Origin IGS: tagcatctgccgaaagcaagaaaaggtaaaatcgttcccttaataaaagcctaccaaaccttattgaagcctgtattgatttgccaacttaatgcgtgtaagtcttaagaagccattacatcaaagaatatttttgtcaaatacaaaataactttgttaaacacagattgtaaaatagtta .........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 taactattttacaatctgtgtttaacaaagttattttgtatttgacaaaaatattctttgatgtaatggcttcttaagacttacacgcattaagttggcaaatcaatacaggcttcaataaggtttggtaggcttttattaagggaacgattttaccttttcttgctttcggcagatgcta Mask Tandem Repeat Region ================================================ tagcatctgccgaaagcaagaaaaggtaaaatcgttcccttaataaaagcctaccaaaccttattgaagcctgtattgatttgccaacttaatgcgtgtaagtcttaagaagccattacatcaaagaatatttttgtcaaatacaaaataactttgttaaacacagattgtaaaatagtta Find is-nt database================================================ Query_seq: PI1346:PI1347|PI1346:PI1347:hypothetical protein:DNA damage-inducible protein:->->:1261089..1261269 181 tagcatctgccgaaagcaagaaaaggtaaaatcgttcccttaataaaagcctaccaaaccttattgaagcctgtattgatttgccaacttaatgcgtgtaagtcttaagaagccattacatcaaagaatatttttgtcaaatacaaaataactttgttaaacacagattgtaaaatagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1346:PI1347|PI1346:PI1347:hypothetical protein:DNA damage-inducible protein:->->:1261089..1261269 181 tagcatctgccgaaagcaagaaaaggtaaaatcgttcccttaataaaagcctaccaaaccttattgaagcctgtattgatttgccaacttaatgcgtgtaagtcttaagaagccattacatcaaagaatatttttgtcaaatacaaaataactttgttaaacacagattgtaaaatagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1346:PI1347|PI1346:PI1347:hypothetical protein:DNA damage-inducible protein:->->:1261089..1261269 181 tagcatctgccgaaagcaagaaaaggtaaaatcgttcccttaataaaagcctaccaaaccttattgaagcctgtattgatttgccaacttaatgcgtgtaagtcttaagaagccattacatcaaagaatatttttgtcaaatacaaaataactttgttaaacacagattgtaaaatagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagcatctgccgaaagcaagaaaaggtaaaatcgttcccttaataaaagcctaccaaaccttattgaagcctgtattgatttgccaacttaatgcgtgtaagtcttaagaagccattacatcaaagaatatttttgtcaaatacaaaataactttgttaaacacagattgtaaaatagtta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 7 End: 105 ...... M P K A R K G K I V P L I K A Y Q T L L K P V L I C Q L N A C K S ............................................................................ tagcatctgccgaaagcaagaaaaggtaaaatcgttcccttaataaaagcctaccaaaccttattgaagcctgtattgatttgccaacttaatgcgtgtaagtcttaagaagccattacatcaaagaatatttttgtcaaatacaaaataactttgttaaacacagattgtaaaatagtta 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================================================ tagcatctgccgaaagcaagaaaaggtaaaatcgttcccttaataaaagcctaccaaaccttattgaagcctgtattgatttgccaacttaatgcgtgtaagtcttaagaagccattacatcaaagaatatttttgtcaaatacaaaataactttgttaaacacagattgtaaaatagtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1346:PI1347|PI1346:PI1347:hypothetical protein:DNA damage-inducible protein:->->:1261089..1261269 181 tagcatctgccgaaagcaagaaaaggtaaaatcgttcccttaataaaagcctaccaaaccttattgaagcctgtattgatttgccaacttaatgcgtgtaagtcttaagaagccattacatcaaagaatatttttgtcaaatacaaaataactttgttaaacacagattgtaaaatagtta Intra-Species Hit: Count: 1 Min: 1 Max: 181 Len: 181 Subject: pint_PI1346_PI1347|hypothetical protein:DNA damage-inducible protein|POSITIVE:POSITIVE|[1261089,1261269]|181 HSP 1 e-value: 2.0E-98 bit: 359.0 Len: 181 Query Start:1 Query End:181 Subject Strand: POSITIVE Subject Start: 1 Subject End: 181 tagcatctgccgaaagcaagaaaaggtaaaatcgttcccttaataaaagcctaccaaaccttattgaagcctgtattgatttgccaacttaatgcgtgtaagtcttaagaagccattacatcaaagaatatttttgtcaaatacaaaataactttgttaaacacagattgtaaaatagtta tagcatctgccgaaagcaagaaaaggtaaaatcgttcccttaataaaagcctaccaaaccttattgaagcctgtattgatttgccaacttaatgcgtgtaagtcttaagaagccattacatcaaagaatatttttgtcaaatacaaaataactttgttaaacacagattgtaaaatagtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCAUCUGCCGAAAGCAAGAAAAGGUAAAAUCGUUCCCUUAAUAAAAGCCUACCAAACCUUAUUGAAGCCUGUAUUGAUUUGCCAACUUAAUGCGUGUAAGUCUUAAGAAGCCAUUACAUCAAAGAAUAUUUUUGUCAAAUACAAAAUAACUUUGUUAAACACAGAUUGUAAAAUAGUUA ..(((((((......((.......((((((.........((((((...((....(((......)))..))...))))))))))))..(((((.((......)).)))))..))........(((((.....((((((.....))))))