Origin IGS: tcatcaaaaaaacataaactgcattcccttctctcttgggactgcaaacaaaaaaatatgaatacaagaaagtgattcaataaaaatgagaaaaaaatatttttattagttgtcctcttgctgcctttattcttggtagcctgccagcaaaactcaaattcttccaaacaagccaatgagaaagacaaactcact .........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 agtgagtttgtctttctcattggcttgtttggaagaatttgagttttgctggcaggctaccaagaataaaggcagcaagaggacaactaataaaaatatttttttctcatttttattgaatcactttcttgtattcatatttttttgtttgcagtcccaagagagaagggaatgcagtttatgtttttttgatga Mask Tandem Repeat Region ================================================ tcatcaaaaaaacataaactgcattcccttctctcttgggactgcaaacaaaaaaatatgaatacaagaaagtgattcaataaaaatgagaaaaaaatatttttattagttgtcctcttgctgcctttattcttggtagcctgccagcaaaactcaaattcttccaaacaagccaatgagaaagacaaactcact Find is-nt database================================================ Query_seq: SSA_0498:SSA_0499|SSA_0498:SSA_0499:ABC-type dipeptide/oligopeptide/nickel transport systems, permease components, putative:ABC-type dipeptide transport system, periplasmic component, putative:->->:498860..499054 195 tcatcaaaaaaacataaactgcattcccttctctcttgggactgcaaacaaaaaaatatgaatacaagaaagtgattcaataaaaatgagaaaaaaatatttttattagttgtcctcttgctgcctttattcttggtagcctgccagcaaaactcaaattcttccaaacaagccaatgagaaagacaaactcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0498:SSA_0499|SSA_0498:SSA_0499:ABC-type dipeptide/oligopeptide/nickel transport systems, permease components, putative:ABC-type dipeptide transport system, periplasmic component, putative:->->:498860..499054 195 tcatcaaaaaaacataaactgcattcccttctctcttgggactgcaaacaaaaaaatatgaatacaagaaagtgattcaataaaaatgagaaaaaaatatttttattagttgtcctcttgctgcctttattcttggtagcctgccagcaaaactcaaattcttccaaacaagccaatgagaaagacaaactcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0498:SSA_0499|SSA_0498:SSA_0499:ABC-type dipeptide/oligopeptide/nickel transport systems, permease components, putative:ABC-type dipeptide transport system, periplasmic component, putative:->->:498860..499054 195 tcatcaaaaaaacataaactgcattcccttctctcttgggactgcaaacaaaaaaatatgaatacaagaaagtgattcaataaaaatgagaaaaaaatatttttattagttgtcctcttgctgcctttattcttggtagcctgccagcaaaactcaaattcttccaaacaagccaatgagaaagacaaactcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcatcaaaaaaacataaactgcattcccttctctcttgggactgcaaacaaaaaaatatgaatacaagaaagtgattcaataaaaatgagaaaaaaatatttttattagttgtcctcttgctgcctttattcttggtagcctgccagcaaaactcaaattcttccaaacaagccaatgagaaagacaaactcact Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 97 End: 195 ................................................................................................ M F L L V V L L L P L F L V A C Q Q N S N S S K Q A N E K D K L T Protein_Len: 60 Strand: - Start: 3 End: 194 .. L S C E R R E Q S Q L C F F I F V L F H N L L F S F F I N K N T T R K S G K N K T A Q W C F E F E E L C A L S F S L S M . tcatcaaaaaaacataaactgcattcccttctctcttgggactgcaaacaaaaaaatatgaatacaagaaagtgattcaataaaaatgagaaaaaaatatttttattagttgtcctcttgctgcctttattcttggtagcctgccagcaaaactcaaattcttccaaacaagccaatgagaaagacaaactcact 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================================================ tcatcaaaaaaacataaactgcattcccttctctcttgggactgcaaacaaaaaaatatgaatacaagaaagtgattcaataaaaatgagaaaaaaatatttttattagttgtcctcttgctgcctttattcttggtagcctgccagcaaaactcaaattcttccaaacaagccaatgagaaagacaaactcact Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0498:SSA_0499|SSA_0498:SSA_0499:ABC-type