Origin IGS: taagagctatgagaaggttaggttattgaacaagtctggtatggttataagatgagtacggcggctgtacagtggctttgtactgaaacaatcatatctctgcagctccatcgttctgcattccttgtctaataaaagcagtctatttctttgatgtttctactatttccattacctttgcatatattaaaaactcgaagat .........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 atcttcgagtttttaatatatgcaaaggtaatggaaatagtagaaacatcaaagaaatagactgcttttattagacaaggaatgcagaacgatggagctgcagagatatgattgtttcagtacaaagccactgtacagccgccgtactcatcttataaccataccagacttgttcaataacctaaccttctcatagctctta Mask Tandem Repeat Region ================================================ taagagctatgagaaggttaggttattgaacaagtctggtatggttataagatgagtacggcggctgtacagtggctttgtactgaaacaatcatatctctgcagctccatcgttctgcattccttgtctaataaaagcagtctatttctttgatgtttctactatttccattacctttgcatatattaaaaactcgaagat Find is-nt database================================================ Query_seq: PI2046:PI2047|PI2046:PI2047:hypothetical protein:UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diamino pimelate--D-alanyl-D-alanyl ligase:->->:1999266..1999467 202 taagagctatgagaaggttaggttattgaacaagtctggtatggttataagatgagtacggcggctgtacagtggctttgtactgaaacaatcatatctctgcagctccatcgttctgcattccttgtctaataaaagcagtctatttctttgatgtttctactatttccattacctttgcatatattaaaaactcgaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2046:PI2047|PI2046:PI2047:hypothetical protein:UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diamino pimelate--D-alanyl-D-alanyl ligase:->->:1999266..1999467 202 taagagctatgagaaggttaggttattgaacaagtctggtatggttataagatgagtacggcggctgtacagtggctttgtactgaaacaatcatatctctgcagctccatcgttctgcattccttgtctaataaaagcagtctatttctttgatgtttctactatttccattacctttgcatatattaaaaactcgaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2046:PI2047|PI2046:PI2047:hypothetical protein:UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diamino pimelate--D-alanyl-D-alanyl ligase:->->:1999266..1999467 202 taagagctatgagaaggttaggttattgaacaagtctggtatggttataagatgagtacggcggctgtacagtggctttgtactgaaacaatcatatctctgcagctccatcgttctgcattccttgtctaataaaagcagtctatttctttgatgtttctactatttccattacctttgcatatattaaaaactcgaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagagctatgagaaggttaggttattgaacaagtctggtatggttataagatgagtacggcggctgtacagtggctttgtactgaaacaatcatatctctgcagctccatcgttctgcattccttgtctaataaaagcagtctatttctttgatgtttctactatttccattacctttgcatatattaaaaactcgaagat Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 25 End: 129 ........................ M E Q V W Y G Y K M S T A A V Q W L C T E T I I S L Q L H R S A F L V ......................................................................... Protein_Len: 35 Strand: + Start: 96 End: 200 ............................................................................................... M S A A P S F C I P C L I K A V Y F F D V S T I S I T F A Y I K N S K .. Protein_Len: 44 Strand: - Start: 10 End: 141 ......... S F T L N N F L D P I T I L H T R R S Y L P K T S F C D Y R Q L E M T R C E K D L L L M ............................................................. taagagctatgagaaggttaggttattgaacaagtctggtatggttataagatgagtacggcggctgtacagtggctttgtactgaaacaatcatatctctgcagctccatcgttctgcattccttgtctaataaaagcagtctatttctttgatgtttctactatttccattacctttgcatatattaaaaactcgaagat 