Origin IGS: aactctcgccctactcctcctactaaagcgttatactgtccttaggacaattataacaatccctcagcaaggccgaccgccttactgagggatttgtttttttagcactgccaatgtatttaatcgggaatcttataccttcaaaacagattagaatctaaacaatgcattggtgtcaatctatctcctccaatcggaaaagaatacaatttgcccctttcgctgtacaaccatctatttgataatagagttcatgagtggaattaagtggaagcggtatcagctgttattctgctcaatatcaggcaacagcagcaataagattgacaa .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttgtcaatcttattgctgctgttgcctgatattgagcagaataacagctgataccgcttccacttaattccactcatgaactctattatcaaatagatggttgtacagcgaaaggggcaaattgtattcttttccgattggaggagatagattgacaccaatgcattgtttagattctaatctgttttgaaggtataagattcccgattaaatacattggcagtgctaaaaaaacaaatccctcagtaaggcggtcggccttgctgagggattgttataattgtcctaaggacagtataacgctttagtaggaggagtagggcgagagtt Mask Tandem Repeat Region ================================================ aactctcgccctactcctcctactaaagcgttatactgtccttaggacaattataacaatccctcagcaaggccgaccgccttactgagggatttgtttttttagcactgccaatgtatttaatcgggaatcttataccttcaaaacagattagaatctaaacaatgcattggtgtcaatctatctcctccaatcggaaaagaatacaatttgcccctttcgctgtacaaccatctatttgataatagagttcatgagtggaattaagtggaagcggtatcagctgttattctgctcaatatcaggcaacagcagcaataagattgacaa Find is-nt database================================================ Query_seq: PG1605:PG1606|PG1605:PG1606:aminopeptidase C:ion transporter:-><-:1686663..1686992 330 aactctcgccctactcctcctactaaagcgttatactgtccttaggacaattataacaatccctcagcaaggccgaccgccttactgagggatttgtttttttagcactgccaatgtatttaatcgggaatcttataccttcaaaacagattagaatctaaacaatgcattggtgtcaatctatctcctccaatcggaaaagaatacaatttgcccctttcgctgtacaaccatctatttgataatagagttcatgagtggaattaagtggaagcggtatcagctgttattctgctcaatatcaggcaacagcagcaataagattgacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1605:PG1606|PG1605:PG1606:aminopeptidase C:ion transporter:-><-:1686663..1686992 330 aactctcgccctactcctcctactaaagcgttatactgtccttaggacaattataacaatccctcagcaaggccgaccgccttactgagggatttgtttttttagcactgccaatgtatttaatcgggaatcttataccttcaaaacagattagaatctaaacaatgcattggtgtcaatctatctcctccaatcggaaaagaatacaatttgcccctttcgctgtacaaccatctatttgataatagagttcatgagtggaattaagtggaagcggtatcagctgttattctgctcaatatcaggcaacagcagcaataagattgacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1605:PG1606|PG1605:PG1606:aminopeptidase C:ion transporter:-><-:1686663..1686992 330 aactctcgccctactcctcctactaaagcgttatactgtccttaggacaattataacaatccctcagcaaggccgaccgccttactgagggatttgtttttttagcactgccaatgtatttaatcgggaatcttataccttcaaaacagattagaatctaaacaatgcattggtgtcaatctatctcctccaatcggaaaagaatacaatttgcccctttcgctgtacaaccatctatttgataatagagttcatgagtggaattaagtggaagcggtatcagctgttattctgctcaatatcaggcaacagcagcaataagattgacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aactctcgccctactcctcctactaaagcgttatactgtccttaggacaattataacaatccctcagcaaggccgaccgccttactgagggatttgtttttttagcactgccaatgtatttaatcgggaatcttataccttcaaaacagattagaatctaaacaatgcattggtgtcaatctatctcctccaatcggaaaagaatacaatttgcccctttcgctgtacaaccatctatttgataatagagttcatgagtggaattaagtggaagcggtatcagctgttattctgctcaatatcaggcaacagcagcaataagattgacaa Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 130 End: 264 ................................................................................................................................. M L Y L Q N R L E S K Q C I G V N L S P P I G K E Y N L P L S L Y N H L F