Origin IGS: gatgatattaattttttagttgaacttatttattattatattattattttttcaaaggggtgtataggtttagttatacgtctgcgaaattaaagaaattatttgatataggcaaatatttaagcatattttcacattatattttattgtgcaatcattcttttttgctcgcaaattgcaaattacacaacattataacactgctgcta .........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 tagcagcagtgttataatgttgtgtaatttgcaatttgcgagcaaaaaagaatgattgcacaataaaatataatgtgaaaatatgcttaaatatttgcctatatcaaataatttctttaatttcgcagacgtataactaaacctatacacccctttgaaaaaataataatataataataaataagttcaactaaaaaattaatatcatc Mask Tandem Repeat Region ================================================ gatgatattaattttttagttgaacttatttattattatattattattttttcaaaggggtgtataggtttagttatacgtctgcgaaattaaagaaattatttgatataggcaaatatttaagcatattttcacattatattttattgtgcaatcattcttttttgctcgcaaattgcaaattacacaacattataacactgctgcta Find is-nt database================================================ Query_seq: PI0774:PI0775|PI0774:PI0775:phosphoserine aminotransferase (phosphoserine transaminase):ATP-independent RNA helicase:->->:710705..710913 209 gatgatattaattttttagttgaacttatttattattatattattattttttcaaaggggtgtataggtttagttatacgtctgcgaaattaaagaaattatttgatataggcaaatatttaagcatattttcacattatattttattgtgcaatcattcttttttgctcgcaaattgcaaattacacaacattataacactgctgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0774:PI0775|PI0774:PI0775:phosphoserine aminotransferase (phosphoserine transaminase):ATP-independent RNA helicase:->->:710705..710913 209 gatgatattaattttttagttgaacttatttattattatattattattttttcaaaggggtgtataggtttagttatacgtctgcgaaattaaagaaattatttgatataggcaaatatttaagcatattttcacattatattttattgtgcaatcattcttttttgctcgcaaattgcaaattacacaacattataacactgctgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0774:PI0775|PI0774:PI0775:phosphoserine aminotransferase (phosphoserine transaminase):ATP-independent RNA helicase:->->:710705..710913 209 gatgatattaattttttagttgaacttatttattattatattattattttttcaaaggggtgtataggtttagttatacgtctgcgaaattaaagaaattatttgatataggcaaatatttaagcatattttcacattatattttattgtgcaatcattcttttttgctcgcaaattgcaaattacacaacattataacactgctgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatgatattaattttttagttgaacttatttattattatattattattttttcaaaggggtgtataggtttagttatacgtctgcgaaattaaagaaattatttgatataggcaaatatttaagcatattttcacattatattttattgtgcaatcattcttttttgctcgcaaattgcaaattacacaacattataacactgctgcta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 116 End: 208 ................................................................................................................... M F K H I F T L Y F I V Q S F F F A R K L Q I T Q H Y N T A A . Protein_Len: 50 Strand: + Start: 60 End: 209 ........................................................... M Y R F S Y T S A K L K K L F D I G K Y L S I F S H Y I L L C N H S F L L A N C K L H N I I T L L L Protein_Len: 37 Strand: - Start: 73 End: 183 ........................................................................ N Y T Q S I L S I I Q Y L C I N L C I K V N Y K I T C D N K K A R L N C M .......................... gatgatattaattttttagttgaacttatttattattatattattattttttcaaaggggtgtataggtttagttatacgtctgcgaaattaaagaaattatttgatataggcaaatatttaagcatattttcacattatattttattgtgcaatcattcttttttgctcgcaaattgcaaattacacaacattataacactgctgcta 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================================================ gatgatattaattttttagttgaacttatttattattatattattattttttcaaaggggtgtataggtttagttatacgtctgcgaaattaaagaaattatttgatataggcaaatatttaagcatattttcacattatattttattgtgcaatcattcttttttgctcgcaaattgcaaattacacaacattataacactgctgcta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0774:PI0775|PI0774:PI0775:phosphoserine aminotransferase (phosphoserine transaminase):ATP-independent RNA helicase:->->:710705..710913 209 gatgatattaattttttagttgaacttatttattattatattattattttttcaaaggggtgtataggtttagttatacgtctgcgaaattaaagaaattatttgatataggcaaatatttaagcatattttcacattatattttattgtgcaatcattcttttttgctcgcaaattgcaaattacacaacattataacactgctgcta Intra-Species Hit: Count: 1 Min: 53 Max: 209 Len: 157 Subject: pint_PI0774_PI0775|phosphoserine aminotransferase (phosphoserine transaminase):ATP-independent RNA helicase|POSITIVE:POSITIVE|[710705,710913]|209 HSP 1 e-value: 5.0E-84 bit: 311.0 Len: 157 Query Start:53 Query End:209 Subject Strand: POSITIVE Subject Start: 53 Subject End: 209 ....................................................caaaggggtgtataggtttagttatacgtctgcgaaattaaagaaattatttgatataggcaaatatttaagcatattttcacattatattttattgtgcaatcattcttttttgctcgcaaattgcaaattacacaacattataacactgctgcta ....................................................caaaggggtgtataggtttagttatacgtctgcgaaattaaagaaattatttgatataggcaaatatttaagcatattttcacattatattttattgtgcaatcattcttttttgctcgcaaattgcaaattacacaacattataacactgctgcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAAGGGGUGUAUAGGUUUAGUUAUACGUCUGCGAAAUUAAAGAAAUUAUUUGAUAUAGGCAAAUAUUUAAGCAUAUUUUCACAUUAUAUUUUAUUGUGCAAUCAUUCUUUUUUGCUCGCAAAUUGCAAAUUACACAACAUUAUAACACUGCUGCUA ...((.(((((((((((((((((....((.(((((.(..((((((..((((((.......)))))).....(((((...................))))).....))))))..)..))))).))....)))))...))).)))).))))).)).... (-26.41) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCAGCAGUGUUAUAAUGUUGUGUAAUUUGCAAUUUGCGAGCAAAAAAGAAUGAUUGCACAAUAAAAUAUAAUGUGAAAAUAUGCUUAAAUAUUUGCCUAUAUCAAAUAAUUUCUUUAAUUUCGCAGACGUAUAACUAAACCUAUACACCCCUUUG ........((((.(((.((((((((((((..(..((((....))))...)...))))))))))))...((((.(((((((.((.....((.((((((.......)))))).))....)).)))))))....))))........)))))))....... (-25.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 292 128 82 192 143 pint:PI0429|5end_hypothetical_protein_396418..396648_POSITIVE 244 88 56 125 95 pint:PI0168|5end_methionyl-tRNA_synthetase_(methionine--tRNA_ligase)_161181..161411_POSITIVE 241 138 95 192 146 pint:PI1592|5end_conserved_hypothetical_protein;_possible_permease_1519897..1520127_POSITIVE 231 127 88 196 153 pint:PI2126|5end_conserved_hypothetical_protein_2074907..2075137_POSITIVE 221 137 91 228 177 pint:PI0659|5end_hypothetical_protein_603203..603433_POSITIVE 221 127 95 170 143 pint:PI0036|5end_glutathione_peroxidase_38598..38828_POSITIVE 219 119 95 194 168 pint:PI1237|5end_ATP-dependent_DNA_helicase_1159688..1159918_POSITIVE 215 36 5 208 172 