Origin IGS: taaatataaacatctttaaaagatttctggataaaatcgcagtaattaatgaatctaaagtcggtttaaagacgttttttttgctttggtaagcaagcagattttctatctttaatgc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gcattaaagatagaaaatctgcttgcttaccaaagcaaaaaaaacgtctttaaaccgactttagattcattaattactgcgattttatccagaaatcttttaaagatgtttatattta Mask Tandem Repeat Region ================================================ taaatataaacatctttaaaagatttctggataaaatcgcagtaattaatgaatctaaagtcggtttaaagacgttttttttgctttggtaagcaagcagattttctatctttaatgc Find is-nt database================================================ Query_seq: TF0957:TF0958|TF0957:TF0958:hypothetical protein:conserved hypothetical protein:->->:1003940..1004057 118 taaatataaacatctttaaaagatttctggataaaatcgcagtaattaatgaatctaaagtcggtttaaagacgttttttttgctttggtaagcaagcagattttctatctttaatgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0957:TF0958|TF0957:TF0958:hypothetical protein:conserved hypothetical protein:->->:1003940..1004057 118 taaatataaacatctttaaaagatttctggataaaatcgcagtaattaatgaatctaaagtcggtttaaagacgttttttttgctttggtaagcaagcagattttctatctttaatgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0957:TF0958|TF0957:TF0958:hypothetical protein:conserved hypothetical protein:->->:1003940..1004057 118 taaatataaacatctttaaaagatttctggataaaatcgcagtaattaatgaatctaaagtcggtttaaagacgttttttttgctttggtaagcaagcagattttctatctttaatgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaatataaacatctttaaaagatttctggataaaatcgcagtaattaatgaatctaaagtcggtttaaagacgttttttttgctttggtaagcaagcagattttctatctttaatgc Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: - Start: 2 End: 109 . F I F M K L L N R S L I A T I L S D L T P K F V N K K S Q Y A L L N E M ......... taaatataaacatctttaaaagatttctggataaaatcgcagtaattaatgaatctaaagtcggtttaaagacgttttttttgctttggtaagcaagcagattttctatctttaatgc 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================================================ taaatataaacatctttaaaagatttctggataaaatcgcagtaattaatgaatctaaagtcggtttaaagacgttttttttgctttggtaagcaagcagattttctatctttaatgc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0957:TF0958|TF0957:TF0958:hypothetical protein:conserved hypothetical protein:->->:1003940..1004057 118 taaatataaacatctttaaaagatttctggataaaatcgcagtaattaatgaatctaaagtcggtttaaagacgttttttttgctttggtaagcaagcagattttctatctttaatgc Intra-Species Hit: Count: 1 Min: 1 Max: 118 Len: 118 Subject: tfor_TF0957_TF0958|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1003940,1004057]|118 HSP 1 e-value: 1.0E-46 bit: 186.0 Len: 118 Query Start:1 Query End:118 Subject Strand: POSITIVE Subject Start: 1 Subject End: 118 taaatataaacatctttaaaagatttctggataaaatcgcagtaattaatgaatctaaagtcggtttaaagacgnnnnnnnngctttggtaagcaagcagattttctatctttaatgc taaatataaacatctttaaaagatttctggataaaatcgcagtaattaatgaatctaaagtcggtttaaagacgttttttttgctttggtaagcaagcagattttctatctttaatgc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUAUAAACAUCUUUAAAAGAUUUCUGGAUAAAAUCGCAGUAAUUAAUGAAUCUAAAGUCGGUUUAAAGACGUUUUUUUUGCUUUGGUAAGCAAGCAGAUUUUCUAUCUUUAAUGC .......((((.((((((((.(((((.(((((....................))))))))))..)))))))).))))...((((((....))))))..((((.....))))....... (-18.95) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCAUUAAAGAUAGAAAAUCUGCUUGCUUACCAAAGCAAAAAAAACGUCUUUAAACCGACUUUAGAUUCAUUAAUUACUGCGAUUUUAUCCAGAAAUCUUUUAAAGAUGUUUAUAUUUA .......((((.....))))..((((((....))))))...(((((((((((((..((........))............((((((.....)))))).)))))))))))))....... (-19.