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================================================ taagagctatgagaaggttaggttattgaacaagtctggtatggttataagatgagtacggcggctgtacagtggctttgtactgaaacaatcatatctctgcagctccatcgttctgcattccttgtctaataaaagcagtctatttctttgatgtttctactatttccattacctttgcatatattaaaaactcgaagat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI2046:PI2047|PI2046:PI2047:hypothetical protein:UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diamino pimelate--D-alanyl-D-alanyl ligase:->->:1999266..1999467 202 taagagctatgagaaggttaggttattgaacaagtctggtatggttataagatgagtacggcggctgtacagtggctttgtactgaaacaatcatatctctgcagctccatcgttctgcattccttgtctaataaaagcagtctatttctttgatgtttctactatttccattacctttgcatatattaaaaactcgaagat Intra-Species Hit: Count: 1 Min: 1 Max: 202 Len: 202 Subject: pint_PI2046_PI2047|hypothetical protein:UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diamino pimelate--D-alanyl-D-alanyl ligase|POSITIVE:POSITIVE|[1999266,1999467]|202 HSP 1 e-value: 1.0E-111 bit: 400.0 Len: 202 Query Start:1 Query End:202 Subject Strand: POSITIVE Subject Start: 1 Subject End: 202 taagagctatgagaaggttaggttattgaacaagtctggtatggttataagatgagtacggcggctgtacagtggctttgtactgaaacaatcatatctctgcagctccatcgttctgcattccttgtctaataaaagcagtctatttctttgatgtttctactatttccattacctttgcatatattaaaaactcgaagat taagagctatgagaaggttaggttattgaacaagtctggtatggttataagatgagtacggcggctgtacagtggctttgtactgaaacaatcatatctctgcagctccatcgttctgcattccttgtctaataaaagcagtctatttctttgatgtttctactatttccattacctttgcatatattaaaaactcgaagat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAGCUAUGAGAAGGUUAGGUUAUUGAACAAGUCUGGUAUGGUUAUAAGAUGAGUACGGCGGCUGUACAGUGGCUUUGUACUGAAACAAUCAUAUCUCUGCAGCUCCAUCGUUCUGCAUUCCUUGUCUAAUAAAAGCAGUCUAUUUCUUUGAUGUUUCUACUAUUUCCAUUACCUUUGCAUAUAUUAAAAACUCGAAGAU ...........(((..(((...((((((.(((((...(((((((((......(.((((((((.(((....))).)))..))))).)...)))))))))..(((((..(....)..)))))...))))).)))))).)))..)))...(((((((.((((.((.(((...((.......))...))).)).))))))))))). (-44.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUUCGAGUUUUUAAUAUAUGCAAAGGUAAUGGAAAUAGUAGAAACAUCAAAGAAAUAGACUGCUUUUAUUAGACAAGGAAUGCAGAACGAUGGAGCUGCAGAGAUAUGAUUGUUUCAGUACAAAGCCACUGUACAGCCGCCGUACUCAUCUUAUAACCAUACCAGACUUGUUCAAUAACCUAACCUUCUCAUAGCUCUUA ......((((........((((..(((((...((....(((((..................))))).(((((..(((((...(((((..(....)..)))))(((.((((.((((..((((........)))).))))....)))))))...................)))))..)))))))..)))))..))))))))... (-35.67) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 339 77 31 52 7 pint:PI1989|5end_conserved_hypothetical_protein;_possible_thioredoxin_1944018..1944248_POSITIVE 324 75 37 158 113 pint:PI0520|5end_hypothetical_protein_478755..478985_POSITIVE 312 82 51 186 147 pint:PI1299|5end_glycosyltransferase_1212191..1212421_POSITIVE 303 83 41 52 5 pint:PI1110|5end_probable_glycosyltransferase,_family_8_1033669..1033899_POSITIVE 302 80 31 193 130 pint:PI1660|5end_hypothetical_protein_1574659..1574889_POSITIVE 298 76 33 225 172 pint:PI1937|5end_hypothetical_protein_1889411..1889641_POSITIVE 