Origin IGS: attaattgaatgatggtgttttataaatgaaaatagataatcgaattaaatattcgactatctattcttaattgtaaagattatcttgccacgaattatagttttggtctaattttgttagatatct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agatatctaacaaaattagaccaaaactataattcgtggcaagataatctttacaattaagaatagatagtcgaatatttaattcgattatctattttcatttataaaacaccatcattcaattaat Mask Tandem Repeat Region ================================================ attaattgaatgatggtgttttataaatgaaaatagataatcgaattaaatattcgactatctattcttaattgtaaagattatcttgccacgaattatagttttggtctaattttgttagatatct Find is-nt database================================================ Query_seq: TDE0030:TDE0031|TDE0030:TDE0031:prolipoprotein diacylglyceryl transferase, putative:hypothetical protein:<-<-:38798..38924 127 attaattgaatgatggtgttttataaatgaaaatagataatcgaattaaatattcgactatctattcttaattgtaaagattatcttgccacgaattatagttttggtctaattttgttagatatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0030:TDE0031|TDE0030:TDE0031:prolipoprotein diacylglyceryl transferase, putative:hypothetical protein:<-<-:38798..38924 127 attaattgaatgatggtgttttataaatgaaaatagataatcgaattaaatattcgactatctattcttaattgtaaagattatcttgccacgaattatagttttggtctaattttgttagatatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0030:TDE0031|TDE0030:TDE0031:prolipoprotein diacylglyceryl transferase, putative:hypothetical protein:<-<-:38798..38924 127 attaattgaatgatggtgttttataaatgaaaatagataatcgaattaaatattcgactatctattcttaattgtaaagattatcttgccacgaattatagttttggtctaattttgttagatatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attaattgaatgatggtgttttataaatgaaaatagataatcgaattaaatattcgactatctattcttaattgtaaagattatcttgccacgaattatagttttggtctaattttgttagatatct Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 37 End: 126 .................................... M I E L N I R L S I L N C K D Y L A T N Y S F G L I L L D I . attaattgaatgatggtgttttataaatgaaaatagataatcgaattaaatattcgactatctattcttaattgtaaagattatcttgccacgaattatagttttggtctaattttgttagatatct 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================================================ attaattgaatgatggtgttttataaatgaaaatagataatcgaattaaatattcgactatctattcttaattgtaaagattatcttgccacgaattatagttttggtctaattttgttagatatct Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 95 HP_score: -10.7 Tail_Score: -4.61873 Start: 34 End: 64 Full_Region: ctttacaattaagaa tagatagtcgaat attta attcgattatcta ttttcatttataaaa .................................tagatagtcgaatatttaattcgattatcta............................................................... Find igs database================================================ Query_seq: TDE0030:TDE0031|TDE0030:TDE0031:prolipoprotein diacylglyceryl transferase, putative:hypothetical protein:<-<-:38798..38924 127 attaattgaatgatggtgttttataaatgaaaatagataatcgaattaaatattcgactatctattcttaattgtaaagattatcttgccacgaattatagttttggtctaattttgttagatatct Intra-Species Hit: Count: 1 Min: 1 Max: 127 Len: 127 Subject: NC_002967_TDE0030_TDE0031|prolipoprotein diacylglyceryl transferase, putative:hypothetical protein|NEGATIVE:NEGATIVE|[38798,38924]|127 HSP 1 e-value: 2.0E-66 bit: 252.0 Len: 127 Query Start:1 Query End:127 Subject Strand: POSITIVE Subject Start: 1 Subject End: 127 attaattgaatgatggtgttttataaatgaaaatagataatcgaattaaatattcgactatctattcttaattgtaaagattatcttgccacgaattatagttttggtctaattttgttagatatct attaattgaatgatggtgttttataaatgaaaatagataatcgaattaaatattcgactatctattcttaattgtaaagattatcttgccacgaattatagttttggtctaattttgttagatatct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAAUUGAAUGAUGGUGUUUUAUAAAUGAAAAUAGAUAAUCGAAUUAAAUAUUCGACUAUCUAUUCUUAAUUGUAAAGAUUAUCUUGCCACGAAUUAUAGUUUUGGUCUAAUUUUGUUAGAUAUCU .(((((.((((((((((.((((((((.(((.((((((((.((((((.....)))))).)))))))).))).))))))))))))))..((((.((((....))))))))...)))).)))))...... (-28.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAUAUCUAACAAAAUUAGACCAAAACUAUAAUUCGUGGCAAGAUAAUCUUUACAAUUAAGAAUAGAUAGUCGAAUAUUUAAUUCGAUUAUCUAUUUUCAUUUAUAAAACACCAUCAUUCAAUUAAU .(((.(((((.....)))))...............(((..