Origin IGS: ctttttgttactacttatcaatctttgcaaaggtactataaaaaacgaataatgaagaaggaaacttaccattttaagactttcgacctttaaaatatgatataaatcacgtttttagcagcaaaacatttaaagtttgaaaaagaaacgacctcttttctgcaacccaaaagaaaaagaactatctttgtaggagtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aactcctacaaagatagttctttttcttttgggttgcagaaaagaggtcgtttctttttcaaactttaaatgttttgctgctaaaaacgtgatttatatcatattttaaaggtcgaaagtcttaaaatggtaagtttccttcttcattattcgttttttatagtacctttgcaaagattgataagtagtaacaaaaag Mask Tandem Repeat Region ================================================ ctttttgttactacttatcaatctttgcaaaggtactataaaaaacgaataatgaagaaggaaacttaccattttaagactttcgacctttaaaatatgatataaatcacgtttttagcagcaaaacatttaaagtttgaaaaagaaacgacctcttttctgcaacccaaaagaaaaagaactatctttgtaggagtt Find is-nt database================================================ Query_seq: PI1932:PI1933|PI1932:PI1933:glycogen synthase:hypothetical protein:->->:1879867..1880064 198 ctttttgttactacttatcaatctttgcaaaggtactataaaaaacgaataatgaagaaggaaacttaccattttaagactttcgacctttaaaatatgatataaatcacgtttttagcagcaaaacatttaaagtttgaaaaagaaacgacctcttttctgcaacccaaaagaaaaagaactatctttgtaggagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1932:PI1933|PI1932:PI1933:glycogen synthase:hypothetical protein:->->:1879867..1880064 198 ctttttgttactacttatcaatctttgcaaaggtactataaaaaacgaataatgaagaaggaaacttaccattttaagactttcgacctttaaaatatgatataaatcacgtttttagcagcaaaacatttaaagtttgaaaaagaaacgacctcttttctgcaacccaaaagaaaaagaactatctttgtaggagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1932:PI1933|PI1932:PI1933:glycogen synthase:hypothetical protein:->->:1879867..1880064 198 ctttttgttactacttatcaatctttgcaaaggtactataaaaaacgaataatgaagaaggaaacttaccattttaagactttcgacctttaaaatatgatataaatcacgtttttagcagcaaaacatttaaagtttgaaaaagaaacgacctcttttctgcaacccaaaagaaaaagaactatctttgtaggagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttttgttactacttatcaatctttgcaaaggtactataaaaaacgaataatgaagaaggaaacttaccattttaagactttcgacctttaaaatatgatataaatcacgtttttagcagcaaaacatttaaagtttgaaaaagaaacgacctcttttctgcaacccaaaagaaaaagaactatctttgtaggagtt Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 106 End: 198 ......................................................................................................... M T F L A A K H L K F E K E T T S F L Q P K R K R T I F V G V Protein_Len: 31 Strand: - Start: 93 End: 185 ............................................................................................ F I I Y I V N K A A F C K F N S F S V V E K R C G L L F L V M ............. Protein_Len: 32 Strand: - Start: 1 End: 96 K K N S S I L R Q L P V I F F S Y H L L F S V M K L S E V K L M ...................................................................................................... ctttttgttactacttatcaatctttgcaaaggtactataaaaaacgaataatgaagaaggaaacttaccattttaagactttcgacctttaaaatatgatataaatcacgtttttagcagcaaaacatttaaagtttgaaaaagaaacgacctcttttctgcaacccaaaagaaaaagaactatctttgtaggagtt 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================================================ ctttttgttactacttatcaatctttgcaaaggtactataaaaaacgaataatgaagaaggaaacttaccattttaagactttcgacctttaaaatatgatataaatcacgtttttagcagcaaaacatttaaagtttgaaaaagaaacgacctcttttctgcaacccaaaagaaaaagaactatctttgtaggagtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1932:PI1933|PI1932:PI1933:glycogen synthase:hypothetical protein:->->:1879867..1880064 198 ctttttgttactacttatcaatctttgcaaaggtactataaaaaacgaataatgaagaaggaaacttaccattttaagactttcgacctttaaaatatgatataaatcacgtttttagcagcaaaacatttaaagtttgaaaaagaaacgacctcttttctgcaacccaaaagaaaaagaactatctttgtaggagtt Intra-Species Hit: Count: 1 Min: 1 Max: 198 Len: 198 Subject: pint_PI1932_PI1933|glycogen synthase:hypothetical protein|POSITIVE:POSITIVE|[1879867,1880064]|198 HSP 1 e-value: 1.0E-108 bit: 392.0 Len: 198 Query Start:1 Query End:198 Subject Strand: POSITIVE Subject Start: 1 Subject End: 198 ctttttgttactacttatcaatctttgcaaaggtactataaaaaacgaataatgaagaaggaaacttaccattttaagactttcgacctttaaaatatgatataaatcacgtttttagcagcaaaacatttaaagtttgaaaaagaaacgacctcttttctgcaacccaaaagaaaaagaactatctttgtaggagtt ctttttgttactacttatcaatctttgcaaaggtactataaaaaacgaataatgaagaaggaaacttaccattttaagactttcgacctttaaaatatgatataaatcacgtttttagcagcaaaacatttaaagtttgaaaaagaaacgacctcttttctgcaacccaaaagaaaaagaactatctttgtaggagtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUUUGUUACUACUUAUCAAUCUUUGCAAAGGUACUAUAAAAAACGAAUAAUGAAGAAGGAAACUUACCAUUUUAAGACUUUCGACCUUUAAAAUAUGAUAUAAAUCACGUUUUUAGCAGCAAAACAUUUAAAGUUUGAAAAAGAAACGACCUCUUUUCUGCAACCCAAAAGAAAAAGAACUAUCUUUGUAGGAGUU .....................((((.(((((((((..........((...((((...(((....)))..)))).......((((((.(((((((...((((....)))).(((((.......))))).))))))).))))))......))...((((((((..........)).))))))..)))))))))))))... (-30.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUCCUACAAAGAUAGUUCUUUUUCUUUUGGGUUGCAGAAAAGAGGUCGUUUCUUUUUCAAACUUUAAAUGUUUUGCUGCUAAAAACGUGAUUUAUAUCAUAUUUUAAAGGUCGAAAGUCUUAAAAUGGUAAGUUUCCUUCUUCAUUAUUCGUUUUUUAUAGUACCUUUGCAAAGAUUGAUAAGUAGUAACAAAAAG .........(((((....)))))..(((((..(((((.((((((((.....))))))))...((((......(((((((((((((((((.(((((((....((((((((.((.(....))))))))))))))))))...............))))))...))))).....))))))......)))).))))).))))) (-31.09) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 301 69 21 216 165 pint:PI0002|5end_conserved_hypothetical_protein_2972..3202_POSITIVE 251 180 135 51 1 pint:PI1070|5end_peptidoglycan-associated_lipoprotein_986110..986340_POSITIVE 242 160 113 226 174 pint:PI1742|5end_SpoOJ_regulator_protein_1664826..1665056_POSITIVE 241 65 21 176 133 pint:PI0190|5end_3-dehydroquinate_dehydratase_II_180618..180848_POSITIVE 234 59 21 177 131 pint:PI0598|5end_hypothetical_protein_547061..547291_POSITIVE 216 90 44 205 156 pint:PI1436|5end_hypothetical_protein_1355961..1356191_POSITIVE 214 185 152 125 97 pint:PI1604|5end_hypothetical_protein_1534017..1534247_POSITIVE 211 63 22 157 118 pint:PI1334|5end_ferrodoxin_1251404..1251634_POSITIVE 205 140 96 230 172 