Origin IGS: cttatcctattctcttttcttcttaatttgcaattgcaaagatacgtaatatttttgtaactgaccgcaaccgaccttacttttattagtgcgcagatgcgttgcggtaaaatcaaggaaaaaga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctttttccttgattttaccgcaacgcatctgcgcactaataaaagtaaggtcggttgcggtcagttacaaaaatattacgtatctttgcaattgcaaattaagaagaaaagagaataggataag Mask Tandem Repeat Region ================================================ cttatcctattctcttttcttcttaatttgcaattgcaaagatacgtaatatttttgtaactgaccgcaaccgaccttacttttattagtgcgcagatgcgttgcggtaaaatcaaggaaaaaga Find is-nt database================================================ Query_seq: PI1140:PI1141|PI1140:PI1141:ABC transporter, ATP-binding protein:hypothetical protein:->->:1069478..1069602 125 cttatcctattctcttttcttcttaatttgcaattgcaaagatacgtaatatttttgtaactgaccgcaaccgaccttacttttattagtgcgcagatgcgttgcggtaaaatcaaggaaaaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1140:PI1141|PI1140:PI1141:ABC transporter, ATP-binding protein:hypothetical protein:->->:1069478..1069602 125 cttatcctattctcttttcttcttaatttgcaattgcaaagatacgtaatatttttgtaactgaccgcaaccgaccttacttttattagtgcgcagatgcgttgcggtaaaatcaaggaaaaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1140:PI1141|PI1140:PI1141:ABC transporter, ATP-binding protein:hypothetical protein:->->:1069478..1069602 125 cttatcctattctcttttcttcttaatttgcaattgcaaagatacgtaatatttttgtaactgaccgcaaccgaccttacttttattagtgcgcagatgcgttgcggtaaaatcaaggaaaaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttatcctattctcttttcttcttaatttgcaattgcaaagatacgtaatatttttgtaactgaccgcaaccgaccttacttttattagtgcgcagatgcgttgcggtaaaatcaaggaaaaaga Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: - Start: 3 End: 116 .. I R N E K R R L K C N C L Y T I N K Y S V A V S R V K I L A C I R Q P L I M ......... cttatcctattctcttttcttcttaatttgcaattgcaaagatacgtaatatttttgtaactgaccgcaaccgaccttacttttattagtgcgcagatgcgttgcggtaaaatcaaggaaaaaga 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================================================ cttatcctattctcttttcttcttaatttgcaattgcaaagatacgtaatatttttgtaactgaccgcaaccgaccttacttttattagtgcgcagatgcgttgcggtaaaatcaaggaaaaaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1140:PI1141|PI1140:PI1141:ABC transporter, ATP-binding protein:hypothetical protein:->->:1069478..1069602 125 cttatcctattctcttttcttcttaatttgcaattgcaaagatacgtaatatttttgtaactgaccgcaaccgaccttacttttattagtgcgcagatgcgttgcggtaaaatcaaggaaaaaga Intra-Species Hit: Count: 1 Min: 1 Max: 125 Len: 125 Subject: pint_PI1140_PI1141|ABC transporter, ATP-binding protein:hypothetical protein|POSITIVE:POSITIVE|[1069478,1069602]|125 HSP 1 e-value: 4.0E-65 bit: 248.0 Len: 125 Query Start:1 Query End:125 Subject Strand: POSITIVE Subject Start: 1 Subject End: 125 cttatcctattctcttttcttcttaatttgcaattgcaaagatacgtaatatttttgtaactgaccgcaaccgaccttacttttattagtgcgcagatgcgttgcggtaaaatcaaggaaaaaga cttatcctattctcttttcttcttaatttgcaattgcaaagatacgtaatatttttgtaactgaccgcaaccgaccttacttttattagtgcgcagatgcgttgcggtaaaatcaaggaaaaaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUAUCCUAUUCUCUUUUCUUCUUAAUUUGCAAUUGCAAAGAUACGUAAUAUUUUUGUAACUGACCGCAACCGACCUUACUUUUAUUAGUGCGCAGAUGCGUUGCGGUAAAAUCAAGGAAAAAGA ............((((((.(((((.((((....(((((((((((.....)))))))))))...((((((((((.(..((((......))))....).)).)))))))).)))).))))))))))) (-27.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUUUUCCUUGAUUUUACCGCAACGCAUCUGCGCACUAAUAAAAGUAAGGUCGGUUGCGGUCAGUUACAAAAAUAUUACGUAUCUUUGCAAUUGCAAAUUAAGAAGAAAAGAGAAUAGGAUAAG (((((((.((((((((.((((((((.(((((....(((......))).)))).)))))))))(((((.((((.((((...)))).)))).))))).))))))))..)))))))............ (-27.