Origin IGS: taatccttattatttgtaggttcatttcctctttactatcgaaaggaaataccgaaattccacttccactttgtaaagataattctgttaaaaagtgataactgcgct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agcgcagttatcactttttaacagaattatctttacaaagtggaagtggaatttcggtatttcctttcgatagtaaagaggaaatgaacctacaaataataaggatta Mask Tandem Repeat Region ================================================ taatccttattatttgtaggttcatttcctctttactatcgaaaggaaataccgaaattccacttccactttgtaaagataattctgttaaaaagtgataactgcgct Find is-nt database================================================ Query_seq: PI1701:PI1702|PI1701:PI1702:sensor histidine kinase:hypothetical protein:->->:1620619..1620726 108 taatccttattatttgtaggttcatttcctctttactatcgaaaggaaataccgaaattccacttccactttgtaaagataattctgttaaaaagtgataactgcgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1701:PI1702|PI1701:PI1702:sensor histidine kinase:hypothetical protein:->->:1620619..1620726 108 taatccttattatttgtaggttcatttcctctttactatcgaaaggaaataccgaaattccacttccactttgtaaagataattctgttaaaaagtgataactgcgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1701:PI1702|PI1701:PI1702:sensor histidine kinase:hypothetical protein:->->:1620619..1620726 108 taatccttattatttgtaggttcatttcctctttactatcgaaaggaaataccgaaattccacttccactttgtaaagataattctgttaaaaagtgataactgcgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatccttattatttgtaggttcatttcctctttactatcgaaaggaaataccgaaattccacttccactttgtaaagataattctgttaaaaagtgataactgcgct Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 3 End: 95 .. M L I I C R F I S S L L S K G N T E I P L P L C K D N S V K K ............. taatccttattatttgtaggttcatttcctctttactatcgaaaggaaataccgaaattccacttccactttgtaaagataattctgttaaaaagtgataactgcgct 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================================================ taatccttattatttgtaggttcatttcctctttactatcgaaaggaaataccgaaattccacttccactttgtaaagataattctgttaaaaagtgataactgcgct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1701:PI1702|PI1701:PI1702:sensor histidine kinase:hypothetical protein:->->:1620619..1620726 108 taatccttattatttgtaggttcatttcctctttactatcgaaaggaaataccgaaattccacttccactttgtaaagataattctgttaaaaagtgataactgcgct Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: pint_PI1701_PI1702|sensor histidine kinase:hypothetical protein|POSITIVE:POSITIVE|[1620619,1620726]|108 HSP 1 e-value: 4.0E-55 bit: 214.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 taatccttattatttgtaggttcatttcctctttactatcgaaaggaaataccgaaattccacttccactttgtaaagataattctgttaaaaagtgataactgcgct taatccttattatttgtaggttcatttcctctttactatcgaaaggaaataccgaaattccacttccactttgtaaagataattctgttaaaaagtgataactgcgct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCCUUAUUAUUUGUAGGUUCAUUUCCUCUUUACUAUCGAAAGGAAAUACCGAAAUUCCACUUCCACUUUGUAAAGAUAAUUCUGUUAAAAAGUGAUAACUGCGCU ...............((((....(((((((.(((......))))))))))................((((((....(((....))).....))))))....))))... (-17.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCGCAGUUAUCACUUUUUAACAGAAUUAUCUUUACAAAGUGGAAGUGGAAUUUCGGUAUUUCCUUUCGAUAGUAAAGAGGAAAUGAACCUACAAAUAAUAAGGAUUA ....((.((.(((((((.(((.(((....)))))).))))))))).)).......((((((((((((.........)))))))))..))).................. (-18.