Origin IGS: taaggttatggcaccacgctactttcaagttagctgcagaaactgttcgcaacagtttagtattcaggcagaagaaggtatcaccgtgaagtgtaactgtcctttctgtggaacggaatccaccgttgcagtgccgttgttgtcggctaagaaggcagaagaaagaaagcagaagccccgtataagcagtgttggcaagaaggtaatcgtaggtttccttatat .........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 atataaggaaacctacgattaccttcttgccaacactgcttatacggggcttctgctttctttcttctgccttcttagccgacaacaacggcactgcaacggtggattccgttccacagaaaggacagttacacttcacggtgataccttcttctgcctgaatactaaactgttgcgaacagtttctgcagctaacttgaaagtagcgtggtgccataacctta Mask Tandem Repeat Region ================================================ taaggttatggcaccacgctactttcaagttagctgcagaaactgttcgcaacagtttagtattcaggcagaagaaggtatcaccgtgaagtgtaactgtcctttctgtggaacggaatccaccgttgcagtgccgttgttgtcggctaagaaggcagaagaaagaaagcagaagccccgtataagcagtgttggcaagaaggtaatcgtaggtttccttatat Find is-nt database================================================ Query_seq: PI0888:PI0889|PI0888:PI0889:hypothetical protein:pyruvate kinase:->->:818674..818897 224 taaggttatggcaccacgctactttcaagttagctgcagaaactgttcgcaacagtttagtattcaggcagaagaaggtatcaccgtgaagtgtaactgtcctttctgtggaacggaatccaccgttgcagtgccgttgttgtcggctaagaaggcagaagaaagaaagcagaagccccgtataagcagtgttggcaagaaggtaatcgtaggtttccttatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0888:PI0889|PI0888:PI0889:hypothetical protein:pyruvate kinase:->->:818674..818897 224 taaggttatggcaccacgctactttcaagttagctgcagaaactgttcgcaacagtttagtattcaggcagaagaaggtatcaccgtgaagtgtaactgtcctttctgtggaacggaatccaccgttgcagtgccgttgttgtcggctaagaaggcagaagaaagaaagcagaagccccgtataagcagtgttggcaagaaggtaatcgtaggtttccttatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0888:PI0889|PI0888:PI0889:hypothetical protein:pyruvate kinase:->->:818674..818897 224 taaggttatggcaccacgctactttcaagttagctgcagaaactgttcgcaacagtttagtattcaggcagaagaaggtatcaccgtgaagtgtaactgtcctttctgtggaacggaatccaccgttgcagtgccgttgttgtcggctaagaaggcagaagaaagaaagcagaagccccgtataagcagtgttggcaagaaggtaatcgtaggtttccttatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaggttatggcaccacgctactttcaagttagctgcagaaactgttcgcaacagtttagtattcaggcagaagaaggtatcaccgtgaagtgtaactgtcctttctgtggaacggaatccaccgttgcagtgccgttgttgtcggctaagaaggcagaagaaagaaagcagaagccccgtataagcagtgttggcaagaaggtaatcgtaggtttccttatat Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 8 End: 223 ....... M A P R Y F Q V S C R N C S Q Q F S I Q A E E G I T V K C N C P F C G T E S T V A V P L L S A K K A E E R K Q K P R I S . Protein_Len: 52 Strand: - Start: 67 End: 222 .................................................................. A S S P I V T F H L Q G K Q P V S D V T A T G N N D A L F A S S L F C F G R I L L T P L F T I T P K R M .. Protein_Len: 57 Strand: - Start: 2 End: 172 . L N H C W A V K L N A A S V T R L L K T N L C F F T D G H L T V T R E T S R F G G N C H R Q Q R S L L C F F S L M .................................................... taaggttatggcaccacgctactttcaagttagctgcagaaactgttcgcaacagtttagtattcaggcagaagaaggtatcaccgtgaagtgtaactgtcctttctgtggaacggaatccaccgttgcagtgccgttgttgtcggctaagaaggcagaagaaagaaagcagaagccccgtataagcagtgttggcaagaaggtaatcgtaggtttccttatat 