Origin IGS: agatgtatagattttcgttttatatagtcaaaggtattcaaataattcttatttcacaaatgttttaagaaagaaattaatatttttcatacttttatgcttcgatgcaaggtaagtataacaaaagaaaaaagccgcacaaaagacacgatgtctttagtgcggctttttccttaaatactttttcttttatcttgtgctttttctttgcatatttcta .........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 tagaaatatgcaaagaaaaagcacaagataaaagaaaaagtatttaaggaaaaagccgcactaaagacatcgtgtcttttgtgcggcttttttcttttgttatacttaccttgcatcgaagcataaaagtatgaaaaatattaatttctttcttaaaacatttgtgaaataagaattatttgaatacctttgactatataaaacgaaaatctatacatct Mask Tandem Repeat Region ================================================ agatgtatagattttcgttttatatagtcaaaggtattcaaataattcttatttcacaaatgttttaagaaagaaattaatatttttcatacttttatgcttcgatgcaaggtaagtataacaaaagaaaaaagccgcacaaaagacacgatgtctttagtgcggctttttccttaaatactttttcttttatcttgtgctttttctttgcatatttcta Find is-nt database================================================ Query_seq: PI0148:PI0149|PI0148:PI0149:mannose-1-phosphate guanylyltransferase:conserved hypothetical protein:->->:142655..142874 220 agatgtatagattttcgttttatatagtcaaaggtattcaaataattcttatttcacaaatgttttaagaaagaaattaatatttttcatacttttatgcttcgatgcaaggtaagtataacaaaagaaaaaagccgcacaaaagacacgatgtctttagtgcggctttttccttaaatactttttcttttatcttgtgctttttctttgcatatttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0148:PI0149|PI0148:PI0149:mannose-1-phosphate guanylyltransferase:conserved hypothetical protein:->->:142655..142874 220 agatgtatagattttcgttttatatagtcaaaggtattcaaataattcttatttcacaaatgttttaagaaagaaattaatatttttcatacttttatgcttcgatgcaaggtaagtataacaaaagaaaaaagccgcacaaaagacacgatgtctttagtgcggctttttccttaaatactttttcttttatcttgtgctttttctttgcatatttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0148:PI0149|PI0148:PI0149:mannose-1-phosphate guanylyltransferase:conserved hypothetical protein:->->:142655..142874 220 agatgtatagattttcgttttatatagtcaaaggtattcaaataattcttatttcacaaatgttttaagaaagaaattaatatttttcatacttttatgcttcgatgcaaggtaagtataacaaaagaaaaaagccgcacaaaagacacgatgtctttagtgcggctttttccttaaatactttttcttttatcttgtgctttttctttgcatatttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agatgtatagattttcgttttatatagtcaaaggtattcaaataattcttatttcacaaatgttttaagaaagaaattaatatttttcatacttttatgcttcgatgcaaggtaagtataacaaaagaaaaaagccgcacaaaagacacgatgtctttagtgcggctttttccttaaatactttttcttttatcttgtgctttttctttgcatatttcta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 11 End: 112 .......... M F V L Y S Q R Y S N N S Y F T N V L R K K L I F F I L L C F D A R ............................................................................................................ Protein_Len: 33 Strand: + Start: 76 End: 174 ........................................................................... M N I F H T F M L R C K V S I T K E K S R T K D T M S L V R L F P .............................................. Protein_Len: 38 Strand: + Start: 105 End: 218 ........................................................................................................ M Q G K Y N K R K K P H K R H D V F S A A F S L N T F S F I L C F F F A Y F .. Protein_Len: 32 Strand: - Start: 98 End: 193 ................................................................................................. A E I C P L Y L L L F F G C L L C S T K L A A K E K F V K E K M ........................... agatgtatagattttcgttttatatagtcaaaggtattcaaataattcttatttcacaaatgttttaagaaagaaattaatatttttcatacttttatgcttcgatgcaaggtaagtataacaaaagaaaaaagccgcacaaaagacacgatgtctttagtgcggctttttccttaaatactttttcttttatcttgtgctttttctttgcatatttcta 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================================================ agatgtatagattttcgttttatatagtcaaaggtattcaaataattcttatttcacaaatgttttaagaaagaaattaatatttttcatacttttatgcttcgatgcaaggtaagtataacaaaagaaaaaagccgcacaaaagacacgatgtctttagtgcggctttttccttaaatactttttcttttatcttgtgctttttctttgcatatttcta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -19.3 Tail_Score: -5.92399 Start: 134 End: 166 Full_Region: gtatttaaggaaaaa gccgcactaaagaca tcg tgtcttttgtgcggc ttttttcttttgtta .....................................................................................................................................gccgcactaaagacatcgtgtcttttgtgcggc...................................................... Find igs database================================================ Query_seq: PI0148:PI0149|PI0148:PI0149:mannose-1-phosphate guanylyltransferase:conserved hypothetical protein:->->:142655..142874 220 agatgtatagattttcgttttatatagtcaaaggtattcaaataattcttatttcacaaatgttttaagaaagaaattaatatttttcatacttttatgcttcgatgcaaggtaagtataacaaaagaaaaaagccgcacaaaagacacgatgtctttagtgcggctttttccttaaatactttttcttttatcttgtgctttttctttgcatatttcta Intra-Species Hit: Count: 1 Min: 1 Max: 165 Len: 165 Subject: pint_PI0148_PI0149|mannose-1-phosphate guanylyltransferase:conserved hypothetical protein|POSITIVE:POSITIVE|[142655,142874]|220 HSP 1 e-value: 9.0E-89 bit: 327.0 Len: 165 Query Start:1 Query End:165 Subject Strand: POSITIVE Subject Start: 1 Subject End: 165 agatgtatagattttcgttttatatagtcaaaggtattcaaataattcttatttcacaaatgttttaagaaagaaattaatatttttcatacttttatgcttcgatgcaaggtaagtataacaaaagaaaaaagccgcacaaaagacacgatgtctttagtgcgg....................................................... agatgtatagattttcgttttatatagtcaaaggtattcaaataattcttatttcacaaatgttttaagaaagaaattaatatttttcatacttttatgcttcgatgcaaggtaagtataacaaaagaaaaaagccgcacaaaagacacgatgtctttagtgcgg....................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAUGUAUAGAUUUUCGUUUUAUAUAGUCAAAGGUAUUCAAAUAAUUCUUAUUUCACAAAUGUUUUAAGAAAGAAAUUAAUAUUUUUCAUACUUUUAUGCUUCGAUGCAAGGUAAGUAUAACAAAAGAAAAAAGCCGCACAAAAGACACGAUGUCUUUAGUGCGG ...((((((((.......))))))))...(((((((((.......((((((...((....))...)))))).......))))))))).((((((...(((......)))....))))))...............((((((.((((((.....)))))).)))))) (-33.84) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCGCACUAAAGACAUCGUGUCUUUUGUGCGGCUUUUUUCUUUUGUUAUACUUACCUUGCAUCGAAGCAUAAAAGUAUGAAAAAUAUUAAUUUCUUUCUUAAAACAUUUGUGAAAUAAGAAUUAUUUGAAUACCUUUGACUAUAUAAAACGAAAAUCUAUACAUCU ((((((.((((((.....)))))).))))))...((((((((((((((((((....(((......)))...))))))).....((((.......((((((..((....))....)))))).......))))...........)))))).)))))