Origin IGS: agcaaaatcaattccatacttcttggctgttccttcaaagtctttgatattgtcaaggagcagtgattttcactattccgaaagtgcgtcaattcgacaaataagaggaagatggaatgacgaatggtgctccatctcccctttgtgtgttttcggtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaccgaaaacacacaaaggggagatggagcaccattcgtcattccatcttcctcttatttgtcgaattgacgcactttcggaatagtgaaaatcactgctccttgacaatatcaaagactttgaaggaacagccaagaagtatggaattgattttgct Mask Tandem Repeat Region ================================================ agcaaaatcaattccatacttcttggctgttccttcaaagtctttgatattgtcaaggagcagtgattttcactattccgaaagtgcgtcaattcgacaaataagaggaagatggaatgacgaatggtgctccatctcccctttgtgtgttttcggtt Find is-nt database================================================ Query_seq: TDE2177:TDE2178|TDE2177:TDE2178:hypothetical protein:hypothetical protein:<-<-:2206615..2206772 158 agcaaaatcaattccatacttcttggctgttccttcaaagtctttgatattgtcaaggagcagtgattttcactattccgaaagtgcgtcaattcgacaaataagaggaagatggaatgacgaatggtgctccatctcccctttgtgtgttttcggtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE2177:TDE2178|TDE2177:TDE2178:hypothetical protein:hypothetical protein:<-<-:2206615..2206772 158 agcaaaatcaattccatacttcttggctgttccttcaaagtctttgatattgtcaaggagcagtgattttcactattccgaaagtgcgtcaattcgacaaataagaggaagatggaatgacgaatggtgctccatctcccctttgtgtgttttcggtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE2177:TDE2178|TDE2177:TDE2178:hypothetical protein:hypothetical protein:<-<-:2206615..2206772 158 agcaaaatcaattccatacttcttggctgttccttcaaagtctttgatattgtcaaggagcagtgattttcactattccgaaagtgcgtcaattcgacaaataagaggaagatggaatgacgaatggtgctccatctcccctttgtgtgttttcggtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agcaaaatcaattccatacttcttggctgttccttcaaagtctttgatattgtcaaggagcagtgattttcactattccgaaagtgcgtcaattcgacaaataagaggaagatggaatgacgaatggtgctccatctcccctttgtgtgttttcggtt Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 11 End: 157 .......... M P Y F L A V P S K S L I L S R S S D F H Y S E S A S I R Q I R G R W N D E W C S I S P L C V F G . Protein_Len: 41 Strand: - Start: 3 End: 125 .. L I L E M S R P Q E K L T K S I T L S C H N E S N R F H T L E V F L L F I S H R M ................................. agcaaaatcaattccatacttcttggctgttccttcaaagtctttgatattgtcaaggagcagtgattttcactattccgaaagtgcgtcaattcgacaaataagaggaagatggaatgacgaatggtgctccatctcccctttgtgtgttttcggtt 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================================================ PromScan Matrix: RpoN Strand: - Score: 81 Start: 1 End: 17 ATGGAATTGATTTTGCT............................................................................................................................................. agcaaaatcaattccatacttcttggctgttccttcaaagtctttgatattgtcaaggagcagtgattttcactattccgaaagtgcgtcaattcgacaaataagaggaagatggaatgacgaatggtgctccatctcccctttgtgtgttttcggtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE2177:TDE2178|TDE2177:TDE2178:hypothetical protein:hypothetical protein:<-<-:2206615..2206772 158 agcaaaatcaattccatacttcttggctgttccttcaaagtctttgatattgtcaaggagcagtgattttcactattccgaaagtgcgtcaattcgacaaataagaggaagatggaatgacgaatggtgctccatctcccctttgtgtgttttcggtt Intra-Species Hit: Count: 1 Min: 1 Max: 158 Len: 158 Subject: NC_002967_TDE2177_TDE2178|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[2206615,2206772]|158 HSP 1 e-value: 9.0E-85 bit: 313.0 Len: 158 Query Start:1 Query End:158 Subject Strand: POSITIVE Subject Start: 1 Subject End: 158 agcaaaatcaattccatacttcttggctgttccttcaaagtctttgatattgtcaaggagcagtgattttcactattccgaaagtgcgtcaattcgacaaataagaggaagatggaatgacgaatggtgctccatctcccctttgtgtgttttcggtt agcaaaatcaattccatacttcttggctgttccttcaaagtctttgatattgtcaaggagcagtgattttcactattccgaaagtgcgtcaattcgacaaataagaggaagatggaatgacgaatggtgctccatctcccctttgtgtgttttcggtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCAAAAUCAAUUCCAUACUUCUUGGCUGUUCCUUCAAAGUCUUUGAUAUUGUCAAGGAGCAGUGAUUUUCACUAUUCCGAAAGUGCGUCAAUUCGACAAAUAAGAGGAAGAUGGAAUGACGAAUGGUGCUCCAUCUCCCCUUUGUGUGUUUUCGGUU .(.(((((((...(((.......)))((((((((((((.(((...))).)))..)))))))))))))))))......(((((((..((((.....))).....(((((.(((((((...((.....))..)))))))..)))))..)..))))))).. (-42.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACCGAAAACACACAAAGGGGAGAUGGAGCACCAUUCGUCAUUCCAUCUUCCUCUUAUUUGUCGAAUUGACGCACUUUCGGAAUAGUGAAAAUCACUGCUCCUUGACAAUAUCAAAGACUUUGAAGGAACAGCCAAGAAGUAUGGAAUUGAUUUUGCU ..