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================================================ taaggttatggcaccacgctactttcaagttagctgcagaaactgttcgcaacagtttagtattcaggcagaagaaggtatcaccgtgaagtgtaactgtcctttctgtggaacggaatccaccgttgcagtgccgttgttgtcggctaagaaggcagaagaaagaaagcagaagccccgtataagcagtgttggcaagaaggtaatcgtaggtttccttatat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0888:PI0889|PI0888:PI0889:hypothetical protein:pyruvate kinase:->->:818674..818897 224 taaggttatggcaccacgctactttcaagttagctgcagaaactgttcgcaacagtttagtattcaggcagaagaaggtatcaccgtgaagtgtaactgtcctttctgtggaacggaatccaccgttgcagtgccgttgttgtcggctaagaaggcagaagaaagaaagcagaagccccgtataagcagtgttggcaagaaggtaatcgtaggtttccttatat Intra-Species Hit: Count: 1 Min: 1 Max: 224 Len: 224 Subject: pint_PI0888_PI0889|hypothetical protein:pyruvate kinase|POSITIVE:POSITIVE|[818674,818897]|224 HSP 1 e-value: 1.0E-124 bit: 444.0 Len: 224 Query Start:1 Query End:224 Subject Strand: POSITIVE Subject Start: 1 Subject End: 224 taaggttatggcaccacgctactttcaagttagctgcagaaactgttcgcaacagtttagtattcaggcagaagaaggtatcaccgtgaagtgtaactgtcctttctgtggaacggaatccaccgttgcagtgccgttgttgtcggctaagaaggcagaagaaagaaagcagaagccccgtataagcagtgttggcaagaaggtaatcgtaggtttccttatat taaggttatggcaccacgctactttcaagttagctgcagaaactgttcgcaacagtttagtattcaggcagaagaaggtatcaccgtgaagtgtaactgtcctttctgtggaacggaatccaccgttgcagtgccgttgttgtcggctaagaaggcagaagaaagaaagcagaagccccgtataagcagtgttggcaagaaggtaatcgtaggtttccttatat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGGUUAUGGCACCACGCUACUUUCAAGUUAGCUGCAGAAACUGUUCGCAACAGUUUAGUAUUCAGGCAGAAGAAGGUAUCACCGUGAAGUGUAACUGUCCUUUCUGUGGAACGGAAUCCACCGUUGCAGUGCCGUUGUUGUCGGCUAAGAAGGCAGAAGAAAGAAAGCAGAAGCCCCGUAUAAGCAGUGUUGGCAAGAAGGUAAUCGUAGGUUUCCUUAUAU (((((.......((((((.(((((((..(((((((((..(((((((.....))))))).((((...(((.......((.....))...........((((.((((((.((.(((((......))))).))..((((.......))))............))))))...))))..)))..))))..)))))..))))..)))))))..))).)))..)))))... (-59.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUAAGGAAACCUACGAUUACCUUCUUGCCAACACUGCUUAUACGGGGCUUCUGCUUUCUUUCUUCUGCCUUCUUAGCCGACAACAACGGCACUGCAACGGUGGAUUCCGUUCCACAGAAAGGACAGUUACACUUCACGGUGAUACCUUCUUCUGCCUGAAUACUAAACUGUUGCGAACAGUUUCUGCAGCUAACUUGAAAGUAGCGUGGUGCCAUAACCUUA ...(((((........((......))...................((.(((.((((((((......((((.......((((.......))))..((((((((((((......))).((((((((...(((((........))))).)))..)))))............)))))))))..........)))).......))))))))...))).))....))))) (-53.72) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 432 187 143 96 45 pint:PI0245|5end_possible_mobilization_protein_242946..243176_POSITIVE 398 150 103 86 33 pint:PI1980|5end_conserved_hypothetical_protein_1937470..1937700_POSITIVE 393 198 151 45 2 pint:PI1378|5end_GTP-binding_protein_lepA_1299904..1300134_POSITIVE 376 156 114 181 135 pint:PI1404|5end_hypothetical_protein_1324903..1325133_POSITIVE 358 140 93 122 76 pint:PI0938|5end_hypothetical_protein_869345..869575_POSITIVE 355 118 76 216 173 pint:PI1546|5end_mobilizable_transposon,_excision_protein_1464060..1464290_POSITIVE 