Origin IGS: aagcaaagaatgacgcgattgattccaataacgatttaacggctgaagaaaagccaagctaargaagatgcgaaagcmaagccgacgcagcgaaaacagcgatcgacaacgcgacamaaacgatgcagtaaactcagctaaaaacgctgggggcacatcagtagaatcggtnnnnnttaattaattaannnnnggcagcttaccacttagctcaaggaccattcaaacaagcccttggtctttggtatgcccacgaaaaattctctccagaagccaaggcggacgtagagaaaaaa .........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 ttttttctctacgtccgccttggcttctggagagaatttttcgtgggcataccaaagaccaagggcttgtttgaatggtccttgagctaagtggtaagctgccnnnnnttaattaattaannnnnaccgattctactgatgtgcccccagcgtttttagctgagtttactgcatcgtttktgtcgcgttgtcgatcgctgttttcgctgcgtcggcttkgctttcgcatcttcyttagcttggcttttcttcagccgttaaatcgttattggaatcaatcgcgtcattctttgctt Mask Tandem Repeat Region ================================================ aagcaaagaatgacgcgattgattccaataacgatttaacggctgaagaaaagccaagctaargaagatgcgaaagcmaagccgacgcagcgaaaacagcgatcgacaacgcgacamaaacgatgcagtaaactcagctaaaaacgctgggggcacatcagtagaatcggtnnnnnttaattaattaannnnnggcagcttaccacttagctcaaggaccattcaaacaagcccttggtctttggtatgcccacgaaaaattctctccagaagccaaggcggacgtagagaaaaaa Find is-nt database================================================ Query_seq: SMT_1465:SMT_1466|SMT_1465:SMT_1466:hypothetical protein:endopeptidase O:->->:1446806..1447101 296 aagcaaagaatgacgcgattgattccaataacgatttaacggctgaagaaaagccaagctaargaagatgcgaaagcmaagccgacgcagcgaaaacagcgatcgacaacgcgacamaaacgatgcagtaaactcagctaaaaacgctgggggcacatcagtagaatcggtnnnnnttaattaattaannnnnggcagcttaccacttagctcaaggaccattcaaacaagcccttggtctttggtatgcccacgaaaaattctctccagaagccaaggcggacgtagagaaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1465:SMT_1466|SMT_1465:SMT_1466:hypothetical protein:endopeptidase O:->->:1446806..1447101 296 aagcaaagaatgacgcgattgattccaataacgatttaacggctgaagaaaagccaagctaargaagatgcgaaagcmaagccgacgcagcgaaaacagcgatcgacaacgcgacamaaacgatgcagtaaactcagctaaaaacgctgggggcacatcagtagaatcggtnnnnnttaattaattaannnnnggcagcttaccacttagctcaaggaccattcaaacaagcccttggtctttggtatgcccacgaaaaattctctccagaagccaaggcggacgtagagaaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1465:SMT_1466|SMT_1465:SMT_1466:hypothetical protein:endopeptidase O:->->:1446806..1447101 296 aagcaaagaatgacgcgattgattccaataacgatttaacggctgaagaaaagccaagctaargaagatgcgaaagcmaagccgacgcagcgaaaacagcgatcgacaacgcgacamaaacgatgcagtaaactcagctaaaaacgctgggggcacatcagtagaatcggtnnnnnttaattaattaannnnnggcagcttaccacttagctcaaggaccattcaaacaagcccttggtctttggtatgcccacgaaaaattctctccagaagccaaggcggacgtagagaaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 11 Min: 195 Max: 296 Len: 102 Subject: UniRef90_Q97PH0 Cluster: Endopeptidase O; n=3; Streptococcus pneumoniae|Rep: Endopeptidase O - Streptococcus pneumoniae HSP 1 e-value: 5.0E-11 bit: 68.9 Len: 102 Query Start:195 Query End:296 Subject Strand: null Subject Start: 310 Subject End: 343 .................................................................................................................................................................................................. A A Y H L A Q G P F K Q A L G L W Y A H E K F S P E A K A D V E K K .................................................................................................................................................................................................. A A Y H L A Q E P F K Q A L G L W Y A R E K F S P E A K A D V E K K Subject: UniRef90_P42359 Cluster: Hypothetical zinc metalloproteinase in scaA 5'region; n=2; Streptococcus|Rep: Hypothetical zinc metalloproteinase in scaA 5'region - Streptococcus gordonii Challis HSP 1 e-value: 2.0E-9 bit: 63.5 Len: 102 Query Start:195 Query End:296 Subject Strand: null Subject Start: 310 Subject End: 343 .................................................................................................................................................................................................. A A Y H L A Q G P F K Q A L G L W Y A H E K F S P E A K A D V E K K .................................................................................................................................................................................................. A A Y Y L A Q G P F N Q A I G L W Y A G Q K F S P E A K A D V E Q K Subject: UniRef90_Q1J9E4 Cluster: Oligoendopeptidase O; n=12; Streptococcus pyogenes|Rep: Oligoendopeptidase O - Streptococcus pyogenes serotype M12 (strain MGAS2096) HSP 1 e-value: 5.0E-9 bit: 62.4 Len: 102 Query Start:195 Query