Origin IGS: aaagttatgtcttattggttatgttctatttcatttgcaaacttacataaaattctcaaataattctccaataaaattaagaaaaccacttttttatttcattgctgtttcgttagccttctaccaactcgcaaaaacaagtttcaattctaagatacacaactctttagcttgctttaaatgcaactttacaaattatttacacgtaaataaatatttttctacgtgtaagtaaatatttctttacgtgtagaaaaaatatttttta .........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 taaaaaatattttttctacacgtaaagaaatatttacttacacgtagaaaaatatttatttacgtgtaaataatttgtaaagttgcatttaaagcaagctaaagagttgtgtatcttagaattgaaacttgtttttgcgagttggtagaaggctaacgaaacagcaatgaaataaaaaagtggttttcttaattttattggagaattatttgagaattttatgtaagtttgcaaatgaaatagaacataaccaataagacataacttt Mask Tandem Repeat Region ================================================ aaagttatgtcttattggttatgttctatttcatttgcaaacttacataaaattctcaaataattctccaataaaattaagaaaaccacttttttatttcattgctgtttcgttagccttctaccaactcgcaaaaacaagtttcaattctaagatacacaactctttagcttgctttaaatgcaactttacaaattatttacacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Find is-nt database================================================ Query_seq: PI1672:PI1673|PI1672:PI1673:conserved hypothetical protein; possible DNA-binding protein, histone-like family:hypothetical protein:->->:1587590..1587857 268 aaagttatgtcttattggttatgttctatttcatttgcaaacttacataaaattctcaaataattctccaataaaattaagaaaaccacttttttatttcattgctgtttcgttagccttctaccaactcgcaaaaacaagtttcaattctaagatacacaactctttagcttgctttaaatgcaactttacaaattatttacacgtaaataaatatttttctacgtgtaagtaaatatttctttacgtgtagaaaaaatatttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1672:PI1673|PI1672:PI1673:conserved hypothetical protein; possible DNA-binding protein, histone-like family:hypothetical protein:->->:1587590..1587857 268 aaagttatgtcttattggttatgttctatttcatttgcaaacttacataaaattctcaaataattctccaataaaattaagaaaaccacttttttatttcattgctgtttcgttagccttctaccaactcgcaaaaacaagtttcaattctaagatacacaactctttagcttgctttaaatgcaactttacaaattatttacacgtaaataaatatttttctacgtgtaagtaaatatttctttacgtgtagaaaaaatatttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1672:PI1673|PI1672:PI1673:conserved hypothetical protein; possible DNA-binding protein, histone-like family:hypothetical protein:->->:1587590..1587857 268 aaagttatgtcttattggttatgttctatttcatttgcaaacttacataaaattctcaaataattctccaataaaattaagaaaaccacttttttatttcattgctgtttcgttagccttctaccaactcgcaaaaacaagtttcaattctaagatacacaactctttagcttgctttaaatgcaactttacaaattatttacacgtaaataaatatttttctacgtgtaagtaaatatttctttacgtgtagaaaaaatatttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaagttatgtcttattggttatgttctatttcatttgcaaacttacataaaattctcaaataattctccaataaaattaagaaaaccacttttttatttcattgctgtttcgttagccttctaccaactcgcaaaaacaagtttcaattctaagatacacaactctttagcttgctttaaatgcaactttacaaattatttacacgtaaataaatatttttctacgtgtaagtaaatatttctttacgtgtagaaaaaatatttttta Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 14 End: 232 ............. M G Y V L F H L Q T Y I K F S N N S P I K L R K P L F Y F I A V S L A F Y Q L A K T S F N S K I H N S L A C F K C N F T .................................... aaagttatgtcttattggttatgttctatttcatttgcaaacttacataaaattctcaaataattctccaataaaattaagaaaaccacttttttatttcattgctgtttcgttagccttctaccaactcgcaaaaacaagtttcaattctaagatacacaactctttagcttgctttaaatgcaactttacaaattatttacacgtaaataaatatttttctacgtgtaagtaaatatttctttacgtgtagaaaaaatatttttta 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================================================ aaagttatgtcttattggttatgttctatttcatttgcaaacttacataaaattctcaaataattctccaataaaattaagaaaaccacttttttatttcattgctgtttcgttagccttctaccaactcgcaaaaacaagtttcaattctaagatacacaactctttagcttgctttaaatgcaactttacaaattatttacacgtaaataaatatttttctacgtgtaagtaaatatttctttacgtgtagaaaaaatatttttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 74 HP_score: -7.4 Tail_Score: -3.9279 Start: 196 End: 235 Full_Region: cacgtaaagaaatat ttacttacacgtagaaaa atat ttatttacgtgtaaataa tttgtaaagttgcat ...................................................................................................................................................................................................ttacttacacgtagaaaaatatttatttacgtgtaaataa................................. Find igs database================================================ Query_seq: PI1672:PI1673|PI1672:PI1673:conserved hypothetical protein; possible DNA-binding protein, histone-like family:hypothetical protein:->->:1587590..1587857 268 aaagttatgtcttattggttatgttctatttcatttgcaaacttacataaaattctcaaataattctccaataaaattaagaaaaccacttttttatttcattgctgtttcgttagccttctaccaactcgcaaaaacaagtttcaattctaagatacacaactctttagcttgctttaaatgcaactttacaaattatttacacgtaaataaatatttttctacgtgtaagtaaatatttctttacgtgtagaaaaaatatttttta Intra-Species Hit: Count: 1 Min: 1 Max: 268 Len: 268 Subject: pint_PI1672_PI1673|conserved hypothetical protein; possible DNA-binding protein, histone-like family:hypothetical protein|POSITIVE:POSITIVE|[1587590,1587857]|268 HSP 1 e-value: 1.0E-150 bit: 531.0 Len: 268 Query Start:1 Query End:268 Subject Strand: POSITIVE Subject Start: 1 Subject End: 268 aaagttatgtcttattggttatgttctatttcatttgcaaacttacataaaattctcaaataattctccaataaaattaagaaaaccacttttttatttcattgctgtttcgttagccttctaccaactcgcaaaaacaagtttcaattctaagatacacaactctttagcttgctttaaatgcaactttacaaattatttacacgtaaataaatatttttctacgtgtaagtaaatatttctttacgtgtagaaaaaatatttttta aaagttatgtcttattggttatgttctatttcatttgcaaacttacataaaattctcaaataattctccaataaaattaagaaaaccacttttttatttcattgctgtttcgttagccttctaccaactcgcaaaaacaagtttcaattctaagatacacaactctttagcttgctttaaatgcaactttacaaattatttacacgtaaataaatatttttctacgtgtaagtaaatatttctttacgtgtagaaaaaatatttttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGUUAUGUCUUAUUGGUUAUGUUCUAUUUCAUUUGCAAACUUACAUAAAAUUCUCAAAUAAUUCUCCAAUAAAAUUAAGAAAACCACUUUUUUAUUUCAUUGCUGUUUCGUUAGCCUUCUACCAACUCGCAAAAACAAGUUUCAAUUCUAAGAUACACAACUCUUUAGCUUGCUUUAAAUGCAACUUUACAAAUUAUUUACACGUAAAUAAAUAUUUUUCUACGUGUAAGUAAAUAUUUCUUUACGUGUAGAAAAAAUAUUUUUUA ..((((.(((((((((((...((((........(((((.......................................(((((((.....))))))).......((((......)))).............)))))))))....))))...)))))))...))))....((.((((.......))))))..........((((((((((((.(((((((....(((......)))))))))).)))))))))))).............. (-36.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAAUAUUUUUUCUACACGUAAAGAAAUAUUUACUUACACGUAGAAAAAUAUUUAUUUACGUGUAAAUAAUUUGUAAAGUUGCAUUUAAAGCAAGCUAAAGAGUUGUGUAUCUUAGAAUUGAAACUUGUUUUUGCGAGUUGGUAGAAGGCUAACGAAACAGCAAUGAAAUAAAAAAGUGGUUUUCUUAAUUUUAUUGGAGAAUUAUUUGAGAAUUUUAUGUAAGUUUGCAAAUGAAAUAGAACAUAACCAAUAAGACAUAACUUU .......((((((...((((((((((.((((((((..(((....)))..)))))))).))))))))))....(((((((((.((((...................(((((...((((((..((..(((((((....))))))).....))..)))).)).))))).(((((((....((((((((((((..........))))))))))))....))))))))))).))))))))))))))).......................... (-54.