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 260 100 53 102 62 tfor:TF0720|5end_ABC_transporter,_permease_component_770046..770276_POSITIVE 249 100 59 203 162 tfor:TF1703|5end_conserved_hypothetical_protein_1822065..1822295_POSITIVE 249 100 59 158 111 tfor:TF0746|5end_possible_DNA_polymerase_III_792261..792491_POSITIVE 243 110 73 151 117 tfor:TF2091|5end_3-oxoacyl-acyl-carrier-protein_synthase_2259690..2259920_POSITIVE 241 94 52 207 166 tfor:TF0407|5end_lipoate-protein_ligase_B_(lipoyltransferase)_425084..425314_POSITIVE 237 80 36 96 44 tfor:TF1872|5end_ABC_transporter,_ATP-binding/permease_component_2024530..2024760_POSITIVE 235 109 61 225 167 tfor:TF0482|5end_outer_membrane_receptor_500729..500959_POSITIVE 231 95 53 226 190 tfor:TF3055|5end_hypothetical_protein_3278775..3279005_POSITIVE 228 96 57 219 172 tfor:TF3093|5end_30S_ribosomal_protein_S2_3325244..3325474_POSITIVE 228 102 80 121 101 tfor:TF2499|5end_possible_thioesterase_family_protein_2673903..2674133_POSITIVE 228 95 54 86 45 tfor:TF2441|5end_10_kDa_chaperonin_2618239..2618469_POSITIVE 226 110 61 144 97 tfor:TF1611|5end_conserved_hypothetical_protein;_possible_glycosyl_transferase_1729620..1729850_POSITIVE 225 90 46 155 111 tfor:TF1273|5end_hypothetical_protein_1356270..1356500_POSITIVE 222 95 58 190 152 tfor:TF2175|5end_hypothetical_protein_2348535..2348765_POSITIVE 222 101 62 140 99 tfor:TF1932|5end_pigmentation_and_extracellular_proteinase_regulator_2078542..2078772_POSITIVE 222 89 59 150 121 tfor:TF0278|5end_conserved_hypothetical_protein_305570..305800_POSITIVE 219 100 51 156 119 tfor:TF2556|5end_conserved_hypothetical_protein_2736131..2736361_POSITIVE 219 100 51 51 14 tfor:TF2554|5end_50S_ribosomal_protein_L23_2736026..2736256_POSITIVE 219 98 60 208 173 tfor:TF0459|5end_sulfatase_475143..475373_POSITIVE 218 88 46 107 66 tfor:TF0805|5end_possible_hydrolase,_HAD_superfamily_862780..863010_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 255 97 61 151 116 tfor:TF1215|3end_haloacid_dehalogenase-like_hydrolase_1303216..1303366_POSITIVE 252 98 58 131 86 tfor:TF0844|3end_transposase,_IS3_family_896099..896249_POSITIVE 250 106 71 81 47 tfor:TF0496|3end_conserved_hypothetical_protein_523869..524019_POSITIVE 249 100 59 133 92 tfor:TF1702|3end_conserved_hypothetical_protein_1822075..1822225_POSITIVE 249 100 59 125 78 tfor:TF0744|3end_DNA_polymerase_III_subunit,_gamma/tau_792308..792458_POSITIVE 243 110 73 130 96 tfor:TF2089|3end_acyl_carrier_protein_2259749..2259899_POSITIVE 242 107 75 40 4 tfor:TF3052|3end_conserved_hypothetical_protein_3278654..3278804_POSITIVE 228 96 57 74 27 tfor:TF3092|3end_30S_ribosomal_protein_S9_3325179..3325329_POSITIVE 228 102 80 23 3 tfor:TF2498|3end_electron_transfer_flavoprotein,_alpha_subunit_2673885..2674035_POSITIVE 226 110 61 118 71 tfor:TF1610|3end_peptide_chain_release_factor_RF-2_1729674..1729824_POSITIVE 222 101 62 140 99 tfor:TF1931|3end_ATPase/GTPase_2078622..2078772_POSITIVE 222 89 59 147 118 tfor:TF0277|3end_outer_membrane_protein_305647..305797_POSITIVE 221 98 62 78 32 tfor:TF1295|3end_conserved_hypothetical_protein_1377256..1377406_POSITIVE 220 107 68 151 109 tfor:TF2325|3end_conserved_hypothetical_protein_2484659..2484809_POSITIVE 218 88 46 146 105 tfor:TF0804|3end_possible_phosphatidylglycerophosphate_synthase_862899..863049_POSITIVE 218 101 61 137 91 tfor:TF0758|3end_peptidyl-tRNA_hydrolase_805950..806100_POSITIVE 215 110 62 51 1 tfor:TF2515|3end_outer_membrane_protein,_TonB_dependent_receptor_2694865..2695015_POSITIVE 212 100 58 61 8 tfor:TF2472|3end_GAF_domain-containing_protein_2650468..2650618_POSITIVE 212 100 69 30 2 tfor:TF0719|3end_hypothetical_protein_770054..770204_POSITIVE 211 99 53 128 90 tfor:TF2318|3end_conserved_hypothetical_protein_2476312..2476462_POSITIVE