End:296 Subject Strand: null Subject Start: 311 Subject End: 344 .................................................................................................................................................................................................. A A Y H L A Q G P F K Q A L G L W Y A H E K F S P E A K A D V E K K .................................................................................................................................................................................................. A A F Y L A Q G P F N Q A L G L W Y A G Q K F S P E A K A D V E S K Subject: UniRef90_Q9F2E1 Cluster: Oligopeptidase; n=11; Streptococcus|Rep: Oligopeptidase - Streptococcus thermophilus HSP 1 e-value: 6.0E-9 bit: 62.0 Len: 102 Query Start:195 Query End:296 Subject Strand: null Subject Start: 311 Subject End: 344 .................................................................................................................................................................................................. A A Y H L A Q G P F K Q A L G L W Y A H E K F S P E A K A D V E K K .................................................................................................................................................................................................. A A F Y L A Q G P Y N Q A L G L W Y A G E K F S P E A K A D V E A K Subject: UniRef90_Q3YB67 Cluster: Putative PepO; n=1; Streptococcus ratti|Rep: Putative PepO - Streptococcus ratti HSP 1 e-value: 6.0E-9 bit: 62.0 Len: 102 Query Start:195 Query End:296 Subject Strand: null Subject Start: 311 Subject End: 344 .................................................................................................................................................................................................. A A Y H L A Q G P F K Q A L G L W Y A H E K F S P E A K A D V E K K .................................................................................................................................................................................................. A A F Y L A Q G P Y N Q A L G L W Y A G E K F S P E A K A D V E A K Subject: UniRef90_Q3DEM2 Cluster: Endopeptidase O; n=9; Streptococcus agalactiae|Rep: Endopeptidase O - Streptococcus agalactiae CJB111 HSP 1 e-value: 8.0E-9 bit: 61.6 Len: 102 Query Start:195 Query End:296 Subject Strand: null Subject Start: 311 Subject End: 344 .................................................................................................................................................................................................. A A Y H L A Q G P F K Q A L G L W Y A H E K F S P E A K A D V E K K .................................................................................................................................................................................................. A A Y Y L A S G P Y N Q A L G L W Y A G E K F S P E A K A D V E H K Subject: UniRef90_Q300M4 Cluster: Neprilysin; n=1; Streptococcus suis 89/1591|Rep: Neprilysin - Streptococcus suis 89/1591 HSP 1 e-value: 2.0E-8 bit: 60.5 Len: 102 Query Start:195 Query End:296 Subject Strand: null Subject Start: 276 Subject End: 309 .................................................................................................................................................................................................. A A Y H L A Q G P F K Q A L G L W Y A H E K F S P E A K A D V E K K .................................................................................................................................................................................................. A A Y N L A Q G Y F N Q A L G L W Y A G E K F S P E A K A D V E A K Subject: UniRef90_Q8KSS9 Cluster: Peptidase O; n=1; Streptococcus mutans|Rep: Peptidase O - Streptococcus mutans HSP 1 e-value: 2.0E-8 bit: 60.1 Len: 102 Query Start:195 Query End:296 Subject Strand: null Subject Start: 311 Subject End: 344 .................................................................................................................................................................................................. A A Y H L A Q G P F K Q A L G L W Y A H E K F S P E A K A D V E K K .................................................................................................................................................................................................. A