Origin IGS: aagcctatataatagttgtatgtcctattctataccattggggcttattgacaaagtattttaaatgaaaaatgaaacaatgtcggaataggatttataaaagagtttccccttttttggtatgcgagcacaccaaaaaaggggaacgat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atcgttccccttttttggtgtgctcgcataccaaaaaaggggaaactcttttataaatcctattccgacattgtttcatttttcatttaaaatactttgtcaataagccccaatggtatagaataggacatacaactattatataggctt Mask Tandem Repeat Region ================================================ aagcctatataatagttgtatgtcctattctataccattggggcttattgacaaagtattttaaatgaaaaatgaaacaatgtcggaataggatttataaaagagtttccccttttttggtatgcgagcacaccaaaaaaggggaacgat Find is-nt database================================================ Query_seq: PI0777:PI0778|PI0777:PI0778:predicted TPR-repeat-containing protein:hypothetical protein:->->:714535..714684 150 aagcctatataatagttgtatgtcctattctataccattggggcttattgacaaagtattttaaatgaaaaatgaaacaatgtcggaataggatttataaaagagtttccccttttttggtatgcgagcacaccaaaaaaggggaacgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0777:PI0778|PI0777:PI0778:predicted TPR-repeat-containing protein:hypothetical protein:->->:714535..714684 150 aagcctatataatagttgtatgtcctattctataccattggggcttattgacaaagtattttaaatgaaaaatgaaacaatgtcggaataggatttataaaagagtttccccttttttggtatgcgagcacaccaaaaaaggggaacgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0777:PI0778|PI0777:PI0778:predicted TPR-repeat-containing protein:hypothetical protein:->->:714535..714684 150 aagcctatataatagttgtatgtcctattctataccattggggcttattgacaaagtattttaaatgaaaaatgaaacaatgtcggaataggatttataaaagagtttccccttttttggtatgcgagcacaccaaaaaaggggaacgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagcctatataatagttgtatgtcctattctataccattggggcttattgacaaagtattttaaatgaaaaatgaaacaatgtcggaataggatttataaaagagtttccccttttttggtatgcgagcacaccaaaaaaggggaacgat Predict ORF larger than 30AA ================================================ aagcctatataatagttgtatgtcctattctataccattggggcttattgacaaagtattttaaatgaaaaatgaaacaatgtcggaataggatttataaaagagtttccccttttttggtatgcgagcacaccaaaaaaggggaacgat 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================================================ aagcctatataatagttgtatgtcctattctataccattggggcttattgacaaagtattttaaatgaaaaatgaaacaatgtcggaataggatttataaaagagtttccccttttttggtatgcgagcacaccaaaaaaggggaacgat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0777:PI0778|PI0777:PI0778:predicted TPR-repeat-containing protein:hypothetical protein:->->:714535..714684 150 aagcctatataatagttgtatgtcctattctataccattggggcttattgacaaagtattttaaatgaaaaatgaaacaatgtcggaataggatttataaaagagtttccccttttttggtatgcgagcacaccaaaaaaggggaacgat Intra-Species Hit: Count: 1 Min: 1 Max: 150 Len: 150 Subject: pint_PI0777_PI0778|predicted TPR-repeat-containing protein:hypothetical protein|POSITIVE:POSITIVE|[714535,714684]|150 HSP 1 e-value: 5.0E-80 bit: 297.0 Len: 150 Query Start:1 Query End:150 Subject Strand: POSITIVE Subject Start: 1 Subject End: 150 aagcctatataatagttgtatgtcctattctataccattggggcttattgacaaagtattttaaatgaaaaatgaaacaatgtcggaataggatttataaaagagtttccccttttttggtatgcgagcacaccaaaaaaggggaacgat aagcctatataatagttgtatgtcctattctataccattggggcttattgacaaagtattttaaatgaaaaatgaaacaatgtcggaataggatttataaaagagtttccccttttttggtatgcgagcacaccaaaaaaggggaacgat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGCCUAUAUAAUAGUUGUAUGUCCUAUUCUAUACCAUUGGGGCUUAUUGACAAAGUAUUUUAAAUGAAAAAUGAAACAAUGUCGGAAUAGGAUUUAUAAAAGAGUUUCCCCUUUUUUGGUAUGCGAGCACACCAAAAAAGGGGAACGAU ...............(((((.(((((((((....((....)).......((((...((((((......))))))......)))).))))))))).)))))....(((.(((((((((((((.((....)).))))))))))))))))... (-44.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCGUUCCCCUUUUUUGGUGUGCUCGCAUACCAAAAAAGGGGAAACUCUUUUAUAAAUCCUAUUCCGACAUUGUUUCAUUUUUCAUUUAAAAUACUUUGUCAAUAAGCCCCAAUGGUAUAGAAUAGGACAUACAACUAUUAUAUAGGCUU ....((((((((((((((((((....)))))))))))))))))).............