Origin IGS: aagctgtattttcgttcaaagagtgcacaaaagtaaatagaatctcggctttcttggcttgtttttggacccaaaaatgcaaagaagggcgagttcacctttccttgaatgcttggcccaatgtagatccgtacgtccaacggcatcgttataacaagagcgaagaaacagattcgcgctgtggtatagggaattatattatctttgcggccagatctacgaccgtagtagcggaagtagttattgtttaacacgttaaaaaacggaagaaa .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttcttccgttttttaacgtgttaaacaataactacttccgctactacggtcgtagatctggccgcaaagataatataattccctataccacagcgcgaatctgtttcttcgctcttgttataacgatgccgttggacgtacggatctacattgggccaagcattcaaggaaaggtgaactcgcccttctttgcatttttgggtccaaaaacaagccaagaaagccgagattctatttacttttgtgcactctttgaacgaaaatacagctt Mask Tandem Repeat Region ================================================ aagctgtattttcgttcaaagagtgcacaaaagtaaatagaatctcggctttcttggcttgtttttggacccaaaaatgcaaagaagggcgagttcacctttccttgaatgcttggcccaatgtagatccgtacgtccaacggcatcgttataacaagagcgaagaaacagattcgcgctgtggtatagggaattatattatctttgcggccagatctacgaccgtagtagcggaagtagttattgtttaacacgttaaaaaacggaagaaa Find is-nt database================================================ Query_seq: PG1757:PG1758|PG1757:PG1758:hypothetical protein:ribosomal protein S15:<-->:1845053..1845324 272 aagctgtattttcgttcaaagagtgcacaaaagtaaatagaatctcggctttcttggcttgtttttggacccaaaaatgcaaagaagggcgagttcacctttccttgaatgcttggcccaatgtagatccgtacgtccaacggcatcgttataacaagagcgaagaaacagattcgcgctgtggtatagggaattatattatctttgcggccagatctacgaccgtagtagcggaagtagttattgtttaacacgttaaaaaacggaagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1757:PG1758|PG1757:PG1758:hypothetical protein:ribosomal protein S15:<-->:1845053..1845324 272 aagctgtattttcgttcaaagagtgcacaaaagtaaatagaatctcggctttcttggcttgtttttggacccaaaaatgcaaagaagggcgagttcacctttccttgaatgcttggcccaatgtagatccgtacgtccaacggcatcgttataacaagagcgaagaaacagattcgcgctgtggtatagggaattatattatctttgcggccagatctacgaccgtagtagcggaagtagttattgtttaacacgttaaaaaacggaagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1757:PG1758|PG1757:PG1758:hypothetical protein:ribosomal protein S15:<-->:1845053..1845324 272 aagctgtattttcgttcaaagagtgcacaaaagtaaatagaatctcggctttcttggcttgtttttggacccaaaaatgcaaagaagggcgagttcacctttccttgaatgcttggcccaatgtagatccgtacgtccaacggcatcgttataacaagagcgaagaaacagattcgcgctgtggtatagggaattatattatctttgcggccagatctacgaccgtagtagcggaagtagttattgtttaacacgttaaaaaacggaagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagctgtattttcgttcaaagagtgcacaaaagtaaatagaatctcggctttcttggcttgtttttggacccaaaaatgcaaagaagggcgagttcacctttccttgaatgcttggcccaatgtagatccgtacgtccaacggcatcgttataacaagagcgaagaaacagattcgcgctgtggtatagggaattatattatctttgcggccagatctacgaccgtagtagcggaagtagttattgtttaacacgttaaaaaacggaagaaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 59 End: 151 .......................................................... M F L D P K M Q R R A S S P F L E C L A Q C R S V R P T A S L ......................................................................................................................... Protein_Len: 60 Strand: + Start: 42 End: 248 ......................................... M S A F L A C F W T Q K C K E G R V H L S L N A W P N V D P Y V Q R H R Y N K S E E T D S R C G I G N Y I I F A A R S T ........................ Protein_Len: 51 Strand: - Start: 19 End: 171 .................. L T C L L L Y F R P K R P K N K S G F I C L L A L E G K R S H K A W H L D T R G V A D N Y C S R L F M ..................................................................................................... Protein_Len: 60 Strand: - Start: 3 End: 254 .. F A F F P S N V K G Q I S P G I Y I R V D L P M T I V L A F F C I R A T T Y P I I N D K R G S R R G Y Y R F Y N N N L M .................. aagctgtattttcgttcaaagagtgcacaaaagtaaatagaatctcggctttcttggcttgtttttggacccaaaaatgcaaagaagggcgagttcacctttccttgaatgcttggcccaatgtagatccgtacgtccaacggcatcgttataacaagagcgaagaaacagattcgcgctgtggtatagggaattatattatctttgcggccagatctacgaccgtagtagcggaagtagttattgtttaacacgttaaaaaacggaagaaa 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================================================ aagctgtattttcgttcaaagagtgcacaaaagtaaatagaatctcggctttcttggcttgtttttggacccaaaaatgcaaagaagggcgagttcacctttccttgaatgcttggcccaatgtagatccgtacgtccaacggcatcgttataacaagagcgaagaaacagattcgcgctgtggtatagggaattatattatctttgcggccagatctacgaccgtagtagcggaagtagttattgtttaacacgttaaaaaacggaagaaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 48 HP_score: -2.7 Tail_Score: -3.48378 Start: 160 End: 177 Full_Region: tccctataccacagc gcgaa tctgtttc ttcgc tcttgttataacgat ...............................................................................................................................................................gcgaatctgtttcttcgc............................................................................................... Find igs database================================================ Query_seq: PG1757:PG1758|PG1757:PG1758:hypothetical protein:ribosomal protein S15:<-->:1845053..1845324 272 aagctgtattttcgttcaaagagtgcacaaaagtaaatagaatctcggctttcttggcttgtttttggacccaaaaatgcaaagaagggcgagttcacctttccttgaatgcttggcccaatgtagatccgtacgtccaacggcatcgttataacaagagcgaagaaacagattcgcgctgtggtatagggaattatattatctttgcggccagatctacgaccgtagtagcggaagtagttattgtttaacacgttaaaaaacggaagaaa Intra-Species Hit: Count: 1 Min: 1 Max: 272 Len: 272 Subject: NC_002950_PG1757_PG1758|hypothetical protein:ribosomal protein S15|NEGATIVE:POSITIVE|[1845053,1845324]|272 HSP 1 e-value: 1.0E-152 bit: 539.0 Len: 272 Query Start:1 Query End:272 Subject Strand: POSITIVE Subject Start: 1 Subject End: 272 aagctgtattttcgttcaaagagtgcacaaaagtaaatagaatctcggctttcttggcttgtttttggacccaaaaatgcaaagaagggcgagttcacctttccttgaatgcttggcccaatgtagatccgtacgtccaacggcatcgttataacaagagcgaagaaacagattcgcgctgtggtatagggaattatattatctttgcggccagatctacgaccgtagtagcggaagtagttattgtttaacacgttaaaaaacggaagaaa aagctgtattttcgttcaaagagtgcacaaaagtaaatagaatctcggctttcttggcttgtttttggacccaaaaatgcaaagaagggcgagttcacctttccttgaatgcttggcccaatgtagatccgtacgtccaacggcatcgttataacaagagcgaagaaacagattcgcgctgtggtatagggaattatattatctttgcggccagatctacgaccgtagtagcggaagtagttattgtttaacacgttaaaaaacggaagaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGCUGUAUUUUCGUUCAAAGAGUGCACAAAAGUAAAUAGAAUCUCGGCUUUCUUGGCUUGUUUUUGGACCCAAAAAUGCAAAGAAGGGCGAGUUCACCUUUCCUUGAAUGCUUGGCCCAAUGUAGAUCCGUACGUCCAACGGCAUCGUUAUAACAAGAGCGAAGAAACAGAUUCGCGCUGUGGUAUAGGGAAUUAUAUUAUCUUUGCGGCCAGAUCUACGACCGUAGUAGCGGAAGUAGUUAUUGUUUAACACGUUAAAAAACGGAAGAAA ((((.(((....(((((((.((.(((......)))....(((.((((.(((((((.((..(((((((....))))))))).))))))).))))))).....)).))))))).((((((((((((((.(((.((...(((.((((...((....))....(((((........))))))))))))..)).))).))))))......)).))))))..((((..((((....))))..)))).))).))))....((((....))))....... (-74.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCUUCCGUUUUUUAACGUGUUAAACAAUAACUACUUCCGCUACUACGGUCGUAGAUCUGGCCGCAAAGAUAAUAUAAUUCCCUAUACCACAGCGCGAAUCUGUUUCUUCGCUCUUGUUAUAACGAUGCCGUUGGACGUACGGAUCUACAUUGGGCCAAGCAUUCAAGGAAAGGUGAACUCGCCCUUCUUUGCAUUUUUGGGUCCAAAAACAAGCCAAGAAAGCCGAGAUUCUAUUUACUUUUGUGCACUCUUUGAACGAAAAUACAGCUU ..................(((((.........((((..(((......)))..)))).........((((((...((((......)))).....(((((((...(..((((.(((((((((.....(((.((((.......)))))))....((((((((((.((.(((((((.((((....)))).))))))).)).))).))))))).)))))).......))).))))..)........)))))))..))))))......)))))