Origin IGS: attctaagctccttattctgatgtattgaagattatatcagaatatggaattcaaggcaatgcgttcccctacaaaaatgctgtaagtgcggtataattacgataaacatctactatgttaaagtaaaaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttttttactttaacatagtagatgtttatcgtaattataccgcacttacagcatttttgtaggggaacgcattgccttgaattccatattctgatataatcttcaatacatcagaataaggagcttagaat Mask Tandem Repeat Region ================================================ attctaagctccttattctgatgtattgaagattatatcagaatatggaattcaaggcaatgcgttcccctacaaaaatgctgtaagtgcggtataattacgataaacatctactatgttaaagtaaaaaa Find is-nt database================================================ Query_seq: TDE0829:TDE0830|TDE0829:TDE0830:putative aminopeptidase 2:hypothetical protein:<-<-:851568..851698 131 attctaagctccttattctgatgtattgaagattatatcagaatatggaattcaaggcaatgcgttcccctacaaaaatgctgtaagtgcggtataattacgataaacatctactatgttaaagtaaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0829:TDE0830|TDE0829:TDE0830:putative aminopeptidase 2:hypothetical protein:<-<-:851568..851698 131 attctaagctccttattctgatgtattgaagattatatcagaatatggaattcaaggcaatgcgttcccctacaaaaatgctgtaagtgcggtataattacgataaacatctactatgttaaagtaaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0829:TDE0830|TDE0829:TDE0830:putative aminopeptidase 2:hypothetical protein:<-<-:851568..851698 131 attctaagctccttattctgatgtattgaagattatatcagaatatggaattcaaggcaatgcgttcccctacaaaaatgctgtaagtgcggtataattacgataaacatctactatgttaaagtaaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attctaagctccttattctgatgtattgaagattatatcagaatatggaattcaaggcaatgcgttcccctacaaaaatgctgtaagtgcggtataattacgataaacatctactatgttaaagtaaaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 25 End: 129 ........................ M E D Y I R I W N S R Q C V P L Q K C C K C G I I T I N I Y Y V K V K .. attctaagctccttattctgatgtattgaagattatatcagaatatggaattcaaggcaatgcgttcccctacaaaaatgctgtaagtgcggtataattacgataaacatctactatgttaaagtaaaaaa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 88 Start: 32 End: 61 ...............................ATTGCCTTGAATTCCATATTCTGATATAAT...................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 94 End: 123 .............................................................................................TTTAACATAGTAGATGTTTATCGTAATTAT........ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ attctaagctccttattctgatgtattgaagattatatcagaatatggaattcaaggcaatgcgttcccctacaaaaatgctgtaagtgcggtataattacgataaacatctactatgttaaagtaaaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0829:TDE0830|TDE0829:TDE0830:putative aminopeptidase 2:hypothetical protein:<-<-:851568..851698 131 attctaagctccttattctgatgtattgaagattatatcagaatatggaattcaaggcaatgcgttcccctacaaaaatgctgtaagtgcggtataattacgataaacatctactatgttaaagtaaaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 131 Len: 131 Subject: NC_002967_TDE0829_TDE0830|putative aminopeptidase 2:hypothetical protein|NEGATIVE:NEGATIVE|[851568,851698]|131 HSP 1 e-value: 1.0E-68 bit: 260.0 Len: 131 Query Start:1 Query End:131 Subject Strand: POSITIVE Subject Start: 1 Subject End: 131 attctaagctccttattctgatgtattgaagattatatcagaatatggaattcaaggcaatgcgttcccctacaaaaatgctgtaagtgcggtataattacgataaacatctactatgttaaagtaaaaaa attctaagctccttattctgatgtattgaagattatatcagaatatggaattcaaggcaatgcgttcccctacaaaaatgctgtaagtgcggtataattacgataaacatctactatgttaaagtaaaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCUAAGCUCCUUAUUCUGAUGUAUUGAAGAUUAUAUCAGAAUAUGGAAUUCAAGGCAAUGCGUUCCCCUACAAAAAUGCUGUAAGUGCGGUAUAAUUACGAUAAACAUCUACUAUGUUAAAGUAAAAAA .........(((.((((((((((((........)))))))))))).)))............................(((((((....)))))))..((((....(((((.....)))))...)))).... (-27.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUUACUUUAACAUAGUAGAUGUUUAUCGUAAUUAUACCGCACUUACAGCAUUUUUGUAGGGGAACGCAUUGCCUUGAAUUCCAUAUUCUGAUAUAAUCUUCAAUACAUCAGAAUAAGGAGCUUAGAAU ...((((((.......)))))).(((((..(((((....((...(((((((.....))))))))).....)))))..)))))(((.(((((((((.