Origin IGS: tagttctttactaaccaaaagcaatatgcaaccgcaaagaacttacgaagaatgaagtggaagttgttcggttttgtataactgttccaattcttttgcaaagccaatagcct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aggctattggctttgcaaaagaattggaacagttatacaaaaccgaacaacttccacttcattcttcgtaagttctttgcggttgcatattgcttttggttagtaaagaacta Mask Tandem Repeat Region ================================================ tagttctttactaaccaaaagcaatatgcaaccgcaaagaacttacgaagaatgaagtggaagttgttcggttttgtataactgttccaattcttttgcaaagccaatagcct Find is-nt database================================================ Query_seq: PI0800:PI0801|PI0800:PI0801:alanyl-tRNA synthetase (alanine--tRNA ligase):hypothetical protein:->->:739392..739504 113 tagttctttactaaccaaaagcaatatgcaaccgcaaagaacttacgaagaatgaagtggaagttgttcggttttgtataactgttccaattcttttgcaaagccaatagcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0800:PI0801|PI0800:PI0801:alanyl-tRNA synthetase (alanine--tRNA ligase):hypothetical protein:->->:739392..739504 113 tagttctttactaaccaaaagcaatatgcaaccgcaaagaacttacgaagaatgaagtggaagttgttcggttttgtataactgttccaattcttttgcaaagccaatagcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0800:PI0801|PI0800:PI0801:alanyl-tRNA synthetase (alanine--tRNA ligase):hypothetical protein:->->:739392..739504 113 tagttctttactaaccaaaagcaatatgcaaccgcaaagaacttacgaagaatgaagtggaagttgttcggttttgtataactgttccaattcttttgcaaagccaatagcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagttctttactaaccaaaagcaatatgcaaccgcaaagaacttacgaagaatgaagtggaagttgttcggttttgtataactgttccaattcttttgcaaagccaatagcct Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: - Start: 3 End: 107 .. N K V L W F C Y A V A F F K R L I F H F N N P K T Y S N W N K Q L A M ...... tagttctttactaaccaaaagcaatatgcaaccgcaaagaacttacgaagaatgaagtggaagttgttcggttttgtataactgttccaattcttttgcaaagccaatagcct 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================================================ tagttctttactaaccaaaagcaatatgcaaccgcaaagaacttacgaagaatgaagtggaagttgttcggttttgtataactgttccaattcttttgcaaagccaatagcct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0800:PI0801|PI0800:PI0801:alanyl-tRNA synthetase (alanine--tRNA ligase):hypothetical protein:->->:739392..739504 113 tagttctttactaaccaaaagcaatatgcaaccgcaaagaacttacgaagaatgaagtggaagttgttcggttttgtataactgttccaattcttttgcaaagccaatagcct Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: pint_PI0800_PI0801|alanyl-tRNA synthetase (alanine--tRNA ligase):hypothetical protein|POSITIVE:POSITIVE|[739392,739504]|113 HSP 1 e-value: 5.0E-58 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 tagttctttactaaccaaaagcaatatgcaaccgcaaagaacttacgaagaatgaagtggaagttgttcggttttgtataactgttccaattcttttgcaaagccaatagcct tagttctttactaaccaaaagcaatatgcaaccgcaaagaacttacgaagaatgaagtggaagttgttcggttttgtataactgttccaattcttttgcaaagccaatagcct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUCUUUACUAACCAAAAGCAAUAUGCAACCGCAAAGAACUUACGAAGAAUGAAGUGGAAGUUGUUCGGUUUUGUAUAACUGUUCCAAUUCUUUUGCAAAGCCAAUAGCCU ((((.....)))).......((.....))..((((.....................))))..((((((.(((((((((..................))))))))))))))).. (-19.07) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGCUAUUGGCUUUGCAAAAGAAUUGGAACAGUUAUACAAAACCGAACAACUUCCACUUCAUUCUUCGUAAGUUCUUUGCGGUUGCAUAUUGCUUUUGGUUAGUAAAGAACUA .(((((..(((..(((((..(((.(((((..(((...........)))...))))).)))......((((((...)))))).)))))....)))..)))))............ (-22.