355 170 129 64 1 pint:PI0164|5end_conserved_hypothetical_protein_158478..158708_POSITIVE 354 170 122 73 35 pint:PI1668|5end_conserved_hypothetical_protein_1580692..1580922_POSITIVE 346 156 114 58 13 pint:PI1933|5end_hypothetical_protein_1879925..1880155_POSITIVE 342 149 101 69 24 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 342 147 101 223 158 pint:PI0626|5end_penicillin-binding_protein,_D-alanyl-D-alanine_carboxypeptidase_574305..574535_POSITIVE 342 147 101 121 56 pint:PI0624|5end_hypothetical_protein_574203..574433_POSITIVE 339 109 64 153 101 pint:PI1306|5end_dipeptidyl_peptidase_IV_1220264..1220494_POSITIVE 339 156 113 221 164 pint:PI0953|5end_hypothetical_protein_885119..885349_POSITIVE 339 138 92 92 43 pint:PI0836|5end_conserved_hypothetical_protein_772063..772293_POSITIVE 338 140 97 212 150 pint:PI0351|5end_hypothetical_protein_324317..324547_POSITIVE 338 132 92 227 186 pint:PI0113|5end_arginyl-tRNA_synthetase_108371..108601_POSITIVE 334 162 124 184 133 pint:PI1802|5end_50S_ribosomal_protein_L13_1734350..1734580_POSITIVE 333 133 91 122 80 pint:PI2006|5end_potassium_uptake_system_protein_1964480..1964710_POSITIVE 333 160 111 99 37 pint:PI1199|5end_possible_acetyltransferase_1115139..1115369_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 170 122 73 35 pint:PI1667|3end_conserved_hypothetical_protein_1580772..1580922_POSITIVE 351 146 101 65 26 pint:PI1226|3end_hypothetical_protein_1148263..1148413_POSITIVE 342 149 101 60 15 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 339 150 103 79 24 pint:PI1439|3end_hypothetical_protein_1360346..1360496_POSITIVE 333 180 131 119 76 pint:PI2088|3end_conserved_hypothetical_protein;_possible_PAP2_superfamily_protein_2045815..2045965_POSITIVE 333 160 111 99 37 pint:PI1198|3end_acetyltransferase_1115219..1115369_POSITIVE 331 149 102 104 41 pint:PI1347|3end_DNA_damage-inducible_protein_1262178..1262328_POSITIVE 327 187 143 51 2 pint:PI0160|3end_conserved_hypothetical_protein_153268..153418_POSITIVE 326 130 82 147 102 pint:PI0936|3end_conserved_hypothetical_protein_869464..869614_POSITIVE 325 144 102 48 7 pint:PI1825|3end_2-C-methyl-D-erythritol_4-phosphate_cytidylyltransferase_1765705..1765855_POSITIVE 324 157 113 75 31 pint:PI1850|3end_prenyltransferase,_UbiA_family_1796922..1797072_POSITIVE 323 139 93 54 1 pint:PI0111|3end_hypothetical_protein_108265..108415_POSITIVE 316 52 21 148 114 pint:PI0682|3end_hypothetical_protein_619372..619522_POSITIVE 315 159 113 90 32 pint:PI1488|3end_hypothetical_protein_1407829..1407979_POSITIVE 313 198 154 139 97 pint:PI2086|3end_signal_peptidase_I_2043450..2043600_POSITIVE 312 170 124 83 35 pint:PI1758|3end_hypothetical_protein_1684057..1684207_POSITIVE 311 140 92 121 71 pint:PI1695|3end_hypothetical_protein_1610310..1610460_POSITIVE 308 77 31 88 26 pint:PI0033|3end_peptidylprolyl_isomerase_37101..37251_POSITIVE 306 213 173 150 109 pint:PI2073|3end_mobilization_protein_2033487..2033637_POSITIVE 306 136 100 54 8 pint:PI0265|3end_conjugative_transposon_protein,_TraO_257957..258107_POSITIVE