Origin IGS: taggtttattgaaaccttaaaaaagaattaaatattaaaagccatattttcagcattatctcaaaatatggcttttgcattgcttcttttcaaaaacaataatagctcggtaaacaattacctatcaaatacaaattaagtggatattccttagcaacagagtatccacttaatcttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaagattaagtggatactctgttgctaaggaatatccacttaatttgtatttgataggtaattgtttaccgagctattattgtttttgaaaagaagcaatgcaaaagccatattttgagataatgctgaaaatatggcttttaatatttaattcttttttaaggtttcaataaaccta Mask Tandem Repeat Region ================================================ taggtttattgaaaccttaaaaaagaattaaatattaaaagccatattttcagcattatctcaaaatatggcttttgcattgcttcttttcaaaaacaataatagctcggtaaacaattacctatcaaatacaaattaagtggatattccttagcaacagagtatccacttaatcttta Find is-nt database================================================ Query_seq: PI1318:PI1319|PI1318:PI1319:hypothetical protein:possible OmpA , outer membrane protein-related protein:->->:1235616..1235794 179 taggtttattgaaaccttaaaaaagaattaaatattaaaagccatattttcagcattatctcaaaatatggcttttgcattgcttcttttcaaaaacaataatagctcggtaaacaattacctatcaaatacaaattaagtggatattccttagcaacagagtatccacttaatcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1318:PI1319|PI1318:PI1319:hypothetical protein:possible OmpA , outer membrane protein-related protein:->->:1235616..1235794 179 taggtttattgaaaccttaaaaaagaattaaatattaaaagccatattttcagcattatctcaaaatatggcttttgcattgcttcttttcaaaaacaataatagctcggtaaacaattacctatcaaatacaaattaagtggatattccttagcaacagagtatccacttaatcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1318:PI1319|PI1318:PI1319:hypothetical protein:possible OmpA , outer membrane protein-related protein:->->:1235616..1235794 179 taggtttattgaaaccttaaaaaagaattaaatattaaaagccatattttcagcattatctcaaaatatggcttttgcattgcttcttttcaaaaacaataatagctcggtaaacaattacctatcaaatacaaattaagtggatattccttagcaacagagtatccacttaatcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taggtttattgaaaccttaaaaaagaattaaatattaaaagccatattttcagcattatctcaaaatatggcttttgcattgcttcttttcaaaaacaataatagctcggtaaacaattacctatcaaatacaaattaagtggatattccttagcaacagagtatccacttaatcttta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 32 End: 136 ............................... M L K A I F S A L S Q N M A F A L L L F K N N N S S V N N Y L S N T N ........................................... taggtttattgaaaccttaaaaaagaattaaatattaaaagccatattttcagcattatctcaaaatatggcttttgcattgcttcttttcaaaaacaataatagctcggtaaacaattacctatcaaatacaaattaagtggatattccttagcaacagagtatccacttaatcttta 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================================================ taggtttattgaaaccttaaaaaagaattaaatattaaaagccatattttcagcattatctcaaaatatggcttttgcattgcttcttttcaaaaacaataatagctcggtaaacaattacctatcaaatacaaattaagtggatattccttagcaacagagtatccacttaatcttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 73 HP_score: -9.0 Tail_Score: -2.79562 Start: 36 End: 77 Full_Region: tgaaaagaagcaatg caaaagccatattttgag ataatg ctgaaaatatggctttta atatttaattctttt ...................................caaaagccatattttgagataatgctgaaaatatggctttta...................................................................................................... TransTerm Strand: - Conf: 86 HP_score: -8.9 Tail_Score: -4.52266 Start: 41 End: 72 Full_Region: agaagcaatgcaaaa gccatattttgag ataatg ctgaaaatatggc ttttaatatttaatt ........................................gccatattttgagataatgctgaaaatatggc........................................................................................................... Find igs database================================================ Query_seq: PI1318:PI1319|PI1318:PI1319:hypothetical protein:possible OmpA , outer membrane protein-related protein:->->:1235616..1235794 179 taggtttattgaaaccttaaaaaagaattaaatattaaaagccatattttcagcattatctcaaaatatggcttttgcattgcttcttttcaaaaacaataatagctcggtaaacaattacctatcaaatacaaattaagtggatattccttagcaacagagtatccacttaatcttta Intra-Species Hit: Count: 1 Min: 1 Max: 179 Len: 179 Subject: pint_PI1318_PI1319|hypothetical protein:possible OmpA , outer membrane protein-related protein|POSITIVE:POSITIVE|[1235616,1235794]|179 HSP 1 e-value: 3.0E-97 bit: 355.0 Len: 179 Query Start:1 Query End:179 Subject Strand: POSITIVE Subject Start: 1 Subject End: 179 taggtttattgaaaccttaaaaaagaattaaatattaaaagccatattttcagcattatctcaaaatatggcttttgcattgcttcttttcaaaaacaataatagctcggtaaacaattacctatcaaatacaaattaagtggatattccttagcaacagagtatccacttaatcttta taggtttattgaaaccttaaaaaagaattaaatattaaaagccatattttcagcattatctcaaaatatggcttttgcattgcttcttttcaaaaacaataatagctcggtaaacaattacctatcaaatacaaattaagtggatattccttagcaacagagtatccacttaatcttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUUUAUUGAAACCUUAAAAAAGAAUUAAAUAUUAAAAGCCAUAUUUUCAGCAUUAUCUCAAAAUAUGGCUUUUGCAUUGCUUCUUUUCAAAAACAAUAAUAGCUCGGUAAACAAUUACCUAUCAAAUACAAAUUAAGUGGAUAUUCCUUAGCAACAGAGUAUCCACUUAAUCUUUA .