Origin IGS: tatttttcgaaaatctacgattgactgtgttaaagctccttgatgaactttagttcgaatttcatcgctttgcccggtcattctgagaatttattcgagcatttgcaatactagcgctagcttaggcgacgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgacccaccacttaaaaccattatcaaaaagaaaaaggatattaaca .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgttaatatcctttttctttttgataatggttttaagtggtgggtcggaagcaaaccttcggtttcattcctaaaatttgagcctaaagtctcaaattttccctagaccagaacatacactgttctggtcttttcaccacggtgatcattatcttgtttggcgactacgtcgcctaagctagcgctagtattgcaaatgctcgaataaattctcagaatgaccgggcaaagcgatgaaattcgaactaaagttcatcaaggagctttaacacagtcaatcgtagattttcgaaaaata Mask Tandem Repeat Region ================================================ tatttttcgaaaatctacgattgactgtgttaaagctccttgatgaactttagttcgaatttcatcgctttgcccggtcattctgagaatttattcgagcatttgcaatactagcgctagcttaggcgacgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgacccaccacttaaaaccattatcaaaaagaaaaaggatattaaca Find is-nt database================================================ Query_seq: SSA_0037:SSA_0039|SSA_0037:SSA_0039:Phosphoribosylamine-glycine ligase; phosphoribosyl glycinamide synthetase (GARS), putative:Phosphoribosylaminoimidazole carboxylase, catalytic subunit, putative:->->:45675..45972 298 tatttttcgaaaatctacgattgactgtgttaaagctccttgatgaactttagttcgaatttcatcgctttgcccggtcattctgagaatttattcgagcatttgcaatactagcgctagcttaggcgacgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgacccaccacttaaaaccattatcaaaaagaaaaaggatattaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0037:SSA_0039|SSA_0037:SSA_0039:Phosphoribosylamine-glycine ligase; phosphoribosyl glycinamide synthetase (GARS), putative:Phosphoribosylaminoimidazole carboxylase, catalytic subunit, putative:->->:45675..45972 298 tatttttcgaaaatctacgattgactgtgttaaagctccttgatgaactttagttcgaatttcatcgctttgcccggtcattctgagaatttattcgagcatttgcaatactagcgctagcttaggcgacgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgacccaccacttaaaaccattatcaaaaagaaaaaggatattaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0037:SSA_0039|SSA_0037:SSA_0039:Phosphoribosylamine-glycine ligase; phosphoribosyl glycinamide synthetase (GARS), putative:Phosphoribosylaminoimidazole carboxylase, catalytic subunit, putative:->->:45675..45972 298 tatttttcgaaaatctacgattgactgtgttaaagctccttgatgaactttagttcgaatttcatcgctttgcccggtcattctgagaatttattcgagcatttgcaatactagcgctagcttaggcgacgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgacccaccacttaaaaccattatcaaaaagaaaaaggatattaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tatttttcgaaaatctacgattgactgtgttaaagctccttgatgaactttagttcgaatttcatcgctttgcccggtcattctgagaatttattcgagcatttgcaatactagcgctagcttaggcgacgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgacccaccacttaaaaccattatcaaaaagaaaaaggatattaaca Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 59 End: 193 .......................................................... M S S L C P V I L R I Y S S I C N T S A S L G D V V A K Q D N D H R G E K T R T V Y V L V ......................................................................................................... Protein_Len: 32 Strand: - Start: 196 End: 291 ................................................................................................................................................................................................... P F N S V K P E F K L F S V S P K S G V W W K F G N D F L F L M ....... Protein_Len: 34 Strand: - Start: 120 End: 221 ....................................................................................................................... S L R R L R W V L Y H D G H H F S W F L T H E P R P F