Origin IGS: taaggcgaagtaaatgctattttcttataaaaagatctgccaaaatgttgattttaaacgctatggcatatattttgctttcttataatcaagaaaacataaagcaggaggaagtaaaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttttacttcctcctgctttatgttttcttgattataagaaagcaaaatatatgccatagcgtttaaaatcaacattttggcagatctttttataagaaaatagcatttacttcgcctta Mask Tandem Repeat Region ================================================ taaggcgaagtaaatgctattttcttataaaaagatctgccaaaatgttgattttaaacgctatggcatatattttgctttcttataatcaagaaaacataaagcaggaggaagtaaaaa Find is-nt database================================================ Query_seq: PI1192:PI1194|PI1192:PI1194:carboxynorspermidine decarboxylase:DnaJ protein (Hsp-40):->->:1112414..1112533 120 taaggcgaagtaaatgctattttcttataaaaagatctgccaaaatgttgattttaaacgctatggcatatattttgctttcttataatcaagaaaacataaagcaggaggaagtaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1192:PI1194|PI1192:PI1194:carboxynorspermidine decarboxylase:DnaJ protein (Hsp-40):->->:1112414..1112533 120 taaggcgaagtaaatgctattttcttataaaaagatctgccaaaatgttgattttaaacgctatggcatatattttgctttcttataatcaagaaaacataaagcaggaggaagtaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1192:PI1194|PI1192:PI1194:carboxynorspermidine decarboxylase:DnaJ protein (Hsp-40):->->:1112414..1112533 120 taaggcgaagtaaatgctattttcttataaaaagatctgccaaaatgttgattttaaacgctatggcatatattttgctttcttataatcaagaaaacataaagcaggaggaagtaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaggcgaagtaaatgctattttcttataaaaagatctgccaaaatgttgattttaaacgctatggcatatattttgctttcttataatcaagaaaacataaagcaggaggaagtaaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 27 End: 119 .......................... M K R S A K M L I L N A M A Y I L L S Y N Q E N I K Q E E V K . taaggcgaagtaaatgctattttcttataaaaagatctgccaaaatgttgattttaaacgctatggcatatattttgctttcttataatcaagaaaacataaagcaggaggaagtaaaaa 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================================================ PromScan Matrix: RpoN Strand: + Score: 86 Start: 63 End: 79 ..............................................................ATGGCATATATTTTGCT......................................... taaggcgaagtaaatgctattttcttataaaaagatctgccaaaatgttgattttaaacgctatggcatatattttgctttcttataatcaagaaaacataaagcaggaggaagtaaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1192:PI1194|PI1192:PI1194:carboxynorspermidine decarboxylase:DnaJ protein (Hsp-40):->->:1112414..1112533 120 taaggcgaagtaaatgctattttcttataaaaagatctgccaaaatgttgattttaaacgctatggcatatattttgctttcttataatcaagaaaacataaagcaggaggaagtaaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 120 Len: 120 Subject: pint_PI1192_PI1194|carboxynorspermidine decarboxylase:DnaJ protein (Hsp-40)|POSITIVE:POSITIVE|[1112414,1112533]|120 HSP 1 e-value: 3.0E-62 bit: 238.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 1 Subject End: 120 taaggcgaagtaaatgctattttcttataaaaagatctgccaaaatgttgattttaaacgctatggcatatattttgctttcttataatcaagaaaacataaagcaggaggaagtaaaaa taaggcgaagtaaatgctattttcttataaaaagatctgccaaaatgttgattttaaacgctatggcatatattttgctttcttataatcaagaaaacataaagcaggaggaagtaaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGGCGAAGUAAAUGCUAUUUUCUUAUAAAAAGAUCUGCCAAAAUGUUGAUUUUAAACGCUAUGGCAUAUAUUUUGCUUUCUUAUAAUCAAGAAAACAUAAAGCAGGAGGAAGUAAAAA .(((((((((((.(((((((...........((((((.((......)).)))))).......))))))).)))))))))))....................................... (-20.07) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUACUUCCUCCUGCUUUAUGUUUUCUUGAUUAUAAGAAAGCAAAAUAUAUGCCAUAGCGUUUAAAAUCAACAUUUUGGCAGAUCUUUUUAUAAGAAAAUAGCAUUUACUUCGCCUUA ..............((((...((((((((((....)))))))))).......(((((.((.(((.......))).)).)))))..((((.....))))....)))).............. (-18.