Origin IGS: tcgctcttgtatatcgagcaaacgctcaaacgctgcaagtttttcttcttttgtatgcaatcttatcaaatttaaagttaaaagaagtactgtgtactgctaattgttatgcaaagatacagctttcaactgattttttcgtaaatttgcatcgtttttaaagataataaagaaataataatatacaacgt .........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 acgttgtatattattatttctttattatctttaaaaacgatgcaaatttacgaaaaaatcagttgaaagctgtatctttgcataacaattagcagtacacagtacttcttttaactttaaatttgataagattgcatacaaaagaagaaaaacttgcagcgtttgagcgtttgctcgatatacaagagcga Mask Tandem Repeat Region ================================================ tcgctcttgtatatcgagcaaacgctcaaacgctgcaagtttttcttcttttgtatgcaatcttatcaaatttaaagttaaaagaagtactgtgtactgctaattgttatgcaaagatacagctttcaactgattttttcgtaaatttgcatcgtttttaaagataataaagaaataataatatacaacgt Find is-nt database================================================ Query_seq: PI1233:PI1234|PI1233:PI1234:conserved hypothetical protein; possible MazG family protein:valyl-tRNA synthetase (valine--tRNA ligase):->->:1154308..1154498 191 tcgctcttgtatatcgagcaaacgctcaaacgctgcaagtttttcttcttttgtatgcaatcttatcaaatttaaagttaaaagaagtactgtgtactgctaattgttatgcaaagatacagctttcaactgattttttcgtaaatttgcatcgtttttaaagataataaagaaataataatatacaacgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1233:PI1234|PI1233:PI1234:conserved hypothetical protein; possible MazG family protein:valyl-tRNA synthetase (valine--tRNA ligase):->->:1154308..1154498 191 tcgctcttgtatatcgagcaaacgctcaaacgctgcaagtttttcttcttttgtatgcaatcttatcaaatttaaagttaaaagaagtactgtgtactgctaattgttatgcaaagatacagctttcaactgattttttcgtaaatttgcatcgtttttaaagataataaagaaataataatatacaacgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1233:PI1234|PI1233:PI1234:conserved hypothetical protein; possible MazG family protein:valyl-tRNA synthetase (valine--tRNA ligase):->->:1154308..1154498 191 tcgctcttgtatatcgagcaaacgctcaaacgctgcaagtttttcttcttttgtatgcaatcttatcaaatttaaagttaaaagaagtactgtgtactgctaattgttatgcaaagatacagctttcaactgattttttcgtaaatttgcatcgtttttaaagataataaagaaataataatatacaacgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcgctcttgtatatcgagcaaacgctcaaacgctgcaagtttttcttcttttgtatgcaatcttatcaaatttaaagttaaaagaagtactgtgtactgctaattgttatgcaaagatacagctttcaactgattttttcgtaaatttgcatcgtttttaaagataataaagaaataataatatacaacgt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 11 End: 100 .......... M S S K R S N A A S F S S F V C N L I K F K V K R S T V Y C ........................................................................................... Protein_Len: 42 Strand: + Start: 33 End: 158 ................................ M Q V F L L L Y A I L S N L K L K E V L C T A N C Y A K I Q L S T D F F V N L H R F ................................. tcgctcttgtatatcgagcaaacgctcaaacgctgcaagtttttcttcttttgtatgcaatcttatcaaatttaaagttaaaagaagtactgtgtactgctaattgttatgcaaagatacagctttcaactgattttttcgtaaatttgcatcgtttttaaagataataaagaaataataatatacaacgt 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================================================ tcgctcttgtatatcgagcaaacgctcaaacgctgcaagtttttcttcttttgtatgcaatcttatcaaatttaaagttaaaagaagtactgtgtactgctaattgttatgcaaagatacagctttcaactgattttttcgtaaatttgcatcgtttttaaagataataaagaaataataatatacaacgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1233:PI1234|PI1233:PI1234:conserved hypothetical protein; possible MazG family protein:valyl-tRNA synthetase (valine--tRNA ligase):->->:1154308..1154498 191 tcgctcttgtatatcgagcaaacgctcaaacgctgcaagtttttcttcttttgtatgcaatcttatcaaatttaaagttaaaagaagtactgtgtactgctaattgttatgcaaagatacagctttcaactgattttttcgtaaatttgcatcgtttttaaagataataaagaaataataatatacaacgt Intra-Species Hit: Count: 1 Min: 1 Max: 191 Len: 191 Subject: pint_PI1233_PI1234|conserved hypothetical protein; possible MazG family protein:valyl-tRNA synthetase (valine--tRNA ligase)|POSITIVE:POSITIVE|[1154308,1154498]|191 HSP 1 e-value: 1.0E-104 bit: 379.0 Len: 191 Query Start:1 Query End:191 Subject Strand: POSITIVE Subject Start: 1 Subject End: 191 tcgctcttgtatatcgagcaaacgctcaaacgctgcaagtttttcttcttttgtatgcaatcttatcaaatttaaagttaaaagaagtactgtgtactgctaattgttatgcaaagatacagctttcaactgattttttcgtaaatttgcatcgtttttaaagataataaagaaataataatatacaacgt tcgctcttgtatatcgagcaaacgctcaaacgctgcaagtttttcttcttttgtatgcaatcttatcaaatttaaagttaaaagaagtactgtgtactgctaattgttatgcaaagatacagctttcaactgattttttcgtaaatttgcatcgtttttaaagataataaagaaataataatatacaacgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGCUCUUGUAUAUCGAGCAAACGCUCAAACGCUGCAAGUUUUUCUUCUUUUGUAUGCAAUCUUAUCAAAUUUAAAGUUAAAAGAAGUACUGUGUACUGCUAAUUGUUAUGCAAAGAUACAGCUUUCAACUGAUUUUUUCGUAAAUUUGCAUCGUUUUUAAAGAUAAUAAAGAAAUAAUAAUAUACAACGU ......