(((.....)))........(((((((((((((((((.....)))))))))))))))))...........))).)))........... (-22.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 745 110 61 201 152 NC_002967:TDE0030|5end_prolipoprotein_diacylglyceryl_transferase,_putative_38707..38937_NEGATIVE 225 110 69 160 110 NC_002967:TDE0879|5end_hypothetical_protein_899846..900076_POSITIVE 208 120 84 194 155 NC_002967:TDE0775|5end_ribosomal_protein_L29_810597..810827_POSITIVE 207 70 22 104 64 NC_002967:TDE1430|5end_beta-1,4-galactosyltransferase,_putative_1473430..1473660_POSITIVE 198 90 54 201 162 NC_002967:TDE0883|5end_16S_rRNA_processing_protein_RimM_901685..901915_POSITIVE 197 119 78 136 94 NC_002967:TDE0874|5end_transcriptional_regulator,_putative_896939..897169_POSITIVE 192 110 70 54 20 NC_002967:TDE1866|5end_hypothetical_protein_1892354..1892584_NEGATIVE 192 110 70 214 180 NC_002967:TDE1865|5end_peptidase,_M16_family_1892194..1892424_NEGATIVE 191 90 56 181 148 NC_002967:TDE1859|5end_hypothetical_protein_1884957..1885187_POSITIVE 186 94 53 111 80 NC_002967:TDE0739|5end_hypothetical_protein_775790..776020_POSITIVE 184 100 51 116 61 NC_002967:TDE2417|5end_nitroimidazole_resistance_protein,_putative_2443288..2443518_NEGATIVE 184 79 35 201 161 NC_002967:TDE1154|5end_hypothetical_protein_1191096..1191326_NEGATIVE 179 120 83 86 57 NC_002967:TDE2636|5end_hypothetical_protein_2676070..2676300_POSITIVE 179 66 23 147 112 NC_002967:TDE0696|5end_hypothetical_protein_732964..733194_POSITIVE 179 111 84 30 5 NC_002967:TDE0690|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_726898..727128_POSITIVE 177 117 78 84 40 NC_002967:TDE0299|5end_mutator_mutT_protein_330080..330310_POSITIVE 174 102 66 49 16 NC_002967:TDE2549|5end_methyl-accepting_chemotaxis_protein_2573285..2573515_POSITIVE 172 110 65 134 85 NC_002967:TDE2134|5end_hypothetical_protein_2164447..2164677_POSITIVE 172 94 51 218 174 NC_002967:TDE1243|5end_hemolysin_C_1275035..1275265_POSITIVE 171 79 36 191 158 NC_002967:TDE1631|5end_citrate_lyase,_alpha_subunit_1681556..1681786_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 225 80 34 126 84 NC_002967:TDE2655|3end_hypothetical_protein_2692963..2693113_NEGATIVE 207 70 22 101 61 NC_002967:TDE1429|3end_glycosyl_transferase,_group_2_family_protein_1473507..1473657_POSITIVE 205 108 64 89 38 NC_002967:TDE1363|3end_nitroreductase_family_protein_1404126..1404276_NEGATIVE 202 108 81 146 123 NC_002967:TDE0016|3end_ATPase,_AAA_family_21862..22012_POSITIVE 197 119 79 108 61 NC_002967:TDE0926|3end_phosphonate_ABC_transporter,_permease_protein,_putative_949192..949342_NEGATIVE 197 119 78 116 74 NC_002967:TDE0873|3end_hypothetical_protein_896999..897149_POSITIVE 192 110 70 57 23 NC_002967:TDE1867|3end_hypothetical_protein_1892351..1892501_NEGATIVE 192 110 70 149 115 NC_002967:TDE1866|3end_hypothetical_protein_1892259..1892409_NEGATIVE 185 119 81 89 36 NC_002967:TDE0282|3end_ABC_transporter,_ATP-binding_protein_310655..310805_NEGATIVE 184 100 51 74 19 NC_002967:TDE2418|3end_hypothetical_protein_2443330..2443480_NEGATIVE 184 79 35 141 101 NC_002967:TDE1155|3end_hypothetical_protein_1191156..1191306_NEGATIVE 181 99 55 135 84 NC_002967:TDE1091|3end_hypothetical_protein_1123017..1123167_NEGATIVE 181 109 67 40 6 NC_002967:TDE0008|3end_copper-translocating_P-type_ATPase_13646..13796_POSITIVE 180 116 74 92 51 NC_002967:TDE1121|3end_hypothetical_protein_1152814..1152964_NEGATIVE 177 107 61 151 103 NC_002967:TDE1862|3end_hypothetical_protein_1887979..1888129_POSITIVE 174 110 74 125 84 NC_002967:TDE2754|3end_ornithine_cyclodeaminase_2810761..2810911_NEGATIVE 169 120 84 133 97 NC_002967:TDE2499|3end_hypothetical_protein_2523191..2523341_NEGATIVE 161 76 35 114 79 NC_002967:TDE0148|3end_histidine_kinase-related_ATPase,_putative_169920..170070_POSITIVE 160 119 83 55 17 NC_002967:TDE0846|3end_hypothetical_protein_870865..871015_POSITIVE 160 110 78 121 88 NC_002967:TDE0603|3end_hypothetical_protein_641885..642035_POSITIVE