Origin IGS: aggcgtgttgtagggatttctggtgaaagagaatgattgaaagaaaaaaagctgtgtcgaggtttggcaacccggatacagctttctctatttctgcctaaagatcaattatcgtcacgttggtttgttctatcagggatttataaaaacaaggactctaccccacggtatcgaaaact .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agttttcgataccgtggggtagagtccttgtttttataaatccctgatagaacaaaccaacgtgacgataattgatctttaggcagaaatagagaaagctgtatccgggttgccaaacctcgacacagctttttttctttcaatcattctctttcaccagaaatccctacaacacgcct Mask Tandem Repeat Region ================================================ aggcgtgttgtagggatttctggtgaaagagaatgattgaaagaaaaaaagctgtgtcgaggtttggcaacccggatacagctttctctatttctgcctaaagatcaattatcgtcacgttggtttgttctatcagggatttataaaaacaaggactctaccccacggtatcgaaaact Find is-nt database================================================ Query_seq: PG1138:PG1139|PG1138:PG1139:pigmentation and extracellular proteinase regulator:hypothetical protein:<-<-:1220839..1221017 179 aggcgtgttgtagggatttctggtgaaagagaatgattgaaagaaaaaaagctgtgtcgaggtttggcaacccggatacagctttctctatttctgcctaaagatcaattatcgtcacgttggtttgttctatcagggatttataaaaacaaggactctaccccacggtatcgaaaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1138:PG1139|PG1138:PG1139:pigmentation and extracellular proteinase regulator:hypothetical protein:<-<-:1220839..1221017 179 aggcgtgttgtagggatttctggtgaaagagaatgattgaaagaaaaaaagctgtgtcgaggtttggcaacccggatacagctttctctatttctgcctaaagatcaattatcgtcacgttggtttgttctatcagggatttataaaaacaaggactctaccccacggtatcgaaaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1138:PG1139|PG1138:PG1139:pigmentation and extracellular proteinase regulator:hypothetical protein:<-<-:1220839..1221017 179 aggcgtgttgtagggatttctggtgaaagagaatgattgaaagaaaaaaagctgtgtcgaggtttggcaacccggatacagctttctctatttctgcctaaagatcaattatcgtcacgttggtttgttctatcagggatttataaaaacaaggactctaccccacggtatcgaaaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aggcgtgttgtagggatttctggtgaaagagaatgattgaaagaaaaaaagctgtgtcgaggtttggcaacccggatacagctttctctatttctgcctaaagatcaattatcgtcacgttggtttgttctatcagggatttataaaaacaaggactctaccccacggtatcgaaaact Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 37 End: 177 .................................... M K E K K L C R G L A T R I Q L S L F L P K D Q L S S R W F V L S G I Y K N K D S T P R Y R K .. Protein_Len: 30 Strand: - Start: 2 End: 91 . A H Q L S K Q H F L I I S L F F A T D L N P L G S V A K E M ........................................................................................ aggcgtgttgtagggatttctggtgaaagagaatgattgaaagaaaaaaagctgtgtcgaggtttggcaacccggatacagctttctctatttctgcctaaagatcaattatcgtcacgttggtttgttctatcagggatttataaaaacaaggactctaccccacggtatcgaaaact 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================================================ aggcgtgttgtagggatttctggtgaaagagaatgattgaaagaaaaaaagctgtgtcgaggtttggcaacccggatacagctttctctatttctgcctaaagatcaattatcgtcacgttggtttgttctatcagggatttataaaaacaaggactctaccccacggtatcgaaaact Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -8.0 Tail_Score: -5.96894 Start: 51 End: 82 Full_Region: gcagaaatagagaaa gctgtatccgggtt