I Q S K L S M ............................................................................. Protein_Len: 30 Strand: - Start: 1 End: 90 I K R F D V I S Q T L A G Q H V K T R I E D S Q G T M R L M ................................................................................................................................................................................................................ tatttttcgaaaatctacgattgactgtgttaaagctccttgatgaactttagttcgaatttcatcgctttgcccggtcattctgagaatttattcgagcatttgcaatactagcgctagcttaggcgacgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgacccaccacttaaaaccattatcaaaaagaaaaaggatattaaca 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================================================ tatttttcgaaaatctacgattgactgtgttaaagctccttgatgaactttagttcgaatttcatcgctttgcccggtcattctgagaatttattcgagcatttgcaatactagcgctagcttaggcgacgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgacccaccacttaaaaccattatcaaaaagaaaaaggatattaaca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -13.0 Tail_Score: -4.08216 Start: 169 End: 193 Full_Region: ctcaaattttcccta gaccagaaca tacac tgttctggtc ttttcaccacggtga ........................................................................................................................................................................gaccagaacatacactgttctggtc......................................................................................................... TransTerm Strand: + Conf: 47 HP_score: -4.3 Tail_Score: -2.62263 Start: 174 End: 188 Full_Region: GTGGTGAAAAGACCA GAACA GTGTA TGTTC TGGTCTAGGGAAAAT .............................................................................................................................................................................GAACAGTGTATGTTC.............................................................................................................. TransTerm Strand: - Conf: 51 HP_score: -2.2 Tail_Score: -3.95852 Start: 237 End: 253 Full_Region: ttttaagtggtgggt cggaag caaac cttcgg tttcattcctaaaat ............................................................................................................................................................................................................................................cggaagcaaaccttcgg............................................. Find igs database================================================ Query_seq: SSA_0037:SSA_0039|SSA_0037:SSA_0039:Phosphoribosylamine-glycine ligase; phosphoribosyl glycinamide synthetase (GARS), putative:Phosphoribosylaminoimidazole carboxylase, catalytic subunit, putative:->->:45675..45972 298 tatttttcgaaaatctacgattgactgtgttaaagctccttgatgaactttagttcgaatttcatcgctttgcccggtcattctgagaatttattcgagcatttgcaatactagcgctagcttaggcgacgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgacccaccacttaaaaccattatcaaaaagaaaaaggatattaaca Intra-Species Hit: Count: 1 Min: 1 Max: 298 Len: 298 Subject: NC_009009_SSA_0037_SSA_0039|Phosphoribosylamine-glycine ligase; phosphoribosyl glycinamide synthetase (GARS), putative:Phosphoribosylaminoimidazole carboxylase, catalytic subunit, putative|POSITIVE:POSITIVE|[45675,45972]|298 HSP 1 e-value: 1.0E-168 bit: 591.0 Len: 298 Query Start:1 Query End:298 Subject Strand: POSITIVE Subject Start: 1 Subject End: 298 tatttttcgaaaatctacgattgactgtgttaaagctccttgatgaactttagttcgaatttcatcgctttgcccggtcattctgagaatttattcgagcatttgcaatactagcgctagcttaggcgacgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgacccaccacttaaaaccattatcaaaaagaaaaaggatattaaca