Origin IGS: tgtctgtctatcttagttaaacttaaaaggaatagggatgaaaaacgaggaagaaacagccggaaagaaataatacctcgacccggtagcaaagttatgatgaccgtacgtagcttgctttatgccacaaaatactattccctccggaatattcgatttgcgcaaagagcaacacgctaccgccacaatccaagatccaaagagaaaaggcgtgtagatggtatgcctggcacacgatctacacgcccccggag .........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 ctccgggggcgtgtagatcgtgtgccaggcataccatctacacgccttttctctttggatcttggattgtggcggtagcgtgttgctctttgcgcaaatcgaatattccggagggaatagtattttgtggcataaagcaagctacgtacggtcatcataactttgctaccgggtcgaggtattatttctttccggctgtttcttcctcgtttttcatccctattccttttaagtttaactaagatagacagaca Mask Tandem Repeat Region ================================================ tgtctgtctatcttagttaaacttaaaaggaatagggatgaaaaacgaggaagaaacagccggaaagaaataatacctcgacccggtagcaaagttatgatgaccgtacgtagcttgctttatgccacaaaatactattccctccggaatattcgatttgcgcaaagagcaacacgctaccgccacaatccaagatccaaagagaaaaggcgtgtagatggtatgcctggcacacgatctacacgcccccggag Find is-nt database================================================ Query_seq: PG2049:PG2050|PG2049:PG2050:hypothetical protein:hypothetical protein:<-<-:2148995..2149248 254 tgtctgtctatcttagttaaacttaaaaggaatagggatgaaaaacgaggaagaaacagccggaaagaaataatacctcgacccggtagcaaagttatgatgaccgtacgtagcttgctttatgccacaaaatactattccctccggaatattcgatttgcgcaaagagcaacacgctaccgccacaatccaagatccaaagagaaaaggcgtgtagatggtatgcctggcacacgatctacacgcccccggag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2049:PG2050|PG2049:PG2050:hypothetical protein:hypothetical protein:<-<-:2148995..2149248 254 tgtctgtctatcttagttaaacttaaaaggaatagggatgaaaaacgaggaagaaacagccggaaagaaataatacctcgacccggtagcaaagttatgatgaccgtacgtagcttgctttatgccacaaaatactattccctccggaatattcgatttgcgcaaagagcaacacgctaccgccacaatccaagatccaaagagaaaaggcgtgtagatggtatgcctggcacacgatctacacgcccccggag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2049:PG2050|PG2049:PG2050:hypothetical protein:hypothetical protein:<-<-:2148995..2149248 254 tgtctgtctatcttagttaaacttaaaaggaatagggatgaaaaacgaggaagaaacagccggaaagaaataatacctcgacccggtagcaaagttatgatgaccgtacgtagcttgctttatgccacaaaatactattccctccggaatattcgatttgcgcaaagagcaacacgctaccgccacaatccaagatccaaagagaaaaggcgtgtagatggtatgcctggcacacgatctacacgcccccggag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtctgtctatcttagttaaacttaaaaggaatagggatgaaaaacgaggaagaaacagccggaaagaaataatacctcgacccggtagcaaagttatgatgaccgtacgtagcttgctttatgccacaaaatactattccctccggaatattcgatttgcgcaaagagcaacacgctaccgccacaatccaagatccaaagagaaaaggcgtgtagatggtatgcctggcacacgatctacacgcccccggag Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 122 End: 214 ......................................................................................................................... M P Q N T I P S G I F D L R K E Q H A T A T I Q D P K R K G V ........................................ Protein_Len: 60 Strand: + Start: 4 End: 252 ... M S I L V K L K R N R D E K R G R N S R K E I I P R P G S K V M M T V R S L L Y A T K Y Y S L R N I R F A Q R A T R Y R .. Protein_Len: 41 Strand: + Start: 132 End: 254 ................................................................................................................................... M L F P P E Y S I C A K S N T L P P Q S K I Q R E K A C R W Y A W H T I Y T P P E Protein_Len: 47 Strand: - Start: 98 End: 238 ................................................................................................. S S R V Y S A K H W L I S N G G S Y E I Q A F L L V S G G C D L I W L S F A H L H Y A Q C V M ................ Protein_Len: 60 Strand: - Start: 16 End: 219 ............... F F S S S V A P F F Y Y R S G T A F N H H G Y T A Q K I G C F V I G E P I N S K R L S C C A V A V I W S G F L F P T Y M ................................... Protein_Len: 33 Strand: - Start: 3 End: 101 .. R D I K T L S L L F L S S F R P L F L R F S I I G R G P L L T I M ......................................................................................................................................................... tgtctgtctatcttagttaaacttaaaaggaatagggatgaaaaacgaggaagaaacagccggaaagaaataatacctcgacccggtagcaaagttatgatgaccgtacgtagcttgctttatgccacaaaatactattccctccggaatattcgatttgcgcaaagagcaacacgctaccgccacaatccaagatccaaagagaaaaggcgtgtagatggtatgcctggcacacgatctacacgcccccggag 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================================================ tgtctgtctatcttagttaaacttaaaaggaatagggatgaaaaacgaggaagaaacagccggaaagaaataatacctcgacccggtagcaaagttatgatgaccgtacgtagcttgctttatgccacaaaatactattccctccggaatattcgatttgcgcaaagagcaacacgctaccgccacaatccaagatccaaagagaaaaggcgtgtagatggtatgcctggcacacgatctacacgcccccggag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG2049:PG2050|PG2049:PG2050:hypothetical protein:hypothetical protein:<-<-:2148995..2149248 254 tgtctgtctatcttagttaaacttaaaaggaatagggatgaaaaacgaggaagaaacagccggaaagaaataatacctcgacccggtagcaaagttatgatgaccgtacgtagcttgctttatgccacaaaatactattccctccggaatattcgatttgcgcaaagagcaacacgctaccgccacaatccaagatccaaagagaaaaggcgtgtagatggtatgcctggcacacgatctacacgcccccggag Intra-Species Hit: Count: 1 Min: 1 Max: 254 Len: 254 Subject: NC_002950_PG2049_PG2050|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[2148995,2149248]|254 HSP 1 e-value: 1.0E-142 bit: 504.0 Len: 254 Query Start:1 Query End:254 Subject Strand: POSITIVE Subject Start: 1 Subject End: 254 tgtctgtctatcttagttaaacttaaaaggaatagggatgaaaaacgaggaagaaacagccggaaagaaataatacctcgacccggtagcaaagttatgatgaccgtacgtagcttgctttatgccacaaaatactattccctccggaatattcgatttgcgcaaagagcaacacgctaccgccacaatccaagatccaaagagaaaaggcgtgtagatggtatgcctggcacacgatctacacgcccccggag tgtctgtctatcttagttaaacttaaaaggaatagggatgaaaaacgaggaagaaacagccggaaagaaataatacctcgacccggtagcaaagttatgatgaccgtacgtagcttgctttatgccacaaaatactattccctccggaatattcgatttgcgcaaagagcaacacgctaccgccacaatccaagatccaaagagaaaaggcgtgtagatggtatgcctggcacacgatctacacgcccccggag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUCUGUCUAUCUUAGUUAAACUUAAAAGGAAUAGGGAUGAAAAACGAGGAAGAAACAGCCGGAAAGAAAUAAUACCUCGACCCGGUAGCAAAGUUAUGAUGACCGUACGUAGCUUGCUUUAUGCCACAAAAUACUAUUCCCUCCGGAAUAUUCGAUUUGCGCAAAGAGCAACACGCUACCGCCACAAUCCAAGAUCCAAAGAGAAAAGGCGUGUAGAUGGUAUGCCUGGCACACGAUCUACACGCCCCCGGAG ..((((......................(((....((((......(((((.........................)))))...(((((((..(((((((((....)).)))))))((((((.(((..((((....((((((....)))))).....)))).))).))))))....))))))).....))))....)))..........(((((((((((.((.(((...))).)).)))))))))))..)))). (-74.11) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCCGGGGGCGUGUAGAUCGUGUGCCAGGCAUACCAUCUACACGCCUUUUCUCUUUGGAUCUUGGAUUGUGGCGGUAGCGUGUUGCUCUUUGCGCAAAUCGAAUAUUCCGGAGGGAAUAGUAUUUUGUGGCAUAAAGCAAGCUACGUACGGUCAUCAUAACUUUGCUACCGGGUCGAGGUAUUAUUUCUUUCCGGCUGUUUCUUCCUCGUUUUUCAUCCCUAUUCCUUUUAAGUUUAACUAAGAUAGACAGACA ....((((((((((((((.((((((...)))))).))))))))))))))....((((.(((((((...(((((.(((.(((((((((...((((((((.....((((((....))))))....))))).)))...)))))..))))))).))))).........((..(((((..(((((...)))))..)))))..)).......................................)))))))...)))).. (-78.