D N R V H E W N .................................................................. Protein_Len: 53 Strand: + Start: 170 End: 328 ......................................................................................................................................................................... M V S I Y L L Q S E K N T I C P F R C T T I Y L I I E F M S G I K W K R Y Q L L F C S I S G N S S N K I D .. Protein_Len: 35 Strand: - Start: 179 End: 283 .................................................................................................................................................................................. D I E E L R F L I C N A G K A T C G D I Q Y Y L E H T S N L P L P I M ............................................... Protein_Len: 44 Strand: - Start: 26 End: 157 ......................... L T I S D K P C N Y C D R L L A S R R V S P N T K K A S G I Y K I P F R I G E F C I L M ............................................................................................................................................................................. aactctcgccctactcctcctactaaagcgttatactgtccttaggacaattataacaatccctcagcaaggccgaccgccttactgagggatttgtttttttagcactgccaatgtatttaatcgggaatcttataccttcaaaacagattagaatctaaacaatgcattggtgtcaatctatctcctccaatcggaaaagaatacaatttgcccctttcgctgtacaaccatctatttgataatagagttcatgagtggaattaagtggaagcggtatcagctgttattctgctcaatatcaggcaacagcagcaataagattgacaa 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================================================ aactctcgccctactcctcctactaaagcgttatactgtccttaggacaattataacaatccctcagcaaggccgaccgccttactgagggatttgtttttttagcactgccaatgtatttaatcgggaatcttataccttcaaaacagattagaatctaaacaatgcattggtgtcaatctatctcctccaatcggaaaagaatacaatttgcccctttcgctgtacaaccatctatttgataatagagttcatgagtggaattaagtggaagcggtatcagctgttattctgctcaatatcaggcaacagcagcaataagattgacaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -14.5 Tail_Score: -5.42259 Start: 57 End: 96 Full_Region: TTAGGACAATTATAA CAATCCCTCAGCAAGGC CGACC GCCTTACTGAGGGATTTG TTTTTTTAGCACTGC ........................................................CAATCCCTCAGCAAGGCCGACCGCCTTACTGAGGGATTTG.......................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -16.4 Tail_Score: -5.20328 Start: 60 End: 92 Full_Region: GGACAATTATAACAA TCCCTCAGCAAGGC CGACC GCCTTACTGAGGGA TTTGTTTTTTTAGCA ...........................................................TCCCTCAGCAAGGCCGACCGCCTTACTGAGGGA.............................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -18.6 Tail_Score: -3.91357 Start: 60 End: 92 Full_Region: tgctaaaaaaacaaa tccctcagtaaggc ggtcg gccttgctgaggga ttgttataattgtcc ...........................................................tccctcagtaaggcggtcggccttgctgaggga.............................................................................................................................................................................................................................................. Find igs database================================================ Query_seq: PG1605:PG1606|PG1605:PG1606:aminopeptidase C:ion transporter:-><-:1686663..1686992 330 