Origin IGS: taatatcttggatataacttgccgttaatagtaataccaatgtaggcatatcataatggaaaagagaaaaaacataaaaacaagaaggaagaaaatccttctgattgtaatatggattggtagtatttccttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaggaaatactaccaatccatattacaatcagaaggattttcttccttcttgtttttatgttttttctcttttccattatgatatgcctacattggtattactattaacggcaagttatatccaagatatta Mask Tandem Repeat Region ================================================ taatatcttggatataacttgccgttaatagtaataccaatgtaggcatatcataatggaaaagagaaaaaacataaaaacaagaaggaagaaaatccttctgattgtaatatggattggtagtatttccttt Find is-nt database================================================ Query_seq: PI1614:PI1615|PI1614:PI1615:hypothetical protein:hypothetical protein:->->:1541469..1541601 133 taatatcttggatataacttgccgttaatagtaataccaatgtaggcatatcataatggaaaagagaaaaaacataaaaacaagaaggaagaaaatccttctgattgtaatatggattggtagtatttccttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1614:PI1615|PI1614:PI1615:hypothetical protein:hypothetical protein:->->:1541469..1541601 133 taatatcttggatataacttgccgttaatagtaataccaatgtaggcatatcataatggaaaagagaaaaaacataaaaacaagaaggaagaaaatccttctgattgtaatatggattggtagtatttccttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1614:PI1615|PI1614:PI1615:hypothetical protein:hypothetical protein:->->:1541469..1541601 133 taatatcttggatataacttgccgttaatagtaataccaatgtaggcatatcataatggaaaagagaaaaaacataaaaacaagaaggaagaaaatccttctgattgtaatatggattggtagtatttccttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatatcttggatataacttgccgttaatagtaataccaatgtaggcatatcataatggaaaagagaaaaaacataaaaacaagaaggaagaaaatccttctgattgtaatatggattggtagtatttccttt Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 28 End: 126 ........................... Y Y Y W H L C I M I S F L F F M F V L L F F I R R I T I H I P L M ....... taatatcttggatataacttgccgttaatagtaataccaatgtaggcatatcataatggaaaagagaaaaaacataaaaacaagaaggaagaaaatccttctgattgtaatatggattggtagtatttccttt Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 83 Start: 50 End: 79 .................................................TTTTATGTTTTTTCTCTTTTCCATTATGAT...................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taatatcttggatataacttgccgttaatagtaataccaatgtaggcatatcataatggaaaagagaaaaaacataaaaacaagaaggaagaaaatccttctgattgtaatatggattggtagtatttccttt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 56 HP_score: -5.6 Tail_Score: -2.88069 Start: 84 End: 101 Full_Region: AAAACATAAAAACAA GAAGGA AGAAAA TCCTTC TGATTGTAATATGGA ...................................................................................GAAGGAAGAAAATCCTTC................................ Find igs database================================================ Query_seq: PI1614:PI1615|PI1614:PI1615:hypothetical protein:hypothetical protein:->->:1541469..1541601 133 taatatcttggatataacttgccgttaatagtaataccaatgtaggcatatcataatggaaaagagaaaaaacataaaaacaagaaggaagaaaatccttctgattgtaatatggattggtagtatttccttt Intra-Species Hit: Count: 1 Min: 1 Max: 133 Len: 133 Subject: pint_PI1614_PI1615|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1541469,1541601]|133 HSP 1 e-value: 4.0E-25 bit: 115.0 Len: 58 Query Start:1 Query End:58 Subject Strand: POSITIVE Subject Start: 1 Subject End: 58 taatatcttggatataacttgccgttaatagtaataccaatgtaggcatatcataatg........................................................................... taatatcttggatataacttgccgttaatagtaataccaatgtaggcatatcataatg........................................................................... HSP 2 e-value: 3.0E-13 bit: 75.8 Len: 38 Query Start:96 Query End:133 Subject Strand: POSITIVE Subject Start: 96 Subject End: 133 ...............................................................................................tccttctgattgtaatatggattggtagtatttccttt ...............................................................................................tccttctgattgtaatatggattggtagtatttccttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUCUUGGAUAUAACUUGCCGUUAAUAGUAAUACCAAUGUAGGCAUAUCAUAAUGGAAAAGAGAAAAAACAUAAAAACAAGAAGGAAGAAAAUCCUUCUGAUUGUAAUAUGGAUUGGUAGUAUUUCCUUU .........(((..((((.....))))..((((.(((((((.((.(((.