Origin IGS: taaaacgcttcctcaataagtttcttccgaattgttatttgtaatattccgatagttcaaaaatgctgatgtaacgcattgtataagaagagtataattcttattta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaataagaattatactcttcttatacaatgcgttacatcagcatttttgaactatcggaatattacaaataacaattcggaagaaacttattgaggaagcgtttta Mask Tandem Repeat Region ================================================ taaaacgcttcctcaataagtttcttccgaattgttatttgtaatattccgatagttcaaaaatgctgatgtaacgcattgtataagaagagtataattcttattta Find is-nt database================================================ Query_seq: PI0851:PI0852|PI0851:PI0852:hypothetical protein:conserved hypothetical protein:->->:784585..784691 107 taaaacgcttcctcaataagtttcttccgaattgttatttgtaatattccgatagttcaaaaatgctgatgtaacgcattgtataagaagagtataattcttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0851:PI0852|PI0851:PI0852:hypothetical protein:conserved hypothetical protein:->->:784585..784691 107 taaaacgcttcctcaataagtttcttccgaattgttatttgtaatattccgatagttcaaaaatgctgatgtaacgcattgtataagaagagtataattcttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0851:PI0852|PI0851:PI0852:hypothetical protein:conserved hypothetical protein:->->:784585..784691 107 taaaacgcttcctcaataagtttcttccgaattgttatttgtaatattccgatagttcaaaaatgctgatgtaacgcattgtataagaagagtataattcttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaacgcttcctcaataagtttcttccgaattgttatttgtaatattccgatagttcaaaaatgctgatgtaacgcattgtataagaagagtataattcttattta Predict ORF larger than 30AA ================================================ taaaacgcttcctcaataagtttcttccgaattgttatttgtaatattccgatagttcaaaaatgctgatgtaacgcattgtataagaagagtataattcttattta 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================================================ taaaacgcttcctcaataagtttcttccgaattgttatttgtaatattccgatagttcaaaaatgctgatgtaacgcattgtataagaagagtataattcttattta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0851:PI0852|PI0851:PI0852:hypothetical protein:conserved hypothetical protein:->->:784585..784691 107 taaaacgcttcctcaataagtttcttccgaattgttatttgtaatattccgatagttcaaaaatgctgatgtaacgcattgtataagaagagtataattcttattta Intra-Species Hit: Count: 1 Min: 1 Max: 107 Len: 107 Subject: pint_PI0851_PI0852|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[784585,784691]|107 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 taaaacgcttcctcaataagtttcttccgaattgttatttgtaatattccgatagttcaaaaatgctgatgtaacgcattgtataagaagagtataattcttattta taaaacgcttcctcaataagtttcttccgaattgttatttgtaatattccgatagttcaaaaatgctgatgtaacgcattgtataagaagagtataattcttattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAACGCUUCCUCAAUAAGUUUCUUCCGAAUUGUUAUUUGUAAUAUUCCGAUAGUUCAAAAAUGCUGAUGUAACGCAUUGUAUAAGAAGAGUAUAAUUCUUAUUUA ..............((((((.((((((.((((((((..............))))))))....((((.((((.....))))))))..)))))).......)))))).. (-14.34) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUAAGAAUUAUACUCUUCUUAUACAAUGCGUUACAUCAGCAUUUUUGAACUAUCGGAAUAUUACAAAUAACAAUUCGGAAGAAACUUAUUGAGGAAGCGUUUUA ...(((((((........))))))).....(((((.(.((((...((((((....))))))...............(((....))).....)))).).))))).... (-15.