297 80 31 209 156 pint:PI1508|5end_undecaprenol_kinase_1427288..1427518_POSITIVE 292 88 41 153 114 pint:PI1768|5end_conserved_hypothetical_protein_1695456..1695686_POSITIVE 289 80 33 180 144 pint:PI0754|5end_possible_outer_membrane_receptor_683771..684001_POSITIVE 286 80 31 122 72 pint:PI1543|5end_hypothetical_protein_1462773..1463003_POSITIVE 286 82 41 89 39 pint:PI0175|5end_succinyl-CoA_synthetase_beta_subunit_167023..167253_POSITIVE 285 66 34 55 23 pint:PI1707|5end_GTP-binding_protein_1623795..1624025_POSITIVE 284 150 101 208 151 pint:PI1388|5end_transcriptional_regulator,_LuxR_family_1309354..1309584_POSITIVE 283 76 35 126 77 pint:PI2081|5end_conserved_hypothetical_protein;_possible_integrase_2038302..2038532_POSITIVE 283 85 59 66 34 pint:PI1921|5end_conserved_hypothetical_protein_1863917..1864147_POSITIVE 283 88 41 58 15 pint:PI1376|5end_outer_membrane_protein_1297965..1298195_POSITIVE 282 79 33 63 7 pint:PI0209|5end_hypothetical_protein_202723..202953_POSITIVE 281 105 61 80 35 pint:PI1887|5end_cell_division_protein_1829115..1829345_POSITIVE 280 73 36 141 101 pint:PI0718|5end_hypothetical_protein_653725..653955_POSITIVE 280 109 62 53 4 pint:PI0576|5end_helicase,_UvrD/Rep_520226..520456_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 391 86 41 85 41 pint:PI1389|3end_transcriptional_regulator,_LuxR_family_1310832..1310982_POSITIVE 343 109 62 145 96 pint:PI1623|3end_hypothetical_protein_1549261..1549411_POSITIVE 324 75 37 132 87 pint:PI0519|3end_5'-nucleotidase/2',3'-cyclic_phosphodiesterase_478809..478959_POSITIVE 321 82 49 150 118 pint:PI1271|3end_transcriptional_regulator,__AraC/XylS_family_1191284..1191434_POSITIVE 318 90 51 69 28 pint:PI2041|3end_conserved_hypothetical_protein_1994660..1994810_POSITIVE 311 109 62 111 53 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 306 109 62 145 96 pint:PI0330|3end_hypothetical_protein_312545..312695_POSITIVE 303 81 47 67 33 pint:PI1599|3end_predicted_TPR-repeat-containing_protein_1529176..1529326_POSITIVE 286 80 31 135 85 pint:PI1542|3end_mobilization_protein_1462866..1463016_POSITIVE 286 82 41 56 6 pint:PI0174|3end_succinyl-CoA_synthetase_alpha_subunit_167070..167220_POSITIVE 283 80 32 103 58 pint:PI0189|3end_integrase_180437..180587_POSITIVE 279 75 31 79 39 pint:PI1749|3end_conserved_hypothetical_protein_1671637..1671787_POSITIVE 279 60 11 114 55 pint:PI0537|3end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_492412..492562_POSITIVE 276 115 71 114 70 pint:PI0419|3end_conserved_hypothetical_protein_387461..387611_POSITIVE 276 79 36 55 1 pint:PI0208|3end_possible_peptidase,_M23/M37_family_202795..202945_POSITIVE 275 70 21 70 13 pint:PI0535|3end_hypothetical_protein_489779..489929_POSITIVE 272 76 50 36 6 pint:PI0261|3end_conjugative_transposon_protein,_TraK_254765..254915_POSITIVE 271 120 75 43 2 pint:PI0290|3end_conserved_hypothetical_protein_274131..274281_POSITIVE 268 79 31 111 60 pint:PI1712|3end_hypothetical_protein_1627774..1627924_POSITIVE 267 139 101 151 111 pint:PI0563|3end_possible_integral_membrane_protein_511179..511329_POSITIVE