Origin IGS: agtaaggaatgttgttacacctgctatcagttcggtgcgcaacttcatagttttagggtcgaagcccaatgttttttctaaaaagttcatacgttttttagtttgtatttggattatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taataatccaaatacaaactaaaaaacgtatgaactttttagaaaaaacattgggcttcgaccctaaaactatgaagttgcgcaccgaactgatagcaggtgtaacaacattccttact Mask Tandem Repeat Region ================================================ agtaaggaatgttgttacacctgctatcagttcggtgcgcaacttcatagttttagggtcgaagcccaatgttttttctaaaaagttcatacgttttttagtttgtatttggattatta Find is-nt database================================================ Query_seq: PI0695:PI0696|PI0695:PI0696:xanthine/uracil permease family protein:NADH pyrophosphatase, MutT family hydrolase (NAD+ diphosphatase):->->:632762..632880 119 agtaaggaatgttgttacacctgctatcagttcggtgcgcaacttcatagttttagggtcgaagcccaatgttttttctaaaaagttcatacgttttttagtttgtatttggattatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0695:PI0696|PI0695:PI0696:xanthine/uracil permease family protein:NADH pyrophosphatase, MutT family hydrolase (NAD+ diphosphatase):->->:632762..632880 119 agtaaggaatgttgttacacctgctatcagttcggtgcgcaacttcatagttttagggtcgaagcccaatgttttttctaaaaagttcatacgttttttagtttgtatttggattatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0695:PI0696|PI0695:PI0696:xanthine/uracil permease family protein:NADH pyrophosphatase, MutT family hydrolase (NAD+ diphosphatase):->->:632762..632880 119 agtaaggaatgttgttacacctgctatcagttcggtgcgcaacttcatagttttagggtcgaagcccaatgttttttctaaaaagttcatacgttttttagtttgtatttggattatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtaaggaatgttgttacacctgctatcagttcggtgcgcaacttcatagttttagggtcgaagcccaatgttttttctaaaaagttcatacgttttttagtttgtatttggattatta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 26 End: 118 ......................... M S S V R N F I V L G S K P N V F S K K F I R F L V C I W I I . Protein_Len: 39 Strand: - Start: 1 End: 117 T L F T T V G A I L E T R L K M T K P D F G L T K E L F N M R K K T Q I Q I M .. agtaaggaatgttgttacacctgctatcagttcggtgcgcaacttcatagttttagggtcgaagcccaatgttttttctaaaaagttcatacgttttttagtttgtatttggattatta 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================================================ agtaaggaatgttgttacacctgctatcagttcggtgcgcaacttcatagttttagggtcgaagcccaatgttttttctaaaaagttcatacgttttttagtttgtatttggattatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0695:PI0696|PI0695:PI0696:xanthine/uracil permease family protein:NADH pyrophosphatase, MutT family hydrolase (NAD+ diphosphatase):->->:632762..632880 119 agtaaggaatgttgttacacctgctatcagttcggtgcgcaacttcatagttttagggtcgaagcccaatgttttttctaaaaagttcatacgttttttagtttgtatttggattatta Intra-Species Hit: Count: 1 Min: 1 Max: 119 Len: 119 Subject: pint_PI0695_PI0696|xanthine/uracil permease family protein:NADH pyrophosphatase, MutT family hydrolase (NAD+ diphosphatase)|POSITIVE:POSITIVE|[632762,632880]|119 HSP 1 e-value: 1.0E-61 bit: 236.0 Len: 119 Query Start:1 Query End:119 Subject Strand: POSITIVE Subject Start: 1 Subject End: 119 agtaaggaatgttgttacacctgctatcagttcggtgcgcaacttcatagttttagggtcgaagcccaatgttttttctaaaaagttcatacgttttttagtttgtatttggattatta agtaaggaatgttgttacacctgctatcagttcggtgcgcaacttcatagttttagggtcgaagcccaatgttttttctaaaaagttcatacgttttttagtttgtatttggattatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUAAGGAAUGUUGUUACACCUGCUAUCAGUUCGGUGCGCAACUUCAUAGUUUUAGGGUCGAAGCCCAAUGUUUUUUCUAAAAAGUUCAUACGUUUUUUAGUUUGUAUUUGGAUUAUUA ......(((.(((((..((((.((.....))..)))).)))))))).((((((..((((....))))..........((((((((........)))))))).........))))))... (-20.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAUCCAAAUACAAACUAAAAAACGUAUGAACUUUUUAGAAAAAACAUUGGGCUUCGACCCUAAAACUAUGAAGUUGCGCACCGAACUGAUAGCAGGUGUAACAACAUUCCUUACU ..................(((((((..........)))))))