Origin IGS: attatgttacctcttttaaatttctgtttgccctatggaaaacacgttaaaatgtatacgatatttctatatgataggacagaataaaaaatatgacgtcatatttttctgaacacctaaaaagtggggcggaaaacccta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagggttttccgccccactttttaggtgttcagaaaaatatgacgtcatattttttattctgtcctatcatatagaaatatcgtatacattttaacgtgttttccatagggcaaacagaaatttaaaagaggtaacataat Mask Tandem Repeat Region ================================================ attatgttacctcttttaaatttctgtttgccctatggaaaacacgttaaaatgtatacgatatttctatatgataggacagaataaaaaatatgacgtcatatttttctgaacacctaaaaagtggggcggaaaacccta Find is-nt database================================================ Query_seq: PI0918:PI0919|PI0918:PI0919:Fe-S oxidoreductase, family 2:conserved hypothetical protein:->->:849297..849437 141 attatgttacctcttttaaatttctgtttgccctatggaaaacacgttaaaatgtatacgatatttctatatgataggacagaataaaaaatatgacgtcatatttttctgaacacctaaaaagtggggcggaaaacccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0918:PI0919|PI0918:PI0919:Fe-S oxidoreductase, family 2:conserved hypothetical protein:->->:849297..849437 141 attatgttacctcttttaaatttctgtttgccctatggaaaacacgttaaaatgtatacgatatttctatatgataggacagaataaaaaatatgacgtcatatttttctgaacacctaaaaagtggggcggaaaacccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0918:PI0919|PI0918:PI0919:Fe-S oxidoreductase, family 2:conserved hypothetical protein:->->:849297..849437 141 attatgttacctcttttaaatttctgtttgccctatggaaaacacgttaaaatgtatacgatatttctatatgataggacagaataaaaaatatgacgtcatatttttctgaacacctaaaaagtggggcggaaaacccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attatgttacctcttttaaatttctgtttgccctatggaaaacacgttaaaatgtatacgatatttctatatgataggacagaataaaaaatatgacgtcatatttttctgaacacctaaaaagtggggcggaaaacccta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 20 End: 109 ................... M S V C P M E N T L K C I R Y F Y M I G Q N K K Y D V I F F ................................ attatgttacctcttttaaatttctgtttgccctatggaaaacacgttaaaatgtatacgatatttctatatgataggacagaataaaaaatatgacgtcatatttttctgaacacctaaaaagtggggcggaaaacccta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 46 End: 75 .............................................GTTAAAATGTATACGATATTTCTATATGAT.................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ attatgttacctcttttaaatttctgtttgccctatggaaaacacgttaaaatgtatacgatatttctatatgataggacagaataaaaaatatgacgtcatatttttctgaacacctaaaaagtggggcggaaaacccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0918:PI0919|PI0918:PI0919:Fe-S oxidoreductase, family 2:conserved hypothetical protein:->->:849297..849437 141 attatgttacctcttttaaatttctgtttgccctatggaaaacacgttaaaatgtatacgatatttctatatgataggacagaataaaaaatatgacgtcatatttttctgaacacctaaaaagtggggcggaaaacccta Intra-Species Hit: Count: 1 Min: 1 Max: 141 Len: 141 Subject: pint_PI0918_PI0919|Fe-S oxidoreductase, family 2:conserved hypothetical protein|POSITIVE:POSITIVE|[849297,849437]|141 HSP 1 e-value: 1.0E-74 bit: 280.0 Len: 141 Query Start:1 Query End:141 Subject Strand: POSITIVE Subject Start: 1 Subject End: 141 attatgttacctcttttaaatttctgtttgccctatggaaaacacgttaaaatgtatacgatatttctatatgataggacagaataaaaaatatgacgtcatatttttctgaacacctaaaaagtggggcggaaaacccta attatgttacctcttttaaatttctgtttgccctatggaaaacacgttaaaatgtatacgatatttctatatgataggacagaataaaaaatatgacgtcatatttttctgaacacctaaaaagtggggcggaaaacccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAUGUUACCUCUUUUAAAUUUCUGUUUGCCCUAUGGAAAACACGUUAAAAUGUAUACGAUAUUUCUAUAUGAUAGGACAGAAUAAAAAAUAUGACGUCAUAUUUUUCUGAACACCUAAAAAGUGGGGCGGAAAACCCUA ....((((.((.(((((....((((((((..(.((((((((...(((..........)))...)))))))).)...))))))))..(((((((((....)))))))))...........))))).)))))).......... (-27.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGGUUUUCCGCCCCACUUUUUAGGUGUUCAGAAAAAUAUGACGUCAUAUUUUUUAUUCUGUCCUAUCAUAUAGAAAUAUCGUAUACAUUUUAACGUGUUUUCCAUAGGGCAAACAGAAAUUUAAAAGAGGUAACAUAAU ..