pint:PI0452|5end_conserved_hypothetical_protein;_possible_surface_antigen_425293..425523_POSITIVE 204 70 27 135 72 pint:PI0899|5end_methylenetetrahydrofolate_dehydrogenase/methenyltetrahydrofolate_cyclohydrolase_828738..828968_POSITIVE 204 90 45 223 172 pint:PI0649|5end_oxaloacetate_decarboxylase_589695..589925_POSITIVE 203 169 138 126 95 pint:PI1735|5end_conserved_hypothetical_protein_1653428..1653658_POSITIVE 203 67 26 125 94 pint:PI1584|5end_A/G-specific_adenine_glycosylase_1511898..1512128_POSITIVE 203 125 86 188 143 pint:PI0657|5end_conserved_hypothetical_protein_601179..601409_POSITIVE 199 150 110 197 142 pint:PI1753|5end_conserved_hypothetical_protein_1680291..1680521_POSITIVE 199 37 1 226 191 pint:PI0141|5end_glutamine_amidotransferase_involved_in_pyridoxine_biosynthesis_132710..132940_POSITIVE 196 89 41 167 118 pint:PI0845|5end_peptidyl-dipeptidase_778272..778502_POSITIVE 195 189 144 176 120 pint:PI1008|5end_cytochrome_c_nitrite_reductase,_small_subunit_928784..929014_POSITIVE 194 63 21 193 145 pint:PI2031|5end_hypothetical_protein_1986053..1986283_POSITIVE 194 52 22 141 107 pint:PI1326|5end_Na+-driven_multidrug_efflux_pump_1244182..1244412_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 301 69 21 76 25 pint:PI0001|3end_possible_Ton-B_receptor_2912..3062_POSITIVE 234 59 21 98 52 pint:PI0597|3end_hypothetical_protein_547062..547212_POSITIVE 232 82 45 119 77 pint:PI0422|3end_conserved_hypothetical_protein_388025..388175_POSITIVE 214 185 152 33 5 pint:PI1603|3end_hypothetical_protein_1534005..1534155_POSITIVE 211 63 22 45 6 pint:PI1333|3end_conserved_hypothetical_protein_1251372..1251522_POSITIVE 205 188 144 81 28 pint:PI0042|3end_hypothetical_protein_43444..43594_POSITIVE 203 125 86 62 17 pint:PI0656|3end_peptidase_T_(tripeptide_aminopeptidase)_601133..601283_POSITIVE 202 96 54 64 31 pint:PI0282|3end_hypothetical_protein_266826..266976_POSITIVE 199 150 110 106 51 pint:PI1751|3end_desulfoferrodoxin_1680280..1680430_POSITIVE 197 190 143 67 18 pint:PI1610|3end_Na+/H+_anti-porter_1538002..1538152_POSITIVE 197 45 13 138 105 pint:PI0611|3end_hypothetical_protein_559901..560051_POSITIVE 197 168 134 57 18 pint:PI0082|3end_conserved_hypothetical_protein_(possible_phosphoglycerol_transferase)_82711..82861_POSITIVE 196 89 41 131 82 pint:PI0844|3end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_778316..778466_POSITIVE 195 70 22 144 96 pint:PI0428|3end_hypothetical_protein_396321..396471_POSITIVE 194 157 116 109 51 pint:PI1177|3end_hypothtical_protein_1099154..1099304_POSITIVE 193 90 46 104 55 pint:PI1696|3end_conserved_hypothetical_protein_1612249..1612399_POSITIVE 193 90 49 141 88 pint:PI0552|3end_hypothetical_protein_503335..503485_POSITIVE 192 49 26 45 23 pint:PI1690|3end_transcription_regulator;_possible_Fe2+/Zn2+_uptake_regulation_proteins_1605627..1605777_POSITIVE 192 99 57 93 30 pint:PI1012|3end_DNA-binding_protein,_histone-like_family_933544..933694_POSITIVE 190 140 93 55 8 pint:PI1757|3end_hypothetical_protein_1684217..1684367_POSITIVE