Origin IGS: attttactaatctgtcaaataattatttcattatagcattatataaatgcaaaagtacaatttttttcttactaatacacacttttataaaattataattaatacaactttaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattaaagttgtattaattataattttataaaagtgtgtattagtaagaaaaaaattgtacttttgcatttatataatgctataatgaaataattatttgacagattagtaaaat Mask Tandem Repeat Region ================================================ attttactaatctgtcaaataattatttcattatagcattatataaatgcaaaagtacaatttttttcttactaatacacacttttataaaattataattaatacaactttaatta Find is-nt database================================================ Query_seq: PI1125:PI1126|PI1125:PI1126:hypothetical protein:methionyl-tRNA formyltransferase:->->:1051577..1051692 116 attttactaatctgtcaaataattatttcattatagcattatataaatgcaaaagtacaatttttttcttactaatacacacttttataaaattataattaatacaactttaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1125:PI1126|PI1125:PI1126:hypothetical protein:methionyl-tRNA formyltransferase:->->:1051577..1051692 116 attttactaatctgtcaaataattatttcattatagcattatataaatgcaaaagtacaatttttttcttactaatacacacttttataaaattataattaatacaactttaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1125:PI1126|PI1125:PI1126:hypothetical protein:methionyl-tRNA formyltransferase:->->:1051577..1051692 116 attttactaatctgtcaaataattatttcattatagcattatataaatgcaaaagtacaatttttttcttactaatacacacttttataaaattataattaatacaactttaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attttactaatctgtcaaataattatttcattatagcattatataaatgcaaaagtacaatttttttcttactaatacacacttttataaaattataattaatacaactttaatta Predict ORF larger than 30AA ================================================ attttactaatctgtcaaataattatttcattatagcattatataaatgcaaaagtacaatttttttcttactaatacacacttttataaaattataattaatacaactttaatta 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================================================ attttactaatctgtcaaataattatttcattatagcattatataaatgcaaaagtacaatttttttcttactaatacacacttttataaaattataattaatacaactttaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1125:PI1126|PI1125:PI1126:hypothetical protein:methionyl-tRNA formyltransferase:->->:1051577..1051692 116 attttactaatctgtcaaataattatttcattatagcattatataaatgcaaaagtacaatttttttcttactaatacacacttttataaaattataattaatacaactttaatta Intra-Species Hit: Count: 1 Min: 1 Max: 116 Len: 116 Subject: pint_PI1125_PI1126|hypothetical protein:methionyl-tRNA formyltransferase|POSITIVE:POSITIVE|[1051577, 1051692]|116 HSP 1 e-value: 3.0E-47 bit: 188.0 Len: 116 Query Start:1 Query End:116 Subject Strand: POSITIVE Subject Start: 1 Subject End: 116 attttactaatctgtcaaataattatttcattatagcattatataaatgcaaaagtacaannnnnnncttactaatacacacttttataaaattataattaatacaactttaatta attttactaatctgtcaaataattatttcattatagcattatataaatgcaaaagtacaatttttttcttactaatacacacttttataaaattataattaatacaactttaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUUACUAAUCUGUCAAAUAAUUAUUUCAUUAUAGCAUUAUAUAAAUGCAAAAGUACAAUUUUUUUCUUACUAAUACACACUUUUAUAAAAUUAUAAUUAAUACAACUUUAAUUA ...................(((((((....((((((((((.....)))))...((((..(......)..))))............)))))....)))))))............... ( -7.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUAAAGUUGUAUUAAUUAUAAUUUUAUAAAAGUGUGUAUUAGUAAGAAAAAAAUUGUACUUUUGCAUUUAUAUAAUGCUAUAAUGAAAUAAUUAUUUGACAGAUUAGUAAAAU ....((((((((((.....))))))))))....(((.(((...(((((.......((((((.....(((((.....))))))))))).......)))))..))).)))........ (-16.84) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 177 78 35 195 136 pint:PI0148|5end_mannose-1-phosphate_guanylyltransferase_141423..141653_POSITIVE 174 71 48 135 112 pint:PI1566|5end_predicted_TPR-repeat-containing_protein_1487570..1487800_POSITIVE 167 57 17 157 117 pint:PI0440|5end_transcription_antiterminator_410582..410812_POSITIVE 162 75 40 170 135 pint:PI0876|5end_hypothetical_protein_810767..810997_POSITIVE 161 69 48 143 122 pint:PI0419|5end_conserved_hypothetical_protein_386701..386931_POSITIVE 161 69 48 108 87 pint:PI0418|5end_hypothetical_protein_386666..386896_POSITIVE 160 59 11 203 167 pint:PI1260|5end_IS1001-related_transposase_1182053..1182283_POSITIVE 150 55 29 137 109 pint:PI1542|5end_mobilization_protein_1461728..1461958_POSITIVE 147 88 43 185 129 pint:PI1028|5end_glutamate_synthase,_small_subunit_943420..943650_POSITIVE 145 68 24 159 113 pint:PI1978|5end_hypothetical_protein_1934615..1934845_POSITIVE 145 68 24 223 177 pint:PI1976|5end_hypothetical_protein_1932993..1933223_POSITIVE 144 82 58 84 58 pint:PI0984|5end_hypothetical_protein_909936..910166_POSITIVE 144 87 62 227 200 pint:PI0341|5end_conserved_hypothetical_protein_317038..317268_POSITIVE 143 60 12 208 161 pint:PI1075|5end_pyruvate_phosphate_dikinase_995828..996058_POSITIVE 141 83 52 38 3 pint:PI1835|5end_L-asparaginase_I_1776144..1776374_POSITIVE 141 54 33 102 81 pint:PI0970|5end_hypothetical_protein_897254..897484_POSITIVE 140 80 48 53 19 pint:PI1005|5end_hypothetical_protein_926201..926431_POSITIVE 140 37 2 189 158 pint:PI0687|5end_hypothetical_protein_624256..624486_POSITIVE 139 110 63 204 157 pint:PI0640|5end_conserved_hypothetical_protein_583289..583519_POSITIVE 139 59 36 149 128 pint:PI0190|5end_3-dehydroquinate_dehydratase_II_180618..180848_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 182 88 49 61 25 pint:PI0082|3end_conserved_hypothetical_protein_(possible_phosphoglycerol_transferase)_82711..82861_POSITIVE 177 87 42 101 44 pint:PI1400|3end_hypothetical_protein_1321908..1322058_POSITIVE 167 57 17 139 99 pint:PI0439|3end_conserved_hypothetical_protein;_possible_preprotein_translocase_subunit_SecE_410644..410794_POSITIVE 164 86 48 56 7 pint:PI1610|3end_Na+/H+_anti-porter_1538002..1538152_POSITIVE 161 69 48 92 71 pint:PI0417|3end_hypothetical_protein_386730..386880_POSITIVE 161 69 48 69 48 pint:PI0416|3end_hypothetical_protein_386707..386857_POSITIVE 150 55 29 100 72 pint:PI1540|3end_hypothetical_protein_1461771..1461921_POSITIVE 147 88 43 84 28 pint:PI1027|3end_hypothetical_protein_943399..943549_POSITIVE 145 68 24 83 37 pint:PI1977|3end_hypothetical_protein_1934619..1934769_POSITIVE 145 68 24 83 37 pint:PI1975|3end_conserved_hypothetical_protein_1932933..1933083_POSITIVE 144 82 58 59 33 pint:PI0983|3end_hypothetical_protein_909991..910141_POSITIVE 141 54 33 29 8 pint:PI0969|3end_30S_ribosomal_protein_S16_897261..897411_POSITIVE 140 37 2 102 71 pint:PI0686|3end_glycosyl_transferase,_group_2_family_protein_624249..624399_POSITIVE 138 68 26 121 83 pint:PI2096|3end_conserved_hypothetical_protein;_possible_phosphoesterase_2050884..2051034_POSITIVE 134 79 48 127 92 pint:PI0968|3end_hypothetical_protein_896646..896796_POSITIVE 134 79 48 40 5 pint:PI0967|3end_conserved_hypothetical_protein_896559..896709_POSITIVE 132 54 12 98 61 pint:PI1005|3end_hypothetical_protein_926481..926631_POSITIVE 131 56 31 101 79 pint:PI2046|3end_hypothetical_protein_1999205..1999355_POSITIVE 131 61 26 92 50 pint:PI0917|3end_phosphoglycolate_phosphatase_847092..847242_POSITIVE 129 85 48 124 82 pint:PI1090|3end_tRNA_uracil_5-methyltransferase_1015780..1015930_POSITIVE