((((((((.((((....)))).((((.(((((((((..(((((((((.........................)))))))))..((((((..(((..........)))...))))))....................))))))))).))))........................))))))))... (-36.21) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGUUGUAUAUUAUUAUUUCUUUAUUAUCUUUAAAAACGAUGCAAAUUUACGAAAAAAUCAGUUGAAAGCUGUAUCUUUGCAUAACAAUUAGCAGUACACAGUACUUCUUUUAACUUUAAAUUUGAUAAGAUUGCAUACAAAAGAAGAAAAACUUGCAGCGUUUGAGCGUUUGCUCGAUAUACAAGAGCGA .(((((((((((...............(((((.......((((((.((((((((......(((((((((..((((..((((..........))))......))))..))))))))).....)))).)))).))))))......))))).......(((((((....))).))))..))))))))...))). (-38.52) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 313 49 1 210 168 pint:PI1499|5end_hypothetical_protein_1419960..1420190_POSITIVE 302 48 3 51 15 pint:PI0631|5end_50S_ribosomal_protein_L25/general_stress_protein_577706..577936_POSITIVE 298 46 11 50 8 pint:PI1682|5end_aminoacyl-histidine_dipeptidase_1598303..1598533_POSITIVE 295 59 17 194 149 pint:PI1649|5end_hypothetical_protein_1563080..1563310_POSITIVE 295 59 17 194 149 pint:PI0354|5end_hypothetical_protein_325886..326116_POSITIVE 289 58 17 85 36 pint:PI0729|5end_integrase_661428..661658_POSITIVE 284 49 3 197 145 pint:PI0337|5end_hypothetical_protein_314732..314962_POSITIVE 281 41 2 190 147 pint:PI1942|5end_hypothetical_protein_1900941..1901171_POSITIVE 279 58 11 189 146 pint:PI1660|5end_hypothetical_protein_1574659..1574889_POSITIVE 277 126 83 148 108 pint:PI1492|5end_triosephosphate_isomerase_1410155..1410385_POSITIVE 271 49 1 52 6 pint:PI1634|5end_conserved_hypothetical_protein_1553179..1553409_POSITIVE 271 49 1 52 6 pint:PI0340|5end_conserved_hypothetical_protein_316095..316325_POSITIVE 270 50 5 162 123 pint:PI0584|5end_hypothetical_protein_527352..527582_POSITIVE 265 62 31 40 8 pint:PI1379|5end_hypothetical_protein_1301817..1302047_POSITIVE 265 150 106 171 123 pint:PI0801|5end_hypothetical_protein_739365..739595_POSITIVE 264 49 1 50 6 pint:PI0971|5end_glycine_cleavage_system_T_protein_(aminomethyltransferase)_897847..898077_POSITIVE 263 50 1 128 78 pint:PI1363|5end_hypothetical_protein_1281666..1281896_POSITIVE 263 124 90 77 47 pint:PI0207|5end_conserved_hypothetical_protein_199797..200027_POSITIVE 260 56 15 93 58 pint:PI1838|5end_conserved_hypothetical_protein_1780773..1781003_POSITIVE 258 47 1 153 112 pint:PI1784|5end_possible_dTDP-glucose_4,6-dehydratase,_NAD-dependent_epimerase/dehydratase_family_1716201..1716431_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 58 17 85 36 pint:PI0728|3end_integrase_661508..661658_POSITIVE 286 50 2 84 19 pint:PI0358|3end_hypothetical_protein_328105..328255_POSITIVE 277 126 83 101 61 pint:PI1491|3end_conserved_hypothetical_protein_1410188..1410338_POSITIVE 271 48 1 66 17 pint:PI2044|3end_hypothetical_protein_1997351..1997501_POSITIVE 265 150 106 57 9 pint:PI0800|3end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_739331..739481_POSITIVE 265 59 11 109 54 pint:PI0764|3end_permease_699145..699295_POSITIVE 263 124 90 56 26 pint:PI0206|3end_TPR-repeat-containing_protein_199856..200006_POSITIVE 257 58 14 74 33 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 257 50 2 141 77 pint:PI0579|3end_hypothetical_protein_524209..524359_POSITIVE 250 50 2 67 25 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 249 57 14 150 110 pint:PI1331|3end_conserved_hypothetical_protein_1249463..1249613_POSITIVE 246 140 97 59 21 pint:PI1616|3end_hypothetical_protein_1542669..1542819_POSITIVE 242 39 2 68 35 pint:PI1818|3end_hypothetical_protein_1757270..1757420_POSITIVE 240 58 11 99 35 pint:PI1633|3end_hypothetical_protein_1552955..1553105_POSITIVE 240 38 2 78 29 pint:PI0117|3end_ribonuclease_HI_111314..111464_POSITIVE 238 38 1 150 116 pint:PI1498|3end_probable_membrane_associated_lipoprotein_1419988..1420138_POSITIVE 235 36 1 67 34 pint:PI0584|3end_hypothetical_protein_527656..527806_POSITIVE 235 60 14 132 72 pint:PI0406|3end_hypothetical_protein_373053..373203_POSITIVE 235 40 3 135 99 pint:PI0031|3end_peptidylprolyl_isomerase_36131..36281_POSITIVE 234 59 26 141 107 pint:PI2020|3end_glycosyl_transferase,_group_2_family_protein_1977926..1978076_POSITIVE