pint:PI1223|5end_conserved_hypothetical_protein_1143537..1143767_POSITIVE 215 127 91 212 170 pint:PI0559|5end_conserved_hypothetical_protein_507668..507898_POSITIVE 213 110 75 41 4 pint:PI0966|5end_possible_glycosyl_hydrolase_894407..894637_POSITIVE 213 120 95 42 17 pint:PI0213|5end_conserved_hypothetical_protein_207065..207295_POSITIVE 210 135 93 164 126 pint:PI1722|5end_possible_peptidyl-prolyl_cis-trans_isomerase_1639536..1639766_POSITIVE 208 65 31 113 79 pint:PI1255|5end_conserved_hypothetical_protein_1176709..1176939_POSITIVE 207 40 3 216 179 pint:PI1749|5end_conserved_hypothetical_protein_1671039..1671269_POSITIVE 207 140 97 159 121 pint:PI0581|5end_conserved_hypothetical_protein_525055..525285_POSITIVE 206 43 3 167 119 pint:PI1476|5end_acyl-CoA_synthase/O-succinylbenzoic_acid-CoA_ligase_1397699..1397929_POSITIVE 206 42 4 59 5 pint:PI1106|5end_conserved_hypothetical_protein_1030466..1030696_POSITIVE 206 129 96 72 30 pint:PI0587|5end_conserved_hypothetical_protein_534416..534646_POSITIVE 204 117 72 112 69 pint:PI1386|5end_sugar_phosphate_isomerase_1307004..1307234_POSITIVE 204 140 93 153 104 pint:PI1157|5end_hypothetical_protein_1081704..1081934_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 244 88 56 122 92 pint:PI0166|3end_hypothetical_protein_161258..161408_POSITIVE 221 127 95 134 107 pint:PI0035|3end_NAD-dependent_protein_deacetylase,_SIR2_family_38642..38792_POSITIVE 210 135 93 144 106 pint:PI1721|3end_peptidyl-prolyl_cis-trans_isomerase,_PPIC-type_1639596..1639746_POSITIVE 204 117 72 87 44 pint:PI1385|3end_3-deoxy-d-manno-octulosonic_acid_8-phosphate_synthase_(DAHP_synthase,_Class_I)_1307059..1307209_POSITIVE 204 36 4 129 97 pint:PI1235|3end_60_kDa_chaperonin,_groEL,_cpn60_1158888..1159038_POSITIVE 204 140 93 150 101 pint:PI1156|3end_possible_glycerate_kinase_family_protein_1081781..1081931_POSITIVE 202 118 71 120 70 pint:PI1841|3end_conserved_hypothetical_protein_1787969..1788119_POSITIVE 200 33 3 144 120 pint:PI1458|3end_dihydroneopterin_aldolase_1381626..1381776_POSITIVE 200 123 91 83 45 pint:PI0857|3end_hypothetical_protein_790986..791136_POSITIVE 200 120 71 64 12 pint:PI0361|3end_hypothetical_protein_333426..333576_POSITIVE 200 120 71 110 58 pint:PI0360|3end_conserved_hypothetical_protein_333472..333622_POSITIVE 197 126 81 141 84 pint:PI1009|3end_cytochrome_c_nitrite_reductase,_large_subunit_930840..930990_POSITIVE 196 127 99 65 35 pint:PI1413|3end_hypothetical_protein_1333959..1334109_POSITIVE 196 43 4 81 44 pint:PI1297|3end_conserved_hypothetical_protein_1211264..1211414_POSITIVE 195 120 71 109 63 pint:PI0136|3end_surface_antigen_BspA_128084..128234_POSITIVE 193 120 71 149 113 pint:PI1697|3end_conserved_hypothetical_protein_1613889..1614039_POSITIVE 193 120 72 59 1 pint:PI0358|3end_hypothetical_protein_328105..328255_POSITIVE 192 45 4 123 69 pint:PI2083|3end_hypothetical_protein_2040661..2040811_POSITIVE 192 127 88 143 102 pint:PI1821|3end_possible_thioredoxin_family_protein_1761517..1761667_POSITIVE 191 140 92 127 68 pint:PI0873|3end_conserved_hypothetical_protein;_possible_permease_808956..809106_POSITIVE