Origin IGS: ttatccctcttttaaagatgaggctttaagacattaatcgaaaataaaagccaagtgaggagaaaaactttttaatcttctcataatgccttatcacctcaaaaagtaatcaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attgattactttttgaggtgataaggcattatgagaagattaaaaagtttttctcctcacttggcttttattttcgattaatgtcttaaagcctcatctttaaaagagggataa Mask Tandem Repeat Region ================================================ ttatccctcttttaaagatgaggctttaagacattaatcgaaaataaaagccaagtgaggagaaaaactttttaatcttctcataatgccttatcacctcaaaaagtaatcaat Find is-nt database================================================ Query_seq: TDE1146:TDE1147|TDE1146:TDE1147:hypothetical protein:hypothetical protein:<-<-:1185505..1185618 114 ttatccctcttttaaagatgaggctttaagacattaatcgaaaataaaagccaagtgaggagaaaaactttttaatcttctcataatgccttatcacctcaaaaagtaatcaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1146:TDE1147|TDE1146:TDE1147:hypothetical protein:hypothetical protein:<-<-:1185505..1185618 114 ttatccctcttttaaagatgaggctttaagacattaatcgaaaataaaagccaagtgaggagaaaaactttttaatcttctcataatgccttatcacctcaaaaagtaatcaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1146:TDE1147|TDE1146:TDE1147:hypothetical protein:hypothetical protein:<-<-:1185505..1185618 114 ttatccctcttttaaagatgaggctttaagacattaatcgaaaataaaagccaagtgaggagaaaaactttttaatcttctcataatgccttatcacctcaaaaagtaatcaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttatccctcttttaaagatgaggctttaagacattaatcgaaaataaaagccaagtgaggagaaaaactttttaatcttctcataatgccttatcacctcaaaaagtaatcaat Predict ORF larger than 30AA ================================================ ttatccctcttttaaagatgaggctttaagacattaatcgaaaataaaagccaagtgaggagaaaaactttttaatcttctcataatgccttatcacctcaaaaagtaatcaat 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================================================ ttatccctcttttaaagatgaggctttaagacattaatcgaaaataaaagccaagtgaggagaaaaactttttaatcttctcataatgccttatcacctcaaaaagtaatcaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1146:TDE1147|TDE1146:TDE1147:hypothetical protein:hypothetical protein:<-<-:1185505..1185618 114 ttatccctcttttaaagatgaggctttaagacattaatcgaaaataaaagccaagtgaggagaaaaactttttaatcttctcataatgccttatcacctcaaaaagtaatcaat Intra-Species Hit: Count: 1 Min: 1 Max: 114 Len: 114 Subject: NC_002967_TDE1146_TDE1147|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1185505,1185618]|114 HSP 1 e-value: 1.0E-58 bit: 226.0 Len: 114 Query Start:1 Query End:114 Subject Strand: POSITIVE Subject Start: 1 Subject End: 114 ttatccctcttttaaagatgaggctttaagacattaatcgaaaataaaagccaagtgaggagaaaaactttttaatcttctcataatgccttatcacctcaaaaagtaatcaat ttatccctcttttaaagatgaggctttaagacattaatcgaaaataaaagccaagtgaggagaaaaactttttaatcttctcataatgccttatcacctcaaaaagtaatcaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUCCCUCUUUUAAAGAUGAGGCUUUAAGACAUUAAUCGAAAAUAAAAGCCAAGUGAGGAGAAAAACUUUUUAAUCUUCUCAUAAUGCCUUAUCACCUCAAAAAGUAAUCAAU ................((((((((.....((......))...............(((((((((............)))))))))...))))))))................... (-21.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGAUUACUUUUUGAGGUGAUAAGGCAUUAUGAGAAGAUUAAAAAGUUUUUCUCCUCACUUGGCUUUUAUUUUCGAUUAAUGUCUUAAAGCCUCAUCUUUAAAAGAGGGAUAA ....((..(((((((((((..((((((((((...((((((..(((((((.............)))))))))))))...))))))))))..)))))).......)))))