Origin IGS: aaagtgttttgtcaaatagaagaattatggtaaaatggtaaatgaaacaagggactagataaggtcttcttgtgaagtcgagtgcagttcataggactggatgctgcatctgctgagagctttgcggtacactagatgagtgtgccttttttgttgaagagcagggtagtcaatagaaatgagatgaaagtcaa .........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 ttgactttcatctcatttctattgactaccctgctcttcaacaaaaaaggcacactcatctagtgtaccgcaaagctctcagcagatgcagcatccagtcctatgaactgcactcgacttcacaagaagaccttatctagtcccttgtttcatttaccattttaccataattcttctatttgacaaaacacttt Mask Tandem Repeat Region ================================================ aaagtgttttgtcaaatagaagaattatggtaaaatggtaaatgaaacaagggactagataaggtcttcttgtgaagtcgagtgcagttcataggactggatgctgcatctgctgagagctttgcggtacactagatgagtgtgccttttttgttgaagagcagggtagtcaatagaaatgagatgaaagtcaa Find is-nt database================================================ Query_seq: SSA_0195:SSA_0197|SSA_0195:SSA_0197:hypothetical protein:Dihydropteroate synthase, putative:->->:195892..196085 194 aaagtgttttgtcaaatagaagaattatggtaaaatggtaaatgaaacaagggactagataaggtcttcttgtgaagtcgagtgcagttcataggactggatgctgcatctgctgagagctttgcggtacactagatgagtgtgccttttttgttgaagagcagggtagtcaatagaaatgagatgaaagtcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0195:SSA_0197|SSA_0195:SSA_0197:hypothetical protein:Dihydropteroate synthase, putative:->->:195892..196085 194 aaagtgttttgtcaaatagaagaattatggtaaaatggtaaatgaaacaagggactagataaggtcttcttgtgaagtcgagtgcagttcataggactggatgctgcatctgctgagagctttgcggtacactagatgagtgtgccttttttgttgaagagcagggtagtcaatagaaatgagatgaaagtcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0195:SSA_0197|SSA_0195:SSA_0197:hypothetical protein:Dihydropteroate synthase, putative:->->:195892..196085 194 aaagtgttttgtcaaatagaagaattatggtaaaatggtaaatgaaacaagggactagataaggtcttcttgtgaagtcgagtgcagttcataggactggatgctgcatctgctgagagctttgcggtacactagatgagtgtgccttttttgttgaagagcagggtagtcaatagaaatgagatgaaagtcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaagtgttttgtcaaatagaagaattatggtaaaatggtaaatgaaacaagggactagataaggtcttcttgtgaagtcgagtgcagttcataggactggatgctgcatctgctgagagctttgcggtacactagatgagtgtgccttttttgttgaagagcagggtagtcaatagaaatgagatgaaagtcaa Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: - Start: 58 End: 180 ......................................................... I L D E Q S T S H L E Y S Q I S C R S L A K R Y V L H T H R K Q Q L A P Y D I S M .............. aaagtgttttgtcaaatagaagaattatggtaaaatggtaaatgaaacaagggactagataaggtcttcttgtgaagtcgagtgcagttcataggactggatgctgcatctgctgagagctttgcggtacactagatgagtgtgccttttttgttgaagagcagggtagtcaatagaaatgagatgaaagtcaa 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================================================ aaagtgttttgtcaaatagaagaattatggtaaaatggtaaatgaaacaagggactagataaggtcttcttgtgaagtcgagtgcagttcataggactggatgctgcatctgctgagagctttgcggtacactagatgagtgtgccttttttgttgaagagcagggtagtcaatagaaatgagatgaaagtcaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 93 HP_score: -7.6 Tail_Score: -5.4505 Start: 126 End: 146 Full_Region: TGCTGAGAGCTTTGC GGTACACT AGATG AGTGTGCC TTTTTTGTTGAAGAG .............................................................................................................................GGTACACTAGATGAGTGTGCC................................................ Find igs database================================================ Query_seq: SSA_0195:SSA_0197|SSA_0195:SSA_0197:hypothetical protein:Dihydropteroate synthase, putative:->->:195892..196085 194 aaagtgttttgtcaaatagaagaattatggtaaaatggtaaatgaaacaagggactagataaggtcttcttgtgaagtcgagtgcagttcataggactggatgctgcatctgctgagagctttgcggtacactagatgagtgtgccttttttgttgaagagcagggtagtcaatagaaatgagatgaaagtcaa Intra-Species Hit: Count: 1 Min: 1 Max: 194 Len: 194 Subject: NC_009009_SSA_0195_SSA_0197|hypothetical protein:Dihydropteroate synthase, putative|POSITIVE:POSITIVE|[195892,196085]|194 HSP 1 e-value: 1.0E-106 bit: 385.0 Len: 194 Query Start:1 Query End:194 Subject Strand: POSITIVE Subject Start: 1 Subject End: 194 aaagtgttttgtcaaatagaagaattatggtaaaatggtaaatgaaacaagggactagataaggtcttcttgtgaagtcgagtgcagttcataggactggatgctgcatctgctgagagctttgcggtacactagatgagtgtgccttttttgttgaagagcagggtagtcaatagaaatgagatgaaagtcaa aaagtgttttgtcaaatagaagaattatggtaaaatggtaaatgaaacaagggactagataaggtcttcttgtgaagtcgagtgcagttcataggactggatgctgcatctgctgagagctttgcggtacactagatgagtgtgccttttttgttgaagagcagggtagtcaatagaaatgagatgaaagtcaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGUGUUUUGUCAAAUAGAAGAAUUAUGGUAAAAUGGUAAAUGAAACAAGGGACUAGAUAAGGUCUUCUUGUGAAGUCGAGUGCAGUUCAUAGGACUGGAUGCUGCAUCUGCUGAGAGCUUUGCGGUACACUAGAUGAGUGUGCCUUUUUUGUUGAAGAGCAGGGUAGUCAAUAGAAAUGAGAUGAAAGUCAA ..((((((..(((...........((((((.......(((..(((.((((((((((......)))).))))))....)))..)))...)))))))))..))))))...((((.(((..(((((((((((((((.....)))))))).((((....)))).)))))))..))).)))).....(((....))).. (-48.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGACUUUCAUCUCAUUUCUAUUGACUACCCUGCUCUUCAACAAAAAAGGCACACUCAUCUAGUGUACCGCAAAGCUCUCAGCAGAUGCAGCAUCCAGUCCUAUGAACUGCACUCGACUUCACAAGAAGACCUUAUCUAGUCCCUUGUUUCAUUUACCAUUUUACCAUAAUUCUUCUAUUUGACAAAACACUUU ..((((.......((.(((....((((...((((...((.........((.(((((.....))))).)).....((.....)).)).)))).....))))....))).)).......((((....)))).........)))).................................................... (-24.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 427 150 103 59 21 NC_009009:SSA_0522|5end_Ethanolamine_utilization_protein,_putative_521067..521297_POSITIVE 385 120 76 171 129 NC_009009:SSA_0485|5end_Porphobilinogen_deaminase,_putative_485732..485962_POSITIVE 365 119 76 169 118 NC_009009:SSA_0825|5end_DNA-directed_RNA_polymerase,_sigma_subunit_(sigma70/sigma32),_putative_803864..804094_POSITIVE 363 140 95 229 182 NC_009009:SSA_0538|5end_PduH_protein,_putative_533794..534024_POSITIVE 353 127 81 79 29 NC_009009:SSA_1859|5end_Penicillin-binding_protein-like_factor_A/_recombinase,_putative_1853704..1853934_POSITIVE 347 128 85 193 147 NC_009009:SSA_0336|5end_Isopentenyl-diphosphate_delta-isomerase,_putative_329792..330022_POSITIVE 345 130 83 220 167 NC_009009:SSA_0143|5end_Conserved_uncharacterized_protein_137465..137695_POSITIVE 339 118 77 72 24 NC_009009:SSA_0226|5end_60_kDa_chaperonin_218947..219177_POSITIVE 330 127 83 180 127 NC_009009:SSA_1794|5end_Two-component_response_transcriptional_regulator_(CheY-like_receiver_and_winged-helix_DNA-binding_domains),_putative_1777049..1777279_NEGATIVE 328 146 102 52 1 NC_009009:SSA_1719|5end_Conserved_uncharacterized_protein_1706793..1707023_NEGATIVE 321 167 124 154 107 