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 386 97 58 210 171 pint:PI1196|5end_hypothetical_protein_1113401..1113631_POSITIVE 358 100 60 201 164 pint:PI0056|5end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_54967..55197_POSITIVE 358 100 60 49 12 pint:PI0055|5end_hypothetical_protein_54815..55045_POSITIVE 354 100 70 190 160 pint:PI0007|5end_hypothetical_protein_6417..6647_POSITIVE 335 100 61 131 88 pint:PI0771|5end_conserved_hypothetical_protein_706524..706754_POSITIVE 330 100 53 161 116 pint:PI2003|5end_hypothetical_protein_1960823..1961053_POSITIVE 328 100 70 210 180 pint:PI0760|5end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_694086..694316_POSITIVE 319 100 71 200 171 pint:PI1325|5end_conserved_hypothetical_protein_1243415..1243645_POSITIVE 308 100 54 189 144 pint:PI1143|5end_hypothetical_protein_1069780..1070010_POSITIVE 292 100 54 137 94 pint:PI0159|5end_hypothetical_protein_151273..151503_POSITIVE 292 100 54 49 6 pint:PI0157|5end_hypothetical_protein_151185..151415_POSITIVE 287 100 62 126 88 pint:PI0788|5end_3-methyladenine_DNA_glycosylase_(DNA-3-methyladenine_glycosylase_I)_726152..726382_POSITIVE 286 94 62 230 198 pint:PI0413|5end_outer_membrane_protein_382413..382643_POSITIVE 282 100 70 180 150 pint:PI0202|5end_DNA_helicase_191753..191983_POSITIVE 280 100 70 231 201 pint:PI2174|5end_hypothetical_protein_2114245..2114475_POSITIVE 280 100 70 142 112 pint:PI1486|5end_alginate_O-acetylation_protein_1405507..1405737_POSITIVE 280 100 66 189 152 pint:PI0407|5end_tryptophanyl-tRNA_synthetase_(tryptophan--tRNA_ligase)_372973..373203_POSITIVE 277 97 54 182 140 pint:PI1529|5end_cytosine/adenosine_deaminase_1449887..1450117_POSITIVE 256 100 61 126 84 pint:PI2111|5end_conserved_hypothetical_protein_2062771..2063001_POSITIVE 252 90 43 182 139 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 399 100 68 82 50 pint:PI0061|3end_hypothetical_protein_60690..60840_POSITIVE 384 100 67 86 52 pint:PI1922|3end_hypothetical_protein_1865454..1865604_POSITIVE 354 100 70 96 66 pint:PI0755|3end_hypothetical_protein_686884..687034_POSITIVE 354 100 70 82 52 pint:PI0004|3end_hypothetical_protein_6389..6539_POSITIVE 328 100 70 42 12 pint:PI0759|3end_hypothetical_protein_693998..694148_POSITIVE 323 100 62 128 90 pint:PI0099|3end_hypothetical_protein_95777..95927_POSITIVE 300 100 60 42 2 pint:PI1141|3end_hypothetical_protein_1069713..1069863_POSITIVE 292 100 54 82 39 pint:PI0158|3end_hypothetical_protein_151298..151448_POSITIVE 282 100 70 82 52 pint:PI0200|3end_hypothetical_protein_191735..191885_POSITIVE 277 97 54 93 51 pint:PI1528|3end_hypothetical_protein_1449878..1450028_POSITIVE 273 96 68 88 60 pint:PI1601|3end_hypothetical_protein_1530454..1530604_POSITIVE 272 100 63 122 83 pint:PI0104|3end_hypothetical_protein_99346..99496_POSITIVE 256 100 70 149 119 pint:PI1694|3end_hypothetical_protein_1609946..1610096_POSITIVE 247 87 44 69 21 pint:PI0670|3end_hypothetical_protein_611280..611430_POSITIVE 243 97 70 122 95 pint:PI1866|3end_hypothetical_protein_1811910..1812060_POSITIVE 241 100 70 134 104 pint:PI1129|3end_hypothetical_protein_1055603..1055753_POSITIVE 239 55 19 79 34 pint:PI0545|3end_sugar_kinase_497867..498017_POSITIVE 238 100 77 82 59 pint:PI0551|3end_hypothetical_protein_502683..502833_POSITIVE 234 63 36 44 14 pint:PI1156|3end_possible_glycerate_kinase_family_protein_1081781..1081931_POSITIVE 233 100 51 82 27 pint:PI2011|3end_hypothetical_protein_1970730..1970880_POSITIVE