..)).. (-29.73) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 819 100 51 191 142 NC_002967:TDE1146|5end_hypothetical_protein_1185414..1185644_NEGATIVE 233 62 21 58 11 NC_002967:TDE2527|5end_hypothetical_protein_2556219..2556449_NEGATIVE 232 64 21 47 6 NC_002967:TDE1401|5end_DedA_family_protein_1442365..1442595_POSITIVE 228 96 52 86 42 NC_002967:TDE0764|5end_hypothetical_protein_804527..804757_NEGATIVE 220 100 55 107 63 NC_002967:TDE1209|5end_site-specific_recombinase,_phage_integrase_family_1242345..1242575_POSITIVE 218 41 4 193 152 NC_002967:TDE0318|5end_hypothetical_protein_351082..351312_POSITIVE 217 69 32 195 146 NC_002967:TDE2156|5end_translation_initiation_factor_IF-3_2190719..2190949_NEGATIVE 216 60 16 191 135 NC_002967:TDE2571|5end_hypothetical_protein_2598152..2598382_NEGATIVE 213 70 27 227 176 NC_002967:TDE0663|5end_hypothetical_protein_698097..698327_NEGATIVE 208 95 51 227 182 NC_002967:TDE0898|5end_hypothetical_protein_915878..916108_POSITIVE 206 52 18 118 90 NC_002967:TDE2786|5end_DNA_polymerase_III_subunit_alpha_2842672..2842902_NEGATIVE 205 100 57 218 173 NC_002967:TDE1577|5end_lipoprotein,_putative_1624509..1624739_POSITIVE 205 91 56 224 186 NC_002967:TDE0859|5end_hypothetical_protein_880100..880330_POSITIVE 203 99 55 171 121 NC_002967:TDE1708|5end_apolipoprotein_N-acyltransferase_1764822..1765052_NEGATIVE 202 48 20 227 201 NC_002967:TDE2690|5end_hypothetical_protein_2728898..2729128_NEGATIVE 200 60 19 201 155 NC_002967:TDE2310|5end_hypothetical_protein_2348042..2348272_POSITIVE 200 63 36 225 199 NC_002967:TDE0725|5end_exopolysaccharide_biosynthesis_protein_763465..763695_POSITIVE 200 50 5 69 34 NC_002967:TDE0045|5end_ABC_transporter,_ATP-binding_protein_55113..55343_NEGATIVE 198 45 6 171 132 NC_002967:TDE2569|5end_3-deoxy-7-phosphoheptulonate_synthase_2596308..2596538_POSITIVE 198 98 67 138 106 NC_002967:TDE0290|5end_hypothetical_protein_320794..321024_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 273 25 1 114 91 NC_002967:TDE2327|3end_ATP-dependent_Clp_protease,_ATP-binding_subunit_ClpB_2362048..2362198_NEGATIVE 233 62 21 57 10 NC_002967:TDE2528|3end_hypothetical_protein_2556220..2556370_NEGATIVE 220 40 6 52 13 NC_002967:TDE1862|3end_hypothetical_protein_1887979..1888129_POSITIVE 220 100 55 114 70 NC_002967:TDE1208|3end_DNA_topoisomerase_I_1242432..1242582_POSITIVE 218 41 4 147 106 NC_002967:TDE0317|3end_hypothetical_protein_351116..351266_POSITIVE 214 34 10 125 94 NC_002967:TDE1255|3end_hypothetical_protein_1288977..1289127_NEGATIVE 213 95 54 132 93 NC_002967:TDE0374|3end_glycosyl_transferase,_group_1_family_protein_427914..428064_NEGATIVE 208 62 21 86 42 NC_002967:TDE2117|3end_hypothetical_protein_2149175..2149325_POSITIVE 203 64 21 36 4 NC_002967:TDE1400|3end_NAD(+)_synthetase_1442434..1442584_POSITIVE 199 33 4 85 53 NC_002967:TDE2326|3end_cobyric_acid_synthase_CobQ,_putative_2362027..2362177_POSITIVE 198 98 67 138 106 NC_002967:TDE0291|3end_hypothetical_protein_320794..320944_NEGATIVE 197 100 57 91 49 NC_002967:TDE0969|3end_hypothetical_protein_994575..994725_POSITIVE 197 100 57 91 49 NC_002967:TDE0724|3end_hypothetical_protein_763237..763387_POSITIVE 197 100 57 91 49 NC_002967:TDE0722|3end_lipoprotein,_putative_759864..760014_POSITIVE 190 109 68 50 6 NC_002967:TDE2250|3end_hypothetical_protein_2289409..2289559_POSITIVE 190 99 52 122 74 NC_002967:TDE2180|3end_tRNA_modification_GTPase_2210590..2210740_NEGATIVE 190 100 68 40 5 NC_002967:TDE1557|3end_hypothetical_protein_1600770..1600920_POSITIVE 188 100 51 138 71 NC_002967:TDE2243|3end_CutC_family_protein_2282214..2282364_NEGATIVE 187 96 52 106 60 NC_002967:TDE2399|3end_ribonuclease_P_protein_component_2425804..2425954_NEGATIVE 187 60 17 55 7 NC_002967:TDE1336|3end_hypothetical_protein_1373780..1373930_POSITIVE