Origin IGS: accctgttgacaggagacggattgatgaagtcacttgaggggaggttgcaaggttcgaatccttgacgggcacaataagaataacgattaaatgccattagaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attctaatggcatttaatcgttattcttattgtgcccgtcaaggattcgaaccttgcaacctcccctcaagtgacttcatcaatccgtctcctgtcaacagggt Mask Tandem Repeat Region ================================================ accctgttgacaggagacggattgatgaagtcacttgaggggaggttgcaaggttcgaatccttgacgggcacaataagaataacgattaaatgccattagaat Find is-nt database================================================ Query_seq: PI0331:PI0332|PI0331:PI0332:hypothetical protein:conserved hypothetical protein:->->:312636..312739 104 accctgttgacaggagacggattgatgaagtcacttgaggggaggttgcaaggttcgaatccttgacgggcacaataagaataacgattaaatgccattagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0331:PI0332|PI0331:PI0332:hypothetical protein:conserved hypothetical protein:->->:312636..312739 104 accctgttgacaggagacggattgatgaagtcacttgaggggaggttgcaaggttcgaatccttgacgggcacaataagaataacgattaaatgccattagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0331:PI0332|PI0331:PI0332:hypothetical protein:conserved hypothetical protein:->->:312636..312739 104 accctgttgacaggagacggattgatgaagtcacttgaggggaggttgcaaggttcgaatccttgacgggcacaataagaataacgattaaatgccattagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 accctgttgacaggagacggattgatgaagtcacttgaggggaggttgcaaggttcgaatccttgacgggcacaataagaataacgattaaatgccattagaat Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 3 End: 104 .. R N V P S P N I F D S S P L N C P E F G Q R A C Y S Y R N F A M L M accctgttgacaggagacggattgatgaagtcacttgaggggaggttgcaaggttcgaatccttgacgggcacaataagaataacgattaaatgccattagaat 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================================================ accctgttgacaggagacggattgatgaagtcacttgaggggaggttgcaaggttcgaatccttgacgggcacaataagaataacgattaaatgccattagaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0331:PI0332|PI0331:PI0332:hypothetical protein:conserved hypothetical protein:->->:312636..312739 104 accctgttgacaggagacggattgatgaagtcacttgaggggaggttgcaaggttcgaatccttgacgggcacaataagaataacgattaaatgccattagaat Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: pint_PI0331_PI0332|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[312636,312739]|104 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 accctgttgacaggagacggattgatgaagtcacttgaggggaggttgcaaggttcgaatccttgacgggcacaataagaataacgattaaatgccattagaat accctgttgacaggagacggattgatgaagtcacttgaggggaggttgcaaggttcgaatccttgacgggcacaataagaataacgattaaatgccattagaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCCUGUUGACAGGAGACGGAUUGAUGAAGUCACUUGAGGGGAGGUUGCAAGGUUCGAAUCCUUGACGGGCACAAUAAGAAUAACGAUUAAAUGCCAUUAGAAU .((((.....((((.(((...........))).)))).))))......(((((.......)))))...((((...(((.........)))..))))........ (-20.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCUAAUGGCAUUUAAUCGUUAUUCUUAUUGUGCCCGUCAAGGAUUCGAACCUUGCAACCUCCCCUCAAGUGACUUCAUCAAUCCGUCUCCUGUCAACAGGGU ........(((((..................))))).(.(((((.......))))))......((((....((((..................))))