Origin IGS: aactgttattttcttttttaaaaataacaaaattatccactgttaaattaattaggaagcttattaaaataagaaattttagctttattcacattctgtggataacttcagctaacaatgtgaattcttttccagttcttgtggaaaactttgaacctttatgataaaataagatgcgtatgaatcagaaaattatagaaaaggagggaagtt .........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 aacttccctccttttctataattttctgattcatacgcatcttattttatcataaaggttcaaagttttccacaagaactggaaaagaattcacattgttagctgaagttatccacagaatgtgaataaagctaaaatttcttattttaataagcttcctaattaatttaacagtggataattttgttatttttaaaaaagaaaataacagtt Mask Tandem Repeat Region ================================================ aactgttattttcttttttaaaaataacaaaattatccactgttaaattaattaggaagcttattaaaataagaaattttagctttattcacattctgtggataacttcagctaacaatgtgaattcttttccagttcttgtggaaaactttgaacctttatgataaaataagatgcgtatgaatcagaaaattatagaaaaggagggaagtt Find is-nt database================================================ Query_seq: SSA_2382:SSA_0001|SSA_2382:SSA_0001:Chromosome partitioning protein ParB or transcriptional regulator Spo0J, putative:Chromosomal replication initiator protein dnaA, putative:->->:1..213 213 aactgttattttcttttttaaaaataacaaaattatccactgttaaattaattaggaagcttattaaaataagaaattttagctttattcacattctgtggataacttcagctaacaatgtgaattcttttccagttcttgtggaaaactttgaacctttatgataaaataagatgcgtatgaatcagaaaattatagaaaaggagggaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_2382:SSA_0001|SSA_2382:SSA_0001:Chromosome partitioning protein ParB or transcriptional regulator Spo0J, putative:Chromosomal replication initiator protein dnaA, putative:->->:1..213 213 aactgttattttcttttttaaaaataacaaaattatccactgttaaattaattaggaagcttattaaaataagaaattttagctttattcacattctgtggataacttcagctaacaatgtgaattcttttccagttcttgtggaaaactttgaacctttatgataaaataagatgcgtatgaatcagaaaattatagaaaaggagggaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_2382:SSA_0001|SSA_2382:SSA_0001:Chromosome partitioning protein ParB or transcriptional regulator Spo0J, putative:Chromosomal replication initiator protein dnaA, putative:->->:1..213 213 aactgttattttcttttttaaaaataacaaaattatccactgttaaattaattaggaagcttattaaaataagaaattttagctttattcacattctgtggataacttcagctaacaatgtgaattcttttccagttcttgtggaaaactttgaacctttatgataaaataagatgcgtatgaatcagaaaattatagaaaaggagggaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aactgttattttcttttttaaaaataacaaaattatccactgttaaattaattaggaagcttattaaaataagaaattttagctttattcacattctgtggataacttcagctaacaatgtgaattcttttccagttcttgtggaaaactttgaacctttatgataaaataagatgcgtatgaatcagaaaattatagaaaaggagggaagtt Predict ORF larger than 30AA ================================================ Protein_Len: 53 Strand: + Start: 3 End: 161 .. M L F S F L K I T K L S T V K L I R K L I K I R N F S F I H I L W I T S A N N V N S F P V L V E N F E P L .................................................... Protein_Len: 30 Strand: - Start: 92 End: 181 ........................................................................................... M R H I V E A L L T F E K G T R T S F K S G K H Y F L I R M ................................ aactgttattttcttttttaaaaataacaaaattatccactgttaaattaattaggaagcttattaaaataagaaattttagctttattcacattctgtggataacttcagctaacaatgtgaattcttttccagttcttgtggaaaactttgaacctttatgataaaataagatgcgtatgaatcagaaaattatagaaaaggagggaagtt Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 141 End: 170 ............................................................................................................................................GTGGAAAACTTTGAACCTTTATGATAAAAT........................