Origin IGS: aatattaggaaaagctggtattatatgatatagttgaagatgtgaatgtattgaaaaaagcttctttttgctaagtaagaaatactaaagatacttcccatcctcttgattttattaaaggagaaatcttttgaacaaattgaaaaaatttgctttagcgctgacagctctgggcttaggactcaccttatcagcttgttcatcatggattgaccgtggtgaatct .........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 agattcaccacggtcaatccatgatgaacaagctgataaggtgagtcctaagcccagagctgtcagcgctaaagcaaattttttcaatttgttcaaaagatttctcctttaataaaatcaagaggatgggaagtatctttagtatttcttacttagcaaaaagaagcttttttcaatacattcacatcttcaactatatcatataataccagcttttcctaatatt Mask Tandem Repeat Region ================================================ aatattaggaaaagctggtattatatgatatagttgaagatgtgaatgtattgaaaaaagcttctttttgctaagtaagaaatactaaagatacttcccatcctcttgattttattaaaggagaaatcttttgaacaaattgaaaaaatttgctttagcgctgacagctctgggcttaggactcaccttatcagcttgttcatcatggattgaccgtggtgaatct Find is-nt database================================================ Query_seq: SSA_0940:SSA_0941|SSA_0940:SSA_0941:NOL1/NOP2/sun family protein, putative:ABC-type phosphate transport system, periplasmic component, putative:->->:949071..949296 226 aatattaggaaaagctggtattatatgatatagttgaagatgtgaatgtattgaaaaaagcttctttttgctaagtaagaaatactaaagatacttcccatcctcttgattttattaaaggagaaatcttttgaacaaattgaaaaaatttgctttagcgctgacagctctgggcttaggactcaccttatcagcttgttcatcatggattgaccgtggtgaatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0940:SSA_0941|SSA_0940:SSA_0941:NOL1/NOP2/sun family protein, putative:ABC-type phosphate transport system, periplasmic component, putative:->->:949071..949296 226 aatattaggaaaagctggtattatatgatatagttgaagatgtgaatgtattgaaaaaagcttctttttgctaagtaagaaatactaaagatacttcccatcctcttgattttattaaaggagaaatcttttgaacaaattgaaaaaatttgctttagcgctgacagctctgggcttaggactcaccttatcagcttgttcatcatggattgaccgtggtgaatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0940:SSA_0941|SSA_0940:SSA_0941:NOL1/NOP2/sun family protein, putative:ABC-type phosphate transport system, periplasmic component, putative:->->:949071..949296 226 aatattaggaaaagctggtattatatgatatagttgaagatgtgaatgtattgaaaaaagcttctttttgctaagtaagaaatactaaagatacttcccatcctcttgattttattaaaggagaaatcttttgaacaaattgaaaaaatttgctttagcgctgacagctctgggcttaggactcaccttatcagcttgttcatcatggattgaccgtggtgaatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatattaggaaaagctggtattatatgatatagttgaagatgtgaatgtattgaaaaaagcttctttttgctaagtaagaaatactaaagatacttcccatcctcttgattttattaaaggagaaatcttttgaacaaattgaaaaaatttgctttagcgctgacagctctgggcttaggactcaccttatcagcttgttcatcatggattgaccgtggtgaatct Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 82 End: 210 ................................................................................. M L K I L P I L L I L L K E K S F E Q I E K I C F S A D S S G L R T H L I S L F I M D ................ Protein_Len: 32 Strand: + Start: 131 End: 226 .................................................................................................................................. M N K L K K F A L A L T A L G L G L T L S A C S S W I D R G E S Protein_Len: 31 Strand: - Start: 118 End: 210 ..................................................................................................................... L L F R K F L N F F N A K A S V A R P K P S V K D A Q E D H M ................ Protein_Len: 48 Strand: - Start: 24 End: 167 ....................... I I Y N F I H I Y Q F F S R K A L Y S I S F I S G M R K I K N F S F D K S C I S F I Q K L A S M ........................................................... aatattaggaaaagctggtattatatgatatagttgaagatgtgaatgtattgaaaaaagcttctttttgctaagtaagaaatactaaagatacttcccatcctcttgattttattaaaggagaaatcttttgaacaaattgaaaaaatttgctttagcgctgacagctctgggcttaggactcaccttatcagcttgttcatcatggattgaccgtggtgaatct 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================================================ aatattaggaaaagctggtattatatgatatagttgaagatgtgaatgtattgaaaaaagcttctttttgctaagtaagaaatactaaagatacttcccatcctcttgattttattaaaggagaaatcttttgaacaaattgaaaaaatttgctttagcgctgacagctctgggcttaggactcaccttatcagcttgttcatcatggattgaccgtggtgaatct Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 46 HP_score: -3.8 Tail_Score: -2.74144 Start: 136 End: 152 Full_Region: GAGAAATCTTTTGAA CAAATT GAAAA AATTTG CTTTAGCGCTGACAG .......................................................................................................................................CAAATTGAAAAAATTTG.......................................................................... Find igs database================================================ Query_seq: SSA_0940:SSA_0941|SSA_0940:SSA_0941:NOL1/NOP2/sun family protein, putative:ABC-type phosphate transport system, periplasmic component, putative:->->:949071..949296 226 aatattaggaaaagctggtattatatgatatagttgaagatgtgaatgtattgaaaaaagcttctttttgctaagtaagaaatactaaagatacttcccatcctcttgattttattaaaggagaaatcttttgaacaaattgaaaaaatttgctttagcgctgacagctctgggcttaggactcaccttatcagcttgttcatcatggattgaccgtggtgaatct Intra-Species Hit: Count: 1 Min: 1 Max: 226 Len: 226 Subject: NC_009009_SSA_0940_SSA_0941|NOL1/NOP2/sun family protein, putative:ABC-type phosphate transport system, periplasmic component, putative|POSITIVE:POSITIVE|[949071,949296]|226 HSP 1 e-value: 1.0E-125 bit: 448.0 Len: 226 Query Start:1 Query End:226 Subject Strand: POSITIVE Subject Start: 1 Subject End: 226 aatattaggaaaagctggtattatatgatatagttgaagatgtgaatgtattgaaaaaagcttctttttgctaagtaagaaatactaaagatacttcccatcctcttgattttattaaaggagaaatcttttgaacaaattgaaaaaatttgctttagcgctgacagctctgggcttaggactcaccttatcagcttgttcatcatggattgaccgtggtgaatct aatattaggaaaagctggtattatatgatatagttgaagatgtgaatgtattgaaaaaagcttctttttgctaagtaagaaatactaaagatacttcccatcctcttgattttattaaaggagaaatcttttgaacaaattgaaaaaatttgctttagcgctgacagctctgggcttaggactcaccttatcagcttgttcatcatggattgaccgtggtgaatct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAUUAGGAAAAGCUGGUAUUAUAUGAUAUAGUUGAAGAUGUGAAUGUAUUGAAAAAAGCUUCUUUUUGCUAAGUAAGAAAUACUAAAGAUACUUCCCAUCCUCUUGAUUUUAUUAAAGGAGAAAUCUUUUGAACAAAUUGAAAAAAUUUGCUUUAGCGCUGACAGCUCUGGGCUUAGGACUCACCUUAUCAGCUUGUUCAUCAUGGAUUGACCGUGGUGAAUCU ((((((((......)))))))).........((((((.((.((((..(((((......(((........))).((((.....))))...)))))......((((.(..((((..((((((((....))))))))..))))..)........((((.(((.......)))..))))..)))).)))).)).)))))).(((((((((((.....))))))))))).. (-52.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAUUCACCACGGUCAAUCCAUGAUGAACAAGCUGAUAAGGUGAGUCCUAAGCCCAGAGCUGUCAGCGCUAAAGCAAAUUUUUUCAAUUUGUUCAAAAGAUUUCUCCUUUAAUAAAAUCAAGAGGAUGGGAAGUAUCUUUAGUAUUUCUUACUUAGCAAAAAGAAGCUUUUUUCAAUACAUUCACAUCUUCAACUAUAUCAUAUAAUACCAGCUUUUCCUAAUAUU .((((((((...((((.................))))..))))))))........(((((((.......(((((.(((((((((.((....)).)))))))))...)))))..........((((((((((.((((....((((.....)))).(((........))).......)))).))).)))))))..................))))))).......... (-40.23) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 350 198 152 188 136 NC_009009:SSA_0279|5end_Sugar-binding_transcriptional_repressor_(DeoR),_putative_272319..272549_POSITIVE 346 195 151 218 169 NC_009009:SSA_0811|5end_hypothetical_protein_792469..792699_POSITIVE 336 195 157 64 18 NC_009009:SSA_1743|5end_ABC-type_Fe3+-siderophore_transport_system,_permease_component,_putative_1730170..1730400_POSITIVE 333 204 161 92 41 NC_009009:SSA_0744|5end_S-adenosylmethio_nine:tRNA-ribosyltransferase-isomerase_(queuine_synthetase),_putative_726804..727034_NEGATIVE 330 200 157 176 126 NC_009009:SSA_2269|5end_hypothetical_protein_2270327..2270557_NEGATIVE 329 194 158 226 