Origin IGS: taaattatgttatatgcttcacatttataatatgtatgaacgcatatctttagacttaaacccaaaagagggtatgccctggtgtcagggaacaccctctctggatattttgatataattctgtcaaagatgattta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaatcatctttgacagaattatatcaaaatatccagagagggtgttccctgacaccagggcataccctcttttgggtttaagtctaaagatatgcgttcatacatattataaatgtgaagcatataacataattta Mask Tandem Repeat Region ================================================ taaattatgttatatgcttcacatttataatatgtatgaacgcatatctttagacttaaacccaaaagagggtatgccctggtgtcagggaacaccctctctggatattttgatataattctgtcaaagatgattta Find is-nt database================================================ Query_seq: PI0176:PI0177|PI0176:PI0177:hypothetical protein:2-oxoglutarate synthase, subunit korB:->->:168502..168638 137 taaattatgttatatgcttcacatttataatatgtatgaacgcatatctttagacttaaacccaaaagagggtatgccctggtgtcagggaacaccctctctggatattttgatataattctgtcaaagatgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0176:PI0177|PI0176:PI0177:hypothetical protein:2-oxoglutarate synthase, subunit korB:->->:168502..168638 137 taaattatgttatatgcttcacatttataatatgtatgaacgcatatctttagacttaaacccaaaagagggtatgccctggtgtcagggaacaccctctctggatattttgatataattctgtcaaagatgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0176:PI0177|PI0176:PI0177:hypothetical protein:2-oxoglutarate synthase, subunit korB:->->:168502..168638 137 taaattatgttatatgcttcacatttataatatgtatgaacgcatatctttagacttaaacccaaaagagggtatgccctggtgtcagggaacaccctctctggatattttgatataattctgtcaaagatgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaattatgttatatgcttcacatttataatatgtatgaacgcatatctttagacttaaacccaaaagagggtatgccctggtgtcagggaacaccctctctggatattttgatataattctgtcaaagatgattta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 14 End: 115 ............. M L H I Y N M Y E R I S L D L N P K E G M P W C Q G T P S L D I L I ...................... Protein_Len: 30 Strand: + Start: 46 End: 135 ............................................. M F R L K P K R G Y A L V S G N T L S G Y F D I I L S K M I .. Protein_Len: 44 Strand: - Start: 3 End: 134 .. I I N Y A E C K Y Y T H V C I K L S L G L L P Y A R T D P F V R E P Y K S I I R D F I M ... taaattatgttatatgcttcacatttataatatgtatgaacgcatatctttagacttaaacccaaaagagggtatgccctggtgtcagggaacaccctctctggatattttgatataattctgtcaaagatgattta 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================================================ taaattatgttatatgcttcacatttataatatgtatgaacgcatatctttagacttaaacccaaaagagggtatgccctggtgtcagggaacaccctctctggatattttgatataattctgtcaaagatgattta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -15.2 Tail_Score: -4.36595 Start: 68 End: 99 Full_Region: atcaaaatatccaga gagggtgttccctg acac cagggcataccctc ttttgggtttaagtc ...................................................................gagggtgttccctgacaccagggcataccctc...................................... Find igs database================================================ Query_seq: PI0176:PI0177|PI0176:PI0177:hypothetical protein:2-oxoglutarate synthase, subunit korB:->->:168502..168638 137 taaattatgttatatgcttcacatttataatatgtatgaacgcatatctttagacttaaacccaaaagagggtatgccctggtgtcagggaacaccctctctggatattttgatataattctgtcaaagatgattta Intra-Species Hit: Count: 1 Min: 1 Max: 137 Len: 137 Subject: pint_PI0176_PI0177|hypothetical protein:2-oxoglutarate synthase, subunit korB|POSITIVE:POSITIVE|[168502,168638]|137 HSP 1 e-value: 3.0E-72 bit: 272.0 Len: 137 Query Start:1 Query End:137 Subject Strand: POSITIVE Subject Start: 1 Subject End: 137 taaattatgttatatgcttcacatttataatatgtatgaacgcatatctttagacttaaacccaaaagagggtatgccctggtgtcagggaacaccctctctggatattttgatataattctgtcaaagatgattta taaattatgttatatgcttcacatttataatatgtatgaacgcatatctttagacttaaacccaaaagagggtatgccctggtgtcagggaacaccctctctggatattttgatataattctgtcaaagatgattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUUAUGUUAUAUGCUUCACAUUUAUAAUAUGUAUGAACGCAUAUCUUUAGACUUAAACCCAAAAGAGGGUAUGCCCUGGUGUCAGGGAACACCCUCUCUGGAUAUUUUGAUAUAAUUCUGUCAAAGAUGAUUUA ((((((((...(((((((((((((.......))))..))).))))))..............(((..(((((((...(((((....)))))...))))))).)))....