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 249 68 26 95 41 pint:PI0162|5end_ADP-ribosylglycohydrolase_(ADP-ribosyl-[dinitrogen_reductase]_hydrolase)_156130..156360_POSITIVE 234 49 3 217 169 pint:PI0359|5end_hypothetical_protein_328339..328569_POSITIVE 228 89 50 57 10 pint:PI0060|5end_long-chain-fatty-acid--CoA_ligase_(acyl-CoA_synthetase)_58281..58511_POSITIVE 226 50 8 98 46 pint:PI1230|5end_probable_metallo-beta-lactamase_family_protein_1151840..1152070_POSITIVE 222 94 64 104 78 pint:PI1858|5end_conserved_hypothetical_protein_1804400..1804630_POSITIVE 217 79 31 180 129 pint:PI0898|5end_conserved_hypothetical_protein_828474..828704_POSITIVE 216 88 46 96 54 pint:PI1071|5end_DNA_topoisomerase_III_988290..988520_POSITIVE 215 57 19 215 188 pint:PI0659|5end_hypothetical_protein_603203..603433_POSITIVE 212 82 41 66 20 pint:PI1418|5end_UDP-N-acetylglucosamine_2-epimerase_1337985..1338215_POSITIVE 212 88 49 53 16 pint:PI0735|5end_ABC_transporter,_ATP-binding_/_permease_668793..669023_POSITIVE 211 92 64 214 193 pint:PI1138|5end_hypothetical_protein_1064560..1064790_POSITIVE 209 77 32 42 7 pint:PI1600|5end_conserved_hypothetical_protein_1529269..1529499_POSITIVE 205 78 32 231 180 pint:PI1195|5end_hypothetical_protein_1113171..1113401_POSITIVE 203 41 6 82 50 pint:PI1653|5end_hypothetical_protein_1565158..1565388_POSITIVE 201 100 54 84 27 pint:PI1001|5end_hypothetical_protein_923510..923740_POSITIVE 199 77 40 192 149 pint:PI1444|5end_protease_ClpB_1365472..1365702_POSITIVE 197 50 9 153 107 pint:PI0809|5end_hypothetical_protein_746630..746860_POSITIVE 196 100 55 61 10 pint:PI1568|5end_OmpA_family_protein_1489584..1489814_POSITIVE 194 82 50 150 117 pint:PI1750|5end_sulfate_transporter_1672134..1672364_POSITIVE 193 91 53 130 97 pint:PI2117|5end_fumarate_reductase/succinate_dehydrogenase_flavoprotein_subunit,_C-terminal_2066017..2066247_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 244 68 22 76 25 pint:PI1915|3end_conserved_hypothetical_protein_1859906..1860056_POSITIVE 227 80 32 106 53 pint:PI1194|3end_DnaJ_protein_(Hsp-40)_1113124..1113274_POSITIVE 216 42 6 128 94 pint:PI0496|3end_heat_shock_protein_hsp70_(chaperone_protein_dnaK)_458610..458760_POSITIVE 213 79 32 81 39 pint:PI1818|3end_hypothetical_protein_1757270..1757420_POSITIVE 212 72 33 149 110 pint:PI1474|3end_conserved_hypothetical_protein_1396969..1397119_POSITIVE 211 70 30 148 111 pint:PI0897|3end_ferredoxin,_4Fe-4S_828537..828687_POSITIVE 203 41 6 79 47 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 195 54 13 125 92 pint:PI1000|3end_conserved_hypothetical_protein_923672..923822_POSITIVE 193 91 53 80 47 pint:PI2116|3end_fumarate_reductase/succinate_dehydrogenase,_iron-sulfur_protein_2066047..2066197_POSITIVE 190 50 7 135 91 pint:PI0024|3end_hypothetical_protein_28559..28709_POSITIVE 189 91 61 39 10 pint:PI1087|3end_conserved_hypothetical_protein_1011557..1011707_POSITIVE 189 55 11 110 63 pint:PI0056|3end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_55907..56057_POSITIVE 188 83 49 48 16 pint:PI1221|3end_penicillin-binding_protein_1A_1142855..1143005_POSITIVE 188 89 43 119 70 pint:PI0566|3end_enoyl-[acyl-carrier-protein]_reductase_512628..512778_POSITIVE 187 60 18 132 96 pint:PI0762|3end_mannose-6-phosphate_isomerase,_class_I_697333..697483_POSITIVE 187 40 5 88 46 pint:PI0528|3end_hypothetical_protein_483122..483272_POSITIVE 186 83 45 135 85 pint:PI0370|3end_conserved_hypothetical_protein_341309..341459_POSITIVE 180 88 45 100 58 pint:PI1796|3end_2-hydroxyhepta-2,4-diene-1,7-dioate_isomerase,_fumarylacetoacetate_hydrolase_family_protein_1731086..1731236_POSITIVE 180 70 21 137 92 pint:PI0486|3end_DNA-directed_RNA_polymerase,_alpha_subunit_446148..446298_POSITIVE 180 100 61 108 56 pint:PI0485|3end_30S_ribosomal_protein_S4_445135..445285_POSITIVE