Origin IGS: aaacattccttaaaattaatattagttttgagacaatatgattttaaattctaagaaagtttagttattcattttagatgctaaaaactccttttgataaaagatttgttattgattgtattgactataccataaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttatggtatagtcaatacaatcaataacaaatcttttatcaaaaggagtttttagcatctaaaatgaataactaaactttcttagaatttaaaatcatattgtctcaaaactaatattaattttaaggaatgttt Mask Tandem Repeat Region ================================================ aaacattccttaaaattaatattagttttgagacaatatgattttaaattctaagaaagtttagttattcattttagatgctaaaaactccttttgataaaagatttgttattgattgtattgactataccataaa Find is-nt database================================================ Query_seq: TDE0044:TDE0045|TDE0044:TDE0045:ABC transporter, ATP-binding protein:ABC transporter, ATP-binding protein:<-<-:53223..53358 136 aaacattccttaaaattaatattagttttgagacaatatgattttaaattctaagaaagtttagttattcattttagatgctaaaaactccttttgataaaagatttgttattgattgtattgactataccataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0044:TDE0045|TDE0044:TDE0045:ABC transporter, ATP-binding protein:ABC transporter, ATP-binding protein:<-<-:53223..53358 136 aaacattccttaaaattaatattagttttgagacaatatgattttaaattctaagaaagtttagttattcattttagatgctaaaaactccttttgataaaagatttgttattgattgtattgactataccataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0044:TDE0045|TDE0044:TDE0045:ABC transporter, ATP-binding protein:ABC transporter, ATP-binding protein:<-<-:53223..53358 136 aaacattccttaaaattaatattagttttgagacaatatgattttaaattctaagaaagtttagttattcattttagatgctaaaaactccttttgataaaagatttgttattgattgtattgactataccataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaacattccttaaaattaatattagttttgagacaatatgattttaaattctaagaaagtttagttattcattttagatgctaaaaactccttttgataaaagatttgttattgattgtattgactataccataaa Predict ORF larger than 30AA ================================================ aaacattccttaaaattaatattagttttgagacaatatgattttaaattctaagaaagtttagttattcattttagatgctaaaaactccttttgataaaagatttgttattgattgtattgactataccataaa 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================================================ aaacattccttaaaattaatattagttttgagacaatatgattttaaattctaagaaagtttagttattcattttagatgctaaaaactccttttgataaaagatttgttattgattgtattgactataccataaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0044:TDE0045|TDE0044:TDE0045:ABC transporter, ATP-binding protein:ABC transporter, ATP-binding protein:<-<-:53223..53358 136 aaacattccttaaaattaatattagttttgagacaatatgattttaaattctaagaaagtttagttattcattttagatgctaaaaactccttttgataaaagatttgttattgattgtattgactataccataaa Intra-Species Hit: Count: 1 Min: 1 Max: 136 Len: 136 Subject: NC_002967_TDE0044_TDE0045|ABC transporter, ATP-binding protein:ABC transporter, ATP-binding protein|NEGATIVE:NEGATIVE|[53223,53358]|136 HSP 1 e-value: 1.0E-71 bit: 270.0 Len: 136 Query Start:1 Query End:136 Subject Strand: POSITIVE Subject Start: 1 Subject End: 136 aaacattccttaaaattaatattagttttgagacaatatgattttaaattctaagaaagtttagttattcattttagatgctaaaaactccttttgataaaagatttgttattgattgtattgactataccataaa aaacattccttaaaattaatattagttttgagacaatatgattttaaattctaagaaagtttagttattcattttagatgctaaaaactccttttgataaaagatttgttattgattgtattgactataccataaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACAUUCCUUAAAAUUAAUAUUAGUUUUGAGACAAUAUGAUUUUAAAUUCUAAGAAAGUUUAGUUAUUCAUUUUAGAUGCUAAAAACUCCUUUUGAUAAAAGAUUUGUUAUUGAUUGUAUUGACUAUACCAUAAA ........((((((((((....)))))))))).(((((..(((.(((..(((..(((((((((((...((......)).)))))).....)))))......)))....)))..)))..)))))............. (-18.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUGGUAUAGUCAAUACAAUCAAUAACAAAUCUUUUAUCAAAAGGAGUUUUUAGCAUCUAAAAUGAAUAACUAAACUUUCUUAGAAUUUAAAAUCAUAUUGUCUCAAAACUAAUAUUAAUUUUAAGGAAUGUUU ......((((.....))))..(((........((((((....))))))..((((((...)))))))))......((((((((((((((((.......(((((((......)).))))).)))))))))))).)))) (-13.