Origin IGS: ataagatgggaaataaaaagagcagaaggaacaagctgattaaaagctgtccttcttgttttttatgagaaaaaaggatagtaccattatctctgataattctataggaaaaggcttttaaaaaggtatataatagagtgaagcttttataaaatagagctgagtcaga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctgactcagctctattttataaaagcttcactctattatatacctttttaaaagccttttcctatagaattatcagagataatggtactatccttttttctcataaaaaacaagaaggacagcttttaatcagcttgttccttctgctctttttatttcccatcttat Mask Tandem Repeat Region ================================================ ataagatgggaaataaaaagagcagaaggaacaagctgattaaaagctgtccttcttgttttttatgagaaaaaaggatagtaccattatctctgataattctataggaaaaggcttttaaaaaggtatataatagagtgaagcttttataaaatagagctgagtcaga Find is-nt database================================================ Query_seq: SSA_0419:SSA_0420|SSA_0419:SSA_0420:Alpha-galactosidase, putative:Hydrolase, HAD superfamily, putative:->->:418591..418759 169 ataagatgggaaataaaaagagcagaaggaacaagctgattaaaagctgtccttcttgttttttatgagaaaaaaggatagtaccattatctctgataattctataggaaaaggcttttaaaaaggtatataatagagtgaagcttttataaaatagagctgagtcaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0419:SSA_0420|SSA_0419:SSA_0420:Alpha-galactosidase, putative:Hydrolase, HAD superfamily, putative:->->:418591..418759 169 ataagatgggaaataaaaagagcagaaggaacaagctgattaaaagctgtccttcttgttttttatgagaaaaaaggatagtaccattatctctgataattctataggaaaaggcttttaaaaaggtatataatagagtgaagcttttataaaatagagctgagtcaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0419:SSA_0420|SSA_0419:SSA_0420:Alpha-galactosidase, putative:Hydrolase, HAD superfamily, putative:->->:418591..418759 169 ataagatgggaaataaaaagagcagaaggaacaagctgattaaaagctgtccttcttgttttttatgagaaaaaaggatagtaccattatctctgataattctataggaaaaggcttttaaaaaggtatataatagagtgaagcttttataaaatagagctgagtcaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ataagatgggaaataaaaagagcagaaggaacaagctgattaaaagctgtccttcttgttttttatgagaaaaaaggatagtaccattatctctgataattctataggaaaaggcttttaaaaaggtatataatagagtgaagcttttataaaatagagctgagtcaga Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 2 End: 100 . L I P F L F L L L F L S I L L Q G E Q K K H S F L I T G N D R I M ..................................................................... ataagatgggaaataaaaagagcagaaggaacaagctgattaaaagctgtccttcttgttttttatgagaaaaaaggatagtaccattatctctgataattctataggaaaaggcttttaaaaaggtatataatagagtgaagcttttataaaatagagctgagtcaga 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================================================ ataagatgggaaataaaaagagcagaaggaacaagctgattaaaagctgtccttcttgttttttatgagaaaaaaggatagtaccattatctctgataattctataggaaaaggcttttaaaaaggtatataatagagtgaagcttttataaaatagagctgagtcaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0419:SSA_0420|SSA_0419:SSA_0420:Alpha-galactosidase, putative:Hydrolase, HAD superfamily, putative:->->:418591..418759 169 ataagatgggaaataaaaagagcagaaggaacaagctgattaaaagctgtccttcttgttttttatgagaaaaaaggatagtaccattatctctgataattctataggaaaaggcttttaaaaaggtatataatagagtgaagcttttataaaatagagctgagtcaga