..)))). (-17.44) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 362 50 1 113 63 pint:PI1042|5end_hypothetical_protein_961452..961682_POSITIVE 341 71 34 185 138 pint:PI1166|5end_hypothetical_protein_1089305..1089535_POSITIVE 314 58 12 165 109 pint:PI0908|5end_conserved_hypothetical_protein_836870..837100_POSITIVE 309 69 29 95 60 pint:PI0439|5end_conserved_hypothetical_protein;_possible_preprotein_translocase_subunit_SecE_410319..410549_POSITIVE 308 50 1 231 167 pint:PI1675|5end_TonB-dependent_outer_membrane_receptor_1588107..1588337_POSITIVE 308 75 35 66 21 pint:PI0365|5end_hypothetical_protein_335721..335951_POSITIVE 306 71 39 70 35 pint:PI1723|5end_conserved_hypothetical_protein_1641649..1641879_POSITIVE 306 50 1 111 66 pint:PI1271|5end_transcriptional_regulator,__AraC/XylS_family_1190755..1190985_POSITIVE 306 66 24 51 17 pint:PI0480|5end_preprotein_translocase,_SecY_subunit_441576..441806_POSITIVE 302 50 4 108 53 pint:PI0218|5end_conserved_hypothetical_protein_210770..211000_POSITIVE 298 50 4 163 125 pint:PI0252|5end_conserved_hypothetical_protein_247761..247991_POSITIVE 294 70 36 37 7 pint:PI1418|5end_UDP-N-acetylglucosamine_2-epimerase_1337985..1338215_POSITIVE 293 73 36 78 28 pint:PI2140|5end_conserved_hypothetical_protein_2086773..2087003_POSITIVE 291 85 41 101 50 pint:PI1892|5end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_1834217..1834447_POSITIVE 290 97 51 185 145 pint:PI1617|5end_hypothetical_protein_1542923..1543153_POSITIVE 287 69 27 97 47 pint:PI0495|5end_conserved_hypothetical_protein_454872..455102_POSITIVE 287 69 27 88 38 pint:PI0494|5end_hypothetical_protein_454863..455093_POSITIVE 286 57 13 87 47 pint:PI1636|5end_hypothetical_protein_1554246..1554476_POSITIVE 283 79 33 104 43 pint:PI2039|5end_hypothetical_protein_1992633..1992863_POSITIVE 282 56 11 148 111 pint:PI1898|5end_S-adenosyl-methyltransferase_1841288..1841518_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 317 58 11 49 1 pint:PI0057|3end_conserved_hypothetical_protein_56512..56662_POSITIVE 314 58 12 128 72 pint:PI0907|3end_NAD-dependent_DNA_ligase_836913..837063_POSITIVE 307 86 42 126 84 pint:PI1802|3end_50S_ribosomal_protein_L13_1734957..1735107_POSITIVE 306 50 1 105 60 pint:PI1270|3end_probable_dipeptidyl_peptidase_1190829..1190979_POSITIVE 306 66 24 43 9 pint:PI0479|3end_50S_ribosomal_protein_L15_441648..441798_POSITIVE 303 60 12 126 75 pint:PI1421|3end_hypothetical_protein_1342120..1342270_POSITIVE 303 72 36 77 37 pint:PI1414|3end_conserved_hypothetical_protein_1334436..1334586_POSITIVE 298 50 4 132 94 pint:PI0251|3end_hypothetical_protein_247810..247960_POSITIVE 295 57 12 60 1 pint:PI0273|3end_hypothetical_protein_263284..263434_POSITIVE 287 69 27 57 7 pint:PI0493|3end_surface_antigen_BspA_454912..455062_POSITIVE 286 57 13 67 27 pint:PI1635|3end_hypothetical_protein_1554306..1554456_POSITIVE 282 74 32 106 56 pint:PI0944|3end_hypothetical_protein_875249..875399_POSITIVE 282 71 31 137 98 pint:PI0346|3end_hypothetical_protein_321330..321480_POSITIVE 279 57 14 115 70 pint:PI1366|3end_conserved_hypothetical_protein;_possible_hydrolase,_HAD_superfamily_1286647..1286797_POSITIVE 278 90 41 130 64 pint:PI1962|3end_conserved_hypothetical_protein_1920706..1920856_POSITIVE 278 59 11 117 67 pint:PI0769|3end_phosphomannomutase_706172..706322_POSITIVE 270 49 3 114 77 pint:PI0403|3end_probable_integrase_371125..371275_POSITIVE 269 80 36 147 92 pint:PI1856|3end_nicotinate-nucleotide_adenylyltransferase_1803885..1804035_POSITIVE 268 55 11 142 102 pint:PI1174|3end_hypothetical_protein_1097042..1097192_POSITIVE 266 58 12 131 78 pint:PI0275|3end_hypothetical_protein_264489..264639_POSITIVE