tatttttcgaaaatctacgattgactgtgttaaagctccttgatgaactttagttcgaatttcatcgctttgcccggtcattctgagaatttattcgagcatttgcaatactagcgctagcttaggcgacgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgacccaccacttaaaaccattatcaaaaagaaaaaggatattaaca Inter-species Hit: Count: 6 Min: 130 Max: 287 Len: 158 Subject: NC_003028_SP_0051_SP_0052|phosphoribosylamine--glycine ligase:hypothetical protein|POSITIVE:POSITIVE|[56003,56258]|256 HSP 1 e-value: 3.0E-40 bit: 167.0 Len: 158 Query Start:130 Query End:287 Subject Strand: POSITIVE Subject Start: 20 Subject End: 179 .................................................................................................................................cgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtc-tagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgac-ccaccacttaaaaccattatcaaaaagaaaaa........... .................................................................................................................................cgtagtcgccaaacacgataatggtcgtcgtggtgaaaagaccagaacagtgaatgttctggtcagggggaaacttggagaccttaggctcaaagtttaggaatgaaaccgaaggtttgcttccgcctccatcacctaagaccattatcaaaaagaaaaa........... Subject: NC_008533_SPD_0058_SPD_0059|phosphoribosylamine--glycine ligase:phosphoribosylaminoimidazole carboxylase, catalytic subunit|POSITIVE:POSITIVE|[56907,57308]|402 HSP 1 e-value: 2.0E-35 bit: 151.0 Len: 158 Query Start:130 Query End:287 Subject Strand: POSITIVE Subject Start: 20 Subject End: 179 .................................................................................................................................cgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtc-tagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgac-ccaccacttaaaaccattatcaaaaagaaaaa........... .................................................................................................................................cgtagtcgccaaacacgataatggtcgtcgtggtgaaaagaccagaacagtgaatgttctggtcagggggaaacttggagaccgtaggctcaaagtttaggaatgaaaccgaaggtttgcttccgcctctatcacctaagaccattatcaaaaagaaaaa........... Subject: NC_003098_spr0052_spr0053|phosphoribosylamine--glycine ligase:phosphoribosylaminoimidazole carboxylase catalytic subunit|POSITIVE:POSITIVE|[56907,57275]|369 HSP 1 e-value: 2.0E-35 bit: 151.0 Len: 158 Query Start:130 Query End:287 Subject Strand: POSITIVE Subject Start: 20 Subject End: 179 .................................................................................................................................cgtagtcgccaaacaagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtc-tagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccgac-ccaccacttaaaaccattatcaaaaagaaaaa........... .................................................................................................................................cgtagtcgccaaacacgataatggtcgtcgtggtgaaaagaccagaacagtgaatgttctggtcagggggaaacttggagaccgtaggctcaaagtttaggaatgaaaccgaaggtttgcttccgcctctatcacctaagaccattatcaaaaagaaaaa........... Subject: NC_006449_str0040_str0041|phosphoribosylamine--glycine ligase:phosphoribosylaminoimidazole carboxylase catalytic subunit|POSITIVE:POSITIVE|[46258,46590]|333 HSP 1 e-value: 2.0E-25 bit: 117.0 Len: 138 Query Start:144 Query End:281 Subject Strand: POSITIVE Subject Start: 46 Subject End: 183 ...............................................................................................................................................aagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccg-acccaccacttaaaaccattatcaaaaa................. ...............................................................................................................................................aagataatggttaccgtggtgaaaagaccagaacagatcctgttctggtcgagggaac-tttgagaccctaggctaaaagtttagggatgaaaccgaaggtttgcttccgtccccaccacctaagaccattatcaaaaa................. Subject: