Origin IGS: taaaccacatcccctcccccatgctaaagtagtcgttaaacagttagggtcgttaatgatcccgtatcttcgtgcttttttagcgcaagatacacgcaaatattaccgcaagacacaatatatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgatatattgtgtcttgcggtaatatttgcgtgtatcttgcgctaaaaaagcacgaagatacgggatcattaacgaccctaactgtttaacgactactttagcatgggggaggggatgtggttta Mask Tandem Repeat Region ================================================ taaaccacatcccctcccccatgctaaagtagtcgttaaacagttagggtcgttaatgatcccgtatcttcgtgcttttttagcgcaagatacacgcaaatattaccgcaagacacaatatatca Find is-nt database================================================ Query_seq: TF0759:TF0761|TF0759:TF0761:heat shock protein 15, RNA-binding domain S4:conserved hypothetical protein:->->:806427..806551 125 taaaccacatcccctcccccatgctaaagtagtcgttaaacagttagggtcgttaatgatcccgtatcttcgtgcttttttagcgcaagatacacgcaaatattaccgcaagacacaatatatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0759:TF0761|TF0759:TF0761:heat shock protein 15, RNA-binding domain S4:conserved hypothetical protein:->->:806427..806551 125 taaaccacatcccctcccccatgctaaagtagtcgttaaacagttagggtcgttaatgatcccgtatcttcgtgcttttttagcgcaagatacacgcaaatattaccgcaagacacaatatatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0759:TF0761|TF0759:TF0761:heat shock protein 15, RNA-binding domain S4:conserved hypothetical protein:->->:806427..806551 125 taaaccacatcccctcccccatgctaaagtagtcgttaaacagttagggtcgttaatgatcccgtatcttcgtgcttttttagcgcaagatacacgcaaatattaccgcaagacacaatatatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaccacatcccctcccccatgctaaagtagtcgttaaacagttagggtcgttaatgatcccgtatcttcgtgcttttttagcgcaagatacacgcaaatattaccgcaagacacaatatatca Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 1 End: 99 L G C G R G W A L T T T L C N P D N I I G Y R R A K K A C S V R M .......................... taaaccacatcccctcccccatgctaaagtagtcgttaaacagttagggtcgttaatgatcccgtatcttcgtgcttttttagcgcaagatacacgcaaatattaccgcaagacacaatatatca 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================================================ taaaccacatcccctcccccatgctaaagtagtcgttaaacagttagggtcgttaatgatcccgtatcttcgtgcttttttagcgcaagatacacgcaaatattaccgcaagacacaatatatca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0759:TF0761|TF0759:TF0761:heat shock protein 15, RNA-binding domain S4:conserved hypothetical protein:->->:806427..806551 125 taaaccacatcccctcccccatgctaaagtagtcgttaaacagttagggtcgttaatgatcccgtatcttcgtgcttttttagcgcaagatacacgcaaatattaccgcaagacacaatatatca Intra-Species Hit: Count: 1 Min: 1 Max: 125 Len: 125 Subject: tfor_TF0759_TF0761|heat shock protein 15, RNA-binding domain S4:conserved hypothetical protein|POSITIVE:POSITIVE|[806427,806551]|125 HSP 1 e-value: 4.0E-65 bit: 248.0 Len: 125 Query Start:1 Query End:125 Subject Strand: POSITIVE Subject Start: 1 Subject End: 125 taaaccacatcccctcccccatgctaaagtagtcgttaaacagttagggtcgttaatgatcccgtatcttcgtgcttttttagcgcaagatacacgcaaatattaccgcaagacacaatatatca taaaccacatcccctcccccatgctaaagtagtcgttaaacagttagggtcgttaatgatcccgtatcttcgtgcttttttagcgcaagatacacgcaaatattaccgcaagacacaatatatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACCACAUCCCCUCCCCCAUGCUAAAGUAGUCGUUAAACAGUUAGGGUCGUUAAUGAUCCCGUAUCUUCGUGCUUUUUUAGCGCAAGAUACACGCAAAUAUUACCGCAAGACACAAUAUAUCA ............................((.(((............((((((....)))))).(((((((.(((((.....))))))))))))..................)))))......... (-24.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAUAUUGUGUCUUGCGGUAAUAUUUGCGUGUAUCUUGCGCUAAAAAAGCACGAAGAUACGGGAUCAUUAACGACCCUAACUGUUUAACGACUACUUUAGCAUGGGGGAGGGGAUGUGGUUUA .......(((((((((.((((.......(((((.....))))).......)).)))))))))))...((((..(..(((((..((((.............)))))))))..)..))))