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 319 118 90 33 4 pint:PI1453|5end_probable_thiamine_pyrophosphokinase_1375982..1376212_POSITIVE 311 109 61 91 45 pint:PI0096|5end_glycerol-3-phosphate_cytidylyltransferase_91885..92115_POSITIVE 310 108 66 128 77 pint:PI1475|5end_possible_short_chain_dehydrogenase_1397142..1397372_POSITIVE 310 107 66 133 79 pint:PI0785|5end_hypothetical_protein_723744..723974_POSITIVE 306 107 62 62 16 pint:PI0540|5end_conserved_hypothetical_protein_492955..493185_POSITIVE 305 100 51 72 21 pint:PI1586|5end_possible_HesA/MoeB/ThiF_family_protein_1514372..1514602_POSITIVE 305 100 57 212 159 pint:PI1170|5end_possible_response_regulator_1090596..1090826_POSITIVE 300 108 66 49 16 pint:PI0058|5end_conserved_hypothetical_protein_56398..56628_POSITIVE 289 110 65 216 166 pint:PI0252|5end_conserved_hypothetical_protein_247761..247991_POSITIVE 288 107 64 176 116 pint:PI1207|5end_hypothtical_protein_1126977..1127207_POSITIVE 288 108 61 214 170 pint:PI0037|5end_hypothetical_protein_39354..39584_POSITIVE 285 79 35 115 70 pint:PI0114|5end_hypothetical_protein_108139..108369_POSITIVE 283 109 61 99 46 pint:PI1647|5end_hypothetical_protein_1561564..1561794_POSITIVE 282 103 61 187 146 pint:PI2171|5end_conserved_hypothetical_protein_2112735..2112965_POSITIVE 279 107 61 126 76 pint:PI0539|5end_hypothetical_protein_493406..493636_POSITIVE 278 99 60 41 14 pint:PI1925|5end_conserved_hypothetical_protein_1866387..1866617_POSITIVE 278 120 71 105 51 pint:PI1393|5end_aldose_1-epimerase_1312790..1313020_POSITIVE 276 108 65 101 57 pint:PI0342|5end_hypothetical_protein_317556..317786_POSITIVE 276 108 65 50 6 pint:PI0343|5end_hypothetical_protein_317505..317735_POSITIVE 275 70 29 57 22 pint:PI0005|5end_hypothetical_protein_6984..7214_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 319 118 90 33 4 pint:PI1452|3end_possible_nicotinamide_mononucleotide_transporter_1376062..1376212_POSITIVE 300 108 66 83 50 pint:PI0057|3end_conserved_hypothetical_protein_56512..56662_POSITIVE 297 108 62 80 31 pint:PI1636|3end_hypothetical_protein_1554823..1554973_POSITIVE 288 108 61 69 25 pint:PI0036|3end_glutathione_peroxidase_39289..39439_POSITIVE 285 79 35 108 63 pint:PI0112|3end_hypothetical_protein_108212..108362_POSITIVE 278 99 60 69 42 pint:PI1924|3end_cytidine_deaminase_1866495..1866645_POSITIVE 278 118 71 76 21 pint:PI0147|3end_HIT_family_protein_141308..141458_POSITIVE 276 108 65 80 36 pint:PI0341|3end_conserved_hypothetical_protein_317615..317765_POSITIVE 269 106 61 59 4 pint:PI0206|3end_TPR-repeat-containing_protein_199856..200006_POSITIVE 266 107 61 101 45 pint:PI2117|3end_fumarate_reductase/succinate_dehydrogenase_flavoprotein_subunit,_C-terminal_2066684..2066834_POSITIVE 264 106 67 121 69 pint:PI1658|3end_conserved_hypothetical_protein_1574736..1574886_POSITIVE 262 85 45 142 96 pint:PI0438|3end_elongation_factor_Tu_410304..410454_POSITIVE 261 108 87 31 10 pint:PI0648|3end_hypothetical_protein_589731..589881_POSITIVE 260 106 67 84 42 pint:PI1768|3end_conserved_hypothetical_protein_1696639..1696789_POSITIVE 260 118 71 87 40 pint:PI0110|3end_ABC_transport_system,_ATP-binding_protein_107920..108070_POSITIVE 257 107 66 113 66 pint:PI2175|3end_RNA_polymerase_sigma-54_2116526..2116676_POSITIVE 254 105 65 115 67 pint:PI0347|3end_hypothetical_protein_321655..321805_POSITIVE 253 105 62 122 77 pint:PI0998|3end_possible_flavin_reductase_domain_protein_923336..923486_POSITIVE 252 107 66 85 48 pint:PI0654|3end_K+-dependent_Na+/Ca+_exchanger_related-protein_597223..597373_POSITIVE 252 109 91 51 32 pint:PI0191|3end_O-methyltransferase_181785..181935_POSITIVE