gcca aacctcgacacagc tttttttctttcaat ..................................................gctgtatccgggttgccaaacctcgacacagc................................................................................................. Find igs database================================================ Query_seq: PG1138:PG1139|PG1138:PG1139:pigmentation and extracellular proteinase regulator:hypothetical protein:<-<-:1220839..1221017 179 aggcgtgttgtagggatttctggtgaaagagaatgattgaaagaaaaaaagctgtgtcgaggtttggcaacccggatacagctttctctatttctgcctaaagatcaattatcgtcacgttggtttgttctatcagggatttataaaaacaaggactctaccccacggtatcgaaaact Intra-Species Hit: Count: 1 Min: 1 Max: 179 Len: 179 Subject: NC_002950_PG1138_PG1139|pigmentation and extracellular proteinase regulator:hypothetical protein|NEGATIVE:NEGATIVE|[1220839,1221017]|179 HSP 1 e-value: 1.0E-84 bit: 313.0 Len: 179 Query Start:1 Query End:179 Subject Strand: POSITIVE Subject Start: 1 Subject End: 179 aggcgtgttgtagggatttctggtgaaagagaatgattgaaagnnnnnnngctgtgtcgaggtttggcaacccggatacagctttctctatttctgcctaaagatcaattatcgtcacgttggtttgttctatcagggatttataaaaacaaggactctaccccacggtatcgaaaact aggcgtgttgtagggatttctggtgaaagagaatgattgaaagaaaaaaagctgtgtcgaggtttggcaacccggatacagctttctctatttctgcctaaagatcaattatcgtcacgttggtttgttctatcagggatttataaaaacaaggactctaccccacggtatcgaaaact Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGCGUGUUGUAGGGAUUUCUGGUGAAAGAGAAUGAUUGAAAGAAAAAAAGCUGUGUCGAGGUUUGGCAACCCGGAUACAGCUUUCUCUAUUUCUGCCUAAAGAUCAAUUAUCGUCACGUUGGUUUGUUCUAUCAGGGAUUUAUAAAAACAAGGACUCUACCCCACGGUAUCGAAAACU ...((((..((((((.((..((((((....((.(((((((.(((...(((((((((((..((((....))))..))))))))))).)))...(((......)))))))))))).))))....((..(((((....)))))..)).....))..))))))))..))))............ (-45.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUUUCGAUACCGUGGGGUAGAGUCCUUGUUUUUAUAAAUCCCUGAUAGAACAAACCAACGUGACGAUAAUUGAUCUUUAGGCAGAAAUAGAGAAAGCUGUAUCCGGGUUGCCAAACCUCGACACAGCUUUUUUUCUUUCAAUCAUUCUCUUUCACCAGAAAUCCCUACAACACGCCU .............((((((.((((..................(((((.(((.(((................))).))))))))..((((.((((((((((((.((.(((((....))))).)).)))))))))))).)))).......))))(((....)))..))))))......... (-42.69) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 992 100 51 191 142 NC_002950:PG1138|5end_pigmentation_and_extracellular_proteinase_regulator_1220748..1220978_NEGATIVE 321 98 52 169 132 NC_002950:PG1171|5end_oxidoreductase,_putative_1250355..1250585_POSITIVE 321 90 50 199 159 NC_002950:PG0387|5end_elongation_factor_Tu_420643..420873_POSITIVE 318 100 51 167 108 NC_002950:PG1675|5end_hypothetical_protein_1760182..1760412_POSITIVE 315 97 51 104 57 NC_002950:PG0223|5end_exonuclease_257610..257840_NEGATIVE 315 98 55 59 6 NC_002950:PG0049|5end_hypothetical_protein_60740..60970_NEGATIVE 312 84 51 211 176 NC_002950:PG0898|5end_hypothetical_protein_963350..963580_NEGATIVE 300 97 55 42 2 NC_002950:PG0574|5end_hypothetical_protein_629018..629248_POSITIVE 297 103 61 43 1 NC_002950:PG0180|5end_lipoprotein,_putative_203055..203285_POSITIVE 296 99 53 150 102 