aactctcgccctactcctcctactaaagcgttatactgtccttaggacaattataacaatccctcagcaaggccgaccgccttactgagggatttgtttttttagcactgccaatgtatttaatcgggaatcttataccttcaaaacagattagaatctaaacaatgcattggtgtcaatctatctcctccaatcggaaaagaatacaatttgcccctttcgctgtacaaccatctatttgataatagagttcatgagtggaattaagtggaagcggtatcagctgttattctgctcaatatcaggcaacagcagcaataagattgacaa Intra-Species Hit: Count: 1 Min: 1 Max: 330 Len: 330 Subject: NC_002950_PG1605_PG1606|aminopeptidase C:ion transporter|POSITIVE:NEGATIVE|[1686663,1686992]|330 HSP 1 e-value: 1.0E-174 bit: 613.0 Len: 330 Query Start:1 Query End:330 Subject Strand: POSITIVE Subject Start: 1 Subject End: 330 aactctcgccctactcctcctactaaagcgttatactgtccttaggacaattataacaatccctcagcaaggccgaccgccttactgagggatttgnnnnnnnagcactgccaatgtatttaatcgggaatcttataccttcaaaacagattagaatctaaacaatgcattggtgtcaatctatctcctccaatcggaaaagaatacaatttgcccctttcgctgtacaaccatctatttgataatagagttcatgagtggaattaagtggaagcggtatcagctgttattctgctcaatatcaggcaacagcagcaataagattgacaa aactctcgccctactcctcctactaaagcgttatactgtccttaggacaattataacaatccctcagcaaggccgaccgccttactgagggatttgtttttttagcactgccaatgtatttaatcgggaatcttataccttcaaaacagattagaatctaaacaatgcattggtgtcaatctatctcctccaatcggaaaagaatacaatttgcccctttcgctgtacaaccatctatttgataatagagttcatgagtggaattaagtggaagcggtatcagctgttattctgctcaatatcaggcaacagcagcaataagattgacaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUCUCGCCCUACUCCUCCUACUAAAGCGUUAUACUGUCCUUAGGACAAUUAUAACAAUCCCUCAGCAAGGCCGACCGCCUUACUGAGGGAUUUGUUUUUUUAGCACUGCCAAUGUAUUUAAUCGGGAAUCUUAUACCUUCAAAACAGAUUAGAAUCUAAACAAUGCAUUGGUGUCAAUCUAUCUCCUCCAAUCGGAAAAGAAUACAAUUUGCCCCUUUCGCUGUACAACCAUCUAUUUGAUAAUAGAGUUCAUGAGUGGAAUUAAGUGGAAGCGGUAUCAGCUGUUAUUCUGCUCAAUAUCAGGCAACAGCAGCAAUAAGAUUGACAA ...................(((..(((((((((((.(((((...)))))..)))))).(((((((((.(((((.....))))).)))))))))..)))))..)))....(((((((((((......(((.(((...................))).)))....)))))))))))((((((((.(((..(((....)))..)))........((((.((((((((......(((.((...(((.........)))..))))).....)))))))).))))...((((((....((((........))))..))))))....)))))))).. (-92.41) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUCAAUCUUAUUGCUGCUGUUGCCUGAUAUUGAGCAGAAUAACAGCUGAUACCGCUUCCACUUAAUUCCACUCAUGAACUCUAUUAUCAAAUAGAUGGUUGUACAGCGAAAGGGGCAAAUUGUAUUCUUUUCCGAUUGGAGGAGAUAGAUUGACACCAAUGCAUUGUUUAGAUUCUAAUCUGUUUUGAAGGUAUAAGAUUCCCGAUUAAAUACAUUGGCAGUGCUAAAAAAACAAAUCCCUCAGUAAGGCGGUCGGCCUUGCUGAGGGAUUGUUAUAAUUGUCCUAAGGACAGUAUAACGCUUUAGUAGGAGGAGUAGGGCGAGAGUU .(((((((((..(((((.((.((((.((....((((..((((...((..((.......))..))..))))..))))..(((((((((....))))))..)))...)))))).)).))))).......((((((((....)))))))).))))))))).....((((((((...(((.(((((.((((((......))))))....)))))))).....))))))))......(((((.((((((((((((((.....)))))))))))))))))))...(((((((...)))))))....(((((((.(......).)))))))...... (-98.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 363 109 62 60 7 NC_002950:PG1318|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1397768..1397998_NEGATIVE 341 314 274 174 139 NC_002950:PG2145|5end_polysaccharide_deacetylase_2253253..2253483_POSITIVE 330 228 181 43 1 NC_002950:PG1692|5end_ABC_transporter,_ATP-binding_protein_1777173..1777403_NEGATIVE 328 108 66 177 139 NC_002950:PG0326|5end_hypothetical_protein_360974..361204_NEGATIVE 325 106 62 87 37 NC_002950:PG2050|5end_hypothetical_protein_2149434..2149664_NEGATIVE 323 109 61 169 112 