((((((....))))))...(((((((.(((....(((((((((((((((.((......)).)))))))))))))))..))).)))))))..................(((((....)))))............(((((((((((((((..........)))))))))))))))..... (-45.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGAUUAAGUGGAUACUCUGUUGCUAAGGAAUAUCCACUUAAUUUGUAUUUGAUAGGUAAUUGUUUACCGAGCUAUUAUUGUUUUUGAAAAGAAGCAAUGCAAAAGCCAUAUUUUGAGAUAAUGCUGAAAAUAUGGCUUUUAAUAUUUAAUUCUUUUUUAAGGUUUCAAUAAACCUA ...((((((((((((((.(((........))).))))))))))))))........(((((.((((...(((.......((((((((((....)))))))))).((((((((((((((.((......)).))))))))))))))....................)))..))))..))))) (-56.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 268 98 53 143 108 pint:PI1554|5end_hypothetical_protein_1470275..1470505_POSITIVE 238 87 41 137 94 pint:PI1653|5end_hypothetical_protein_1565158..1565388_POSITIVE 237 94 62 82 52 pint:PI0619|5end_hypothetical_protein_569364..569594_POSITIVE 236 149 108 196 143 pint:PI1226|5end_hypothetical_protein_1147884..1148114_POSITIVE 236 149 108 70 17 pint:PI1225|5end_hypothetical_protein_1147758..1147988_POSITIVE 234 94 52 202 169 pint:PI1902|5end_hypothetical_protein_1844931..1845161_POSITIVE 233 78 41 112 72 pint:PI1828|5end_peptidase,_M23/M37_family,_C-terminal_1768419..1768649_POSITIVE 232 91 57 144 113 pint:PI1927|5end_hypothetical_protein_1871187..1871417_POSITIVE 232 89 41 217 170 pint:PI0226|5end_ABC_transporter,_ATP-binding_/_permease_protein_222110..222340_POSITIVE 232 89 41 145 98 pint:PI0225|5end_conserved_hypothetical_protein_222038..222268_POSITIVE 230 90 41 136 85 pint:PI1002|5end_metal_dependent_hydrolase_923842..924072_POSITIVE 229 110 71 71 33 pint:PI2164|5end_acetyltransferase,_GNAT_family_2110018..2110248_POSITIVE 224 78 40 38 3 pint:PI2112|5end_phosphopantetheine_adenylyltransferase_2063194..2063424_POSITIVE 221 110 65 132 90 pint:PI1768|5end_conserved_hypothetical_protein_1695456..1695686_POSITIVE 218 117 74 53 18 pint:PI0955|5end_conserved_hypothetical_protein_884736..884966_POSITIVE 215 86 41 229 187 pint:PI0701|5end_hypothetical_protein_638356..638586_POSITIVE 211 76 36 223 178 pint:PI1986|5end_hypothetical_protein_1940863..1941093_POSITIVE 209 89 41 74 24 pint:PI0529|5end_hypothetical_protein_483026..483256_POSITIVE 208 93 51 185 135 pint:PI1656|5end_hypothetical_protein_1570242..1570472_POSITIVE 208 126 81 58 23 pint:PI0842|5end_5-formyltetrahydrofolate_cyclo-ligase_775533..775763_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 246 76 31 54 10 pint:PI1318|3end_hypothetical_protein_1235555..1235705_POSITIVE 238 87 41 134 91 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 230 90 41 136 85 pint:PI1001|3end_hypothetical_protein_923922..924072_POSITIVE 213 149 102 141 100 pint:PI1610|3end_Na+/H+_anti-porter_1538002..1538152_POSITIVE 213 114 71 55 7 pint:PI0132|3end_hypothetical_protein_124519..124669_POSITIVE 211 76 36 65 20 pint:PI1984|3end_MutT/nudix_family_protein_1940785..1940935_POSITIVE 209 83 41 51 8 pint:PI1649|3end_hypothetical_protein_1563441..1563591_POSITIVE 209 162 131 147 113 pint:PI0646|3end_hypothetical_protein_587205..587355_POSITIVE 209 89 41 90 40 pint:PI0528|3end_hypothetical_protein_483122..483272_POSITIVE 208 93 51 80 30 pint:PI1655|3end_hypothetical_protein_1570217..1570367_POSITIVE 205 73 31 142 100 pint:PI2064|3end_conserved_hypothetical_protein;_possible_type_I_restriction-modification_system,_S_subunit_2026991..2027141_POSITIVE 204 91 61 56 25 pint:PI0915|3end_hypothetical_protein_845997..846147_POSITIVE 204 87 41 149 106 pint:PI0241|3end_possible_tetracycline_resistance_element_/mobilization_regulatory_protein_240036..240186_POSITIVE 201 83 42 63 25 pint:PI1924|3end_cytidine_deaminase_1866495..1866645_POSITIVE 199 81 46 52 20 pint:PI1587|3end_conserved_hypothetical_protein;_possible_permease_1516266..1516416_POSITIVE 195 90 51 72 31 pint:PI0928|3end_hypothetical_protein_860272..860422_POSITIVE 193 116 71 131 74 pint:PI0633|3end_possible_preprotein_translocase,_YajC_subunit_580080..580230_POSITIVE 192 79 36 139 99 pint:PI1521|3end_hypothetical_protein_1441461..1441611_POSITIVE 192 79 36 48 8 pint:PI1520|3end_hypothetical_protein_1441370..1441520_POSITIVE 191 84 41 150 122 pint:PI1385|3end_3-deoxy-d-manno-octulosonic_acid_8-phosphate_synthase_(DAHP_synthase,_Class_I)_1307059..1307209_POSITIVE