Intra-Species Hit: Count: 1 Min: 1 Max: 169 Len: 169 Subject: NC_009009_SSA_0419_SSA_0420|Alpha-galactosidase, putative:Hydrolase, HAD superfamily, putative|POSITIVE:POSITIVE|[418591,418759]|169 HSP 1 e-value: 3.0E-91 bit: 335.0 Len: 169 Query Start:1 Query End:169 Subject Strand: POSITIVE Subject Start: 1 Subject End: 169 ataagatgggaaataaaaagagcagaaggaacaagctgattaaaagctgtccttcttgttttttatgagaaaaaaggatagtaccattatctctgataattctataggaaaaggcttttaaaaaggtatataatagagtgaagcttttataaaatagagctgagtcaga ataagatgggaaataaaaagagcagaaggaacaagctgattaaaagctgtccttcttgttttttatgagaaaaaaggatagtaccattatctctgataattctataggaaaaggcttttaaaaaggtatataatagagtgaagcttttataaaatagagctgagtcaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAGAUGGGAAAUAAAAAGAGCAGAAGGAACAAGCUGAUUAAAAGCUGUCCUUCUUGUUUUUUAUGAGAAAAAAGGAUAGUACCAUUAUCUCUGAUAAUUCUAUAGGAAAAGGCUUUUAAAAAGGUAUAUAAUAGAGUGAAGCUUUUAUAAAAUAGAGCUGAGUCAGA ...((((((.......((((((((((((((...((((.......)))).)))))).))))))))...........((......)).))))))(((((.(((((((........(((((....))))).....)))))))..((((((........))))))..))))). (-39.02) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUGACUCAGCUCUAUUUUAUAAAAGCUUCACUCUAUUAUAUACCUUUUUAAAAGCCUUUUCCUAUAGAAUUAUCAGAGAUAAUGGUACUAUCCUUUUUUCUCAUAAAAAACAAGAAGGACAGCUUUUAAUCAGCUUGUUCCUUCUGCUCUUUUUAUUUCCCAUCUUAU ...........(((((.....(((.((((.......................)))).)))....))))).......((((....((......)).....)))).((((((...((((((((((((.......))).)).)))))))....))))))............. (-24.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 54 19 149 110 NC_009009:SSA_1068|5end_Transcriptional_regulator,_LysR_family_(capsular_polysaccharide_biosynthesis_regulation),_putative_1087355..1087585_POSITIVE 297 66 34 79 45 NC_009009:SSA_0248|5end_hypothetical_protein_241360..241590_POSITIVE 295 68 22 93 34 NC_009009:SSA_1981|5end_hypothetical_protein_1975421..1975651_NEGATIVE 268 128 82 123 73 NC_009009:SSA_1001|5end_Arabinose_(multiple_sugar_metabolism)_operon_transcriptional_regulator,_putative_1001689..1001919_NEGATIVE 268 70 22 65 7 NC_009009:SSA_0635|5end_Indole-3-glycerol_phosphate_synthase,_putative_624388..624618_POSITIVE 262 87 47 151 96 NC_009009:SSA_1682|5end_hypothetical_protein_1676885..1677115_NEGATIVE 260 60 15 84 32 NC_009009:SSA_1915|5end_hypothetical_protein_1905440..1905670_NEGATIVE 256 70 33 169 130 NC_009009:SSA_0924|5end_ABC-type_antimicrobial_peptide_transport_system,_permease_component,_putative_933738..933968_POSITIVE 252 56 18 145 115 NC_009009:SSA_1307|5end_Trk_transporter_membrane-spanning_protein-K+_transport,_putative_1326270..1326500_NEGATIVE 251 63 32 48 19 NC_009009:SSA_1808|5end_hypothetical_protein_1792209..1792439_NEGATIVE 250 66 21 127 67 NC_009009:SSA_2127|5end_hypothetical_protein_2130850..2131080_NEGATIVE 250 66 21 222 162 NC_009009:SSA_2126|5end_hypothetical_protein_2130755..2130985_NEGATIVE 249 68 21 116 68 NC_009009:SSA_1237|5end_Uracil-DNA_glycosylase,_putative_1262366..1262596_NEGATIVE 