NC_002950:PG1072|5end_MutS_family_protein_1138976..1139206_POSITIVE 319 107 66 185 138 NC_002950:PG0464|5end_adenylosuccinate_synthetase_508874..509104_NEGATIVE 318 314 271 63 28 NC_002950:PG1625|5end_hypothetical_protein_1707436..1707666_POSITIVE 316 307 266 171 138 NC_002950:PG1639|5end_hypothetical_protein_1719919..1720149_NEGATIVE 314 92 60 154 123 NC_002950:PG0221|5end_hypothetical_protein_255834..256064_NEGATIVE 312 314 273 60 21 NC_002950:PG2222|5end_acyltransferase,_HtrB/MsbB_family_2336757..2336987_POSITIVE 310 316 271 51 7 NC_002950:PG0475|5end_oxygen-independent_coproporphyrinogen_III_oxidase,_putative_517218..517448_NEGATIVE 310 91 64 219 191 NC_002950:PG0356|5end_hypothetical_protein_390611..390841_POSITIVE 309 46 4 103 46 NC_002950:PG2116|5end_hypothetical_protein_2224635..2224865_POSITIVE 306 109 62 165 123 NC_002950:PG0495|5end_hypothetical_protein_535447..535677_POSITIVE 303 288 241 140 94 NC_002950:PG2158|5end_hypothetical_protein_2263968..2264198_POSITIVE 302 110 62 229 165 NC_002950:PG0181|5end_immunoreactive_32_kDa_antigen_PG49_204404..204634_POSITIVE 299 130 81 147 109 NC_002950:PG1584|5end_batC_protein_1661331..1661561_POSITIVE 296 91 56 192 156 NC_002950:PG0115|5end_hexapeptide_transferase_family_protein_138038..138268_POSITIVE 295 82 43 50 19 NC_002950:PG1094|5end_phosphomannomutase_1158753..1158983_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 397 98 62 36 1 NC_002950:PG1605|3end_aminopeptidase_C_1686602..1686752_POSITIVE 348 297 255 129 82 NC_002950:PG1729|3end_thiol_peroxidase_1818342..1818492_NEGATIVE 346 92 60 81 45 NC_002950:PG0164|3end_hypothetical_protein_187081..187231_NEGATIVE 341 314 274 131 96 NC_002950:PG2144|3end_hypothetical_protein_2253290..2253440_POSITIVE 339 94 65 27 1 NC_002950:PG1559|3end_aminomethyltransferase_1637904..1638054_NEGATIVE 330 228 181 46 4 NC_002950:PG1693|3end_HesA/MoeB/ThiF_family_protein_1777170..1777320_NEGATIVE 325 104 64 133 91 NC_002950:PG0084|3end_L-serine_dehydratase,_iron-sulfur-dependent,_single_chain_form_99111..99261_POSITIVE 314 82 45 63 16 NC_002950:PG0906|3end_lipoprotein,_putative_971148..971298_POSITIVE 314 92 60 75 44 NC_002950:PG0222|3end_DNA-binding_protein,_histone-like_family_255913..256063_NEGATIVE 312 314 273 63 24 NC_002950:PG2221|3end_MiaB-like_tRNA_modifying_enzyme_2336840..2336990_POSITIVE 310 316 271 54 10 NC_002950:PG0476|3end_yngK_protein_517215..517365_NEGATIVE 309 113 74 101 61 NC_002950:PG2140|3end_ribosomal_protein_L32_2246399..2246549_POSITIVE 303 288 241 116 70 NC_002950:PG2157|3end_glutamine_cyclotransferase-related_protein_2264024..2264174_POSITIVE 299 130 81 150 112 NC_002950:PG1583|3end_batB_protein_1661414..1661564_POSITIVE 299 102 66 150 109 NC_002950:PG0465|3end_ferric_uptake_transcriptional_regulator_508903..509053_NEGATIVE 296 300 258 130 82 NC_002950:PG0554|3end_hypothetical_protein_611661..611811_POSITIVE 296 91 56 72 36 NC_002950:PG0114|3end_hypothetical_protein_137998..138148_POSITIVE 295 97 56 55 20 NC_002950:PG0957|3end_riboflavin_biosynthesis_protein_RibF_1018131..1018281_POSITIVE 295 235 193 129 80 NC_002950:PG0330|3end_DNA-binding_protein,_histone-like_family_364478..364628_NEGATIVE 293 317 273 131 93 NC_002950:PG2208|3end_hypothetical_protein_2320332..2320482_NEGATIVE