Origin IGS: taatatcattatatactaaagagttacccaacaatacttggaaaatatattataaatgtgtaactttgcagactttaaataaggaagaatgtctgtatttggtatttttgcagtaaaaaaagaagaacgtttgttagcatttgct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agcaaatgctaacaaacgttcttctttttttactgcaaaaataccaaatacagacattcttccttatttaaagtctgcaaagttacacatttataatatattttccaagtattgttgggtaactctttagtatataatgatatta Mask Tandem Repeat Region ================================================ taatatcattatatactaaagagttacccaacaatacttggaaaatatattataaatgtgtaactttgcagactttaaataaggaagaatgtctgtatttggtatttttgcagtaaaaaaagaagaacgtttgttagcatttgct Find is-nt database================================================ Query_seq: PI1851:PI1852|PI1851:PI1852:conserved hypothetical protein:conserved hypothetical protein:->->:1797947..1798091 145 taatatcattatatactaaagagttacccaacaatacttggaaaatatattataaatgtgtaactttgcagactttaaataaggaagaatgtctgtatttggtatttttgcagtaaaaaaagaagaacgtttgttagcatttgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1851:PI1852|PI1851:PI1852:conserved hypothetical protein:conserved hypothetical protein:->->:1797947..1798091 145 taatatcattatatactaaagagttacccaacaatacttggaaaatatattataaatgtgtaactttgcagactttaaataaggaagaatgtctgtatttggtatttttgcagtaaaaaaagaagaacgtttgttagcatttgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1851:PI1852|PI1851:PI1852:conserved hypothetical protein:conserved hypothetical protein:->->:1797947..1798091 145 taatatcattatatactaaagagttacccaacaatacttggaaaatatattataaatgtgtaactttgcagactttaaataaggaagaatgtctgtatttggtatttttgcagtaaaaaaagaagaacgtttgttagcatttgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatatcattatatactaaagagttacccaacaatacttggaaaatatattataaatgtgtaactttgcagactttaaataaggaagaatgtctgtatttggtatttttgcagtaaaaaaagaagaacgtttgttagcatttgct Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 3 End: 113 .. M S L Y T K E L P N N T W K I Y Y K C V T L Q T L N K E E C L Y L V F L Q ................................ taatatcattatatactaaagagttacccaacaatacttggaaaatatattataaatgtgtaactttgcagactttaaataaggaagaatgtctgtatttggtatttttgcagtaaaaaaagaagaacgtttgttagcatttgct 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================================================ taatatcattatatactaaagagttacccaacaatacttggaaaatatattataaatgtgtaactttgcagactttaaataaggaagaatgtctgtatttggtatttttgcagtaaaaaaagaagaacgtttgttagcatttgct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1851:PI1852|PI1851:PI1852:conserved hypothetical protein:conserved hypothetical protein:->->:1797947..1798091 145 taatatcattatatactaaagagttacccaacaatacttggaaaatatattataaatgtgtaactttgcagactttaaataaggaagaatgtctgtatttggtatttttgcagtaaaaaaagaagaacgtttgttagcatttgct Intra-Species Hit: Count: 1 Min: 1 Max: 145 Len: 145 Subject: pint_PI1851_PI1852|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1797947,1798091]|145 HSP 1 e-value: 2.0E-64 bit: 246.0 Len: 145 Query Start:1 Query End:145 Subject Strand: POSITIVE Subject Start: 1 Subject End: 145 taatatcattatatactaaagagttacccaacaatacttggaaaatatattataaatgtgtaactttgcagactttaaataaggaagaatgtctgtatttggtatttttgcagtnnnnnnngaagaacgtttgttagcatttgct taatatcattatatactaaagagttacccaacaatacttggaaaatatattataaatgtgtaactttgcagactttaaataaggaagaatgtctgtatttggtatttttgcagtaaaaaaagaagaacgtttgttagcatttgct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUCAUUAUAUACUAAAGAGUUACCCAACAAUACUUGGAAAAUAUAUUAUAAAUGUGUAACUUUGCAGACUUUAAAUAAGGAAGAAUGUCUGUAUUUGGUAUUUUUGCAGUAAAAAAAGAAGAACGUUUGUUAGCAUUUGCU .............((((..((((.((((................((((((.....)))))).....(((((((.................)))))))...)))).))))..))))....................(((....))) (-18.33) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCAAAUGCUAACAAACGUUCUUCUUUUUUUACUGCAAAAAUACCAAAUACAGACAUUCUUCCUUAUUUAAAGUCUGCAAAGUUACACAUUUAUAAUAUAUUUUCCAAGUAUUGUUGGGUAACUCUUUAGUAUAUAAUGAUAUUA .....(((((((......................................(((((.................)))))