Origin IGS: gctatccttttgatagcacttaccatgataactatggattatactaaaataaaaagtttagtgtcaagaaggggaaaatatcgaattatggaaaatacaaataccaagagtctagataatcagtgtttacctaaatgttttcaagctgaacctattctgaatgtggttagtcttggagcctaggcaggctgcagccctcccttaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attaagggagggctgcagcctgcctaggctccaagactaaccacattcagaataggttcagcttgaaaacatttaggtaaacactgattatctagactcttggtatttgtattttccataattcgatattttccccttcttgacactaaactttttattttagtataatccatagttatcatggtaagtgctatcaaaaggatagc Mask Tandem Repeat Region ================================================ gctatccttttgatagcacttaccatgataactatggattatactaaaataaaaagtttagtgtcaagaaggggaaaatatcgaattatggaaaatacaaataccaagagtctagataatcagtgtttacctaaatgttttcaagctgaacctattctgaatgtggttagtcttggagcctaggcaggctgcagccctcccttaat Find is-nt database================================================ Query_seq: TDE1690:TDE1691|TDE1690:TDE1691:hypothetical protein:hypothetical protein:<-<-:1747291..1747496 206 gctatccttttgatagcacttaccatgataactatggattatactaaaataaaaagtttagtgtcaagaaggggaaaatatcgaattatggaaaatacaaataccaagagtctagataatcagtgtttacctaaatgttttcaagctgaacctattctgaatgtggttagtcttggagcctaggcaggctgcagccctcccttaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1690:TDE1691|TDE1690:TDE1691:hypothetical protein:hypothetical protein:<-<-:1747291..1747496 206 gctatccttttgatagcacttaccatgataactatggattatactaaaataaaaagtttagtgtcaagaaggggaaaatatcgaattatggaaaatacaaataccaagagtctagataatcagtgtttacctaaatgttttcaagctgaacctattctgaatgtggttagtcttggagcctaggcaggctgcagccctcccttaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1690:TDE1691|TDE1690:TDE1691:hypothetical protein:hypothetical protein:<-<-:1747291..1747496 206 gctatccttttgatagcacttaccatgataactatggattatactaaaataaaaagtttagtgtcaagaaggggaaaatatcgaattatggaaaatacaaataccaagagtctagataatcagtgtttacctaaatgttttcaagctgaacctattctgaatgtggttagtcttggagcctaggcaggctgcagccctcccttaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gctatccttttgatagcacttaccatgataactatggattatactaaaataaaaagtttagtgtcaagaaggggaaaatatcgaattatggaaaatacaaataccaagagtctagataatcagtgtttacctaaatgttttcaagctgaacctattctgaatgtggttagtcttggagcctaggcaggctgcagccctcccttaat Predict ORF larger than 30AA ================================================ Protein_Len: 59 Strand: + Start: 4 End: 180 ... M L L I A L T M I T M D Y T K I K S L V S R R G K Y R I M E N T N T K S L D N Q C L P K C F Q A E P I L N V V S L G A .......................... gctatccttttgatagcacttaccatgataactatggattatactaaaataaaaagtttagtgtcaagaaggggaaaatatcgaattatggaaaatacaaataccaagagtctagataatcagtgtttacctaaatgttttcaagctgaacctattctgaatgtggttagtcttggagcctaggcaggctgcagccctcccttaat 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================================================ gctatccttttgatagcacttaccatgataactatggattatactaaaataaaaagtttagtgtcaagaaggggaaaatatcgaattatggaaaatacaaataccaagagtctagataatcagtgtttacctaaatgttttcaagctgaacctattctgaatgtggttagtcttggagcctaggcaggctgcagccctcccttaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1690:TDE1691|TDE1690:TDE1691:hypothetical