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aactgttattttcttttttaaaaataacaaaattatccactgttaaattaattaggaagcttattaaaataagaaattttagctttattcacattctgtggataacttcagctaacaatgtgaattcttttccagttcttgtggaaaactttgaacctttatgataaaataagatgcgtatgaatcagaaaattatagaaaaggagggaagtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_2382:SSA_0001|SSA_2382:SSA_0001:Chromosome partitioning protein ParB or transcriptional regulator Spo0J, putative:Chromosomal replication initiator protein dnaA, putative:->->:1..213 213 aactgttattttcttttttaaaaataacaaaattatccactgttaaattaattaggaagcttattaaaataagaaattttagctttattcacattctgtggataacttcagctaacaatgtgaattcttttccagttcttgtggaaaactttgaacctttatgataaaataagatgcgtatgaatcagaaaattatagaaaaggagggaagtt Intra-Species Hit: Count: 1 Min: 1 Max: 213 Len: 213 Subject: NC_009009_SSA_2382_SSA_0001|Chromosome partitioning protein ParB or transcriptional regulator Spo0J, putative:Chromosomal replication initiator protein dnaA, putative|POSITIVE:POSITIVE|[1,213]|213 HSP 1 e-value: 1.0E-117 bit: 422.0 Len: 213 Query Start:1 Query End:213 Subject Strand: POSITIVE Subject Start: 1 Subject End: 213 aactgttattttcttttttaaaaataacaaaattatccactgttaaattaattaggaagcttattaaaataagaaattttagctttattcacattctgtggataacttcagctaacaatgtgaattcttttccagttcttgtggaaaactttgaacctttatgataaaataagatgcgtatgaatcagaaaattatagaaaaggagggaagtt aactgttattttcttttttaaaaataacaaaattatccactgttaaattaattaggaagcttattaaaataagaaattttagctttattcacattctgtggataacttcagctaacaatgtgaattcttttccagttcttgtggaaaactttgaacctttatgataaaataagatgcgtatgaatcagaaaattatagaaaaggagggaagtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUGUUAUUUUCUUUUUUAAAAAUAACAAAAUUAUCCACUGUUAAAUUAAUUAGGAAGCUUAUUAAAAUAAGAAAUUUUAGCUUUAUUCACAUUCUGUGGAUAACUUCAGCUAACAAUGUGAAUUCUUUUCCAGUUCUUGUGGAAAACUUUGAACCUUUAUGAUAAAAUAAGAUGCGUAUGAAUCAGAAAAUUAUAGAAAAGGAGGGAAGUU ((((....((((((((((((.......((((.((.(((((.......(((((.((....)).)))))...(((((...((((((((((((((.....))))))))....))))))...((.(((.....))))).)))))))))).)).))))...................(((........))).........))))))))))))..)))) (-38.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUUCCCUCCUUUUCUAUAAUUUUCUGAUUCAUACGCAUCUUAUUUUAUCAUAAAGGUUCAAAGUUUUCCACAAGAACUGGAAAAGAAUUCACAUUGUUAGCUGAAGUUAUCCACAGAAUGUGAAUAAAGCUAAAAUUUCUUAUUUUAAUAAGCUUCCUAAUUAAUUUAACAGUGGAUAAUUUUGUUAUUUUUAAAAAAGAAAAUAACAGUU .((((....(((((...((((..(...(((.(....).)))..)..))))...)))))....))))((((((.......))))))...((((((....((((((....((((.(((.....))).))))))))))......(((..(((((.((....)).)))))..)))..))))))....(((((((((((......))))))))))).. (-34.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 273 167 122 231 176 NC_009009:SSA_1466|5end_Prephenate_dehydrogenase,_putative_1473111..1473341_NEGATIVE 265 157 111 206 157 NC_009009:SSA_1010|5end_UDP-glucose_4-epimerase,_putative_1012739..1012969_POSITIVE 259 166 121 202 150 NC_009009:SSA_2381|5end_DegP_protein,_putative_2386298..2386528_POSITIVE 258 159 117 119 82 NC_009009:SSA_2154|5end_Conserved_uncharacterized_protein_2155259..2155489_NEGATIVE 256 137 91 132 79 NC_009009:SSA_1969|5end_Acetolactate_synthase_small_subunit,_putative_1965222..1965452_NEGATIVE 252 140 92 79 32 NC_009009:SSA_1261|5end_Ribose-5-phosphate_isomerase_A,_putative_1287654..1287884_NEGATIVE 236 146 108 231 190 NC_009009:SSA_1469|5end_Shikimate_dehydrogenase,_putative_1476317..1476547_NEGATIVE 236 174 133 142 92 NC_009009:SSA_0418|5end_AraC-type_DNA-binding_domain-containing_protein,_putative_415256..415486_POSITIVE 231 128 81 122 80 NC_009009:SSA_1776|5end_Potassium_uptake_protein,_Trk_family,_putative_1762639..1762869_POSITIVE 