Origin IGS: agatgtcggcttttgttctattgtcttaaaaaatttgagatatgaaacttcacagcttcgtacttgttttattagaaaatgatttgttttatagagaaagcatcaaatgatattcttcttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaagaagaatatcatttgatgctttctctataaaacaaatcattttctaataaaacaagtacgaagctgtgaagtttcatatctcaaattttttaagacaatagaacaaaagccgacatct Mask Tandem Repeat Region ================================================ agatgtcggcttttgttctattgtcttaaaaaatttgagatatgaaacttcacagcttcgtacttgttttattagaaaatgatttgttttatagagaaagcatcaaatgatattcttcttta Find is-nt database================================================ Query_seq: PI2024:PI2025|PI2024:PI2025:hypothetical protein:conserved hypothetical protein:->->:1979046..1979167 122 agatgtcggcttttgttctattgtcttaaaaaatttgagatatgaaacttcacagcttcgtacttgttttattagaaaatgatttgttttatagagaaagcatcaaatgatattcttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2024:PI2025|PI2024:PI2025:hypothetical protein:conserved hypothetical protein:->->:1979046..1979167 122 agatgtcggcttttgttctattgtcttaaaaaatttgagatatgaaacttcacagcttcgtacttgttttattagaaaatgatttgttttatagagaaagcatcaaatgatattcttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2024:PI2025|PI2024:PI2025:hypothetical protein:conserved hypothetical protein:->->:1979046..1979167 122 agatgtcggcttttgttctattgtcttaaaaaatttgagatatgaaacttcacagcttcgtacttgttttattagaaaatgatttgttttatagagaaagcatcaaatgatattcttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agatgtcggcttttgttctattgtcttaaaaaatttgagatatgaaacttcacagcttcgtacttgttttattagaaaatgatttgttttatagagaaagcatcaaatgatattcttcttta Predict ORF larger than 30AA ================================================ agatgtcggcttttgttctattgtcttaaaaaatttgagatatgaaacttcacagcttcgtacttgttttattagaaaatgatttgttttatagagaaagcatcaaatgatattcttcttta 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================================================ agatgtcggcttttgttctattgtcttaaaaaatttgagatatgaaacttcacagcttcgtacttgttttattagaaaatgatttgttttatagagaaagcatcaaatgatattcttcttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI2024:PI2025|PI2024:PI2025:hypothetical protein:conserved hypothetical protein:->->:1979046..1979167 122 agatgtcggcttttgttctattgtcttaaaaaatttgagatatgaaacttcacagcttcgtacttgttttattagaaaatgatttgttttatagagaaagcatcaaatgatattcttcttta Intra-Species Hit: Count: 1 Min: 1 Max: 122 Len: 122 Subject: pint_PI2024_PI2025|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1979046,1979167]|122 HSP 1 e-value: 2.0E-63 bit: 242.0 Len: 122 Query Start:1 Query End:122 Subject Strand: POSITIVE Subject Start: 1 Subject End: 122 agatgtcggcttttgttctattgtcttaaaaaatttgagatatgaaacttcacagcttcgtacttgttttattagaaaatgatttgttttatagagaaagcatcaaatgatattcttcttta agatgtcggcttttgttctattgtcttaaaaaatttgagatatgaaacttcacagcttcgtacttgttttattagaaaatgatttgttttatagagaaagcatcaaatgatattcttcttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAUGUCGGCUUUUGUUCUAUUGUCUUAAAAAAUUUGAGAUAUGAAACUUCACAGCUUCGUACUUGUUUUAUUAGAAAAUGAUUUGUUUUAUAGAGAAAGCAUCAAAUGAUAUUCUUCUUUA .(((((((((((((..((((.((((((((.....)))))))).(((((....((..(((...............)))..))....))))).))))))))))......)))))))........ (-17.76) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGAAGAAUAUCAUUUGAUGCUUUCUCUAUAAAACAAAUCAUUUUCUAAUAAAACAAGUACGAAGCUGUGAAGUUUCAUAUCUCAAAUUUUUUAAGACAAUAGAACAAAAGCCGACAUCU ...(((..((((((....)))).))..)))...............(((((.............((((((....))))))...(((.((.....)).)))...)))))............... (-12.