Origin IGS: atatatatttagggtctggtcttggtctgttttaatagataggattaaagacctgtgaggaatggtaattttattaccttctatgcttccttttacccaacgatctgatacgtca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgacgtatcagatcgttgggtaaaaggaagcatagaaggtaataaaattaccattcctcacaggtctttaatcctatctattaaaacagaccaagaccagaccctaaatatatat Mask Tandem Repeat Region ================================================ atatatatttagggtctggtcttggtctgttttaatagataggattaaagacctgtgaggaatggtaattttattaccttctatgcttccttttacccaacgatctgatacgtca Find is-nt database================================================ Query_seq: PI0855:PI0856|PI0855:PI0856:hypothetical protein:hypothetical protein:->->:789606..789720 115 atatatatttagggtctggtcttggtctgttttaatagataggattaaagacctgtgaggaatggtaattttattaccttctatgcttccttttacccaacgatctgatacgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0855:PI0856|PI0855:PI0856:hypothetical protein:hypothetical protein:->->:789606..789720 115 atatatatttagggtctggtcttggtctgttttaatagataggattaaagacctgtgaggaatggtaattttattaccttctatgcttccttttacccaacgatctgatacgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0855:PI0856|PI0855:PI0856:hypothetical protein:hypothetical protein:->->:789606..789720 115 atatatatttagggtctggtcttggtctgttttaatagataggattaaagacctgtgaggaatggtaattttattaccttctatgcttccttttacccaacgatctgatacgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atatatatttagggtctggtcttggtctgttttaatagataggattaaagacctgtgaggaatggtaattttattaccttctatgcttccttttacccaacgatctgatacgtca Predict ORF larger than 30AA ================================================ atatatatttagggtctggtcttggtctgttttaatagataggattaaagacctgtgaggaatggtaattttattaccttctatgcttccttttacccaacgatctgatacgtca 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================================================ atatatatttagggtctggtcttggtctgttttaatagataggattaaagacctgtgaggaatggtaattttattaccttctatgcttccttttacccaacgatctgatacgtca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0855:PI0856|PI0855:PI0856:hypothetical protein:hypothetical protein:->->:789606..789720 115 atatatatttagggtctggtcttggtctgttttaatagataggattaaagacctgtgaggaatggtaattttattaccttctatgcttccttttacccaacgatctgatacgtca Intra-Species Hit: Count: 1 Min: 1 Max: 115 Len: 115 Subject: pint_PI0855_PI0856|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[789606,789720]|115 HSP 1 e-value: 3.0E-59 bit: 228.0 Len: 115 Query Start:1 Query End:115 Subject Strand: POSITIVE Subject Start: 1 Subject End: 115 atatatatttagggtctggtcttggtctgttttaatagataggattaaagacctgtgaggaatggtaattttattaccttctatgcttccttttacccaacgatctgatacgtca atatatatttagggtctggtcttggtctgttttaatagataggattaaagacctgtgaggaatggtaattttattaccttctatgcttccttttacccaacgatctgatacgtca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUAUAUUUAGGGUCUGGUCUUGGUCUGUUUUAAUAGAUAGGAUUAAAGACCUGUGAGGAAUGGUAAUUUUAUUACCUUCUAUGCUUCCUUUUACCCAACGAUCUGAUACGUCA ...........((((..((((((..(((((((....)))))))....)))))).(((.((((.((((((...)))))))))).)))........))))................. (-26.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACGUAUCAGAUCGUUGGGUAAAAGGAAGCAUAGAAGGUAAUAAAAUUACCAUUCCUCACAGGUCUUUAAUCCUAUCUAUUAAAACAGACCAAGACCAGACCCUAAAUAUAUAU .((((........))))((((....((.......(((((((((...)))))).)))......((((((((((.......)))))...)))))....))..))))........... (-20.