248 49 8 185 139 NC_009009:SSA_1417|5end_SAM-dependent_methyltransferase,_putative_1427993..1428223_NEGATIVE 246 146 106 57 13 NC_009009:SSA_1761|5end_Hemolysin_(containing_CBS_domains),_putative_1748777..1749007_NEGATIVE 246 70 21 197 141 NC_009009:SSA_0184|5end_Competence_protein_ComYA,_putative_188156..188386_POSITIVE 245 70 27 78 27 NC_009009:SSA_1835|5end_Late_competence_protein,_putative_1830941..1831171_NEGATIVE 245 60 16 228 188 NC_009009:SSA_0686|5end_Fe2+/Zn2+_uptake_regulation_protein,_putative_669556..669786_POSITIVE 244 51 19 174 138 NC_009009:SSA_0479|5end_CbiQ_protein,_putative_480425..480655_POSITIVE 241 60 13 173 132 NC_009009:SSA_0154|5end_hypothetical_protein_149836..150066_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 54 19 59 20 NC_009009:SSA_1067|3end_hypothetical_protein_1087345..1087495_POSITIVE 297 66 34 94 60 NC_009009:SSA_0247|3end_hypothetical_protein_241455..241605_POSITIVE 295 68 22 87 28 NC_009009:SSA_1982|3end_Transcriptional_regulator,_LytR/AlgR_family,_putative_1975427..1975577_NEGATIVE 268 70 22 68 10 NC_009009:SSA_0634|3end_Anthranilate_phosphoribosyltransferase,_putative_624471..624621_POSITIVE 265 57 19 75 28 NC_009009:SSA_0492|3end_NADH-dependent_flavin_oxidoreductase,_putative_492771..492921_POSITIVE 256 70 33 49 10 NC_009009:SSA_0923|3end_Transcriptional_regulator,_TetR/AcrR_family,_putative_933698..933848_POSITIVE 253 79 33 97 51 NC_009009:SSA_1504|3end_hypothetical_protein_1506459..1506609_NEGATIVE 253 68 21 107 67 NC_009009:SSA_0583|3end_Nucleotidyltransferase,_putative_575679..575829_POSITIVE 252 56 18 148 118 NC_009009:SSA_1308|3end_hypothetical_protein_1326267..1326417_NEGATIVE 252 60 17 70 27 NC_009009:SSA_0419|3end_Alpha-galactosidase,_putative_418530..418680_POSITIVE 251 63 32 30 1 NC_009009:SSA_1809|3end_PTS_system_glucose-specific_EIIC_BA_component_(EIICBA-Glc)_(EII-_Glc/EIII-Glc),_putative_1792227..1792377_NEGATIVE 250 66 21 126 66 NC_009009:SSA_2128|3end_hypothetical_protein_2130851..2131001_NEGATIVE 249 68 21 80 32 NC_009009:SSA_1238|3end_hypothetical_protein_1262402..1262552_NEGATIVE 249 57 20 67 28 NC_009009:SSA_0402|3end_Histidine_kinase,_putative_400099..400249_POSITIVE 246 70 21 67 11 NC_009009:SSA_0183|3end_hypothetical_protein_188106..188256_POSITIVE 245 70 27 81 30 NC_009009:SSA_1836|3end_Superfamily_II_ATP-dependent_DNA/RNA_helicase_required_for_DNA_uptake_(late_competence_protein),_putative_1830938..1831088_NEGATIVE 244 51 19 56 20 NC_009009:SSA_0478|3end_Cobalt_transport_protein_cbiN,_putative_480387..480537_POSITIVE 241 68 23 97 36 NC_009009:SSA_1595|3end_Tellurite_resistance,_putative_1600951..1601101_NEGATIVE 241 62 24 87 39 NC_009009:SSA_1245|3end_Transcriptional_regulator,_LysR_family,_putative_1269710..1269860_POSITIVE 240 57 21 45 6 NC_009009:SSA_0375|3end_D-methionine-binding_lipoprotein_(ABC-type_transporter),_putative_365209..365359_POSITIVE