Origin IGS: agttatactctccttaactcttttctctacttttttctcttatattctcaacaagacttcttccttatccatatatgtttccatcatttcaaatgaatctttcatatttacctc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gaggtaaatatgaaagattcatttgaaatgatggaaacatatatggataaggaagaagtcttgttgagaatataagagaaaaaagtagagaaaagagttaaggagagtataact Mask Tandem Repeat Region ================================================ agttatactctccttaactcttttctctacttttttctcttatattctcaacaagacttcttccttatccatatatgtttccatcatttcaaatgaatctttcatatttacctc Find is-nt database================================================ Query_seq: TDE0035:TDE0036|TDE0035:TDE0036:acetyltransferase, GNAT family:hypothetical protein:<-<-:42111..42224 114 agttatactctccttaactcttttctctacttttttctcttatattctcaacaagacttcttccttatccatatatgtttccatcatttcaaatgaatctttcatatttacctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0035:TDE0036|TDE0035:TDE0036:acetyltransferase, GNAT family:hypothetical protein:<-<-:42111..42224 114 agttatactctccttaactcttttctctacttttttctcttatattctcaacaagacttcttccttatccatatatgtttccatcatttcaaatgaatctttcatatttacctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0035:TDE0036|TDE0035:TDE0036:acetyltransferase, GNAT family:hypothetical protein:<-<-:42111..42224 114 agttatactctccttaactcttttctctacttttttctcttatattctcaacaagacttcttccttatccatatatgtttccatcatttcaaatgaatctttcatatttacctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agttatactctccttaactcttttctctacttttttctcttatattctcaacaagacttcttccttatccatatatgtttccatcatttcaaatgaatctttcatatttacctc Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 5 End: 112 .... M L S L T L F S T F F S Y I L N K T S S L S I Y V S I I S N E S F I F T .. agttatactctccttaactcttttctctacttttttctcttatattctcaacaagacttcttccttatccatatatgtttccatcatttcaaatgaatctttcatatttacctc 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================================================ agttatactctccttaactcttttctctacttttttctcttatattctcaacaagacttcttccttatccatatatgtttccatcatttcaaatgaatctttcatatttacctc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0035:TDE0036|TDE0035:TDE0036:acetyltransferase, GNAT family:hypothetical protein:<-<-:42111..42224 114 agttatactctccttaactcttttctctacttttttctcttatattctcaacaagacttcttccttatccatatatgtttccatcatttcaaatgaatctttcatatttacctc Intra-Species Hit: Count: 1 Min: 1 Max: 114 Len: 114 Subject: NC_002967_TDE0035_TDE0036|acetyltransferase, GNAT family:hypothetical protein|NEGATIVE:NEGATIVE|[42111,42224]|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 agttatactctccttaactcttttctctacttttttctcttatattctcaacaagacttcttccttatccatatatgtttccatcatttcaaatgaatctttcatatttacctc agttatactctccttaactcttttctctacttttttctcttatattctcaacaagacttcttccttatccatatatgtttccatcatttcaaatgaatctttcatatttacctc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUAUACUCUCCUUAACUCUUUUCUCUACUUUUUUCUCUUAUAUUCUCAACAAGACUUCUUCCUUAUCCAUAUAUGUUUCCAUCAUUUCAAAUGAAUCUUUCAUAUUUACCUC (((((.........))))).....................................................(((((......((((.....))))......)))))....... ( -3.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGGUAAAUAUGAAAGAUUCAUUUGAAAUGAUGGAAACAUAUAUGGAUAAGGAAGAAGUCUUGUUGAGAAUAUAAGAGAAAAAAGUAGAGAAAAGAGUUAAGGAGAGUAUAACU ...............(((((..........(((....)))...(.(((((((......))))))).)...........................)))))............... (-11.