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 534 250 201 180 131 pint:PI0115|5end_hypothetical_protein_108062..108292_POSITIVE 534 250 201 166 117 pint:PI0111|5end_hypothetical_protein_108048..108278_POSITIVE 534 250 201 131 82 pint:PI0112|5end_hypothetical_protein_108013..108243_POSITIVE 506 250 201 147 98 pint:PI0619|5end_hypothetical_protein_569364..569594_POSITIVE 460 250 201 109 60 pint:PI0312|5end_hypothetical_protein_294591..294821_POSITIVE 446 250 201 157 108 pint:PI0130|5end_hypothetical_protein_122032..122262_POSITIVE 437 240 194 103 57 pint:PI1450|5end_hypothetical_protein_1372683..1372913_POSITIVE 400 233 191 231 189 pint:PI0599|5end_hypothetical_protein_547376..547606_POSITIVE 399 235 193 215 173 pint:PI0173|5end_hypothetical_protein_165305..165535_POSITIVE 396 237 192 122 77 pint:PI0648|5end_hypothetical_protein_589448..589678_POSITIVE 394 250 201 150 101 pint:PI0983|5end_hypothetical_protein_909750..909980_POSITIVE 385 240 193 229 182 pint:PI0311|5end_hypothetical_protein_294721..294951_POSITIVE 382 235 195 142 102 pint:PI1462|5end_hypothetical_protein_1385094..1385324_POSITIVE 347 224 192 231 199 pint:PI0114|5end_hypothetical_protein_108139..108369_POSITIVE 332 250 201 135 86 pint:PI0579|5end_hypothetical_protein_523419..523649_POSITIVE 311 240 194 216 170 pint:PI0702|5end_conserved_hypothetical_protein;_possible_tetracenomycin_C_synthesis_protein_homolog_638640..638870_POSITIVE 278 131 97 163 124 pint:PI1848|5end_hypothetical_protein_1793799..1794029_POSITIVE 269 146 101 104 49 pint:PI0176|5end_hypothetical_protein_168230..168460_POSITIVE 255 150 102 211 174 pint:PI1796|5end_2-hydroxyhepta-2,4-diene-1,7-dioate_isomerase,_fumarylacetoacetate_hydrolase_family_protein_1730452..1730682_POSITIVE 254 231 192 116 77 pint:PI0535|5end_hypothetical_protein_489508..489738_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 503 250 201 116 67 pint:PI2105|3end_hypothetical_protein_2059586..2059736_POSITIVE 431 250 204 47 1 pint:PI0598|3end_hypothetical_protein_547233..547383_POSITIVE 410 254 223 32 1 pint:PI2106|3end_hypothetical_protein_2059498..2059648_POSITIVE 399 235 193 68 26 pint:PI0172|3end_ISPg3-related_transposase_165238..165388_POSITIVE 382 235 195 41 1 pint:PI1461|3end_conserved_hypothetical_protein_1385073..1385223_POSITIVE 371 240 193 59 12 pint:PI1314|3end_hypothetical_protein_1231423..1231573_POSITIVE 340 258 211 106 59 pint:PI0725|3end_hypothetical_protein_658933..659083_POSITIVE 278 131 97 133 94 pint:PI1847|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1793849..1793999_POSITIVE 277 138 97 104 72 pint:PI1943|3end_hypothetical_protein_1902206..1902356_POSITIVE 256 250 202 54 11 pint:PI0808|3end_ISPg3-related_transposase_746457..746607_POSITIVE 248 254 212 47 5 pint:PI0701|3end_hypothetical_protein_638537..638687_POSITIVE 244 258 223 51 16 pint:PI0533|3end_ABC_transporter,_permease_protein_488421..488571_POSITIVE 244 143 103 39 1 pint:PI0036|3end_glutathione_peroxidase_39289..39439_POSITIVE 240 229 181 115 58 pint:PI2012|3end_hypothetical_protein_1971555..1971705_POSITIVE 230 254 234 22 2 pint:PI2160|3end_hypothetical_protein_2108357..2108507_POSITIVE 229 231 196 36 1 pint:PI0491|3end_hypothetical_protein_451227..451377_POSITIVE 226 130 104 59 35 pint:PI0063|3end_transcriptional_regulator,_GntR_family_63620..63770_POSITIVE 224 145 101 114 57 pint:PI0026|3end_two-component_system_response_regulator_30537..30687_POSITIVE 219 145 102 148 104 pint:PI0396|3end_possible_tetracycline_resistance_element_mobilization_regulatory_protein,_C-terminal_fragment_362396..362546_POSITIVE 216 132 97 142 104 pint:PI0750|3end_zinc_protease_680633..680783_POSITIVE