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 273 50 4 45 6 pint:PI1251|5end_hypothetical_protein_1174740..1174970_POSITIVE 225 109 61 196 147 pint:PI1562|5end_methyltransferase_1479644..1479874_POSITIVE 224 39 2 82 39 pint:PI1006|5end_conserved_hypothetical_protein_926604..926834_POSITIVE 219 118 96 186 165 pint:PI0945|5end_sodium:solute_symporter_family_protein_876249..876479_POSITIVE 219 44 5 139 107 pint:PI0677|5end_hypothetical_protein_616513..616743_POSITIVE 219 43 5 54 11 pint:PI0195|5end_epimerase/reductase_187172..187402_POSITIVE 217 110 61 142 102 pint:PI1644|5end_hypothetical_protein_1560372..1560602_POSITIVE 217 110 61 142 102 pint:PI0349|5end_hypothetical_protein_323144..323374_POSITIVE 216 87 41 114 58 pint:PI1011|5end_cytochrome_c_biogenesis_protein_CycY_932115..932345_POSITIVE 214 42 1 142 92 pint:PI1283|5end_ATP_synthase,_alpha_subunit_1198204..1198434_POSITIVE 213 24 3 49 28 pint:PI1230|5end_probable_metallo-beta-lactamase_family_protein_1151840..1152070_POSITIVE 212 78 36 231 182 pint:PI1416|5end_cation-transporting_ATPase_1335901..1336131_POSITIVE 211 49 1 70 16 pint:PI1103|5end_hypothetical_protein_1026547..1026777_POSITIVE 210 43 3 64 29 pint:PI2124|5end_excinuclease_ABC,_subunit_C_2072584..2072814_POSITIVE 208 80 38 224 187 pint:PI1338|5end_phosphoserine_phosphatase_1255270..1255500_POSITIVE 207 108 65 231 191 pint:PI1750|5end_sulfate_transporter_1672134..1672364_POSITIVE 205 50 4 105 54 pint:PI1054|5end_conserved_hypothetical_protein_973696..973926_POSITIVE 204 79 32 98 36 pint:PI0096|5end_glycerol-3-phosphate_cytidylyltransferase_91885..92115_POSITIVE 203 77 36 56 12 pint:PI1551|5end_HesA/MoeB/ThiF_family_protein_1467787..1468017_POSITIVE 203 70 32 79 39 pint:PI0845|5end_peptidyl-dipeptidase_778272..778502_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 233 68 21 70 17 pint:PI0576|3end_helicase,_UvrD/Rep_521724..521874_POSITIVE 217 110 61 129 89 pint:PI1642|3end_conserved_hypothetical_protein_1560439..1560589_POSITIVE 217 110 61 129 89 pint:PI0348|3end_conserved_hypothetical_protein_323211..323361_POSITIVE 216 87 41 114 58 pint:PI1010|3end_conserved_hypothetical_protein_932195..932345_POSITIVE 214 42 1 127 77 pint:PI1282|3end_ATP_synthase,_gamma_subunit_(F0F1-ATPase,_gamma_subunit)_1198269..1198419_POSITIVE 208 80 38 148 111 pint:PI1337|3end_conserved_hypothetical_protein_1255274..1255424_POSITIVE 207 76 33 126 90 pint:PI0304|3end_hypothetical_protein_289705..289855_POSITIVE 206 78 33 99 43 pint:PI0865|3end_possible_phosphoglycerol_transferase_803684..803834_POSITIVE 204 53 15 133 85 pint:PI0927|3end_transglutaminase-related_protein_859696..859846_POSITIVE 203 70 32 43 3 pint:PI0844|3end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_778316..778466_POSITIVE 201 41 2 83 41 pint:PI0874|3end_conserved_hypothetical_protein_810281..810431_POSITIVE 201 113 73 59 20 pint:PI0267|3end_conjugative_transposon_protein,_TraQ_259291..259441_POSITIVE 200 42 1 147 105 pint:PI1758|3end_hypothetical_protein_1684057..1684207_POSITIVE 198 49 3 44 7 pint:PI2137|3end_RNA_methylase_SpoU_family_2083807..2083957_POSITIVE 198 87 42 56 5 pint:PI0685|3end_elongation_factor_G_623048..623198_POSITIVE 197 40 1 82 45 pint:PI0870|3end_branched-chain_amino_acid_aminotransferase_806894..807044_POSITIVE 196 79 56 44 14 pint:PI0943|3end_conserved_hypothetical_protein_875991..876141_POSITIVE 189 49 1 76 22 pint:PI1468|3end_conserved_hypothetical_protein;_probable_TPR_domain_protein_1394798..1394948_POSITIVE 188 64 24 88 52 pint:PI1355|3end_possible_capsular_polysaccharide_biosynthesis_protein_1273160..1273310_POSITIVE 184 87 43 129 83 pint:PI0007|3end_hypothetical_protein_7300..7450_POSITIVE