...))))).......)))).))).......... (-23.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUAUUUUACAAUCUGUGUUUAACAAAGUUAUUUUGUAUUUGACAAAAAUAUUCUUUGAUGUAAUGGCUUCUUAAGACUUACACGCAUUAAGUUGGCAAAUCAAUACAGGCUUCAAUAAGGUUUGGUAGGCUUUUAUUAAGGGAACGAUUUUACCUUUUCUUGCUUUCGGCAGAUGCUA ..............((((((((...(((((...((((((.....)))))).....)))))........(((.(((((..(......)..)))))..))).....)))))))).............(((((.(((.....((((..((.(......).))..)))).....)))...))))) (-28.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 44 6 61 26 pint:PI0546|5end_hypothetical_protein_497799..498029_POSITIVE 304 50 2 157 100 pint:PI1442|5end_radical-activating_enzyme_(pyruvate-formate_lyase-activating_enzyme)_1363949..1364179_POSITIVE 266 24 3 231 207 pint:PI0715|5end_hypothetical_protein_652311..652541_POSITIVE 266 24 3 56 32 pint:PI0716|5end_conserved_hypothetical_protein_652136..652366_POSITIVE 262 98 60 38 8 pint:PI0844|5end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_777793..778023_POSITIVE 258 39 2 126 94 pint:PI1381|5end_conserved_hypothetical_protein_1303060..1303290_POSITIVE 257 100 58 72 33 pint:PI1741|5end_lipid-A-disaccharide_synthase_1662754..1662984_POSITIVE 255 78 32 58 9 pint:PI0762|5end_mannose-6-phosphate_isomerase,_class_I_696420..696650_POSITIVE 253 90 48 136 102 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 245 88 46 156 102 pint:PI0797|5end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735016..735246_POSITIVE 243 130 82 56 7 pint:PI1731|5end_formate--tetrahydrofolate_ligase_1650122..1650352_POSITIVE 239 39 3 219 185 pint:PI0627|5end_conserved_hypothetical_protein_575618..575848_POSITIVE 239 105 61 156 104 pint:PI0476|5end_50S_ribosomal_protein_L18_440041..440271_POSITIVE 239 114 71 115 71 pint:PI0068|5end_arginine_repressor_66586..66816_POSITIVE 235 106 69 126 94 pint:PI2137|5end_RNA_methylase_SpoU_family_2083173..2083403_POSITIVE 235 99 51 218 168 pint:PI0547|5end_fructose-bisphosphate_aldolase_498376..498606_POSITIVE 230 109 68 95 48 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 228 97 57 54 12 pint:PI1758|5end_hypothetical_protein_1683207..1683437_POSITIVE 228 84 47 161 112 pint:PI1629|5end_hypothetical_protein_1551707..1551937_POSITIVE 228 106 64 86 32 pint:PI0517|5end_apparent_PorT_homolog_476261..476491_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 44 6 49 14 pint:PI0545|3end_sugar_kinase_497867..498017_POSITIVE 255 98 51 145 88 pint:PI1547|3end_hypothetical_protein_1466226..1466376_POSITIVE 253 90 48 139 105 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 239 105 61 131 79 pint:PI0475|3end_50S_ribosomal_protein_L6_440096..440246_POSITIVE 235 106 69 126 94 pint:PI2135|3end_conserved_hypothetical_protein_2083253..2083403_POSITIVE 230 109 68 86 39 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 222 100 51 105 62 pint:PI2122|3end_conserved_hypothetical_protein_2070480..2070630_POSITIVE 220 22 4 21 3 pint:PI1163|3end_single-strand_DNA_binding_protein_1088244..1088394_POSITIVE 220 35 1 92 55 pint:PI0406|3end_hypothetical_protein_373053..373203_POSITIVE 219 37 9 75 42 pint:PI2032|3end_RNA_polymerase_sigma_factor,_ECF_subfamily_1987121..1987271_POSITIVE 217 115 72 130 93 pint:PI0642|3end_thioredoxin_family_protein_585582..585732_POSITIVE 215 139 93 118 68 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 214 104 64 144 96 pint:PI1210|3end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_(SAICAR_synthetase)_1129959..1130109_POSITIVE 213 89 48 132 85 pint:PI1264|3end_hypothetical_protein_1185074..1185224_POSITIVE 212 129 83 92 54 pint:PI0576|3end_helicase,_UvrD/Rep_521724..521874_POSITIVE 211 30 1 78 45 pint:PI0375|3end_hypothetical_protein_346082..346232_POSITIVE 210 98 64 150 116 pint:PI0489|3end_probable_cardiolipin_synthetase_449108..449258_POSITIVE 207 98 51 151 113 pint:PI2039|3end_hypothetical_protein_1992991..1993141_POSITIVE 207 80 47 147 107 pint:PI1628|3end_hypothetical_protein_1551782..1551932_POSITIVE 206 106 67 139 104 pint:PI1670|3end_hypothetical_protein_1587026..1587176_POSITIVE