((((((.......((((((((((((((.((.....))..))))))))))).)))....(((.....)))....))))))...(((.((((((((((.(((((..(((..((...))..)))))))).)))(((.......)))...)))))))))) (-38.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 920 140 91 231 182 NC_002967:TDE2177|5end_hypothetical_protein_2206524..2206754_NEGATIVE 326 64 22 194 161 NC_002967:TDE2306|5end_hypothetical_protein_2344251..2344481_NEGATIVE 294 150 111 110 55 NC_002967:TDE0565|5end_hypothetical_protein_597031..597261_POSITIVE 284 148 103 175 121 NC_002967:TDE2326|5end_cobyric_acid_synthase_CobQ,_putative_2361087..2361317_POSITIVE 279 147 125 124 94 NC_002967:TDE2424|5end_50S_ribosomal_protein_L1_2454717..2454947_NEGATIVE 278 140 91 189 134 NC_002967:TDE0466|5end_hypothetical_protein_518854..519084_NEGATIVE 272 60 13 139 91 NC_002967:TDE0847|5end_hypothetical_protein_870894..871124_POSITIVE 265 48 1 88 51 NC_002967:TDE0968|5end_translation_elongation_factor_P_993126..993356_NEGATIVE 264 148 105 228 178 NC_002967:TDE2516|5end_hypothetical_protein_2542021..2542251_POSITIVE 261 145 113 231 190 NC_002967:TDE0075|5end_sorbitol_dehydrogenase,_putative_86573..86803_NEGATIVE 260 127 107 221 201 NC_002967:TDE2502|5end_sensor_histidine_kinase/response_regulator_2525734..2525964_POSITIVE 260 46 7 139 106 NC_002967:TDE0343|5end_hydrolase,_alpha/beta_fold_family_385365..385595_NEGATIVE 255 49 3 124 77 NC_002967:TDE1896|5end_phosphoribosylaminoimidazolecarboxamide_formyltransferase/IMP_cyclohydrolase_1917505..1917735_NEGATIVE 253 59 19 48 1 NC_002967:TDE1277|5end_Fe-hydrogenase_large_subunit_family_protein_1310681..1310911_POSITIVE 252 66 21 231 190 NC_002967:TDE0208|5end_glycerate_kinase_242982..243212_POSITIVE 251 58 19 39 6 NC_002967:TDE0559|5end_hypothetical_protein_593459..593689_POSITIVE 250 54 12 159 119 NC_002967:TDE2127|5end_vapC_protein,_putative_2159763..2159993_POSITIVE 250 62 22 44 12 NC_002967:TDE0106|5end_hypothetical_protein_126546..126776_NEGATIVE 249 100 51 84 43 NC_002967:TDE1544|5end_mannosyltransferase,_putative_1587154..1587384_POSITIVE 249 95 51 108 70 NC_002967:TDE0912|5end_hypothetical_protein_931350..931580_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 642 150 104 82 36 NC_002967:TDE2170|3end_hypothetical_protein_2201606..2201756_NEGATIVE 287 67 25 129 72 NC_002967:TDE0478|3end_cyclic_nucleotide_binding_domain_protein_535013..535163_POSITIVE 279 147 125 122 92 NC_002967:TDE2425|3end_50S_ribosomal_protein_L11_2454719..2454869_NEGATIVE 264 109 61 90 29 NC_002967:TDE0853|3end_ribosomal_protein_S9_875927..876077_POSITIVE 260 46 7 137 104 NC_002967:TDE0344|3end_transcriptional_regulator,_AbrB_family_385367..385517_NEGATIVE 255 49 3 104 57 NC_002967:TDE1897|3end_phosphoribosylglycinamide_formyltransferase_1917525..1917675_NEGATIVE 254 143 101 141 104 NC_002967:TDE2162|3end_NOL1/NOP2/sun_family_protein_2195560..2195710_POSITIVE 246 100 55 53 12 NC_002967:TDE1090|3end_threonyl-tRNA_synthetase_1122943..1123093_POSITIVE 245 150 127 32 2 NC_002967:TDE2169|3end_hypothetical_protein_2201509..2201659_POSITIVE 244 143 119 37 14 NC_002967:TDE2227|3end_hypothetical_protein_2267134..2267284_POSITIVE 244 107 62 56 14 NC_002967:TDE1435|3end_hypothetical_protein_1479543..1479693_POSITIVE 243 80 33 72 29 NC_002967:TDE1732|3end_hypothetical_protein_1787946..1788096_POSITIVE 243 70 23 142 98 NC_002967:TDE1106|3end_translation_initiation_factor_IF-2_1138192..1138342_NEGATIVE 242 80 34 96 42 NC_002967:TDE0899|3end_ABC_transporter,_permease_protein,_putative_917277..917427_POSITIVE 242 144 113 100 68 NC_002967:TDE0327|3end_CRISPR-associated_SAG0894_family_protein_365148..365298_POSITIVE 239 150 105 41 3 NC_002967:TDE2564|3end_PemK_family_protein_2590393..2590543_POSITIVE 239 44 1 102 51 NC_002967:TDE0781|3end_30S_ribosomal_protein_S8_813039..813189_POSITIVE 238 145 104 145 98 NC_002967:TDE0636|3end_oligopeptide/dipeptide_ABC_transporter,_ATP-binding_protein_670532..670682_NEGATIVE 237 144 104 85 45 NC_002967:TDE0665|3end_pyruvate_ferredoxin/flavodoxin_oxidoreductase_family_protein_699792..699942_NEGATIVE 235 146 102 40 2 NC_002967:TDE0437|3end_PBS_lyase_HEAT-like_repeat_domain_protein_492136..492286_NEGATIVE