NC_008532_STER_0058_STER_0059|Phosphoribosylamine-glycine ligase:Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase|POSITIVE:POSITIVE|[47500,47832]|333 HSP 1 e-value: 6.0E-23 bit: 109.0 Len: 138 Query Start:144 Query End:281 Subject Strand: POSITIVE Subject Start: 46 Subject End: 183 ...............................................................................................................................................aagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccg-acccaccacttaaaaccattatcaaaaa................. ...............................................................................................................................................aagataatggttaccgtggtgaaaagaccagaacagatcctgttctggtcgagggaactttt-agaccctaggctaaaagtttagggatgaaaccgaaggtttgcttccgtccccaccacctaagaccattatcaaaaa................. Subject: NC_006448_stu0040_stu0041|phosphoribosylamine--glycine ligase:phosphoribosylaminoimidazole carboxylase catalytic subunit|POSITIVE:POSITIVE|[46231,46563]|333 HSP 1 e-value: 6.0E-23 bit: 109.0 Len: 138 Query Start:144 Query End:281 Subject Strand: POSITIVE Subject Start: 46 Subject End: 183 ...............................................................................................................................................aagataatgatcaccgtggtgaaaagaccagaacagtgtatgttctggtctagggaaaatttgagactttaggctcaaattttaggaatgaaaccgaaggtttgcttccg-acccaccacttaaaaccattatcaaaaa................. ...............................................................................................................................................aagataatggttaccgtggtgaaaagaccagaacagatcctgttctggtcgggggaac-tttgagaccctaggctaaaagtttagggatgaaaccgaaggtttgcttccgtccccaccacctaagaccattatcaaaaa................. Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUAGUCGCCAAACAAGAUAAUGAUCACCGUGGUGAAAAGACCAGAACAGUGUAUGUUCUGGUCUAGGGAAAAUUUGAGACUUUAGGCUCAAAUUUUAGGAAUGAAACCGAAGGUUUGCUUCCGACCCACCACUUAAAACCAUUAUCAAAAAGAAAAA ................(((((((......((((((...(((((((((((.....))))))))))).((.((((((((((.(.....))))))))))).((((..(((((...)))))..))))..)))))))).......)))))))........... (-49.92) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUCUUUUUGAUAAUGGUUUUAAGUGGUGGGUCGGAAGCAAACCUUCGGUUUCAUUCCUAAAAUUUGAGCCUAAAGUCUCAAAUUUUCCCUAGACCAGAACAUACACUGUUCUGGUCUUUUCACCACGGUGAUCAUUAUCUUGUUUGGCGACUACG ...........((((((((((....((((((((..((((..(((((...)))))..)))).((((((((((.(....).))))))))))....(((((((((((.....))))))))))).))))))))...))))))))))..((..(....).)). (-53.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 296 127 81 46 5 NC_009009:SSA_0452|5end_Nitrogen_utilization_substance_protein_B,_putative_451534..451764_POSITIVE 279 135 106 45 13 NC_009009:SSA_1224|5end_hypothetical_protein_1247481..1247711_NEGATIVE 279 59 17 225 165 NC_009009:SSA_0124|5end_30S_ribosomal_protein_S5,_putative_116422..116652_POSITIVE 268 127 81 213 157 NC_009009:SSA_2146|5end_Metallo-beta-lactamase,_putative_2148399..2148629_NEGATIVE 268 123 94 53 28 NC_009009:SSA_1028|5end_Transcriptional_repressor,_XRE_family,_putative_1046063..1046293_NEGATIVE 267 149 113 96 55 NC_009009:SSA_2024|5end_hypothetical_protein_2029272..2029502_NEGATIVE 266 120 76 60 20 NC_009009:SSA_0137|5end_ABC_transporter_(permease),_Zn_porter,_putative_131717..131947_POSITIVE 263 69 23 197 153 NC_009009:SSA_2141|5end_Argininosuccinate_lyase,_putative_2142201..2142431_NEGATIVE 