protein:hypothetical protein:<-<-:1747291..1747496 206 gctatccttttgatagcacttaccatgataactatggattatactaaaataaaaagtttagtgtcaagaaggggaaaatatcgaattatggaaaatacaaataccaagagtctagataatcagtgtttacctaaatgttttcaagctgaacctattctgaatgtggttagtcttggagcctaggcaggctgcagccctcccttaat Intra-Species Hit: Count: 1 Min: 1 Max: 206 Len: 206 Subject: NC_002967_TDE1690_TDE1691|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1747291,1747496]|206 HSP 1 e-value: 1.0E-113 bit: 408.0 Len: 206 Query Start:1 Query End:206 Subject Strand: POSITIVE Subject Start: 1 Subject End: 206 gctatccttttgatagcacttaccatgataactatggattatactaaaataaaaagtttagtgtcaagaaggggaaaatatcgaattatggaaaatacaaataccaagagtctagataatcagtgtttacctaaatgttttcaagctgaacctattctgaatgtggttagtcttggagcctaggcaggctgcagccctcccttaat gctatccttttgatagcacttaccatgataactatggattatactaaaataaaaagtttagtgtcaagaaggggaaaatatcgaattatggaaaatacaaataccaagagtctagataatcagtgtttacctaaatgttttcaagctgaacctattctgaatgtggttagtcttggagcctaggcaggctgcagccctcccttaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUAUCCUUUUGAUAGCACUUACCAUGAUAACUAUGGAUUAUACUAAAAUAAAAAGUUUAGUGUCAAGAAGGGGAAAAUAUCGAAUUAUGGAAAAUACAAAUACCAAGAGUCUAGAUAAUCAGUGUUUACCUAAAUGUUUUCAAGCUGAACCUAUUCUGAAUGUGGUUAGUCUUGGAGCCUAGGCAGGCUGCAGCCCUCCCUUAAU ((((((.....)))))).....(((((.....)))))...((((((((........)))))))).....((((((.............(((............)))...((((((......((..(((....)))..))((((((((((.((............)))))).))))))..)))))).(((....))).))))))... (-43.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAAGGGAGGGCUGCAGCCUGCCUAGGCUCCAAGACUAACCACAUUCAGAAUAGGUUCAGCUUGAAAACAUUUAGGUAAACACUGAUUAUCUAGACUCUUGGUAUUUGUAUUUUCCAUAAUUCGAUAUUUUCCCCUUCUUGACACUAAACUUUUUAUUUUAGUAUAAUCCAUAGUUAUCAUGGUAAGUGCUAUCAAAAGGAUAGC ....((((((((....(((((....)))))((((((..........((((.....(((..(((((((....))))))).))).))))..........))))))..............................))))))))....(((..(((((.....((((((...((((.......))))...))))))..)))))..))). (-41.65) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 793 110 61 201 152 NC_002967:TDE1690|5end_hypothetical_protein_1747200..1747430_NEGATIVE 342 200 151 67 16 NC_002967:TDE1892|5end_hypothetical_protein_1912065..1912295_POSITIVE 333 200 151 203 158 NC_002967:TDE1313|5end_signal_peptidase_I_1350650..1350880_POSITIVE 323 200 153 221 166 NC_002967:TDE0763|5end_hypothetical_protein_804338..804568_NEGATIVE 311 200 154 67 9 NC_002967:TDE2090|5end_NAD(P)H-dependent_glycerol-3-phosphate_dehydrogenase_2118636..2118866_NEGATIVE 304 200 155 129 70 NC_002967:TDE1330|5end_conserved_hypothetical_protein_TIGR00244_1365379..1365609_POSITIVE 300 200 151 218 162 NC_002967:TDE2614|5end_ApbE_family_protein_2657133..2657363_NEGATIVE 298 189 145 88 31 NC_002967:TDE2268|5end_hypothetical_protein_2304959..2305189_NEGATIVE 297 200 151 52 6 NC_002967:TDE0693|5end_phosphomethylpyrimidine_kinase_729942..730172_POSITIVE 296 197 155 46 5 