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 954 120 71 211 162 NC_002950:PG2049|5end_hypothetical_protein_2148904..2149134_NEGATIVE 420 250 202 215 169 NC_002950:PG0333|5end_hypothetical_protein_367823..368053_POSITIVE 386 220 177 194 155 NC_002950:PG1388|5end_hypothetical_protein_1470889..1471119_NEGATIVE 383 250 202 132 81 NC_002950:PG2149|5end_hypothetical_protein_2257658..2257888_NEGATIVE 364 90 46 115 64 NC_002950:PG1029|5end_hypothetical_protein_1091080..1091310_POSITIVE 359 248 201 220 170 NC_002950:PG0213|5end_precorrin-3_methylase/precorrin-8X_methylmutase_250464..250694_NEGATIVE 348 248 207 43 2 NC_002950:PG1866|5end_hypothetical_protein_1964531..1964761_POSITIVE 345 249 210 56 16 NC_002950:PG0401|5end_hypothetical_protein_439306..439536_NEGATIVE 342 248 201 215 164 NC_002950:PG0854|5end_hypothetical_protein_914870..915100_POSITIVE 340 249 202 47 2 NC_002950:PG1851|5end_phosphopantothenoylcysteine_decarboxylase/phosphopantothenate--cysteine_ligase_1951168..1951398_NEGATIVE 338 249 201 204 152 NC_002950:PG1842|5end_acetyltransferase,_GNAT_family_1938241..1938471_POSITIVE 338 249 210 217 178 NC_002950:PG1342|5end_UDP-N-acetylenolpyruvoylglucosamine_reductase_1422585..1422815_POSITIVE 337 249 208 59 19 NC_002950:PG0104|5end_DNA_topoisomerase_III_125341..125571_POSITIVE 335 188 143 55 2 NC_002950:PG0441|5end_hypothetical_protein_478734..478964_POSITIVE 334 127 83 227 179 NC_002950:PG2121|5end_L-asparaginase_2229624..2229854_NEGATIVE 332 246 201 165 114 NC_002950:PG0043|5end_beta-hexosaminidase_51066..51296_POSITIVE 327 113 76 64 23 NC_002950:PG0434|5end_hypothetical_protein_472513..472743_NEGATIVE 324 250 204 193 139 NC_002950:PG0934|5end_hypothetical_protein_994318..994548_NEGATIVE 323 249 209 194 152 NC_002950:PG1720|5end_hypothetical_protein_1808615..1808845_POSITIVE 323 184 142 223 158 NC_002950:PG1254|5end_acetyltransferase,_GNAT_family_1332121..1332351_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 383 250 202 123 72 NC_002950:PG2150|3end_LysM_domain_protein_2257667..2257817_NEGATIVE 377 238 202 42 4 NC_002950:PG1364|3end_1-deoxy-D-xylulose_5-phosphate_reductoisomerase_1444388..1444538_NEGATIVE 347 90 48 51 1 NC_002950:PG1028|3end_TPR_domain_protein_1091096..1091246_POSITIVE 342 63 22 79 44 NC_002950:PG0179|3end_hypothetical_protein_202837..202987_POSITIVE 321 230 182 67 25 NC_002950:PG0965|3end_phosphatidylserine_decarboxylase_1025111..1025261_NEGATIVE 321 197 153 64 3 NC_002950:PG0439|3end_hypothetical_protein_478810..478960_POSITIVE 314 184 145 129 87 NC_002950:PG1975|3end_hemagglutinin_protein_HagC_2064350..2064500_POSITIVE 313 247 203 51 2 NC_002950:PG1394|3end_hypothetical_protein_1476264..1476414_NEGATIVE 309 247 202 146 104 NC_002950:PG1859|3end_glycerate_kinase_family_protein_1957174..1957324_NEGATIVE 308 178 133 73 36 NC_002950:PG1780|3end_8-amino-7-oxononanoate_synthase_1870053..1870203_POSITIVE 305 249 203 56 5 NC_002950:PG2207|3end_hypothetical_protein_2319142..2319292_NEGATIVE 305 185 141 145 96 NC_002950:PG1270|3end_hypothetical_protein_1349278..1349428_NEGATIVE 304 249 208 75 40 NC_002950:PG1851|3end_phosphopantothenoylcysteine_decarboxylase/phosphopantothenate--cysteine_ligase_1949954..1950104_NEGATIVE 303 249 204 86 46 NC_002950:PG1641|3end_phosphotyrosine_protein_phosphatase_1721260..1721410_NEGATIVE 303 173 140 60 27 NC_002950:PG1007|3end_transcriptional_regulator,_GntR_family_1066518..1066668_NEGATIVE 303 230 181 144 103 NC_002950:PG0732|3end_hypothetical_protein_783018..783168_POSITIVE 301 128 83 99 60 NC_002950:PG2102|3end_immunoreactive_61_kDa_antigen_PG91_2211424..2211574_NEGATIVE 300 70 28 73 20 NC_002950:PG1885|3end_polyphosphate_kinase_1981065..1981215_NEGATIVE 298 183 142 150 103 NC_002950:PG2065|3end_conserved_hypothetical_protein_TIGR00048_2162105..2162255_POSITIVE 298 198 153 114 73 NC_002950:PG0555|3end_DNA-binding_protein,_histone-like_family_611716..611866_NEGATIVE