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 331 71 31 63 9 pint:PI0101|5end_lauroyl/myristoyl_acyltransferase_96729..96959_POSITIVE 309 67 26 181 146 pint:PI2167|5end_hypothetical_protein_2111590..2111820_POSITIVE 289 69 21 220 179 pint:PI1822|5end_ABC_transporter,_ATP-binding_/_permease_1761452..1761682_POSITIVE 284 74 31 221 174 pint:PI0861|5end_glucosamine--fructose-6-phosphate_aminotransferase_(glutamine-fructose-6-phosphate_transaminase_(isomerizing))_796346..796576_POSITIVE 281 70 22 226 172 pint:PI0876|5end_hypothetical_protein_810767..810997_POSITIVE 281 70 22 67 13 pint:PI0875|5end_conserved_hypothetical_protein_810608..810838_POSITIVE 269 64 21 98 60 pint:PI1271|5end_transcriptional_regulator,__AraC/XylS_family_1190755..1190985_POSITIVE 267 60 14 84 36 pint:PI0285|5end_succinyltransferase_protein_270097..270327_POSITIVE 266 100 53 227 177 pint:PI0854|5end_MiaB-like_tRNA_modifying_enzyme_786513..786743_POSITIVE 258 70 27 56 8 pint:PI1079|5end_conserved_hypothetical_protein_999863..1000093_POSITIVE 257 65 26 182 143 pint:PI0910|5end_possible_sodium_hydrogen_antiporter_(Na+/H+_antiporter)_838085..838315_POSITIVE 253 70 27 66 19 pint:PI1608|5end_possible_Na+/H+_anti-porter_1535807..1536037_POSITIVE 253 57 18 132 99 pint:PI0845|5end_peptidyl-dipeptidase_778272..778502_POSITIVE 249 110 61 171 95 pint:PI2133|5end_collagenase_2081106..2081336_POSITIVE 245 82 43 177 139 pint:PI1234|5end_valyl-tRNA_synthetase_(valine--tRNA_ligase)_1154359..1154589_POSITIVE 244 51 20 217 188 pint:PI0920|5end_xanthan_lyase_849688..849918_POSITIVE 244 68 21 228 194 pint:PI0655|5end_Na+/H+_anitporter_597290..597520_POSITIVE 244 89 42 156 116 pint:PI0339|5end_hypothetical_protein_315735..315965_POSITIVE 244 69 21 186 130 pint:PI0315|5end_conserved_hypothetical_protein_296679..296909_POSITIVE 243 69 21 107 51 pint:PI0126|5end_conserved_hypothetical_protein_117925..118155_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 284 74 31 71 24 pint:PI0860|3end_amidophosphoribosyltransferase_796276..796426_POSITIVE 284 89 46 96 45 pint:PI0760|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_695989..696139_POSITIVE 269 64 21 92 54 pint:PI1270|3end_probable_dipeptidyl_peptidase_1190829..1190979_POSITIVE 267 60 14 64 16 pint:PI0284|3end_flavoprotein_A_270157..270307_POSITIVE 257 65 26 105 66 pint:PI0909|3end_possible_mutT/NUDIX_family_protein_838088..838238_POSITIVE 253 57 18 96 63 pint:PI0844|3end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_778316..778466_POSITIVE 249 110 61 124 48 pint:PI2132|3end_hypothetical_protein_2081139..2081289_POSITIVE 247 78 32 48 2 pint:PI0624|3end_hypothetical_protein_574471..574621_POSITIVE 244 97 54 78 24 pint:PI1797|3end_hypothetical_protein_1731559..1731709_POSITIVE 244 68 21 81 47 pint:PI0654|3end_K+-dependent_Na+/Ca+_exchanger_related-protein_597223..597373_POSITIVE 244 89 42 54 14 pint:PI0338|3end_hypothetical_protein_315713..315863_POSITIVE 244 69 21 105 49 pint:PI0314|3end_conserved_hypothetical_protein_296678..296828_POSITIVE 243 70 21 139 99 pint:PI1843|3end_hypothetical_protein_1788611..1788761_POSITIVE 243 69 30 60 23 pint:PI0191|3end_O-methyltransferase_181785..181935_POSITIVE 242 70 21 61 9 pint:PI1608|3end_possible_Na+/H+_anti-porter_1536300..1536450_POSITIVE 241 89 42 54 14 pint:PI1631|3end_hypothetical_protein_1552797..1552947_POSITIVE 240 65 21 123 86 pint:PI2113|3end_hypothetical_protein_2064278..2064428_POSITIVE 240 106 64 46 10 pint:PI0156|3end_conserved_hypothetical_protein_150913..151063_POSITIVE 240 76 33 141 95 pint:PI0155|3end_conserved_hypothetical_protein_148687..148837_POSITIVE 239 87 42 83 37 pint:PI0734|3end_ABC_transporter,_ATP-binding_/_permease_668760..668910_POSITIVE