((((.....))))..((((((.....(((.((((((((((....))))))))))....((((((((......((((((.(((..........)))))))))..))))))))....))).....)))))).......... (-28.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 327 105 65 171 131 pint:PI1534|5end_ATPase/GTPase_1453679..1453909_POSITIVE 262 46 5 196 157 pint:PI0365|5end_hypothetical_protein_335721..335951_POSITIVE 240 139 109 50 22 pint:PI0594|5end_possible_rare_lipoprotein_A_544388..544618_POSITIVE 238 68 24 139 101 pint:PI1258|5end_elongation_factor_Tu_1178909..1179139_POSITIVE 238 68 21 224 179 pint:PI0802|5end_hypothetical_protein_739544..739774_POSITIVE 237 79 36 54 19 pint:PI0801|5end_hypothetical_protein_739365..739595_POSITIVE 233 116 89 175 147 pint:PI0063|5end_transcriptional_regulator,_GntR_family_63181..63411_POSITIVE 232 48 25 165 141 pint:PI1938|5end_hypothetical_protein_1891854..1892084_POSITIVE 230 131 97 220 192 pint:PI0851|5end_hypothetical_protein_784310..784540_POSITIVE 227 68 27 46 5 pint:PI0971|5end_glycine_cleavage_system_T_protein_(aminomethyltransferase)_897847..898077_POSITIVE 223 134 109 91 63 pint:PI1833|5end_bacterioferritin_comigratory_protein_1773957..1774187_POSITIVE 219 49 5 161 107 pint:PI1348|5end_glycosyltransferase_1262389..1262619_POSITIVE 217 135 91 82 28 pint:PI1038|5end_hypothetical_protein_958685..958915_POSITIVE 216 133 93 230 185 pint:PI0171|5end_hypothetical_protein_163850..164080_POSITIVE 215 67 23 150 114 pint:PI0504|5end_hypothetical_protein_464459..464689_POSITIVE 215 79 32 150 95 pint:PI0323|5end_hypothetical_protein_305349..305579_POSITIVE 213 132 95 48 8 pint:PI1685|5end_GAF_domain-containing_protein_1601712..1601942_POSITIVE 212 63 24 166 132 pint:PI1701|5end_sensor_histidine_kinase_1619312..1619542_POSITIVE 212 131 91 225 174 pint:PI0163|5end_conserved_hypothetical_protein_157116..157346_POSITIVE 211 132 95 130 95 pint:PI1671|5end_hypothetical_protein_1586397..1586627_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 274 137 100 62 18 pint:PI0674|3end_conserved_hypothetical_protein_616154..616304_POSITIVE 255 120 89 36 4 pint:PI2006|3end_potassium_uptake_system_protein_1965846..1965996_POSITIVE 244 138 95 136 94 pint:PI1087|3end_conserved_hypothetical_protein_1011557..1011707_POSITIVE 223 134 109 77 49 pint:PI1832|3end_conserved_hypothetical_protein_1774023..1774173_POSITIVE 221 133 97 61 18 pint:PI1820|3end_hypothetical_protein_1760377..1760527_POSITIVE 221 48 8 150 114 pint:PI1257|3end_dTDP-4-dehydrorhamnose_reductase_1179016..1179166_POSITIVE 217 135 91 143 89 pint:PI1039|3end_conserved_hypothetical_protein_958826..958976_POSITIVE 216 133 114 21 1 pint:PI1983|3end_possible_xylanase_1940004..1940154_POSITIVE 216 35 13 122 94 pint:PI1136|3end_conserved_hypothetical_protein_1062541..1062691_POSITIVE 211 68 30 129 85 pint:PI0184|3end_possible_fibronectin_type_III_domain_protein_176516..176666_POSITIVE 210 140 97 107 52 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 207 138 96 64 17 pint:PI0286|3end_ISPg3-related_transposase_272065..272215_POSITIVE 205 133 95 84 42 pint:PI0297|3end_hypothetical_protein_277916..278066_POSITIVE 200 80 37 132 80 pint:PI0345|3end_conserved_hypothetical_protein_320809..320959_POSITIVE 199 134 96 69 30 pint:PI0411|3end_conserved_hypothetial_protein;_possible_hydrolase_379828..379978_POSITIVE 197 135 107 150 125 pint:PI1236|3end_10_kDa_chaperonin,_cpn10,_GroES_1159280..1159430_POSITIVE 196 38 24 17 3 pint:PI1122|3end_pyridoxal-phosphate-dependent_aminotransferase_1048059..1048209_POSITIVE 196 139 97 145 111 pint:PI0087|3end_conserved_hypothetical_protein_86733..86883_POSITIVE 193 140 125 43 23 pint:PI1102|3end_conserved_hypothetical_protein_1026247..1026397_POSITIVE 193 140 106 135 102 pint:PI0196|3end_hypothetical_protein_188643..188793_POSITIVE