dipeptide/oligopeptide/nickel transport systems, permease components, putative:ABC-type dipeptide transport system, periplasmic component, putative:->->:498860..499054 195 tcatcaaaaaaacataaactgcattcccttctctcttgggactgcaaacaaaaaaatatgaatacaagaaagtgattcaataaaaatgagaaaaaaatatttttattagttgtcctcttgctgcctttattcttggtagcctgccagcaaaactcaaattcttccaaacaagccaatgagaaagacaaactcact Intra-Species Hit: Count: 1 Min: 13 Max: 195 Len: 183 Subject: NC_009009_SSA_0498_SSA_0499|ABC-type dipeptide/oligopeptide/nickel transport systems, permease components, putative:ABC-type dipeptide transport system, periplasmic component, putative|POSITIVE:POSITIVE|[498860,499054]|195 HSP 1 e-value: 1.0E-47 bit: 190.0 Len: 96 Query Start:100 Query End:195 Subject Strand: POSITIVE Subject Start: 100 Subject End: 195 ...................................................................................................tttttattagttgtcctcttgctgcctttattcttggtagcctgccagcaaaactcaaattcttccaaacaagccaatgagaaagacaaactcact ...................................................................................................tttttattagttgtcctcttgctgcctttattcttggtagcctgccagcaaaactcaaattcttccaaacaagccaatgagaaagacaaactcact HSP 2 e-value: 2.0E-9 bit: 63.9 Len: 32 Query Start:13 Query End:44 Subject Strand: POSITIVE Subject Start: 13 Subject End: 44 ............cataaactgcattcccttctctcttgggactg....................................................................................................................................................... ............cataaactgcattcccttctctcttgggactg....................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUAAACUGCAUUCCCUUCUCUCUUGGGACUGCAAACAAAAAAAUAUGAAUACAAGAAAGUGAUUCAAUAAAAAUGAGAAAAAAAUAUUUUUAUUAGUUGUCCUCUUGCUGCCUUUAUUCUUGGUAGCCUGCCAGCAAAACUCAAAUUCUUCCAAACAAGCCAAUGAGAAAGACAAACUCACU .......((((.((((.........)))).))))........................(((((...((((((((((.........))))))))))..(((((.....((((((.........))))))............((((....(((......)))....))))...)))))..))))) (-34.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUGAGUUUGUCUUUCUCAUUGGCUUGUUUGGAAGAAUUUGAGUUUUGCUGGCAGGCUACCAAGAAUAAAGGCAGCAAGAGGACAACUAAUAAAAAUAUUUUUUUCUCAUUUUUAUUGAAUCACUUUCUUGUAUUCAUAUUUUUUUGUUUGCAGUCCCAAGAGAGAAGGGAAUGCAGUUUAUG .((((((.(((((((((...((((((((..(.((((.......)))).)..))))))))...)))...))))))((((((((.....((((((((((...........))))))))))......))))))))))))))..........(((((.((((.........)))).)))))...... (-40.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 382 150 103 175 130 NC_009009:SSA_1307|5end_Trk_transporter_membrane-spanning_protein-K+_transport,_putative_1326270..1326500_NEGATIVE 353 135 100 179 138 NC_009009:SSA_1448|5end_ATP_phosphoribosyltransferase_regulatory_subunit,_putative_1450817..1451047_NEGATIVE 339 150 101 231 181 NC_009009:SSA_0841|5end_hypothetical_protein_826935..827165_POSITIVE 328 138 98 197 142 NC_009009:SSA_0583|5end_Nucleotidyltransferase,_putative_574505..574735_POSITIVE 313 150 102 215 160 NC_009009:SSA_0470|5end_Precorrin-4_methylase,_putative_472879..473109_POSITIVE 312 133 97 231 187 NC_009009:SSA_0486|5end_Uroporphyrinogen-III_synthase,_putative_486637..486867_POSITIVE 305 136 97 116 74 NC_009009:SSA_2047|5end_hypothetical_protein_2049953..2050183_NEGATIVE 303 133 91 64 12 NC_009009:SSA_0624|5end_hypothetical_protein_615079..615309_POSITIVE 302 137 96 42 1 