231 142 110 36 1 NC_009009:SSA_1537|5end_Conserved_uncharacterized_protein_1544441..1544671_NEGATIVE 228 136 92 141 105 NC_009009:SSA_2041|5end_Leucine-rich_protein,_putative_2046682..2046912_NEGATIVE 228 134 96 45 13 NC_009009:SSA_1055|5end_Conserved_uncharacterized_protein_1070899..1071129_POSITIVE 221 129 81 69 15 NC_009009:SSA_0246|5end_Conserved_uncharacterized_protein_239703..239933_POSITIVE 216 135 95 67 20 NC_009009:SSA_1196|5end_Acetyltransferase,_GNAT_family,_putative_1222052..1222282_NEGATIVE 215 139 95 105 61 NC_009009:SSA_1842|5end_Two-component_response_transcriptional_regulator_(CheY-like_receiver_and_HTH_DNA-binding_domains),_putative_1836494..1836724_NEGATIVE 215 117 77 179 143 NC_009009:SSA_1806|5end_Replication_initiation/membrane_attachment_protein_DnaB,_putative_1790749..1790979_NEGATIVE 213 162 132 91 52 NC_009009:SSA_0485|5end_Porphobilinogen_deaminase,_putative_485732..485962_POSITIVE 212 179 134 149 109 NC_009009:SSA_1145|5end_hypothetical_protein_1176131..1176361_NEGATIVE 211 136 96 51 7 NC_009009:SSA_1799|5end_Acetyltransferase,_putative_1781025..1781255_NEGATIVE 211 124 82 57 17 NC_009009:SSA_0276|5end_Glycosyltransferase,_family_2/glycosyltransferase_family_8,_putative_269718..269948_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 256 137 91 139 86 NC_009009:SSA_1970|3end_Acetolactate_synthase,_large_subunit,_biosynthetic_type,_putative_1965215..1965365_NEGATIVE 231 128 81 116 74 NC_009009:SSA_1775|3end_Potassium_uptake_protein,_Trk_family,_putative_1762713..1762863_POSITIVE 228 134 96 39 7 NC_009009:SSA_1054|3end_CBS_domain_protein,_putative_1070973..1071123_POSITIVE 216 113 73 120 78 NC_009009:SSA_1341|3end_Carbamoyl-phosphate_synthase_large_chain,_putative_1356648..1356798_NEGATIVE 216 135 95 70 23 NC_009009:SSA_1197|3end_DNA_alkylation_repair_enzyme,_putative_1222049..1222199_NEGATIVE 215 139 95 127 83 NC_009009:SSA_1843|3end_Histidine_kinase,_putative_1836472..1836622_NEGATIVE 214 155 116 60 24 NC_009009:SSA_1536|3end_Biotin_synthase,_putative_1544234..1544384_POSITIVE 213 162 132 104 65 NC_009009:SSA_0484|3end_Glutamyl-tRNA_reductase,_putative_485825..485975_POSITIVE 212 133 107 89 65 NC_009009:SSA_0760|3end_Acetylornithine_aminotransferase,_putative_743803..743953_POSITIVE 207 112 81 106 74 NC_009009:SSA_1678|3end_ABC-type_multidrug_transport_system,_permease_component,_putative_1671336..1671486_NEGATIVE 206 189 142 69 11 NC_009009:SSA_0417|3end_5,10-methylenetetrahydrofolate_reductase,_putative_415238..415388_POSITIVE 205 137 93 105 52 NC_009009:SSA_2209|3end_Penicillin-binding_protein_2A,_putative_2208144..2208294_NEGATIVE 204 128 91 97 58 NC_009009:SSA_1166|3end_hypothetical_protein_1192350..1192500_POSITIVE 204 136 96 126 83 NC_009009:SSA_0593|3end_Rhodanese-like_sulfurtransferase,_putative_585551..585701_POSITIVE 202 144 101 114 70 NC_009009:SSA_1973|3end_Histidine_kinase,_putative_1968407..1968557_NEGATIVE 201 140 97 124 80 NC_009009:SSA_0893|3end_ATP-binding_cassette_transporter-like_protein,_putative_885872..886022_POSITIVE 200 183 142 60 21 NC_009009:SSA_0166|3end_hypothetical_protein_165146..165296_POSITIVE 196 115 72 94 52 NC_009009:SSA_2242|3end_hypothetical_protein_2238121..2238271_NEGATIVE 196 160 112 136 91 NC_009009:SSA_0678|3end_Transcriptional_regulator,_ArgR_family,_putative_660785..660935_POSITIVE 195 138 91 103 37 NC_009009:SSA_1153|3end_HemK_protein,_putative_1182748..1182898_POSITIVE