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 769 100 51 191 142 NC_002967:TDE0035|5end_acetyltransferase,_GNAT_family_42020..42250_NEGATIVE 322 64 21 201 163 NC_002967:TDE1621|5end_hypothetical_protein_1670743..1670973_NEGATIVE 255 102 65 68 28 NC_002967:TDE1407|5end_hypothetical_protein_1450671..1450901_NEGATIVE 243 43 2 197 153 NC_002967:TDE1982|5end_hypothetical_protein_1992984..1993214_NEGATIVE 239 71 31 117 79 NC_002967:TDE1527|5end_hypothetical_protein_1570804..1571034_POSITIVE 233 95 54 107 78 NC_002967:TDE0955|5end_LemA_family_protein_978842..979072_POSITIVE 225 60 18 176 132 NC_002967:TDE1311|5end_ABC_transporter,_ATP-binding/permease_protein_1347371..1347601_POSITIVE 222 60 11 184 133 NC_002967:TDE1774|5end_hypothetical_protein_1817889..1818119_NEGATIVE 217 82 48 101 63 NC_002967:TDE1381|5end_V-type_ATP_synthase_subunit_E_1421905..1422135_NEGATIVE 215 39 2 192 160 NC_002967:TDE2735|5end_surface_antigen,_putative_2790154..2790384_POSITIVE 215 66 30 231 190 NC_002967:TDE2680|5end_hypothetical_protein_2721072..2721302_NEGATIVE 215 73 31 228 190 NC_002967:TDE0509|5end_hypothetical_protein_560373..560603_NEGATIVE 213 82 53 131 97 NC_002967:TDE2340|5end_FMN-binding_domain_protein_2377855..2378085_NEGATIVE 212 97 54 182 138 NC_002967:TDE0229|5end_ATPase_family_protein_262746..262976_NEGATIVE 209 53 11 129 63 NC_002967:TDE2411|5end_glycogen_phosphorylase_2439687..2439917_NEGATIVE 209 60 20 204 164 NC_002967:TDE1576|5end_tRNA-i(6)A37_modification_enzyme_MiaB_1622778..1623008_POSITIVE 206 49 1 103 44 NC_002967:TDE2274|5end_hypothetical_protein_2310201..2310431_POSITIVE 205 99 58 67 31 NC_002967:TDE0004|5end_hypothetical_protein_4243..4473_POSITIVE 204 96 56 142 96 NC_002967:TDE1171|5end_hypothetical_protein_1200175..1200405_POSITIVE 204 39 10 130 99 NC_002967:TDE0754|5end_hypothetical_protein_793822..794052_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 64 21 124 86 NC_002967:TDE1622|3end_hypothetical_protein_1670820..1670970_NEGATIVE 249 49 7 64 13 NC_002967:TDE0026|3end_TraB_family_protein_31826..31976_NEGATIVE 239 71 31 120 82 NC_002967:TDE1526|3end_hypothetical_protein_1570887..1571037_POSITIVE 225 60 18 65 21 NC_002967:TDE1310|3end_modulator_of_DNA_gyrase_family_protein_1347340..1347490_POSITIVE 213 82 53 120 86 NC_002967:TDE2341|3end_membrane-associated_zinc_metalloprotease,_putative_2377866..2378016_NEGATIVE 212 97 54 129 85 NC_002967:TDE0230|3end_DNA_replication_and_repair_protein_RecF_262799..262949_NEGATIVE 211 90 47 145 97 NC_002967:TDE2627|3end_transcriptional_regulator,_TetR_family_2668532..2668682_NEGATIVE 204 96 56 129 83 NC_002967:TDE1170|3end_DNA-binding_protein_1200242..1200392_POSITIVE 204 39 10 146 115 NC_002967:TDE0753|3end_hypothetical_protein_793918..794068_POSITIVE 204 100 54 135 93 NC_002967:TDE0593|3end_internalin-related_protein_632041..632191_NEGATIVE 202 40 3 144 108 NC_002967:TDE2563|3end_hypothetical_protein_2590068..2590218_POSITIVE 202 99 51 142 98 NC_002967:TDE2431|3end_bacteriocin_ABC_transporter,_ATP-binding/permease_protein,_putative_2459170..2459320_NEGATIVE 201 77 39 99 47 NC_002967:TDE1599|3end_ABC_transporter,_ATP-binding/permease_protein_1648920..1649070_NEGATIVE 200 49 1 138 76 NC_002967:TDE0722|3end_lipoprotein,_putative_759864..760014_POSITIVE 199 60 19 99 55 NC_002967:TDE0503|3end_hypothetical_protein_556580..556730_NEGATIVE 198 52 12 78 24 NC_002967:TDE1565|3end_hypothetical_protein_1617422..1617572_POSITIVE 198 95 64 25 1 NC_002967:TDE0954|3end_branched-chain_amino_acid_ABC_transporter,_permease_protein_978840..978990_POSITIVE 197 85 46 85 36 NC_002967:TDE2353|3end_flagellar_hook-associated_protein_2390456..2390606_POSITIVE 195 87 45 149 98 NC_002967:TDE2290|3end_transcriptional_regulator,_putative_2328183..2328333_POSITIVE 194 42 1 137 93 NC_002967:TDE1637|3end_DNA_polymerase_I_1688962..1689112_POSITIVE