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 258 48 1 219 169 pint:PI0897|5end_ferredoxin,_4Fe-4S_828227..828457_POSITIVE 237 72 44 127 96 pint:PI0762|5end_mannose-6-phosphate_isomerase,_class_I_696420..696650_POSITIVE 212 78 33 112 72 pint:PI2094|5end_hypothetical_protein_2049540..2049770_POSITIVE 212 68 25 119 71 pint:PI1727|5end__ATP-dependent_Clp_protease,_ATP-binding_subunit_1645680..1645910_POSITIVE 205 68 36 126 92 pint:PI0627|5end_conserved_hypothetical_protein_575618..575848_POSITIVE 201 100 53 195 139 pint:PI1706|5end_GTP-binding_protein_1622770..1623000_POSITIVE 201 104 80 190 165 pint:PI0260|5end_conjugative_transposon_protein,_TraJ_253023..253253_POSITIVE 200 106 61 83 42 pint:PI1178|5end_histidyl-tRNA_synthetase_1099249..1099479_POSITIVE 198 25 4 224 203 pint:PI0749|5end_hypothetical_protein_677234..677464_POSITIVE 195 76 49 51 24 pint:PI1449|5end_conserved_hypothetical_protein_1372018..1372248_POSITIVE 194 107 63 124 72 pint:PI0654|5end_K+-dependent_Na+/Ca+_exchanger_related-protein_596283..596513_POSITIVE 193 64 41 195 160 pint:PI0751|5end_conserved_hypothetical_protein_680623..680853_POSITIVE 192 97 52 188 142 pint:PI1165|5end_hypothetical_protein_1089389..1089619_POSITIVE 192 97 52 104 58 pint:PI1166|5end_hypothetical_protein_1089305..1089535_POSITIVE 189 77 37 173 128 pint:PI1117|5end_glycosyl_transferase,_family_2_1041318..1041548_POSITIVE 188 26 1 56 24 pint:PI1633|5end_hypothetical_protein_1552504..1552734_POSITIVE 186 98 54 139 97 pint:PI2042|5end_cation-transporting_ATPase_1994175..1994405_POSITIVE 186 98 54 125 83 pint:PI2041|5end_conserved_hypothetical_protein_1994161..1994391_POSITIVE 183 37 1 230 192 pint:PI1349|5end_polysaccharide_export_protein_1263010..1263240_POSITIVE 183 60 17 110 64 pint:PI0530|5end_possible_membrane-fusion_protein_483772..484002_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 232 19 3 49 33 pint:PI0685|3end_elongation_factor_G_623048..623198_POSITIVE 206 26 4 128 105 pint:PI1136|3end_conserved_hypothetical_protein_1062541..1062691_POSITIVE 205 68 36 126 92 pint:PI0626|3end_penicillin-binding_protein,_D-alanyl-D-alanine_carboxypeptidase_575698..575848_POSITIVE 201 104 80 130 105 pint:PI0259|3end_conserved_protein_found_in_conjugation,_TraI_253043..253193_POSITIVE 198 25 4 124 103 pint:PI0748|3end_possible_mobilization_protein_677214..677364_POSITIVE 193 64 41 125 90 pint:PI0750|3end_zinc_protease_680633..680783_POSITIVE 189 75 36 135 98 pint:PI0268|3end_lysozyme-related_protein_259790..259940_POSITIVE 184 70 42 49 17 pint:PI1383|3end_biopolymer_transport_protein_tolQ_related_1305040..1305190_POSITIVE 183 91 51 90 50 pint:PI1379|3end_hypothetical_protein_1302292..1302442_POSITIVE 183 62 32 112 85 pint:PI0232|3end_conserved_hypothetical_protein_231894..232044_POSITIVE 180 27 4 101 81 pint:PI1649|3end_hypothetical_protein_1563441..1563591_POSITIVE 178 88 47 62 18 pint:PI2046|3end_hypothetical_protein_1999205..1999355_POSITIVE 174 37 6 107 72 pint:PI1452|3end_possible_nicotinamide_mononucleotide_transporter_1376062..1376212_POSITIVE 174 27 3 105 78 pint:PI1223|3end_conserved_hypothetical_protein_1144459..1144609_POSITIVE 174 69 21 148 91 pint:PI1116|3end_conserved_hypothetical_protein_1041380..1041530_POSITIVE 173 25 2 86 64 pint:PI2075|3end_conserved_hypothetical_protein_2035355..2035505_POSITIVE 172 67 47 141 122 pint:PI0013|3end_auxin-regulated_protein_17106..17256_POSITIVE 171 27 1 142 113 pint:PI1686|3end_hypothetical_protein_1601898..1602048_POSITIVE 171 70 45 38 5 pint:PI0002|3end_conserved_hypothetical_protein_3870..4020_POSITIVE 170 93 54 79 44 pint:PI0137|3end_lectin-like_adhesin_precursor_131149..131299_POSITIVE