((((((((.((((..((...(((((......)))))))..)))).....(((.....)))...)))))))).......((((...)))).... (-46.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 492 146 107 144 105 pint:PI0779|5end_predicted_TPR-repeat-containing_protein_714554..714784_POSITIVE 334 145 103 153 109 pint:PI1805|5end_TPR_repeat_containing_protein_1738369..1738599_POSITIVE 271 148 110 64 18 pint:PI1186|5end_conserved_hypothetical_protein_1106480..1106710_POSITIVE 270 130 96 127 98 pint:PI0574|5end_hypothetical_protein_519260..519490_POSITIVE 263 132 104 228 188 pint:PI0659|5end_hypothetical_protein_603203..603433_POSITIVE 262 126 82 126 79 pint:PI0844|5end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_777793..778023_POSITIVE 260 144 109 153 125 pint:PI1931|5end_alpha_glycan_phosphorylase,_maltodextrin_phosphorylase_1875456..1875686_POSITIVE 256 57 17 161 118 pint:PI0551|5end_hypothetical_protein_502328..502558_POSITIVE 253 47 14 41 12 pint:PI1389|5end_transcriptional_regulator,_LuxR_family_1310039..1310269_POSITIVE 253 52 14 43 5 pint:PI0945|5end_sodium:solute_symporter_family_protein_876249..876479_POSITIVE 250 150 113 201 160 pint:PI0603|5end_3-dehydroquinate_synthase_549718..549948_POSITIVE 248 56 14 132 95 pint:PI1180|5end_ferric_uptake_regulation_protein_1101892..1102122_POSITIVE 248 50 2 77 35 pint:PI0460|5end_50S_ribosomal_protein_L3_432471..432701_POSITIVE 242 148 101 59 11 pint:PI1699|5end_conserved_hypothetical_protein_1616604..1616834_POSITIVE 242 114 74 88 42 pint:PI1037|5end_probable_methyltransferase_957028..957258_POSITIVE 239 58 13 228 186 pint:PI0036|5end_glutathione_peroxidase_38598..38828_POSITIVE 238 148 119 200 167 pint:PI0822|5end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_761028..761258_POSITIVE 237 147 105 85 44 pint:PI0351|5end_hypothetical_protein_324317..324547_POSITIVE 235 44 3 210 170 pint:PI1050|5end_conserved_hypothetical_protein_967246..967476_POSITIVE 235 44 3 136 96 pint:PI1049|5end_hypothetical_protein_967172..967402_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 271 148 110 61 15 pint:PI1185|3end_hypothetical_protein_1106557..1106707_POSITIVE 262 126 82 115 68 pint:PI0843|3end_carboxyl-terminal_protease_777862..778012_POSITIVE 236 148 102 111 63 pint:PI1741|3end_lipid-A-disaccharide_synthase_1663856..1664006_POSITIVE 235 44 3 77 37 pint:PI1048|3end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_967193..967343_POSITIVE 234 144 101 53 11 pint:PI1102|3end_conserved_hypothetical_protein_1026247..1026397_POSITIVE 234 150 121 101 73 pint:PI0797|3end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735752..735902_POSITIVE 229 149 102 67 18 pint:PI0963|3end_hypothetical_protein_893637..893787_POSITIVE 227 150 119 40 2 pint:PI0489|3end_probable_cardiolipin_synthetase_449108..449258_POSITIVE 227 150 102 75 13 pint:PI0267|3end_conjugative_transposon_protein,_TraQ_259291..259441_POSITIVE 224 149 114 36 1 pint:PI0913|3end_glycerate_dehydrogenase_843733..843883_POSITIVE 223 134 92 127 85 pint:PI2062|3end_type_I_restriction-modification_system_2024008..2024158_POSITIVE 221 58 18 146 105 pint:PI1463|3end_fumarate_hydratase,_class_I_1387069..1387219_POSITIVE 221 130 83 74 29 pint:PI0428|3end_hypothetical_protein_396321..396471_POSITIVE 217 149 116 125 85 pint:PI1333|3end_conserved_hypothetical_protein_1251372..1251522_POSITIVE 217 133 102 63 23 pint:PI0117|3end_ribonuclease_HI_111314..111464_POSITIVE 213 133 110 133 104 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 211 44 21 70 40 pint:PI0042|3end_hypothetical_protein_43444..43594_POSITIVE 210 41 1 125 76 pint:PI1840|3end_conserved_hypothetical_protein_1787024..1787174_POSITIVE 210 150 103 36 1 pint:PI0545|3end_sugar_kinase_497867..498017_POSITIVE 208 54 14 102 60 pint:PI2107|3end_hypothetical_protein_2060023..2060173_POSITIVE