...((((((.(....(((((((.........)))))))..)))))))..)))))))............ (-16.53) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 276 130 88 72 28 pint:PI1521|5end_hypothetical_protein_1441220..1441450_POSITIVE 246 87 49 160 129 pint:PI1072|5end_hypothetical_protein_990220..990450_POSITIVE 238 138 92 66 12 pint:PI1032|5end_methylmalonyl-CoA_decarboxylase,_alpha_subunit_948463..948693_POSITIVE 235 116 71 100 56 pint:PI0396|5end_possible_tetracycline_resistance_element_mobilization_regulatory_protein,_C-terminal_fragment_361993..362223_POSITIVE 228 126 82 87 26 pint:PI0077|5end_hypothetical_protein_76244..76474_POSITIVE 219 133 110 128 102 pint:PI1956|5end_conserved_hypothetical_protein_1913049..1913279_POSITIVE 215 54 15 205 163 pint:PI0157|5end_hypothetical_protein_151185..151415_POSITIVE 215 54 15 62 20 pint:PI0158|5end_hypothetical_protein_151042..151272_POSITIVE 214 116 82 191 158 pint:PI2032|5end_RNA_polymerase_sigma_factor,_ECF_subfamily_1986544..1986774_POSITIVE 214 115 90 200 169 pint:PI0339|5end_hypothetical_protein_315735..315965_POSITIVE 213 115 90 154 128 pint:PI1643|5end_conserved_hypothetical_protein_1560936..1561166_POSITIVE 212 129 94 190 153 pint:PI0002|5end_conserved_hypothetical_protein_2972..3202_POSITIVE 210 139 109 23 1 pint:PI0303|5end_hypothetical_protein_286946..287176_POSITIVE 208 102 67 33 1 pint:PI0590|5end_ribosomal_large_subunit_pseudouridine_synthase_B_536963..537193_POSITIVE 206 103 68 40 12 pint:PI0821|5end_conserved_hypothetical_protein_760063..760293_POSITIVE 205 130 97 150 119 pint:PI0022|5end_hypothetical_protein_25641..25871_POSITIVE 203 114 86 55 31 pint:PI1583|5end_phosphoribosylaminoimidazolecarboxamide_formyltransferase_(AICAR)/IMP_cyclohydrolase_(ATIC)_1510530..1510760_POSITIVE 202 112 71 90 60 pint:PI1612|5end_hypothetical_protein_1539167..1539397_POSITIVE 201 140 93 172 122 pint:PI0480|5end_preprotein_translocase,_SecY_subunit_441576..441806_POSITIVE 199 140 99 203 171 pint:PI1691|5end_hypothetical_protein_1605504..1605734_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 276 130 88 142 98 pint:PI1520|3end_hypothetical_protein_1441370..1441520_POSITIVE 246 87 49 86 55 pint:PI1071|3end_DNA_topoisomerase_III_990226..990376_POSITIVE 227 103 61 49 10 pint:PI1454|3end_chromosomal_replication_initiator_protein,_DnaA_1378141..1378291_POSITIVE 224 129 90 82 37 pint:PI0227|3end_ABC_transporter,_ATP-binding/permease_protein_225632..225782_POSITIVE 219 133 110 57 31 pint:PI1955|3end_N_utilization_substance_protein_A_1913058..1913208_POSITIVE 214 115 90 98 67 pint:PI0338|3end_hypothetical_protein_315713..315863_POSITIVE 212 129 94 50 13 pint:PI0001|3end_possible_Ton-B_receptor_2912..3062_POSITIVE 211 130 83 140 84 pint:PI0062|3end_endopeptidase_63022..63172_POSITIVE 209 99 54 89 35 pint:PI0665|3end_dihydroorotate_dehydrogenase_608799..608949_POSITIVE 208 140 94 72 1 pint:PI1258|3end_elongation_factor_Tu_1180626..1180776_POSITIVE 205 130 97 77 46 pint:PI0021|3end_orotate_phosphoribosyltransferase_25648..25798_POSITIVE 204 113 71 148 105 pint:PI0328|3end_conserved_hypothetical_protein_309993..310143_POSITIVE 203 134 99 151 108 pint:PI1201|3end_peptidyl-arginine_deiminase_1117835..1117985_POSITIVE 202 112 71 32 2 pint:PI1611|3end_aspartate-semialdehyde_dehydrogenase_1539189..1539339_POSITIVE 195 129 87 69 22 pint:PI2077|3end_hypothetical_protein_2036070..2036220_POSITIVE 194 111 76 57 27 pint:PI1923|3end_conserved_hypothetical_protein_1865912..1866062_POSITIVE 189 132 98 77 32 pint:PI0524|3end_meso-diaminopimelate_D-dehydrogenase_480849..480999_POSITIVE 189 110 64 122 68 pint:PI0363|3end_hypothetical_protein_333760..333910_POSITIVE 188 118 72 132 74 pint:PI0543|3end_adenylate_kinase_495722..495872_POSITIVE 187 125 90 126 97 pint:PI0776|3end_predicted_TPR-repeat-containing_protein_713323..713473_POSITIVE