((........)).))))))))).)))......... (-23.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 890 90 41 181 132 NC_002967:TDE0829|5end_putative_aminopeptidase_2_851477..851707_NEGATIVE 262 60 15 148 99 NC_002967:TDE2108|5end_hypothetical_protein_2133495..2133725_NEGATIVE 259 81 50 222 186 NC_002967:TDE1044|5end_hypothetical_protein_1072075..1072305_POSITIVE 256 94 63 120 89 NC_002967:TDE1952|5end_hypothetical_protein_1969046..1969276_NEGATIVE 253 45 1 140 96 NC_002967:TDE2650|5end_transcriptional_regulator,_putative_2689031..2689261_NEGATIVE 250 104 62 190 158 NC_002967:TDE0273|5end_ABC_transporter,_ATP-binding/permease_protein_304633..304863_NEGATIVE 244 93 53 58 20 NC_002967:TDE0204|5end_glutamyl-tRNA_synthetase_236968..237198_POSITIVE 240 93 55 135 85 NC_002967:TDE1396|5end_hypothetical_protein_1435661..1435891_POSITIVE 238 97 54 56 15 NC_002967:TDE2131|5end_cobalamin_biosynthesis_protein_CbiM,_putative_2162683..2162913_NEGATIVE 238 76 40 172 121 NC_002967:TDE1183|5end_ABC_transporter,_ATP-binding_protein_1210612..1210842_POSITIVE 236 93 53 173 118 NC_002967:TDE1030|5end_hypothetical_protein_1059114..1059344_POSITIVE 235 99 53 79 30 NC_002967:TDE1693|5end_hypothetical_protein_1749226..1749456_NEGATIVE 233 93 62 128 96 NC_002967:TDE2424|5end_50S_ribosomal_protein_L1_2454717..2454947_NEGATIVE 232 109 62 75 13 NC_002967:TDE1327|5end_hypothetical_protein_1362949..1363179_NEGATIVE 231 100 66 42 1 NC_002967:TDE2211|5end_hypothetical_protein_2251316..2251546_NEGATIVE 230 110 64 82 33 NC_002967:TDE1456|5end_GGDEF_domain_protein_1504739..1504969_NEGATIVE 230 57 18 161 113 NC_002967:TDE1267|5end_phosphoribosylamine--glycine_ligase_1302940..1303170_NEGATIVE 229 95 54 39 8 NC_002967:TDE2317|5end_hemolysin_III_2354771..2355001_NEGATIVE 227 58 14 203 153 NC_002967:TDE1107|5end_transcription_elongation_factor_NusA_1142377..1142607_NEGATIVE 223 95 53 213 163 NC_002967:TDE2527|5end_hypothetical_protein_2556219..2556449_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 262 60 15 68 19 NC_002967:TDE2109|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_2133575..2133725_NEGATIVE 256 94 63 136 105 NC_002967:TDE1953|3end_transcriptional_regulator,_TetR_family_1969030..1969180_NEGATIVE 244 94 55 58 21 NC_002967:TDE1255|3end_hypothetical_protein_1288977..1289127_NEGATIVE 244 93 53 68 30 NC_002967:TDE0203|3end_hypothetical_protein_237058..237208_POSITIVE 242 89 55 52 23 NC_002967:TDE0823|3end_(3R)-hydroxymyristoyl-(acyl-carrier-protein)_dehydratase,_putative_845252..845402_POSITIVE 240 93 55 72 22 NC_002967:TDE1395|3end_glycosyl_hydrolase,_family_57_1435678..1435828_POSITIVE 240 91 56 107 77 NC_002967:TDE0616|3end_hypothetical_protein_650079..650229_POSITIVE 238 109 65 46 4 NC_002967:TDE1860|3end_hypothetical_protein_1886762..1886912_POSITIVE 236 93 53 73 18 NC_002967:TDE1029|3end_Hsp20/alpha_crystallin_family_protein_1059094..1059244_POSITIVE 235 63 23 52 17 NC_002967:TDE1895|3end_GTP-binding_protein_Era_1915927..1916077_POSITIVE 235 99 53 82 33 NC_002967:TDE1694|3end_hypothetical_protein_1749223..1749373_NEGATIVE 234 94 57 120 80 NC_002967:TDE2708|3end_hypothetical_protein_2755136..2755286_NEGATIVE 233 93 62 126 94 NC_002967:TDE2425|3end_50S_ribosomal_protein_L11_2454719..2454869_NEGATIVE 230 110 64 82 33 NC_002967:TDE1457|3end_hypothetical_protein_1504739..1504889_NEGATIVE 230 57 18 81 33 NC_002967:TDE1268|3end_type_II_restriction_endonuclease_TdeI_1303020..1303170_NEGATIVE 229 93 51 130 86 NC_002967:TDE0908|3end_ABC_transporter,_ATP-binding/permease_protein_927085..927235_POSITIVE 228 95 62 146 109 NC_002967:TDE1232|3end_hypothetical_protein_1265353..1265503_NEGATIVE 227 100 55 61 1 NC_002967:TDE1982|3end_hypothetical_protein_1992511..1992661_NEGATIVE 226 68 39 106 77 NC_002967:TDE2515|3end_hypothetical_protein_2540972..2541122_NEGATIVE 216 91 54 47 9 NC_002967:TDE0763|3end_hypothetical_protein_804234..804384_NEGATIVE