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 296 90 41 226 161 pint:PI1741|5end_lipid-A-disaccharide_synthase_1662754..1662984_POSITIVE 296 92 54 54 8 pint:PI1217|5end_UDP-3-O-[3-hydroxymyristoyl]_glucosamine_N-acyltransferase_1136086..1136316_POSITIVE 257 99 51 159 98 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 257 60 11 192 131 pint:PI0247|5end_conjugative_transposon_protein,_TraA_245373..245603_POSITIVE 254 60 11 96 48 pint:PI0567|5end_hypothetical_protein_512781..513011_POSITIVE 251 97 54 64 23 pint:PI1244|5end_hypothetical_protein_1168803..1169033_POSITIVE 240 94 53 198 157 pint:PI0085|5end_RNase_P_protein_component_84440..84670_POSITIVE 239 88 44 127 75 pint:PI1939|5end_hypothetical_protein_1896428..1896658_POSITIVE 239 66 38 72 50 pint:PI1895|5end_penicillin-binding_protein_2_1838460..1838690_POSITIVE 234 55 14 61 21 pint:PI1032|5end_methylmalonyl-CoA_decarboxylase,_alpha_subunit_948463..948693_POSITIVE 232 104 64 145 112 pint:PI0450|5end_hypothetical_protein_423661..423891_POSITIVE 230 97 51 160 113 pint:PI0147|5end_HIT_family_protein_140833..141063_POSITIVE 229 100 52 202 134 pint:PI1616|5end_hypothetical_protein_1542173..1542403_POSITIVE 229 98 51 216 165 pint:PI0615|5end_hydrolase,_haloacid_dehalogenase-like_family_564551..564781_POSITIVE 227 60 12 169 121 pint:PI0545|5end_sugar_kinase_496411..496641_POSITIVE 226 103 81 216 196 pint:PI1689|5end_conserved_hypothetical_protein_1604310..1604540_POSITIVE 226 60 12 74 28 pint:PI0039|5end_conserved_hypothetical_protein;_possible_integral_membrane_protein_40503..40733_POSITIVE 223 98 51 212 176 pint:PI2074|5end_conserved_hypothetical_protein_2033660..2033890_POSITIVE 222 59 23 210 180 pint:PI1067|5end_thymidylate_synthase_983940..984170_POSITIVE 222 93 51 174 129 pint:PI0228|5end_outer_membrane_cobalamin_receptor_protein_225752..225982_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 232 104 64 131 98 pint:PI0449|3end_hypothetical_protein_423727..423877_POSITIVE 230 97 51 132 85 pint:PI0146|3end_transcription_elongation_factor_140885..141035_POSITIVE 229 65 35 129 95 pint:PI0227|3end_ABC_transporter,_ATP-binding/permease_protein_225632..225782_POSITIVE 226 66 26 43 4 pint:PI2155|3end_hypothetical_protein_2101052..2101202_POSITIVE 226 31 9 136 113 pint:PI1649|3end_hypothetical_protein_1563441..1563591_POSITIVE 226 60 12 54 8 pint:PI0038|3end_transcriptional_regulator,_LysR_family_40563..40713_POSITIVE 222 59 23 122 92 pint:PI1066|3end_dihydrofolate_reductase_983932..984082_POSITIVE 221 99 55 44 5 pint:PI1894|3end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diamino_pimelate_ligase_1838484..1838634_POSITIVE 219 88 47 55 17 pint:PI0288|3end_hypothetical_protein_(possible_ISPg3-related_transposase)_272495..272645_POSITIVE 217 57 27 122 91 pint:PI0770|3end_hypothetical_protein_706354..706504_POSITIVE 215 62 22 98 53 pint:PI1803|3end_conserved_hypothetical_protein_1737791..1737941_POSITIVE 213 29 8 54 25 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 210 79 34 88 38 pint:PI0387|3end_hypothetical_protein_354812..354962_POSITIVE 208 97 53 139 95 pint:PI0356|3end_hypothetical_protein_327288..327438_POSITIVE 207 109 68 34 4 pint:PI0439|3end_conserved_hypothetical_protein;_possible_preprotein_translocase_subunit_SecE_410644..410794_POSITIVE 207 87 43 40 5 pint:PI0299|3end_hypothetical_protein_285086..285236_POSITIVE 205 43 7 80 37 pint:PI0208|3end_possible_peptidase,_M23/M37_family_202795..202945_POSITIVE 203 58 11 138 90 pint:PI1436|3end_hypothetical_protein_1356232..1356382_POSITIVE 203 64 23 99 63 pint:PI1178|3end_histidyl-tRNA_synthetase_1100564..1100714_POSITIVE 203 66 23 55 12 pint:PI1126|3end_methionyl-tRNA_formyltransferase_1052652..1052802_POSITIVE