Origin IGS: gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctattagagtaaaattctctacaaaaacggaagcaatctttttgattttatagtagggtgcgacagttaatcattgggaaatcaaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatttgatttcccaatgattaactgtcgcaccctactataaaatcaaaaagattgcttccgtttttgtagagaattttactctaatagaatagaattatcggttttaaaaacgcttacattattttaaaataaacttaaataacataacggaggtatccatc Mask Tandem Repeat Region ================================================ gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctattagagtaaaattctctacaaaaacggaagcaatctttttgattttatagtagggtgcgacagttaatcattgggaaatcaaatt Find is-nt database================================================ Query_seq: SMT_204:SMT_205|SMT_204:SMT_205:K02012 iron(III) transport system substrate-binding protein:K02012 iron(III) transport system substrate-binding protein:<-<-:136062..136223 162 gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctattagagtaaaattctctacaaaaacggaagcaatctttttgattttatagtagggtgcgacagttaatcattgggaaatcaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_204:SMT_205|SMT_204:SMT_205:K02012 iron(III) transport system substrate-binding protein:K02012 iron(III) transport system substrate-binding protein:<-<-:136062..136223 162 gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctattagagtaaaattctctacaaaaacggaagcaatctttttgattttatagtagggtgcgacagttaatcattgggaaatcaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_204:SMT_205|SMT_204:SMT_205:K02012 iron(III) transport system substrate-binding protein:K02012 iron(III) transport system substrate-binding protein:<-<-:136062..136223 162 gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctattagagtaaaattctctacaaaaacggaagcaatctttttgattttatagtagggtgcgacagttaatcattgggaaatcaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctattagagtaaaattctctacaaaaacggaagcaatctttttgattttatagtagggtgcgacagttaatcattgggaaatcaaatt Predict ORF larger than 30AA ================================================ gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctattagagtaaaattctctacaaaaacggaagcaatctttttgattttatagtagggtgcgacagttaatcattgggaaatcaaatt 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: 81 Start: 32 End: 61 ...............................GTTTTAAAAACGCTTACATTATTTTAAAAT..................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctattagagtaaaattctctacaaaaacggaagcaatctttttgattttatagtagggtgcgacagttaatcattgggaaatcaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_204:SMT_205|SMT_204:SMT_205:K02012 iron(III) transport system substrate-binding protein:K02012 iron(III) transport system substrate-binding protein:<-<-:136062..136223 162 gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctattagagtaaaattctctacaaaaacggaagcaatctttttgattttatagtagggtgcgacagttaatcattgggaaatcaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 162 Len: 162 Subject: smit_SMT_204_SMT_205|K02012 iron(III) transport system substrate-binding protein:K02012 iron(III) transport system substrate-binding protein|NEGATIVE:NEGATIVE|[136062,136223]|162 HSP 1 e-value: 4.0E-87 bit: 321.0 Len: 162 Query Start:1 Query End:162 Subject Strand: POSITIVE Subject Start: 1 Subject End: 162 gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctattagagtaaaattctctacaaaaacggaagcaatctttttgattttatagtagggtgcgacagttaatcattgggaaatcaaatt gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctattagagtaaaattctctacaaaaacggaagcaatctttttgattttatagtagggtgcgacagttaatcattgggaaatcaaatt Inter-species Hit: Count: 1 Min: 1 Max: 101 Len: 101 Subject: NC_003028_SP_0243_SP_0244|iron ABC transporter, iron-binding protein:hypothetical protein|NEGATIVE:NEGATIVE|[214508,214811]|304 HSP 1 e-value: 5.0E-25 bit: 115.0 Len: 78 Query Start:1 Query End:78 Subject Strand: POSITIVE Subject Start: 1 Subject End: 78 gatggatacctccgttatgttatttaagtttattttaaaataatgtaagcgtttttaaaaccgataattctattctat.................................................................................... gatggatacctccgttgtgttatttaagtttattttaaaacaatgtaagcgtttttaaaacatacaattctattctat.................................................................................... HSP 2 e-value: 6.0E-6 bit: 52.0 Len: 26 Query Start:76 Query End:101 Subject Strand: POSITIVE Subject Start: 181 Subject End: 206 ...........................................................................tattagagtaaaattctctacaaaaa............................................................. ...........................................................................tattagagtaaaattctctacaaaaa............................................................. Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUGGAUACCUCCGUUAUGUUAUUUAAGUUUAUUUUAAAAUAAUGUAAGCGUUUUUAAAACCGAUAAUUCUAUUCUAUUAGAGUAAAAUUCUCUACAAAAA ((((((....))))))...........((((((.(((...))).))))))............((.((((.(((((.....))))).)))).))........ (-12.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUGUAGAGAAUUUUACUCUAAUAGAAUAGAAUUAUCGGUUUUAAAAACGCUUACAUUAUUUUAAAAUAAACUUAAAUAACAUAACGGAGGUAUCCAUC ....(((.((.(((((((.((.....)).))))))).)).(((((((((............)))))))))...........)))....(((....)))... (-10.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 705 50 1 141 92 smit:SMT_204|5end_K02012_iron(III)_transport_system_substrate-binding_protein_135971..136201_NEGATIVE 223 30 1 39 8 smit:SMT_75|5end_hypothetical_protein_2306..2536_POSITIVE 218 50 3 142 92 smit:SMT_183|5end_30S_ribosomal_protein_S14_121014..121244_POSITIVE 213 57 11 139 87 smit:SMT_1434|5end_neopullulanase_1419645..1419875_NEGATIVE 206 37 1 217 183 smit:SMT_1334|5end_hypothetical_protein_1309077..1309307_NEGATIVE 188 95 59 42 3 smit:SMT_652|5end_transporter,_putative_563215..563445_NEGATIVE 188 72 43 166 139 smit:SMT_124|5end_hypothetical_protein_76654..76884_NEGATIVE 185 57 13 197 150 smit:SMT_1141|5end_4-alpha-glucanotransferase_1085117..1085347_NEGATIVE 185 84 44 59 23 smit:SMT_1088|5end_hypothetical_protein_1024346..1024576_NEGATIVE 180 76 49 105 75 smit:SMT_2152|5end_cell_division_protein_2025649..2025879_POSITIVE 173 99 57 219 174 smit:SMT_1172|5end_hypothetical_protein_1124506..1124736_NEGATIVE 173 92 61 135 104 smit:SMT_653|5end_positive_transcriptional_regulator_MutR_family_564155..564385_NEGATIVE 171 80 51 190 164 smit:SMT_969|5end_30S_ribosomal_protein_S15_914922..915152_NEGATIVE 170 37 2 125 96 smit:SMT_1336|5end_DNA_primase_1311964..1312194_NEGATIVE 168 84 45 214 179 smit:SMT_167|5end_acetyltransferase,_GNAT_family_113171..113401_POSITIVE 166 93 51 190 146 smit:SMT_407|5end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_351365..351595_POSITIVE 164 50 2 197 137 smit:SMT_137|5end_hypothetical_protein_89009..89239_NEGATIVE 162 94 57 107 68 smit:SMT_854|5end_hypothetical_protein_799492..799722_NEGATIVE 158 55 11 195 143 smit:SMT_913|5end_putative_sucrose-specific_PTS_permease,_enzyme_II_865809..866039_NEGATIVE 156 50 2 139 90 smit:SMT_1727|5end_uridine_kinase_1712483..1712713_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 218 50 3 124 74 smit:SMT_182|3end_50S_ribosomal_protein_L5_121076..121226_POSITIVE 215 77 33 137 99 smit:SMT_316|3end_acetyl-CoA_carboxylase_carboxyl_transferase_subunit_alpha_257391..257541_POSITIVE 211 84 57 97 71 smit:SMT_693|3end_hypothetical_protein_604078..604228_POSITIVE 194 50 7 62 18 smit:SMT_342|3end_chaperone_protein_DnaJ_283016..283166_POSITIVE 188 72 43 103 76 smit:SMT_125|3end_hypothetical_protein_76717..76867_NEGATIVE 185 84 44 62 26 smit:SMT_1089|3end_hypothetical_protein_1024343..1024493_NEGATIVE 183 19 4 65 47 smit:SMT_2075|3end_phosphoribosylamine--glycine_ligase_1977769..1977919_NEGATIVE 173 92 61 133 102 smit:SMT_654|3end_K06158_ATP-binding_cassette,_sub-family_F,_member_3_564157..564307_NEGATIVE 170 37 2 35 6 smit:SMT_1337|3end_K05833_putative_ABC_transport_system_ATP-binding_protein_1312054..1312204_NEGATIVE 167 78 42 43 5 smit:SMT_820|3end_ABC-type_oligopeptide_transport_system,_periplasmic_component_730734..730884_NEGATIVE 167 71 32 128 88 smit:SMT_184|3end_30S_ribosomal_protein_S8_121891..122041_POSITIVE 166 31 9 24 4 smit:SMT_2095|3end_K00783_hypothetical_protein_1990162..1990312_POSITIVE 162 94 57 107 68 smit:SMT_855|3end_dihydrofolate_reductase_799492..799642_NEGATIVE 156 52 11 70 30 smit:SMT_2028|3end_leader_peptidase_(prepilin_peptidase)_/_N-methyltransferase_1943367..1943517_NEGATIVE 155 96 60 58 23 smit:SMT_190|3end_preprotein_translocase,_SecY_subunit_125675..125825_POSITIVE 153 30 3 72 48 smit:SMT_909|3end_type_I_restriction_enzyme_M_protein_857223..857373_NEGATIVE 152 20 1 77 59 smit:SMT_531|3end_hypothetical_protein_predicted_by_Glimmer/Critica_453075..453225_POSITIVE 152 20 1 33 15 smit:SMT_528|3end_hypothetical_protein_predicted_by_Glimmer/Critica_452132..452282_POSITIVE 150 64 27 74 40 smit:SMT_2088|3end_glucose-1-phosphate_thymidylyltransferase_1985066..1985216_POSITIVE 150 77 42 130 98 smit:SMT_1202|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1163945..1164095_NEGATIVE