(((...(((..............))).......(((((((......)))))))))))))....)).))))))).)))))))... (-23.74) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGGAAAUACUACCAAUCCAUAUUACAAUCAGAAGGAUUUUCUUCCUUCUUGUUUUUAUGUUUUUUCUCUUUUCCAUUAUGAUAUGCCUACAUUGGUAUUACUAUUAACGGCAAGUUAUAUCCAAGAUAUUA ...(((((.......((..((((..(((...(((((((......))))))))))...))))..))......)))))..((((((.((((.....(((.....))).....)))).))))))............ (-28.12) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 256 50 6 57 19 pint:PI1697|5end_conserved_hypothetical_protein_1612217..1612447_POSITIVE 250 130 81 70 11 pint:PI1893|5end_phospho-N-acetylmuramoyl-pentapeptide-transferase__1835624..1835854_POSITIVE 244 52 24 28 2 pint:PI0972|5end_glycine_cleavage_system_H_protein_2_898942..899172_POSITIVE 232 130 97 163 129 pint:PI0549|5end_hypothetical_protein_500504..500734_POSITIVE 230 60 16 59 17 pint:PI1344|5end_hypothetical_protein_1258551..1258781_POSITIVE 223 73 35 116 71 pint:PI0857|5end_hypothetical_protein_790697..790927_POSITIVE 220 130 98 198 169 pint:PI1049|5end_hypothetical_protein_967172..967402_POSITIVE 218 50 6 111 70 pint:PI1876|5end_possible_flagellar_motor_protein,_OmpA_family_1819082..1819312_POSITIVE 217 115 71 160 105 pint:PI0981|5end_outer_membrane_protein,_TonB_dependent_receptor_906968..907198_POSITIVE 212 49 8 117 70 pint:PI1323|5end_conserved_hypothetical_protein_1241810..1242040_POSITIVE 211 47 8 55 27 pint:PI0680|5end_hypothetical_protein_616958..617188_POSITIVE 209 59 22 33 1 pint:PI0123|5end_outer_membrane_protein,_ompH_family_113906..114136_POSITIVE 208 120 79 57 27 pint:PI0951|5end_hypothetical_protein_884526..884756_POSITIVE 208 47 23 230 205 pint:PI0271|5end_hypothetical_protein_262120..262350_POSITIVE 207 93 57 107 65 pint:PI0563|5end_possible_integral_membrane_protein_510248..510478_POSITIVE 207 47 7 53 21 pint:PI0529|5end_hypothetical_protein_483026..483256_POSITIVE 205 60 11 137 88 pint:PI0096|5end_glycerol-3-phosphate_cytidylyltransferase_91885..92115_POSITIVE 204 100 53 67 18 pint:PI1400|5end_hypothetical_protein_1321391..1321621_POSITIVE 204 100 51 135 88 pint:PI0640|5end_conserved_hypothetical_protein_583289..583519_POSITIVE 203 128 81 159 119 pint:PI2059|5end_conserved_hypothetical_protein_2017319..2017549_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 249 123 98 70 45 pint:PI0240|3end_conserved_hypothetical_protein_239342..239492_POSITIVE 232 130 97 150 116 pint:PI0548|3end_possible_acetylxylan_esterase_500571..500721_POSITIVE 220 130 98 139 110 pint:PI1048|3end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_967193..967343_POSITIVE 218 50 6 55 14 pint:PI1875|3end_hypothetical_protein_1819106..1819256_POSITIVE 217 115 71 133 78 pint:PI0980|3end_conserved_hypothetical_protein_907021..907171_POSITIVE 211 47 8 29 1 pint:PI0679|3end_hypothetical_protein_617012..617162_POSITIVE 207 47 7 69 37 pint:PI0528|3end_hypothetical_protein_483122..483272_POSITIVE 203 59 12 150 106 pint:PI0997|3end_hypothetical_protein_922293..922443_POSITIVE 198 48 7 151 109 pint:PI1894|3end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diamino_pimelate_ligase_1838484..1838634_POSITIVE 198 48 8 79 36 pint:PI1576|3end_serine_protease_precursor_1503703..1503853_POSITIVE 196 68 22 85 45 pint:PI1436|3end_hypothetical_protein_1356232..1356382_POSITIVE 196 47 19 73 46 pint:PI0005|3end_hypothetical_protein_7450..7600_POSITIVE 195 48 18 137 106 pint:PI1223|3end_conserved_hypothetical_protein_1144459..1144609_POSITIVE 195 67 22 147 85 pint:PI0721|3end_hypothetical_protein_654982..655132_POSITIVE 193 67 23 78 23 pint:PI0964|3end_conserved_hypothetical_protein_894187..894337_POSITIVE 192 127 96 102 74 pint:PI1483|3end_hypothetical_protein_1404674..1404824_POSITIVE 192 127 96 73 45 pint:PI1482|3end_hypothetical_protein_1404645..1404795_POSITIVE 192 48 18 59 26 pint:PI0681|3end_hypothetical_protein_619256..619406_POSITIVE 191 94 61 86 54 pint:PI1799|3end_30S_ribosomal_protein_S2_1733819..1733969_POSITIVE 189 67 38 62 31 pint:PI1546|3end_mobilizable_transposon,_excision_protein_1465099..1465249_POSITIVE