NC_002950:PG0526|5end_putative_inner_membrane_protein_translocase_component_YidC_570746..570976_POSITIVE 295 100 51 184 134 NC_002950:PG2096|5end_hypothetical_protein_2205415..2205645_NEGATIVE 295 90 49 81 22 NC_002950:PG1239|5end_3-oxoacyl-(acyl-carrier-protein)_reductase_1314369..1314599_NEGATIVE 294 87 51 210 156 NC_002950:PG1709|5end_ISPg5,_transposase_Orf1_1794914..1795144_POSITIVE 293 82 41 67 25 NC_002950:PG0309|5end_thiamine_biosynthesis_lipoprotein_ApbE_345023..345253_NEGATIVE 291 99 51 66 17 NC_002950:PG1203|5end_transcriptional_regulator,_putative_1283446..1283676_NEGATIVE 291 89 46 47 6 NC_002950:PG0349|5end_hydrolase,_haloacid_dehalogenase-like_family_384459..384689_POSITIVE 290 98 54 219 155 NC_002950:PG1657|5end_methylmalonyl-CoA_mutase_1739344..1739574_POSITIVE 289 88 50 48 7 NC_002950:PG1997|5end_hypothetical_protein_2086831..2087061_POSITIVE 289 97 57 213 154 NC_002950:PG1248|5end_hypothetical_protein_1326532..1326762_NEGATIVE 289 98 54 161 113 NC_002950:PG0685|5end_ABC_transporter,_ATP-binding_protein_740116..740346_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 360 95 51 55 17 NC_002950:PG1754|3end_hypothetical_protein_1842284..1842434_POSITIVE 359 98 51 145 78 NC_002950:PG0800|3end_hypothetical_protein_854719..854869_NEGATIVE 315 96 51 63 6 NC_002950:PG1722|3end_hypothetical_protein_1812633..1812783_NEGATIVE 315 97 51 100 53 NC_002950:PG0224|3end_hypothetical_protein_257614..257764_NEGATIVE 313 96 51 131 86 NC_002950:PG0377|3end_30S_ribosomal_protein_S2_407845..407995_POSITIVE 312 84 51 64 29 NC_002950:PG0899|3end_cytochrome_d_ubiquinol_oxidase,_subunit_II_963497..963647_NEGATIVE 312 89 44 70 15 NC_002950:PG0138|3end_malonyl_CoA-acyl_carrier_protein_transacylase_161634..161784_POSITIVE 310 84 41 125 81 NC_002950:PG1343|3end_lipoate-protein_ligase_B_1425186..1425336_POSITIVE 307 98 51 141 89 NC_002950:PG1218|3end_hypothetical_protein_1296475..1296625_POSITIVE 300 97 55 42 2 NC_002950:PG0573|3end_S-adenosyl-methyltransferase_MraW_629098..629248_POSITIVE 299 98 51 70 21 NC_002950:PG0349|3end_hydrolase,_haloacid_dehalogenase-like_family_385291..385441_POSITIVE 296 96 51 99 53 NC_002950:PG0725|3end_hydrolase,_haloacid_dehalogenase-like_family_777966..778116_POSITIVE 295 100 51 78 28 NC_002950:PG2097|3end_ribose-phosphate_pyrophosphokinase_2205521..2205671_NEGATIVE 295 98 51 75 10 NC_002950:PG1855|3end_carboxyl-terminal_protease_1953842..1953992_NEGATIVE 294 85 46 68 30 NC_002950:PG0506|3end_arginine-specific_cysteine_proteinase_547625..547775_POSITIVE 293 82 41 70 28 NC_002950:PG0310|3end_nitroreductase_family_protein_345020..345170_NEGATIVE 289 98 54 68 20 NC_002950:PG0684|3end_ABC_transporter,_permease_protein,_putative_740103..740253_POSITIVE 287 127 81 135 96 NC_002950:PG1276|3end_DNA-binding_protein,_histone-like_family_1353531..1353681_POSITIVE 287 96 51 88 36 NC_002950:PG0758|3end_peptidyl-dipeptidase_Dcp_806467..806617_NEGATIVE 287 87 42 67 17 NC_002950:PG0726|3end_lipoprotein,_putative_778003..778153_NEGATIVE