Origin IGS: tacctcacctcaacgtatcattttgtgatacattttagcctaataagaacaaaaatcaagtacagtccaaaaacacttctttttcctaataagcaaaaaaagaccgacttaaagtcggtcttttcaatgagatttaactcaaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatttgagttaaatctcattgaaaagaccgactttaagtcggtctttttttgcttattaggaaaaagaagtgtttttggactgtacttgatttttgttcttattaggctaaaatgtatcacaaaatgatacgttgaggtgaggta Mask Tandem Repeat Region ================================================ tacctcacctcaacgtatcattttgtgatacattttagcctaataagaacaaaaatcaagtacagtccaaaaacacttctttttcctaataagcaaaaaaagaccgacttaaagtcggtcttttcaatgagatttaactcaaatta Find is-nt database================================================ Query_seq: AA00660:AA00661|AA00660:AA00661:hypothetical protein:outer membrane protein:->->:453396..453541 146 tacctcacctcaacgtatcattttgtgatacattttagcctaataagaacaaaaatcaagtacagtccaaaaacacttctttttcctaataagcaaaaaaagaccgacttaaagtcggtcttttcaatgagatttaactcaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00660:AA00661|AA00660:AA00661:hypothetical protein:outer membrane protein:->->:453396..453541 146 tacctcacctcaacgtatcattttgtgatacattttagcctaataagaacaaaaatcaagtacagtccaaaaacacttctttttcctaataagcaaaaaaagaccgacttaaagtcggtcttttcaatgagatttaactcaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00660:AA00661|AA00660:AA00661:hypothetical protein:outer membrane protein:->->:453396..453541 146 tacctcacctcaacgtatcattttgtgatacattttagcctaataagaacaaaaatcaagtacagtccaaaaacacttctttttcctaataagcaaaaaaagaccgacttaaagtcggtcttttcaatgagatttaactcaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tacctcacctcaacgtatcattttgtgatacattttagcctaataagaacaaaaatcaagtacagtccaaaaacacttctttttcctaataagcaaaaaaagaccgacttaaagtcggtcttttcaatgagatttaactcaaatta Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 25 End: 144 ........................ M I H F S L I R T K I K Y S P K T L L F P N K Q K K T D L K S V F S M R F N S N .. Protein_Len: 36 Strand: - Start: 21 End: 128 .................... K T I C K L R I L V F I L Y L G F V S R K G L L C F F V S K F D T K E M .................. tacctcacctcaacgtatcattttgtgatacattttagcctaataagaacaaaaatcaagtacagtccaaaaacacttctttttcctaataagcaaaaaaagaccgacttaaagtcggtcttttcaatgagatttaactcaaatta 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================================================ tacctcacctcaacgtatcattttgtgatacattttagcctaataagaacaaaaatcaagtacagtccaaaaacacttctttttcctaataagcaaaaaaagaccgacttaaagtcggtcttttcaatgagatttaactcaaatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -13.2 Tail_Score: -4.20106 Start: 102 End: 120 Full_Region: TAATAAGCAAAAAAA GACCGACT TAA AGTCGGTC TTTTCAATGAGATTT .....................................................................................................GACCGACTTAAAGTCGGTC.......................... Find igs database================================================ Query_seq: AA00660:AA00661|AA00660:AA00661:hypothetical protein:outer membrane protein:->->:453396..453541 146 tacctcacctcaacgtatcattttgtgatacattttagcctaataagaacaaaaatcaagtacagtccaaaaacacttctttttcctaataagcaaaaaaagaccgacttaaagtcggtcttttcaatgagatttaactcaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 146 Len: 146 Subject: aact_AA00660_AA00661|hypothetical protein:outer membrane protein|POSITIVE:POSITIVE|[453396,453541]|146 HSP 1 e-value: 4.0E-65 bit: 248.0 Len: 146 Query Start:1 Query End:146 Subject Strand: POSITIVE Subject Start: 1 Subject End: 146 tacctcacctcaacgtatcattttgtgatacattttagcctaataagaacaaaaatcaagtacagtccaaaaacacttctttttcctaataagcnnnnnnngaccgacttaaagtcggtcttttcaatgagatttaactcaaatta tacctcacctcaacgtatcattttgtgatacattttagcctaataagaacaaaaatcaagtacagtccaaaaacacttctttttcctaataagcaaaaaaagaccgacttaaagtcggtcttttcaatgagatttaactcaaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACCUCACCUCAACGUAUCAUUUUGUGAUACAUUUUAGCCUAAUAAGAACAAAAAUCAAGUACAGUCCAAAAACACUUCUUUUUCCUAAUAAGCAAAAAAAGACCGACUUAAAGUCGGUCUUUUCAAUGAGAUUUAACUCAAAUUA ........((((..(((((((...)))))))......((.((.((.(((....((..((((.............))))..))))).)).)).))...(((((((((((.....)))))))))))...))))............... (-26.22) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUGAGUUAAAUCUCAUUGAAAAGACCGACUUUAAGUCGGUCUUUUUUUGCUUAUUAGGAAAAAGAAGUGUUUUUGGACUGUACUUGAUUUUUGUUCUUAUUAGGCUAAAAUGUAUCACAAAAUGAUACGUUGAGGUGAGGUA .............