....... (-29.06) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 340 98 51 192 136 tfor:TF3033|5end_S1_RNA_binding_domain_protein,_S1_ribosomal_protein_3256786..3257016_POSITIVE 326 49 4 222 172 tfor:TF1315|5end_purine_nucleoside_phosphorylase_1390236..1390466_POSITIVE 322 60 14 178 134 tfor:TF0419|5end_conserved_hypothetical_protein_435250..435480_POSITIVE 319 78 32 73 33 tfor:TF0777|5end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_826098..826328_POSITIVE 313 87 43 44 6 tfor:TF0292|5end_conserved_hypothetical_protein_320087..320317_POSITIVE 305 60 14 85 40 tfor:TF2326|5end_conserved_hypothetical_protein_2484686..2484916_POSITIVE 305 88 46 146 104 tfor:TF0587|5end_outer_membrane_protein_618319..618549_POSITIVE 290 85 41 169 132 tfor:TF2941|5end_50S_ribosomal_protein_L1_3141828..3142058_POSITIVE 290 110 61 123 65 tfor:TF2215|5end_conserved_hypothetical_protein_2387501..2387731_POSITIVE 290 57 11 192 135 tfor:TF1363|5end_conserved_hypothetical_protein_1444083..1444313_POSITIVE 290 109 61 205 147 tfor:TF0001|5end_hypothetical_protein_-116..114_POSITIVE 288 110 62 90 42 tfor:TF2722|5end_conserved_hypothetical_protein_2896792..2897022_POSITIVE 287 38 5 75 38 tfor:TF3120|5end_HD_superfamily_hydrolase_3353169..3353399_POSITIVE 284 110 61 109 52 tfor:TF2781|5end_hypothetical_protein_2965822..2966052_POSITIVE 284 85 41 79 38 tfor:TF1911|5end_conserved_hypothetical_protein_2065143..2065373_POSITIVE 283 110 62 189 140 tfor:TF0160|5end_conserved_hypothetical_protein;_possible_Fic_family_protein_170327..170557_POSITIVE 283 109 61 145 83 tfor:TF0005|5end_possible_beta-lactamase_600..830_POSITIVE 281 52 15 47 8 tfor:TF1121|5end_ABC_transporter_ATP-binding/permease_component,_bacteriocin/lantibiotic_exporter_1195183..1195413_POSITIVE 280 97 51 48 2 tfor:TF2768|5end_ferredoxin_oxidoreductase,_beta_subunit_2954076..2954306_POSITIVE 280 97 51 36 2 tfor:TF2330|5end_conserved_hypothetical_protein_2489920..2490150_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 319 78 32 68 28 tfor:TF0776|3end_ABC_transporter,_permease_component_826173..826323_POSITIVE 293 75 31 127 87 tfor:TF1162|3end_Na+/H+_antiporter_1242843..1242993_POSITIVE 290 85 41 151 114 tfor:TF2940|3end_50S_ribosomal_protein_L11_3141890..3142040_POSITIVE 290 110 61 106 48 tfor:TF2214|3end_peptidyl-prolyl_cis-trans_isomerase_2387564..2387714_POSITIVE 290 57 11 88 31 tfor:TF1362|3end_hypothetical_protein_1444059..1444209_POSITIVE 284 110 61 139 82 tfor:TF2779|3end_fucose_permease_2965932..2966082_POSITIVE 283 109 61 112 50 tfor:TF0002|3end_hypothetical_protein_647..797_POSITIVE 281 52 15 40 1 tfor:TF1120|3end_conserved_hypothetical_protein_1195256..1195406_POSITIVE 278 78 42 78 41 tfor:TF1618|3end_conserved_hypothetical_protein_1733766..1733916_POSITIVE 278 110 61 122 62 tfor:TF1164|3end_two-component_system_sensor_histidine_kinase_1244778..1244928_POSITIVE 277 90 41 112 68 tfor:TF0939|3end_ISPg1_transposase,_IS1106-related_transposase_981115..981265_POSITIVE 273 116 72 74 26 tfor:TF2336|3end_conserved_hypothetical_protein_2498159..2498309_POSITIVE 272 87 41 63 7 tfor:TF3126|3end_glycosyltransferase,_group_2_family_3361685..3361835_POSITIVE 272 49 5 53 12 tfor:TF2687|3end_iron-regulated_ABC-type_transporter_membrane_component_2864962..2865112_POSITIVE 271 89 46 150 104 tfor:TF3032|3end_thiamin_biosynthesis_protein_3256838..3256988_POSITIVE 271 77 31 134 90 tfor:TF2882|3end_conserved_hypothetical_protein_3074401..3074551_POSITIVE 269 96 55 120 67 tfor:TF3132|3end_conserved_hypothetical_protein_3368047..3368197_POSITIVE 269 108 61 73 30 tfor:TF0616|3end_conserved_hypothetical_protein_650658..650808_POSITIVE 268 90 42 118 69 tfor:TF0668|3end_inorganic_pyrophosphatase_713235..713385_POSITIVE 267 48 7 148 95 tfor:TF1744|3end_phenylacetate-CoA_ligase_1879218..1879368_POSITIVE