein_2397553..2397703_POSITIVE