(((((((......))))))).)))))))) (-37.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUCAUCUUUGACAGAAUUAUAUCAAAAUAUCCAGAGAGGGUGUUCCCUGACACCAGGGCAUACCCUCUUUUGGGUUUAAGUCUAAAGAUAUGCGUUCAUACAUAUUAUAAAUGUGAAGCAUAUAACAUAAUUUA .......((((((((.((......)).....(((((((((((((((.(((((....))))).)))))))).)))))))....))).)))))(((((.((((((...........)))))))))))............ (-42.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 365 100 52 192 151 pint:PI0815|5end_hypothetical_protein_754475..754705_POSITIVE 323 106 68 67 20 pint:PI1653|5end_hypothetical_protein_1565158..1565388_POSITIVE 310 110 64 107 57 pint:PI1314|5end_hypothetical_protein_1231188..1231418_POSITIVE 295 103 67 101 57 pint:PI0943|5end_conserved_hypothetical_protein_875153..875383_POSITIVE 290 98 53 154 102 pint:PI1536|5end_hypothetical_protein_1455555..1455785_POSITIVE 278 113 85 197 163 pint:PI1636|5end_hypothetical_protein_1554246..1554476_POSITIVE 278 104 62 149 104 pint:PI1577|5end_conserved_hypothetical_protein_1503602..1503832_POSITIVE 276 114 71 73 38 pint:PI1664|5end_conserved_hypothetical_protein_1577285..1577515_POSITIVE 268 104 62 211 149 pint:PI0198|5end_hypothetical_protein_190719..190949_POSITIVE 267 109 62 52 13 pint:PI0008|5end_exoribonuclease_II_(ribonuclease_II)_7238..7468_POSITIVE 266 85 42 231 193 pint:PI0468|5end_50S_ribosomal_protein_L29_436905..437135_POSITIVE 265 107 61 209 157 pint:PI0247|5end_conjugative_transposon_protein,_TraA_245373..245603_POSITIVE 264 103 68 32 1 pint:PI1811|5end_conserved_hypothetical_protein_1749518..1749748_POSITIVE 261 105 68 220 193 pint:PI1180|5end_ferric_uptake_regulation_protein_1101892..1102122_POSITIVE 260 105 62 63 31 pint:PI0370|5end_conserved_hypothetical_protein_340453..340683_POSITIVE 259 117 74 58 18 pint:PI1151|5end_hypothetical_protein_1076114..1076344_POSITIVE 258 98 69 220 177 pint:PI0399|5end_conserved_hypothetical_protein_363585..363815_POSITIVE 256 106 61 187 142 pint:PI0241|5end_possible_tetracycline_resistance_element_/mobilization_regulatory_protein_239627..239857_POSITIVE 256 91 52 119 75 pint:PI0069|5end_hypothetical_protein_67072..67302_POSITIVE 254 89 41 134 85 pint:PI0785|5end_hypothetical_protein_723744..723974_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 365 100 52 63 22 pint:PI0814|3end_conserved_hypothetical_protein_754426..754576_POSITIVE 323 106 68 64 17 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 310 110 64 80 30 pint:PI1313|3end_possible_POT_family_(proton-dependent_oligopeptide_transport_family)_1231241..1231391_POSITIVE 306 104 77 29 1 pint:PI0176|3end_hypothetical_protein_168441..168591_POSITIVE 295 103 67 117 73 pint:PI0944|3end_hypothetical_protein_875249..875399_POSITIVE 278 94 53 126 94 pint:PI1680|3end_conserved_hypothetical_protein_1596992..1597142_POSITIVE 276 114 71 55 20 pint:PI1663|3end_hypothetical_protein_1577347..1577497_POSITIVE 272 93 58 137 104 pint:PI1606|3end_conserved_hypothetical_protein_1535565..1535715_POSITIVE 270 102 66 127 76 pint:PI1267|3end_probable_integrase_1186475..1186625_POSITIVE 264 92 66 127 100 pint:PI2088|3end_conserved_hypothetical_protein;_possible_PAP2_superfamily_protein_2045815..2045965_POSITIVE 262 103 62 147 108 pint:PI1560|3end_integrase_1478265..1478415_POSITIVE 261 105 68 71 44 pint:PI1179|3end_adenylosuccinate_synthetase_1101823..1101973_POSITIVE 258 98 69 96 53 pint:PI0398|3end_hypothetical_protein_363541..363691_POSITIVE 251 103 72 47 12 pint:PI0728|3end_integrase_661508..661658_POSITIVE 250 107 64 62 14 pint:PI0488|3end_conserved_hypothetical_protein_447537..447687_POSITIVE 250 104 68 50 1 pint:PI0354|3end_hypothetical_protein_326241..326391_POSITIVE 250 94 62 68 35 pint:PI0221|3end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_217796..217946_POSITIVE 249 126 81 67 17 pint:PI0617|3end_electron_transfer_flavoprotein,_alpha_subunit_567466..567616_POSITIVE 246 90 41 64 12 pint:PI1223|3end_conserved_hypothetical_protein_1144459..1144609_POSITIVE 246 87 41 139 101 pint:PI0947|3end_conserved_hypothetical_protein_880709..880859_POSITIVE