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 686 100 51 191 142 NC_002967:TDE0044|5end_ABC_transporter,_ATP-binding_protein_53132..53362_NEGATIVE 219 52 21 42 8 NC_002967:TDE0513|5end_hypothetical_protein_562241..562471_NEGATIVE 210 119 75 126 86 NC_002967:TDE1690|5end_hypothetical_protein_1747200..1747430_NEGATIVE 197 94 51 140 100 NC_002967:TDE1584|5end_lipoprotein,_putative_1632025..1632255_POSITIVE 186 59 38 119 98 NC_002967:TDE0712|5end_hypothetical_protein_746963..747193_NEGATIVE 186 108 62 75 27 NC_002967:TDE0629|5end_chaperone_protein_DnaJ_662587..662817_POSITIVE 184 93 51 107 60 NC_002967:TDE1454|5end_sugar_transporter_1501438..1501668_POSITIVE 184 129 81 181 130 NC_002967:TDE1111|5end_transporter,_putative_1145630..1145860_POSITIVE 184 109 67 226 178 NC_002967:TDE0859|5end_hypothetical_protein_880100..880330_POSITIVE 180 92 59 105 79 NC_002967:TDE1322|5end_hypothetical_protein_1360736..1360966_NEGATIVE 179 109 87 61 40 NC_002967:TDE2310|5end_hypothetical_protein_2348042..2348272_POSITIVE 178 67 38 33 3 NC_002967:TDE0096|5end_NADH_oxidase_112723..112953_POSITIVE 177 96 60 109 80 NC_002967:TDE2570|5end_ribonuclease_HI_2597375..2597605_POSITIVE 176 129 81 205 156 NC_002967:TDE0360|5end_ABC_transporter,_ATP-binding/permease_protein_405844..406074_NEGATIVE 174 97 68 193 159 NC_002967:TDE1095|5end_alanine_racemase_1129826..1130056_POSITIVE 174 120 71 126 72 NC_002967:TDE0826|5end_hypothetical_protein_847604..847834_POSITIVE 174 96 51 185 142 NC_002967:TDE0692|5end_hypothetical_protein_729712..729942_POSITIVE 172 93 51 103 51 NC_002967:TDE2413|5end_hypothetical_protein_2440988..2441218_NEGATIVE 170 94 58 171 136 NC_002967:TDE0626|5end_hypothetical_protein_658090..658320_POSITIVE 167 118 89 138 108 NC_002967:TDE0328|5end_CRISPR-associated_protein_Cas1_365065..365295_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 197 94 51 42 2 NC_002967:TDE1583|3end_hypothetical_protein_1632007..1632157_POSITIVE 184 93 51 105 58 NC_002967:TDE1453|3end_alpha-galactosidase_1501516..1501666_POSITIVE 184 129 81 142 91 NC_002967:TDE1110|3end_lipoprotein,_putative_1145671..1145821_POSITIVE 177 96 60 112 83 NC_002967:TDE2569|3end_3-deoxy-7-phosphoheptulonate_synthase_2597458..2597608_POSITIVE 174 120 71 82 28 NC_002967:TDE0825|3end_UDP-N-acetylmuramoylalanyl-D-glutamate-2,_6-diaminopimelate_ligase,_putative_847640..847790_POSITIVE 174 96 51 121 78 NC_002967:TDE0691|3end_ABC_transporter,_ATP-binding/permease_protein_729728..729878_POSITIVE 172 93 51 70 18 NC_002967:TDE2414|3end_hypothetical_protein_2441021..2441171_NEGATIVE 170 94 58 104 69 NC_002967:TDE0625|3end_ABC_transporter,_ATP-binding_protein_658103..658253_POSITIVE 167 118 89 141 111 NC_002967:TDE0327|3end_CRISPR-associated_SAG0894_family_protein_365148..365298_POSITIVE 166 97 65 94 69 NC_002967:TDE2435|3end_hypothetical_protein_2465866..2466016_NEGATIVE 163 129 88 45 12 NC_002967:TDE1311|3end_ABC_transporter,_ATP-binding/permease_protein_1349055..1349205_POSITIVE 162 114 74 131 91 NC_002967:TDE1904|3end_hypothetical_protein_1923197..1923347_NEGATIVE 161 93 55 99 49 NC_002967:TDE2262|3end_peptidase,_U32_family_2298033..2298183_NEGATIVE 161 96 81 116 101 NC_002967:TDE1525|3end_hypothetical_protein_1570654..1570804_POSITIVE 160 121 88 147 118 NC_002967:TDE2365|3end_high-affinity_branched-chain_amino_acid_ABC_transporter,_permease_protein_2398930..2399080_NEGATIVE 160 97 54 116 84 NC_002967:TDE1154|3end_hypothetical_protein_1190851..1191001_NEGATIVE 160 89 60 102 67 NC_002967:TDE1129|3end_lipoprotein,_putative_1162523..1162673_POSITIVE 159 97 52 138 96 NC_002967:TDE0098|3end_hypothetical_protein_114842..114992_NEGATIVE 158 106 90 56 40 NC_002967:TDE2399|3end_ribonuclease_P_protein_component_2425804..2425954_NEGATIVE 158 108 76 151 115 NC_002967:TDE1376|3end_hypothetical_protein_1419079..1419229_POSITIVE