((((((((((((((((((((.....))))))))))))..(((((.((((((.(((((..((...........))....))))).)))))).)))))...(((((((((.....)))))))))..)))))))). (-42.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 127 92 117 79 aact:AA00140|5end_hypothetical_protein_100646..100876_POSITIVE 251 120 75 207 156 aact:AA02429|5end_methionine_aminopeptidase_1674320..1674550_POSITIVE 251 120 75 72 21 aact:AA02427|5end_hypothetical_protein_1674185..1674415_POSITIVE 227 69 22 63 21 aact:AA00308|5end_glycerol-3-phosphate_regulon_repressor_208337..208567_POSITIVE 222 125 88 136 90 aact:AA00705|5end_Inositol-1-monophosphatase_(IMPase);_extragenic_suppressor_483827..484057_POSITIVE 217 49 4 187 153 aact:AA00592|5end_conserved_hypothetical_protein_(membrane/transport_protein)_405536..405766_POSITIVE 217 121 88 133 95 aact:AA00317|5end_DNA_mismatch_repair_protein_215472..215702_POSITIVE 216 135 102 75 41 aact:AA01517|5end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_protein_1020989..1021219_POSITIVE 216 118 74 156 102 aact:AA01248|5end_conserved_hypothetical_protein_(possible_phosphoesterase)_849734..849964_POSITIVE 216 118 74 86 32 aact:AA01247|5end_hypothetical_protein_849664..849894_POSITIVE 216 126 101 229 199 aact:AA00169|5end_conserved_hypothetical_protein_120312..120542_POSITIVE 212 129 81 129 69 aact:AA01837|5end_transcriptional_regulatory_protein_1235450..1235680_POSITIVE 211 40 7 107 81 aact:AA01363|5end_hypothetical_protein_922505..922735_POSITIVE 211 44 2 227 184 aact:AA01299|5end_competence_protein_C_880946..881176_POSITIVE 205 120 85 156 125 aact:AA02893|5end_oligopeptide_transport_system_permease_protein,_N-terminal_2027201..2027431_POSITIVE 203 129 93 114 72 aact:AA02097|5end_DedA-family_integral_membrane_protein_1428823..1429053_POSITIVE 203 129 93 45 3 aact:AA02096|5end_hypothetical_protein_1428754..1428984_POSITIVE 200 138 92 214 160 aact:AA02353|5end_spermidine_/_putrescine_transport_ATP-binding_1611352..1611582_POSITIVE 199 139 99 226 185 aact:AA01128|5end_hypothetical_protein_774030..774260_POSITIVE 198 107 64 216 173 aact:AA01528|5end_probable_oxidoreductase_1025888..1026118_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 285 123 81 77 31 aact:AA00666|3end_hypothetical_protein_457654..457804_POSITIVE 222 125 88 77 31 aact:AA00702|3end_conserved_hypothetical_protein_483848..483998_POSITIVE 217 119 73 143 98 aact:AA01635|3end_ribonucleoside_diphosphate_reductase,_beta_chain_1105822..1105972_POSITIVE 217 49 4 78 44 aact:AA00591|3end_ABC_transporter,_ATP-binding_protein_405507..405657_POSITIVE 216 135 102 40 6 aact:AA01515|3end_SlyX_family_protein_1021034..1021184_POSITIVE 216 126 101 77 47 aact:AA00168|3end_possible_sigma_54_modulation_protein_120240..120390_POSITIVE 210 140 99 93 46 aact:AA00716|3end_conserved_hypothetical_protein_491244..491394_POSITIVE 205 120 85 52 21 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE 203 40 4 56 21 aact:AA01567|3end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1055215..1055365_POSITIVE 198 107 64 87 44 aact:AA01526|3end_amino_acid_ABC_transporter,_periplasmic_amino_acid-binding_protein_1025839..1025989_POSITIVE 196 125 99 77 46 aact:AA02347|3end_immunoglobulin_A1_protease_precursor_1606782..1606932_POSITIVE 195 119 91 135 98 aact:AA02014|3end_probable_hemolysin_1370977..1371127_POSITIVE 195 131 93 76 26 aact:AA00223|3end_catalase_(hydroperoxidase;_iron_heme_axial_ligand)_155808..155958_POSITIVE 194 140 98 58 15 aact:AA00625|3end_hypothetical_protein_430845..430995_POSITIVE 193 125 103 70 39 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 192 135 94 85 45 aact:AA01342|3end_conserved_hypotheticl_protein_(possible_ribosomal_RNA_adenine_dimethylase)_911085..911235_POSITIVE 189 126 93 134 101 aact:AA02184|3end_anthranilate_isomerase;_indole-3-glycerol_phosphate_synthase;_phosphoribosylanthranilate_isomerase_1492541..1492691_POSITIVE 188 118 80 38 1 aact:AA01009|3end_universal_stress_protein_A_704945..705095_POSITIVE 187 138 93 103 49 aact:AA01172|3end_conserved_hypothetical_protein_803847..803997_POSITIVE 186 69 29 143 99 aact:AA01670|3end_conserved_hypothetical_protein_1130761..1130911_POSITIVE