NC_002967:TDE2407|5end_amidophosphoribosyltransferase_2435107..2435337_NEGATIVE 296 191 154 192 148 NC_002967:TDE0759|5end_hypothetical_protein_799499..799729_NEGATIVE 292 196 171 65 40 NC_002967:TDE0860|5end_ribosomal_small_subunit_pseudouridine_synthase_A_881023..881253_POSITIVE 292 200 151 55 6 NC_002967:TDE0828|5end_glucose-inhibited_division_protein_A_850169..850399_NEGATIVE 291 193 151 159 106 NC_002967:TDE1863|5end_Holliday_junction_DNA_helicase_RuvA_1888579..1888809_NEGATIVE 290 196 155 179 135 NC_002967:TDE2616|5end_cyclic_nucleotide-binding_protein_2658339..2658569_NEGATIVE 290 200 174 32 3 NC_002967:TDE0764|5end_hypothetical_protein_804527..804757_NEGATIVE 288 199 162 205 171 NC_002967:TDE0573|5end_hypothetical_protein_604681..604911_POSITIVE 286 200 153 69 17 NC_002967:TDE0587|5end_hypothetical_protein_625749..625979_POSITIVE 285 189 143 176 126 NC_002967:TDE0081|5end_hypothetical_protein_93941..94171_NEGATIVE 283 197 169 71 31 NC_002967:TDE1858|5end_transcriptional_regulator,_PadR_family_1884632..1884862_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 318 199 153 61 14 NC_002967:TDE2135|3end_hypothetical_protein_2165418..2165568_POSITIVE 314 198 160 76 39 NC_002967:TDE2712|3end_hypothetical_protein_2769615..2769765_POSITIVE 314 199 165 77 35 NC_002967:TDE2082|3end_hypothetical_protein_2112489..2112639_NEGATIVE 312 200 151 135 78 NC_002967:TDE2527|3end_hypothetical_protein_2555449..2555599_NEGATIVE 308 190 145 50 2 NC_002967:TDE2162|3end_NOL1/NOP2/sun_family_protein_2195560..2195710_POSITIVE 304 199 165 37 3 NC_002967:TDE2312|3end_hypothetical_protein_2349049..2349199_POSITIVE 302 190 144 79 31 NC_002967:TDE2641|3end_Fic_family_protein_2682068..2682218_POSITIVE 302 198 156 87 40 NC_002967:TDE2265|3end_hypothetical_protein_2302634..2302784_POSITIVE 298 189 145 116 59 NC_002967:TDE2269|3end_hypothetical_protein_2304931..2305081_NEGATIVE 295 200 157 144 97 NC_002967:TDE2074|3end_radical_SAM_enzyme,_Cfr_family_2101537..2101687_POSITIVE 293 194 156 128 77 NC_002967:TDE2423|3end_ribosomal_protein_L10_2453417..2453567_NEGATIVE 293 196 151 54 8 NC_002967:TDE2181|3end_PAP2_family_protein_2211995..2212145_NEGATIVE 293 200 151 145 105 NC_002967:TDE0315|3end_ABC_transporter,_ATP-binding/permease_protein,_HlyB_family_348802..348952_POSITIVE 292 198 151 52 3 NC_002967:TDE1981|3end_hypothetical_protein_1992437..1992587_POSITIVE 292 200 162 57 24 NC_002967:TDE0977|3end_hypothetical_protein_1001640..1001790_POSITIVE 292 196 171 68 43 NC_002967:TDE0859|3end_hypothetical_protein_881106..881256_POSITIVE 291 196 161 52 13 NC_002967:TDE1856|3end_radical_SAM_domain_protein_1883956..1884106_POSITIVE 290 189 144 120 79 NC_002967:TDE2622|3end_ABC_transporter,_ATP-binding_protein_2662178..2662328_NEGATIVE 288 197 156 54 1 NC_002967:TDE1795|3end_funZ_protein,_putative_1833063..1833213_NEGATIVE 286 190 143 138 76 NC_002967:TDE0938|3end_hypothetical_protein_960963..961113_NEGATIVE