..........(((......))).........(((((((.(((((............)))))..)))).)))...... (-16.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 358 65 21 223 182 pint:PI0732|5end_conserved_hypothetical_protein_663598..663828_POSITIVE 313 94 56 182 139 pint:PI1046|5end_hypothetical_protein_965792..966022_POSITIVE 312 57 17 136 88 pint:PI0536|5end_hypothetical_protein_492163..492393_POSITIVE 303 74 31 208 153 pint:PI0854|5end_MiaB-like_tRNA_modifying_enzyme_786513..786743_POSITIVE 294 69 23 215 173 pint:PI1896|5end_hypothetical_protein_1840854..1841084_POSITIVE 291 66 23 79 33 pint:PI1524|5end_phosphatidylserine_decarboxylase_1445924..1446154_POSITIVE 290 55 11 153 115 pint:PI0085|5end_RNase_P_protein_component_84440..84670_POSITIVE 286 66 23 191 148 pint:PI0257|5end_conjugative_transposon_protein,_TraF_249348..249578_POSITIVE 283 65 22 70 13 pint:PI2112|5end_phosphopantetheine_adenylyltransferase_2063194..2063424_POSITIVE 283 80 31 231 163 pint:PI1665|5end_thymidylate_synthase_1578086..1578316_POSITIVE 280 69 21 55 4 pint:PI0048|5end_conserved_hypothetical_protein_47119..47349_POSITIVE 279 69 22 46 2 pint:PI1827|5end_peptidase,_M23/M37_family,_N-terminal_1768013..1768243_POSITIVE 279 40 3 124 92 pint:PI0906|5end_hypothetical_protein_835653..835883_POSITIVE 278 66 21 80 41 pint:PI1578|5end_rod_shape-determining_protein_1504188..1504418_POSITIVE 276 69 26 197 150 pint:PI2010|5end_ABC_transporter,_permease_component_1968936..1969166_POSITIVE 273 39 7 179 153 pint:PI1270|5end_probable_dipeptidyl_peptidase_1188761..1188991_POSITIVE 272 66 21 180 124 pint:PI1755|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1681930..1682160_POSITIVE 272 66 21 82 37 pint:PI1115|5end_conserved_hypothetical_protein_1039244..1039474_POSITIVE 267 67 23 66 21 pint:PI0797|5end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735016..735246_POSITIVE 267 46 10 208 170 pint:PI0693|5end_periplasmic_iron_binding_protein,_ABC_transporter_628387..628617_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 389 77 31 151 111 pint:PI1985|3end_hypothetical_protein_1940745..1940895_POSITIVE 288 25 1 131 106 pint:PI1099|3end_low_molecular_weight_protein-tyrosine-phosphatase_1023636..1023786_POSITIVE 274 50 1 148 101 pint:PI0084|3end_conserved_hypothetical_protein_84520..84670_POSITIVE 273 39 7 119 93 pint:PI1269|3end_conserved_hypothetical_protein;_possible_peptidase_1188781..1188931_POSITIVE 268 65 23 54 2 pint:PI2111|3end_conserved_hypothetical_protein_2063258..2063408_POSITIVE 267 46 10 110 72 pint:PI0691|3end_hypothetical_protein_628369..628519_POSITIVE 264 68 21 53 7 pint:PI1363|3end_hypothetical_protein_1281922..1282072_POSITIVE 264 67 21 89 20 pint:PI1077|3end_hypothetical_protein_999569..999719_POSITIVE 263 64 22 141 89 pint:PI2009|3end_ribosome-binding_factor_A_1969013..1969163_POSITIVE 260 55 13 68 21 pint:PI0367|3end_hypothetical_protein_339640..339790_POSITIVE 259 49 5 81 29 pint:PI0057|3end_conserved_hypothetical_protein_56512..56662_POSITIVE 253 66 21 151 113 pint:PI0578|3end_methyltransferase_523253..523403_POSITIVE 253 43 1 63 17 pint:PI0408|3end_hypothetical_protein_374728..374878_POSITIVE 252 78 33 75 27 pint:PI1943|3end_hypothetical_protein_1902206..1902356_POSITIVE 252 65 31 82 51 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 252 41 1 138 105 pint:PI0858|3end_carbamyl_phosphate_synthase,_large_subunit_793394..793544_POSITIVE 252 69 24 65 2 pint:PI0494|3end_hypothetical_protein_455170..455320_POSITIVE 246 63 21 144 106 pint:PI0512|3end_conserved_hypothetical_protein_471440..471590_POSITIVE 245 71 31 122 73 pint:PI0575|3end_hypothetical_protein_520228..520378_POSITIVE 244 64 21 60 2 pint:PI1815|3end_polyphosphate-selective_porin_O_1754510..1754660_POSITIVE