NC_009009:SSA_2228|5end_Acetyltransferase_(GNAT)_family,_putative_2228768..2228998_NEGATIVE 302 137 97 189 130 NC_009009:SSA_0509|5end_Propanediol_utilization_protein,_putative_508024..508254_POSITIVE 291 137 94 176 135 NC_009009:SSA_1483|5end_Sphingosine_kinase_(diacylglycerol_kinase),_putative_1490220..1490450_NEGATIVE 290 157 112 200 155 NC_009009:SSA_2122|5end_hypothetical_protein_2127607..2127837_NEGATIVE 290 169 122 146 111 NC_009009:SSA_1712|5end_Arsenate_reductase_(ArsC),_glutaredoxin_family,_putative_1700084..1700314_NEGATIVE 282 150 108 47 5 NC_009009:SSA_0839|5end_hypothetical_protein_826751..826981_POSITIVE 281 155 111 187 142 NC_009009:SSA_0492|5end_NADH-dependent_flavin_oxidoreductase,_putative_491588..491818_POSITIVE 279 134 100 90 49 NC_009009:SSA_0524|5end_Microcompartment_protein,_putative_523150..523380_POSITIVE 279 144 103 48 5 NC_009009:SSA_0212|5end_Phenylalanyl-tRNA_synthetase,_beta_subunit,_putative_208373..208603_POSITIVE 278 138 102 148 98 NC_009009:SSA_1260|5end_Phosphopentomutase,_putative_1286963..1287193_NEGATIVE 278 136 100 117 78 NC_009009:SSA_0558|5end_Conserved_hypothetical_cytosolic_protein,_putative_552335..552565_POSITIVE 277 136 91 168 114 NC_009009:SSA_0978|5end_hypothetical_protein_983736..983966_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 353 135 100 123 82 NC_009009:SSA_1449|3end_Histidinol-phosphate/aromatic_aminotransferase_and_cobyric_acid_decarboxylase,_putative_1450873..1451023_NEGATIVE 305 136 97 85 43 NC_009009:SSA_2048|3end_Serine_acetyltransferase,_putative_2049984..2050134_NEGATIVE 302 137 97 149 90 NC_009009:SSA_0508|3end_Conserved_uncharacterized_protein,_possible_phosphoserine_phosphatase_508064..508214_POSITIVE 295 135 98 129 88 NC_009009:SSA_0923|3end_Transcriptional_regulator,_TetR/AcrR_family,_putative_933698..933848_POSITIVE 290 157 112 143 98 NC_009009:SSA_2123|3end_Dimethyladenosine_transferase,_putative_2127664..2127814_NEGATIVE 287 144 105 133 103 NC_009009:SSA_0539|3end_PduO_protein,_putative_534867..535017_POSITIVE 283 138 98 45 3 NC_009009:SSA_0211|3end_hypothetical_protein_208456..208606_POSITIVE 282 150 106 137 94 NC_009009:SSA_2196|3end_Conserved_uncharacterized_protein_2196929..2197079_NEGATIVE 282 150 108 45 3 NC_009009:SSA_0838|3end_GtfB,_putative_826829..826979_POSITIVE 282 133 93 150 114 NC_009009:SSA_0402|3end_Histidine_kinase,_putative_400099..400249_POSITIVE 281 139 94 129 91 NC_009009:SSA_0661|3end_Isoleucyl-tRNA_synthetase,_putative_647748..647898_POSITIVE 281 155 111 132 87 NC_009009:SSA_0491|3end_Alpha-ribazole-5'-phosphate_phosphatase,_putative_491613..491763_POSITIVE 279 134 100 55 14 NC_009009:SSA_0523|3end_Aldehyde_dehydrogenase,_putative_523195..523345_POSITIVE 278 138 102 134 84 NC_009009:SSA_1261|3end_Ribose-5-phosphate_isomerase_A,_putative_1286977..1287127_NEGATIVE 278 136 100 95 56 NC_009009:SSA_0557|3end_hypothetical_protein_552393..552543_POSITIVE 277 136 94 139 91 NC_009009:SSA_2247|3end_hypothetical_protein_2243135..2243285_POSITIVE 275 143 102 59 15 NC_009009:SSA_0480|3end_Cobalt_ABC_transporter,_ATP-binding_protein,_putative_482057..482207_POSITIVE 275 150 108 50 2 NC_009009:SSA_0434|3end_Glutamate_formiminotransferase,_putative_435669..435819_NEGATIVE 273 157 111 139 82 NC_009009:SSA_0330|3end_hypothetical_protein_325162..325312_POSITIVE 272 154 121 147 110 NC_009009:SSA_1416|3end_hypothetical_protein_1426520..1426670_NEGATIVE