Origin IGS: gatgaaatttccttgcatatcaatgtgatttaaatgttcgctgcaaaagtatcatgcaattacatggtatgatgcccatataggtaccacatggtacttatatgggtatcggagtaattccctcgatataaggaaaataccttctaaaaaaaagagatggaagagaaaacctatgcaagtctggcttacatgggttcgtgatttcttgattta .........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 taaatcaagaaatcacgaacccatgtaagccagacttgcataggttttctcttccatctcttttttttagaaggtattttccttatatcgagggaattactccgatacccatataagtaccatgtggtacctatatgggcatcataccatgtaattgcatgatacttttgcagcgaacatttaaatcacattgatatgcaaggaaatttcatc Mask Tandem Repeat Region ================================================ gatgaaatttccttgcatatcaatgtgatttaaatgttcgctgcaaaagtatcatgcaattacatggtatgatgcccatataggtaccacatggtacttatatgggtatcggagtaattccctcgatataaggaaaataccttctaaaaaaaagagatggaagagaaaacctatgcaagtctggcttacatgggttcgtgatttcttgattta Find is-nt database================================================ Query_seq: PI2076:PI2077|PI2076:PI2077:hypothetical protein:hypothetical protein:->->:2035819..2036031 213 gatgaaatttccttgcatatcaatgtgatttaaatgttcgctgcaaaagtatcatgcaattacatggtatgatgcccatataggtaccacatggtacttatatgggtatcggagtaattccctcgatataaggaaaataccttctaaaaaaaagagatggaagagaaaacctatgcaagtctggcttacatgggttcgtgatttcttgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2076:PI2077|PI2076:PI2077:hypothetical protein:hypothetical protein:->->:2035819..2036031 213 gatgaaatttccttgcatatcaatgtgatttaaatgttcgctgcaaaagtatcatgcaattacatggtatgatgcccatataggtaccacatggtacttatatgggtatcggagtaattccctcgatataaggaaaataccttctaaaaaaaagagatggaagagaaaacctatgcaagtctggcttacatgggttcgtgatttcttgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2076:PI2077|PI2076:PI2077:hypothetical protein:hypothetical protein:->->:2035819..2036031 213 gatgaaatttccttgcatatcaatgtgatttaaatgttcgctgcaaaagtatcatgcaattacatggtatgatgcccatataggtaccacatggtacttatatgggtatcggagtaattccctcgatataaggaaaataccttctaaaaaaaagagatggaagagaaaacctatgcaagtctggcttacatgggttcgtgatttcttgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatgaaatttccttgcatatcaatgtgatttaaatgttcgctgcaaaagtatcatgcaattacatggtatgatgcccatataggtaccacatggtacttatatgggtatcggagtaattccctcgatataaggaaaataccttctaaaaaaaagagatggaagagaaaacctatgcaagtctggcttacatgggttcgtgatttcttgattta Predict ORF larger than 30AA ================================================ Protein_Len: 57 Strand: + Start: 41 End: 211 ........................................ M Q K Y H A I T W Y D A H I G T T W Y L Y G Y R S N S L D I R K I P S K K K R W K R K P M Q V W L T W V R D F L I .. Protein_Len: 34 Strand: - Start: 101 End: 202 .................................................................................................... I P I P T I G E I Y P F Y R R F F L S P L S F R H L D P K C P N T M ........... Protein_Len: 52 Strand: - Start: 55 End: 210 ...................................................... A I V H Y S A W I P V V H Y K Y P Y R L L E R S I L F I G E L F F L H F L F G I C T Q S V H T R S K K M ... gatgaaatttccttgcatatcaatgtgatttaaatgttcgctgcaaaagtatcatgcaattacatggtatgatgcccatataggtaccacatggtacttatatgggtatcggagtaattccctcgatataaggaaaataccttctaaaaaaaagagatggaagagaaaacctatgcaagtctggcttacatgggttcgtgatttcttgattta 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================================================ gatgaaatttccttgcatatcaatgtgatttaaatgttcgctgcaaaagtatcatgcaattacatggtatgatgcccatataggtaccacatggtacttatatgggtatcggagtaattccctcgatataaggaaaataccttctaaaaaaaagagatggaagagaaaacctatgcaagtctggcttacatgggttcgtgatttcttgattta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 84 HP_score: -12.2 Tail_Score: -2.75891 Start: 67 End: 114 Full_Region: TCATGCAATTACATG GTATGATGCCCATATAGGTACC ACAT GGTACTTATATGGGTATCGGAG TAATTCCCTCGATAT ..................................................................GTATGATGCCCATATAGGTACCACATGGTACTTATATGGGTATCGGAG................................................................................................... Find igs database================================================ Query_seq: PI2076:PI2077|PI2076:PI2077:hypothetical protein:hypothetical protein:->->:2035819..2036031 213 gatgaaatttccttgcatatcaatgtgatttaaatgttcgctgcaaaagtatcatgcaattacatggtatgatgcccatataggtaccacatggtacttatatgggtatcggagtaattccctcgatataaggaaaataccttctaaaaaaaagagatggaagagaaaacctatgcaagtctggcttacatgggttcgtgatttcttgattta Intra-Species Hit: Count: 1 Min: 1 Max: 213 Len: 213 Subject: pint_PI2076_PI2077|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2035819,2036031]|213 HSP 1 e-value: 1.0E-103 bit: 375.0 Len: 213 Query Start:1 Query End:213 Subject Strand: POSITIVE Subject Start: 1 Subject End: 213 gatgaaatttccttgcatatcaatgtgatttaaatgttcgctgcaaaagtatcatgcaattacatggtatgatgcccatataggtaccacatggtacttatatgggtatcggagtaattccctcgatataaggaaaataccttctnnnnnnnngagatggaagagaaaacctatgcaagtctggcttacatgggttcgtgatttcttgattta gatgaaatttccttgcatatcaatgtgatttaaatgttcgctgcaaaagtatcatgcaattacatggtatgatgcccatataggtaccacatggtacttatatgggtatcggagtaattccctcgatataaggaaaataccttctaaaaaaaagagatggaagagaaaacctatgcaagtctggcttacatgggttcgtgatttcttgattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUGAAAUUUCCUUGCAUAUCAAUGUGAUUUAAAUGUUCGCUGCAAAAGUAUCAUGCAAUUACAUGGUAUGAUGCCCAUAUAGGUACCACAUGGUACUUAUAUGGGUAUCGGAGUAAUUCCCUCGAUAUAAGGAAAAUACCUUCUAAAAAAAAGAGAUGGAAGAGAAAACCUAUGCAAGUCUGGCUUACAUGGGUUCGUGAUUUCUUGAUUUA .......((((((((.((((((.(((((((...(((...(((.....)))..)))..)))))))))))))((((((((((((((((((....)))))))))))))))))).(((.......)))....))))))))..........(((..(((((((.(....((..(((((((.(((.....))).))))))))).).)))))))..))). (-66.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUCAAGAAAUCACGAACCCAUGUAAGCCAGACUUGCAUAGGUUUUCUCUUCCAUCUCUUUUUUUUAGAAGGUAUUUUCCUUAUAUCGAGGGAAUUACUCCGAUACCCAUAUAAGUACCAUGUGGUACCUAUAUGGGCAUCAUACCAUGUAAUUGCAUGAUACUUUUGCAGCGAACAUUUAAAUCACAUUGAUAUGCAAGGAAAUUUCAUC ........((((....(((((.(((((((.....))))))).)))))....((((.................((((.(((((((.....))))))).))))..(((.((((((((.(((((....))))).)))))))).)))....(((((....)))))......(((((.(((..............)))...))))))))).))))... (-55.24) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 331 107 62 211 162 pint:PI1011|5end_cytochrome_c_biogenesis_protein_CycY_932115..932345_POSITIVE 310 87 41 187 140 pint:PI1782|5end_possible_LPS_biosynthesis_protein_1714482..1714712_POSITIVE 305 198 154 180 120 pint:PI0189|5end_integrase_179623..179853_POSITIVE 284 113 71 231 185 pint:PI0790|5end_hypothetical_protein_728953..729183_POSITIVE 280 200 153 144 93 pint:PI1546|5end_mobilizable_transposon,_excision_protein_1464060..1464290_POSITIVE 