189 NC_009009:SSA_1872|5end_Cell_division_protein,_putative_1869186..1869416_NEGATIVE 322 220 171 133 85 NC_009009:SSA_1187|5end_Transcriptional_antiterminator,_BglG_family,_putative_1216037..1216267_NEGATIVE 315 180 131 218 170 NC_009009:SSA_1343|5end_Aspartate_carbamoyltransferase,_putative_1361959..1362189_NEGATIVE 314 183 152 59 24 NC_009009:SSA_1372|5end_hypothetical_protein_1389137..1389367_NEGATIVE 313 189 148 144 98 NC_009009:SSA_0269|5end_Phosphotransferase_system_(PTS)_cellobiose-specific_component_IIA,_putative_262550..262780_POSITIVE 308 187 141 71 20 NC_009009:SSA_2055|5end_hypothetical_protein_2058160..2058390_NEGATIVE 306 208 167 41 10 NC_009009:SSA_0078|5end_N-acetylneuraminate_lyase,_putative_81904..82134_POSITIVE 301 196 151 162 113 NC_009009:SSA_0825|5end_DNA-directed_RNA_polymerase,_sigma_subunit_(sigma70/sigma32),_putative_803864..804094_POSITIVE 299 188 149 201 163 NC_009009:SSA_1439|5end_hypothetical_protein_1444373..1444603_NEGATIVE 299 196 151 65 19 NC_009009:SSA_1003|5end_ABC_transporter_substrate-binding_protein-multiple_sugars,_putative_1003875..1004105_POSITIVE 297 196 152 172 121 NC_009009:SSA_1209|5end_Inorganic_polyphosphate/ATP-NAD_kinase,_putative_1234030..1234260_NEGATIVE 297 199 152 70 9 NC_009009:SSA_0813|5end_Thioredoxin_reductase,_putative_795406..795636_NEGATIVE 297 192 153 231 189 NC_009009:SSA_0187|5end_Competence_protein_ComYD,_putative_190350..190580_POSITIVE 296 206 161 223 181 NC_009009:SSA_1044|5end_Homoserine_kinase,_putative_1059853..1060083_POSITIVE 296 198 151 206 154 NC_009009:SSA_0485|5end_Porphobilinogen_deaminase,_putative_485732..485962_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 346 199 157 79 25 NC_009009:SSA_0102|3end_Kinase,_putative_104627..104777_POSITIVE 333 204 161 82 31 NC_009009:SSA_0745|3end_hypothetical_protein_726814..726964_NEGATIVE 322 220 171 115 67 NC_009009:SSA_1188|3end_Ribonuclease_HII,_putative_1216055..1216205_NEGATIVE 321 201 161 151 107 NC_009009:SSA_2226|3end_Organic_radical_activating_chaperone,_putative_2227151..2227301_NEGATIVE 315 180 131 108 60 NC_009009:SSA_1344|3end_Xanthine/uracil_permeases,_putative_1362069..1362219_NEGATIVE 313 189 142 104 48 NC_009009:SSA_2109|3end_Elongation_factor_G,_putative_2112787..2112937_NEGATIVE 313 189 148 135 89 NC_009009:SSA_0268|3end_Phosphotransferase_system_(PTS)_cellobiose-specific_component_IIB,_putative_262621..262771_POSITIVE 299 196 151 52 6 NC_009009:SSA_1002|3end_Alpha-galactosidase,_putative_1003942..1004092_POSITIVE 292 200 157 141 99 NC_009009:SSA_0621|3end_SOS_responce_UmuC_protein,_putative_612322..612472_NEGATIVE 291 210 162 108 55 NC_009009:SSA_0812|3end_hypothetical_protein_794434..794584_POSITIVE 287 200 152 151 81 NC_009009:SSA_0142|3end_hypothetical_protein_137489..137639_POSITIVE 287 220 171 119 75 NC_009009:SSA_0094|3end_Cell_wall_metabolism,_LysM_type_protein,_putative_96522..96672_POSITIVE 286 200 153 62 1 NC_009009:SSA_0753|3end_Foldase_protein_prsA_precursor,_putative_736055..736205_POSITIVE 285 178 131 93 41 NC_009009:SSA_2077|3end_hypothetical_protein_2081352..2081502_NEGATIVE 283 168 125 123 85 NC_009009:SSA_2316|3end_General_secretory_pathway_protein_F,_putative_2317116..2317266_NEGATIVE 283 183 149 142 108 NC_009009:SSA_0824|3end_DNA_primase_(bacterial_type),_putative_803941..804091_POSITIVE 281 195 156 65 11 NC_009009:SSA_2354|3end_hypothetical_protein_2355605..2355755_NEGATIVE 277 197 152 83 16 NC_009009:SSA_1153|3end_HemK_protein,_putative_1182748..1182898_POSITIVE 273 208 162 124 76 NC_009009:SSA_0332|3end_hypothetical_protein_326924..327074_POSITIVE 270 108 71 61 22 NC_009009:SSA_1703|3end_Methionyl-tRNA_synthetase,_putative_1693640..1693790_NEGATIVE