........... (-32.24) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 268 139 99 118 80 pint:PI1890|5end_cell_division_protein_FtsW_1832886..1833116_POSITIVE 220 139 93 110 55 pint:PI0434|5end_possible_beta-lactamase_405692..405922_POSITIVE 214 145 103 210 159 pint:PI0664|5end_dihydroorotate_dehydrogenase,_electron_transfer_subunit_606891..607121_POSITIVE 213 142 102 177 136 pint:PI0011|5end_conserved_hypothetical_protein_12142..12372_POSITIVE 212 116 92 113 88 pint:PI0645|5end_hypothetical_protein_586419..586649_POSITIVE 212 116 92 92 67 pint:PI0643|5end_hypothetical_protein_586398..586628_POSITIVE 210 139 98 119 75 pint:PI0935|5end_collagenase,_protease_866297..866527_POSITIVE 210 137 92 200 160 pint:PI0010|5end_conserved_hypothetical_protein_10628..10858_POSITIVE 207 140 97 197 150 pint:PI1448|5end_hypothetical_protein_1371579..1371809_POSITIVE 207 104 73 158 132 pint:PI1129|5end_hypothetical_protein_1055377..1055607_POSITIVE 207 146 101 45 2 pint:PI1070|5end_peptidoglycan-associated_lipoprotein_986110..986340_POSITIVE 207 40 4 74 34 pint:PI0942|5end_DNA-binding_protein_HU_874624..874854_POSITIVE 206 111 81 147 112 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 205 140 97 111 66 pint:PI0853|5end_glycosyl_transferase,_group_2_family_protein_785515..785745_POSITIVE 205 117 86 169 137 pint:PI0802|5end_hypothetical_protein_739544..739774_POSITIVE 203 158 122 162 115 pint:PI1326|5end_Na+-driven_multidrug_efflux_pump_1244182..1244412_POSITIVE 203 138 98 202 162 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 202 40 6 100 68 pint:PI0794|5end_long-chain-fatty-acid--CoA_ligase_731103..731333_POSITIVE 197 115 88 209 181 pint:PI0719|5end_conserved_hypothetical_protein_653043..653273_POSITIVE 195 123 91 77 38 pint:PI1733|5end_hypothetical_protein_1652160..1652390_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 229 113 81 99 60 pint:PI0662|3end_conserved_hypothetical_protein_605213..605363_POSITIVE 222 128 86 86 39 pint:PI0792|3end_conserved_hypothetical_protein_729627..729777_POSITIVE 207 40 4 45 5 pint:PI0941|3end_hypothetical_protein_874675..874825_POSITIVE 204 108 81 150 121 pint:PI0300|3end_transposase_285761..285911_POSITIVE 201 138 97 135 94 pint:PI1973|3end_conserved_hypothetical_protein_1931171..1931321_POSITIVE 197 137 102 148 106 pint:PI1443|3end_conserved_hypotehtical_protein;_possible_tonB-dependent_outer_membrane_receptor_1365344..1365494_POSITIVE 195 143 103 76 38 pint:PI0554|3end_hypothetical_protein_504599..504749_POSITIVE 193 142 108 149 111 pint:PI0375|3end_hypothetical_protein_346082..346232_POSITIVE 191 118 92 74 47 pint:PI1687|3end_ribosome_recycling_factor_1602902..1603052_POSITIVE 189 153 125 39 16 pint:PI0546|3end_hypothetical_protein_498238..498388_POSITIVE 186 45 4 78 39 pint:PI0599|3end_hypothetical_protein_547545..547695_POSITIVE 184 156 133 130 95 pint:PI2137|3end_RNA_methylase_SpoU_family_2083807..2083957_POSITIVE 184 138 98 106 61 pint:PI1803|3end_conserved_hypothetical_protein_1737791..1737941_POSITIVE 183 115 80 75 29 pint:PI0345|3end_conserved_hypothetical_protein_320809..320959_POSITIVE 182 139 98 87 36 pint:PI0084|3end_conserved_hypothetical_protein_84520..84670_POSITIVE 181 118 98 96 70 pint:PI2117|3end_fumarate_reductase/succinate_dehydrogenase_flavoprotein_subunit,_C-terminal_2066684..2066834_POSITIVE 180 157 119 137 96 pint:PI1962|3end_conserved_hypothetical_protein_1920706..1920856_POSITIVE 179 140 92 133 76 pint:PI0955|3end_conserved_hypothetical_protein_886084..886234_POSITIVE 179 136 98 150 105 pint:PI0103|3end_conserved_hypothetical_protein;_possible_permease_99100..99250_POSITIVE 178 140 91 139 96 pint:PI1425|3end_conserved_hypothetical_protein_1344849..1344999_POSITIVE