278 112 73 56 22 pint:PI0583|5end_hypothetical_protein_525948..526178_POSITIVE 272 57 11 228 184 pint:PI0764|5end_permease_697962..698192_POSITIVE 270 74 40 162 127 pint:PI0705|5end_conserved_hypothetical_protein;_possible_lipoprotein_641274..641504_POSITIVE 268 109 63 112 74 pint:PI2120|5end_hypothetical_protein_2068839..2069069_POSITIVE 268 208 171 49 4 pint:PI1223|5end_conserved_hypothetical_protein_1143537..1143767_POSITIVE 261 78 33 224 172 pint:PI0333|5end_hypothetical_protein_313478..313708_POSITIVE 259 208 167 107 70 pint:PI1447|5end_probable_OPT_oligopeptide_transporter_protein_1369972..1370202_POSITIVE 258 200 151 74 7 pint:PI1145|5end_50S_ribosomal_protein_L35_1072520..1072750_POSITIVE 257 107 64 78 15 pint:PI0028|5end_aminopeptidase_31559..31789_POSITIVE 256 109 63 199 159 pint:PI1048|5end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_966277..966507_POSITIVE 254 113 74 58 13 pint:PI1452|5end_possible_nicotinamide_mononucleotide_transporter_1375353..1375583_POSITIVE 253 76 31 183 123 pint:PI1157|5end_hypothetical_protein_1081704..1081934_POSITIVE 252 200 162 147 107 pint:PI0539|5end_hypothetical_protein_493406..493636_POSITIVE 251 58 13 123 84 pint:PI1632|5end_hypothetical_protein_1552819..1553049_POSITIVE 251 115 72 225 189 pint:PI1463|5end_fumarate_hydratase,_class_I_1385349..1385579_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 305 198 154 147 87 pint:PI0188|3end_phosphomethylpyrimidine_kinase_179670..179820_POSITIVE 290 191 159 70 33 pint:PI1043|3end_conserved_hypothetical_protein_961597..961747_POSITIVE 285 80 35 150 105 pint:PI0873|3end_conserved_hypothetical_protein;_possible_permease_808956..809106_POSITIVE 281 210 163 125 80 pint:PI1373|3end_purine_nucleoside_phosphorylase_(PNP)_1294986..1295136_POSITIVE 280 200 153 138 87 pint:PI1545|3end_conserved_hypothetical_protein_1464134..1464284_POSITIVE 257 195 154 110 66 pint:PI2113|3end_hypothetical_protein_2064278..2064428_POSITIVE 254 210 175 148 109 pint:PI1653|3end_hypothetical_protein_1565714..1565864_POSITIVE 252 169 121 149 86 pint:PI1896|3end_hypothetical_protein_1841188..1841338_POSITIVE 250 94 56 115 72 pint:PI0428|3end_hypothetical_protein_396321..396471_POSITIVE 249 115 74 57 22 pint:PI1777|3end_conserved_hypothetical_protein_1710081..1710231_POSITIVE 248 86 49 151 109 pint:PI1676|3end_phosphatidate_cytidylyltransferase_1591773..1591923_POSITIVE 248 78 32 122 78 pint:PI1386|3end_sugar_phosphate_isomerase_1308031..1308181_POSITIVE 248 115 72 120 64 pint:PI0386|3end_integrase_354640..354790_POSITIVE 247 110 92 20 2 pint:PI2076|3end_hypothetical_protein_2035758..2035908_POSITIVE 246 199 154 88 33 pint:PI1191|3end_phosphoribosyl_pyrophosphate_synthetase_1110377..1110527_POSITIVE 243 120 77 78 42 pint:PI0957|3end_conserved_hypothetical_protein_889987..890137_POSITIVE 243 93 54 128 91 pint:PI0829|3end_nucleotidyl_transferase_family;_possible_mannose-1-phosphate_guanyltransferase_766539..766689_POSITIVE 240 49 6 121 70 pint:PI0866|3end_hypothetical_protein_803993..804143_POSITIVE 240 194 157 150 113 pint:PI0539|3end_hypothetical_protein_493728..493878_POSITIVE 236 90 43 145 100 pint:PI1490|3end_GTP_cyclohydrolase_I_1409127..1409277_POSITIVE