..... (-63.61) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 963 130 81 221 172 NC_002950:PG1757|5end_hypothetical_protein_1844962..1845192_NEGATIVE 420 240 201 107 65 NC_002950:PG0362|5end_hypothetical_protein_395301..395531_POSITIVE 388 217 171 144 83 NC_002950:PG0954|5end_TPR_domain_protein_1013186..1013416_POSITIVE 381 149 103 61 6 NC_002950:PG0223|5end_exonuclease_257610..257840_NEGATIVE 342 180 134 186 144 NC_002950:PG0227|5end_DNA_repair_protein_RadA_263978..264208_NEGATIVE 339 215 175 71 30 NC_002950:PG0747|5end_sigma-54_dependent_DNA-binding_response_regulator_795294..795524_NEGATIVE 337 157 111 231 177 NC_002950:PG0488|5end_Holliday_junction_DNA_helicase_RuvB_528169..528399_POSITIVE 333 148 103 57 12 NC_002950:PG1992|5end_glucose-inhibited_division_protein_A_2081410..2081640_POSITIVE 332 149 105 181 124 NC_002950:PG0141|5end_spoOJ_protein_164747..164977_NEGATIVE 324 148 105 195 157 NC_002950:PG0447|5end_hypothetical_protein_487278..487508_POSITIVE 322 90 45 55 18 NC_002950:PG0491|5end_hypothetical_protein_532184..532414_POSITIVE 322 185 141 72 18 NC_002950:PG0189|5end_hypothetical_protein_225291..225521_POSITIVE 321 184 141 142 100 NC_002950:PG1751|5end_aminotransferase,_class_V_1837280..1837510_POSITIVE 320 244 208 46 8 NC_002950:PG0559|5end_chlorohydrolase_family_protein_617496..617726_NEGATIVE 316 127 86 195 150 NC_002950:PG0259|5end_hypothetical_protein_292278..292508_POSITIVE 312 150 105 171 132 NC_002950:PG1868|5end_hypothetical_protein_1965619..1965849_NEGATIVE 312 225 181 119 72 NC_002950:PG0767|5end_4-alpha-glucanotransferase_820533..820763_NEGATIVE 311 234 206 160 132 NC_002950:PG1542|5end_collagenase_1620788..1621018_POSITIVE 311 130 86 82 35 NC_002950:PG0026|5end_hypothetical_protein_29234..29464_POSITIVE 309 190 141 223 165 NC_002950:PG2037|5end_hypothetical_protein_2137812..2138042_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 388 217 171 116 55 NC_002950:PG0953|3end_deoxyuridine_5'-triphosphate_nucleotidohydrolase_1013238..1013388_POSITIVE 381 149 103 57 2 NC_002950:PG0224|3end_hypothetical_protein_257614..257764_NEGATIVE 379 249 205 99 61 NC_002950:PG0333|3end_hypothetical_protein_368811..368961_POSITIVE 342 180 134 140 98 NC_002950:PG0228|3end_DdaH_family_protein_264024..264174_NEGATIVE 322 90 45 39 2 NC_002950:PG0490|3end_hypothetical_protein_532248..532398_POSITIVE 322 185 141 85 31 NC_002950:PG0188|3end_lipoprotein,_putative_225384..225534_POSITIVE 314 249 205 84 45 NC_002950:PG2063|3end_hypothetical_protein_2160390..2160540_NEGATIVE 312 150 105 135 96 NC_002950:PG1869|3end_hypothetical_protein_1965655..1965805_NEGATIVE 311 234 206 147 119 NC_002950:PG1541|3end_2-amino-4-hydroxy-6-_hydroxymethyldihydropteridine_pyrophosphokinase_1620855..1621005_POSITIVE 308 149 110 128 88 NC_002950:PG0502|3end_SsrA-binding_protein_542000..542150_POSITIVE 306 249 205 89 48 NC_002950:PG0302|3end_hypothetical_protein_338721..338871_POSITIVE 305 129 83 54 5 NC_002950:PG1366|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1446076..1446226_NEGATIVE 305 240 204 77 37 NC_002950:PG0605|3end_hypothetical_protein_661165..661315_NEGATIVE 305 148 103 96 46 NC_002950:PG0171|3end_5'-nucleotidase_family_protein_193576..193726_POSITIVE 303 247 203 112 64 NC_002950:PG1773|3end_PAP2_superfamily_protein_1861232..1861382_POSITIVE 300 119 83 41 1 NC_002950:PG0419|3end_hypothetical_protein_459702..459852_NEGATIVE 296 235 204 41 14 NC_002950:PG0212|3end_precorrin-6Y_C5,15-methyltransferase,_decarboxylating_247824..247974_NEGATIVE 294 149 104 86 47 NC_002950:PG2094|3end_hypothetical_protein_2193321..2193471_NEGATIVE 292 148 104 122 72 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE 291 160 111 96 49 NC_002950:PG1433|3end_hydrolase_1519126..1519276_POSITIVE