NC_009009:SSA_1793|5end_Histidine_kinase_(sensor_protein),_putative_1776361..1776591_NEGATIVE 321 106 62 77 30 NC_009009:SSA_0405|5end_Transcriptional_regulator,_XRE_family,_putative_401418..401648_POSITIVE 320 116 72 85 43 NC_009009:SSA_1084|5end_Conserved_uncharacterized_protein_1101675..1101905_POSITIVE 320 118 82 207 164 NC_009009:SSA_1012|5end_Phosphoenolpyruvate_synthase,_putative_1014739..1014969_POSITIVE 318 129 90 229 196 NC_009009:SSA_0078|5end_N-acetylneuraminate_lyase,_putative_81904..82134_POSITIVE 317 120 78 221 176 NC_009009:SSA_1198|5end_ATPase_(PilT_family),_putative_1223314..1223544_NEGATIVE 317 148 103 211 166 NC_009009:SSA_0839|5end_hypothetical_protein_826751..826981_POSITIVE 316 125 86 55 11 NC_009009:SSA_0488|5end_Glutamate-1-semialdehyde_2,1-aminotransferase,_putative_488364..488594_POSITIVE 315 148 101 188 124 NC_009009:SSA_0337|5end_Hydroxymethylglutaryl-CoA_reductase,_putative_332163..332393_NEGATIVE 314 153 111 146 98 NC_009009:SSA_0490|5end_Cobalamin_5'-phosphate_synthase,_putative_490236..490466_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 427 150 103 43 5 NC_009009:SSA_0521|3end_Ethanolamine_utilization_protein_EutL,_putative_521131..521281_POSITIVE 330 122 83 148 111 NC_009009:SSA_0142|3end_hypothetical_protein_137489..137639_POSITIVE 329 125 83 141 92 NC_009009:SSA_1571|3end_Threonyl-tRNA_synthetase,_putative_1573211..1573361_NEGATIVE 328 114 77 54 3 NC_009009:SSA_0634|3end_Anthranilate_phosphoribosyltransferase,_putative_624471..624621_POSITIVE 320 116 72 82 40 NC_009009:SSA_1083|3end_Conserved_uncharacterized_protein_1101752..1101902_POSITIVE 319 110 65 147 100 NC_009009:SSA_0824|3end_DNA_primase_(bacterial_type),_putative_803941..804091_POSITIVE 314 146 107 49 7 NC_009009:SSA_1720|3end_Initiation-control_protein,_putative_1706796..1706946_NEGATIVE 314 153 111 149 101 NC_009009:SSA_0489|3end_Adenosylcobinamide_kinase_/_adenosylcobinamide_phosphate_guanyltransferase,_putative_490319..490469_POSITIVE 311 127 85 128 86 NC_009009:SSA_0429|3end_Histidine_ammonia-lyase,_putative_429701..429851_NEGATIVE 308 129 85 151 105 NC_009009:SSA_1052|3end_hypothetical_protein_1066846..1066996_NEGATIVE 305 125 86 134 87 NC_009009:SSA_0831|3end_Nucleotide_sugar_synthetase-like_protein,_putative_816755..816905_POSITIVE 302 120 71 63 16 NC_009009:SSA_2140|3end_Ribonuclease_P_protein_component,_putative_2140308..2140458_NEGATIVE 300 140 93 83 35 NC_009009:SSA_2049|3end_Polyribonucleotide_nucleotidyltransferase,_putative_2050693..2050843_NEGATIVE 299 120 72 61 18 NC_009009:SSA_1201|3end_hypothetical_protein_1226518..1226668_POSITIVE 297 140 103 141 99 NC_009009:SSA_1915|3end_hypothetical_protein_1905276..1905426_NEGATIVE 295 169 130 138 92 NC_009009:SSA_1621|3end_Amino_acid_transporter,_putative_1623172..1623322_NEGATIVE 295 120 86 83 50 NC_009009:SSA_0780|3end_Acid_phosphatase_(PAP2_family),_putative_765328..765478_POSITIVE 294 127 81 81 22 NC_009009:SSA_0484|3end_Glutamyl-tRNA_reductase,_putative_485825..485975_POSITIVE 293 147 101 126 78 NC_009009:SSA_2211|3end_Transmembrane_protein,_putative_2211499..2211649_NEGATIVE 291 120 79 56 24 NC_009009:SSA_2230|3end_Ribonucleotide_reductase,_class_III,_anaerobic,_putative_2228963..2229113_NEGATIVE