261 68 21 62 6 NC_009009:SSA_1728|5end_ABC_transporter_membrane-spanning_permease-branched_chain_amino_acid_transport,_putative_1714293..1714523_NEGATIVE 260 147 108 216 171 NC_009009:SSA_1788|5end_Integral_membrane_protein,_possible_receptor,_putative_1772339..1772569_NEGATIVE 260 80 41 146 95 NC_009009:SSA_1166|5end_hypothetical_protein_1191929..1192159_POSITIVE 258 72 31 177 138 NC_009009:SSA_2376|5end_ABC_transporter_with_duplicated_ATPase_domains,_putative_2378744..2378974_POSITIVE 258 67 22 225 181 NC_009009:SSA_1880|5end_Glycyl-tRNA_synthetase_alpha_chain,_putative_1875182..1875412_NEGATIVE 258 119 76 224 187 NC_009009:SSA_1657|5end_hypothetical_protein_1653231..1653461_NEGATIVE 258 142 104 56 15 NC_009009:SSA_0966|5end_Uridine_kinase,_putative_975063..975293_POSITIVE 257 66 24 213 171 NC_009009:SSA_2027|5end_P-type_ATPase-metal/cation_transport_(probably_copper),_putative_2035172..2035402_NEGATIVE 257 87 41 185 132 NC_009009:SSA_0621|5end_SOS_responce_UmuC_protein,_putative_613737..613967_NEGATIVE 254 73 34 130 92 NC_009009:SSA_0662|5end_Multiple_antibiotic_resistance_operon_transcription_repressor_(MarR),_putative_648302..648532_NEGATIVE 252 128 87 157 122 NC_009009:SSA_0489|5end_Adenosylcobinamide_kinase_/_adenosylcobinamide_phosphate_guanyltransferase,_putative_489655..489885_POSITIVE 250 64 24 133 84 NC_009009:SSA_1254|5end_hypothetical_protein_1281484..1281714_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 296 127 81 68 27 NC_009009:SSA_0451|3end_Conserved_uncharacterized_protein_451636..451786_POSITIVE 291 56 16 139 98 NC_009009:SSA_0843|3end_hypothetical_protein_828478..828628_POSITIVE 266 120 76 67 27 NC_009009:SSA_0136|3end_ABC_transporter,_Zn_porter,_putative_131804..131954_POSITIVE 246 129 85 106 44 NC_009009:SSA_0190|3end_hypothetical_protein_191905..192055_POSITIVE 244 46 2 75 26 NC_009009:SSA_1681|3end_ABC-type_bacitracin_resistance_protein_A,_ATPase_component,_putative_1675181..1675331_NEGATIVE 242 65 23 140 89 NC_009009:SSA_0250|3end_GTP_pyrophosphokinase,_putative_244466..244616_POSITIVE 239 68 45 151 129 NC_009009:SSA_0546|3end_Phospho-2-dehydro-3-deoxyheptonate_aldolase_(DAHP_synthatase),_possibly_tyr-sensitive,_putative_541963..542113_POSITIVE 237 127 81 151 113 NC_009009:SSA_1578|3end_ABC-type_Fe3+-siderophore_transport_system,_permease_component,_putative_1582929..1583079_POSITIVE 236 132 93 143 96 NC_009009:SSA_1276|3end_Conserved_uncharacterized_protein_1298156..1298306_NEGATIVE 234 90 42 141 99 NC_009009:SSA_1861|3end_Aminopeptidase_C,_putative_1856568..1856718_NEGATIVE 233 110 62 62 8 NC_009009:SSA_0882|3end_Phosphoserine_phosphatase,_putative_877630..877780_POSITIVE 231 125 81 149 103 NC_009009:SSA_0621|3end_SOS_responce_UmuC_protein,_putative_612322..612472_NEGATIVE 230 148 113 97 57 NC_009009:SSA_2275|3end_hypothetical_protein_2275225..2275375_NEGATIVE 230 65 32 80 39 NC_009009:SSA_0099|3end_hypothetical_protein_100134..100284_NEGATIVE 229 129 81 70 14 NC_009009:SSA_1899|3end_hypothetical_protein_1894443..1894593_NEGATIVE 229 49 4 149 103 NC_009009:SSA_0299|3end_hypothetical_protein_293342..293492_POSITIVE 227 43 8 42 3 NC_009009:SSA_1531|3end_ABC-type_antimicrobial_peptide_transporter,_ATPase_component,_putative_1538778..1538928_NEGATIVE 226 89 43 139 99 NC_009009:SSA_1038|3end_Lipoprotein,_putative_1053714..1053864_POSITIVE 225 128 87 72 26 NC_009009:SSA_0559|3end_hypothetical_protein_553119..553269_POSITIVE 224 64 24 150 112 NC_009009:SSA_1936|3end_3-oxoacyl-[acyl-carrier_protein]_reductase,_putative_1923104..1923254_NEGATIVE