A F Y L A Q G P Y N Q A L G L W Y A G E K F S P E A K K D V E A K Subject: UniRef90_Q9XD02 Cluster: Endopeptidase O; n=8; Streptococcus|Rep: Endopeptidase O - Streptococcus parasanguis HSP 1 e-value: 1.0E-7 bit: 57.8 Len: 102 Query Start:195 Query End:296 Subject Strand: null Subject Start: 311 Subject End: 344 .................................................................................................................................................................................................. A A Y H L A Q G P F K Q A L G L W Y A H E K F S P E A K A D V E K K .................................................................................................................................................................................................. A A L A L A E G P Y S Q A L G L W Y A G E K F S P E A K A D V E H K Subject: UniRef90_Q1KRD0 Cluster: Endopeptidase; n=4; Streptococcus salivarius|Rep: Endopeptidase - Streptococcus salivarius HSP 1 e-value: 1.0E-6 bit: 54.7 Len: 102 Query Start:195 Query End:296 Subject Strand: null Subject Start: 87 Subject End: 120 .................................................................................................................................................................................................. A A Y H L A Q G P F K Q A L G L W Y A H E K F S P E A K A D V E K K .................................................................................................................................................................................................. A A L S L A E V P Y S Q A L G L W Y A G E K F S P E A K A D V E H K Subject: UniRef90_Q03UX4 Cluster: Neutral endopeptidase; n=1; Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293|Rep: Neutral endopeptidase - Leuconostoc mesenteroides subsp. mesenteroides (strain ATCC 8293 /NCDO 523) HSP 1 e-value: 5.0E-6 bit: 52.4 Len: 102 Query Start:195 Query End:296 Subject Strand: null Subject Start: 310 Subject End: 343 .................................................................................................................................................................................................. A A Y H L A Q G P F K Q A L G L W Y A H E K F S P E A K A D V E K K .................................................................................................................................................................................................. S A F Y L A S R P F N Q A I G L Y Y A S E K F S P K A K A D V E E K aagcaaagaatgacgcgattgattccaataacgatttaacggctgaagaaaagccaagctaargaagatgcgaaagcmaagccgacgcagcgaaaacagcgatcgacaacgcgacamaaacgatgcagtaaactcagctaaaaacgctgggggcacatcagtagaatcggtnnnnnttaattaattaannnnngnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 43 End: 138 .......................................... M K K S Q A K E D A K A K P T Q R K Q R S T T R X K R C S K L S .............................................................................................................................................................. Protein_Len: 38 Strand: + Start: 68 End: 181 ................................................................... M R K X S R R S E N S D R Q R D X N D A V N S A K N A G G T S V E S V X X N ................................................................................................................... Protein_Len: 33 Strand: - Start: 39 End: 137 ...................................... R S F F L W A L S S A F A X G V C R F C R D V V R C X R H L L S M ............................................................................................................................................................... Protein_Len: 52 Strand: - Start: 1 End: 156 L L S H R S Q N W Y R N L P Q L F A L S X F I R F X L R R L S F L S R C R S X F S A T F E A L F A P P M ............................................................................................................................................ aagcaaagaatgacgcgattgattccaataacgatttaacggctgaagaaaagccaagctaargaagatgcgaaagcmaagccgacgcagcgaaaacagcgatcgacaacgcgacamaaacgatgcagtaaactcagctaaaaacgctgggggcacatcagtagaatcggtnnnnnttaattaattaannnnngnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn 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================================================ aagcaaagaatgacgcgattgattccaataacgatttaacggctgaagaaaagccaagctaargaagatgcgaaagcmaagccgacgcagcgaaaacagcgatcgacaacgcgacamaaacgatgcagtaaactcagctaaaaacgctgggggcacatcagtagaatcggtnnnnnttaattaattaannnnngnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1465:SMT_1466|SMT_1465:SMT_1466:hypothetical protein:endopeptidase O:->->:1446806..1447101 296 aagcaaagaatgacgcgattgattccaataacgatttaacggctgaagaaaagccaagctaargaagatgcgaaagcmaagccgacgcagcgaaaacagcgatcgacaacgcgacamaaacgatgcagtaaactcagctaaaaacgctgggggcacatcagtagaatcggtnnnnnttaattaattaannnnngnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Intra-Species Hit: Count: 1 Min: 1 Max: 188 Len: 188 Subject: smit_SMT_1465_SMT_1466|hypothetical protein:endopeptidase O|POSITIVE:POSITIVE|[1446806,1447101]|296 HSP 1 e-value: 6.0E-91 bit: 335.0 Len: 188 Query Start:1 Query End:188 Subject Strand: POSITIVE Subject Start: 1 Subject End: 188 aagcaaagaatgacgcgattgattccaataacgatttaacggctgaagaaaagccaagctaargaagatgcgaaagcmaagccgacgcagcgaaaacagcgatcgacaacgcgacamaaacgatgcagtaaactcagctaaaaacgctgggggcacatcagtagaatcggtnnnnnttaattaattaa............................................................................................................ aagcaaagaatgacgcgattgattccaataacgatttaacggctgaagaaaagccaagctaargaagatgcgaaagcmaagccgacgcagcgaaaacagcgatcgacaacgcgacamaaacgatgcagtaaactcagctaaaaacgctgggggcacatcagtagaatcggtnnnnnttaattaattaa............................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGCAAAGAAUGACGCGAUUGAUUCCAAUAACGAUUUAACGGCUGAAGAAAAGCCAAGCUAARGAAGAUGCGAAAGCMAAGCCGACGCAGCGAAAACAGCGAUCGACAACGCGACAMAAACGAUGCAGUAAACUCAGCUAAAAACGCUGGGGGCACAUCAGUAGAAUCGGUNNNNNUUAAUUAAUUAA .(((.........((..((((....))))..)).......((((.......))))..))).........((....))...(((((..(.((.......(((........))).........((((..((...((((((.......)))))).)).)))).)).)..)))))................. (-40.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUAAUUAANNNNNACCGAUUCUACUGAUGUGCCCCCAGCGUUUUUAGCUGAGUUUACUGCAUCGUUUKUGUCGCGUUGUCGAUCGCUGUUUUCGCUGCGUCGGCUUKGCUUUCGCAUCUUCYUUAGCUUGGCUUUUCUUCAGCCGUUAAAUCGUUAUUGGAAUCAAUCGCGUCAUUCUUUGCUU ....................(((((((..((((((....((((.......))))......................((...(((((.(((.((....)).))))))))...))...))))))....(((((..((((.......)))))))))........)))))))....(((........))).. (-40.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 418 116 79 81 42 smit:SMT_927|5end_KH_domain_protein_882677..882907_NEGATIVE 323 56 11 223 179 smit:SMT_278|5end_tyrosine-protein_kinase_220264..220494_POSITIVE 317 59 11 63 16 smit:SMT_793|5end_K02029_polar_amino_acid_transport_system_permease_protein_703236..703466_NEGATIVE 309 70 22 43 2 smit:SMT_214|5end_leucyl-tRNA_synthetase_146333..146563_POSITIVE 308 115 74 185 136 smit:SMT_169|5end_30S_ribosomal_protein_S10_114515..114745_POSITIVE 306 129 81 206 169 smit:SMT_1982|5end_conserved_hypothetical_protein_1913036..1913266_POSITIVE 306 129 81 194 157 smit:SMT_1691|5end_putative_deoxyribonuclease_1674978..1675208_POSITIVE 306 129 81 219 182 smit:SMT_1156|5end_K07485_transposase_1099938..1100168_POSITIVE 293 127 82 65 18 smit:SMT_147|5end_K02027_multiple_sugar_transport_system_substrate-binding_protein_97406..97636_POSITIVE 293 127 82 65 18 smit:SMT_119|5end_K02027_multiple_sugar_transport_system_substrate-binding_protein_70457..70687_POSITIVE 283 114 76 185 149 smit:SMT_1972|5end_uncharacterized_conserved_phage_related_protein_1903662..1903892_POSITIVE 283 114 76 163 127 smit:SMT_325|5end_K02029_polar_amino_acid_transport_system_permease_protein_263023..263253_NEGATIVE 282 108 66 56 11 smit:SMT_412|5end_hypothetical_protein_predicted_by_Glimmer/Critica_356606..356836_NEGATIVE 280 170 125 103 66 smit:SMT_2044|5end_transcriptional_activator_TipA,_putative_1955885..1956115_NEGATIVE 276 114 74 53 12 smit:SMT_2040|5end_transcription-repair_coupling_factor_1951395..1951625_NEGATIVE 276 154 125 152 126 smit:SMT_1694|5end_GTPase_1676674..1676904_POSITIVE 273 169 132 38 1 smit:SMT_944|5end_PhnA_protein_895106..895336_NEGATIVE 269 77 40 57 20 smit:SMT_1464|5end_K02030_polar_amino_acid_transport_system_substrate-binding_protein_1444721..1444951_POSITIVE 268 130 81 125 79 smit:SMT_740|5end_50S_ribosomal_protein_L10_644116..644346_NEGATIVE 263 170 121 173 125 smit:SMT_2051|5end_enoyl-CoA_hydratase_1960639..1960869_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 413 140 96 47 2 smit:SMT_2092|3end_malolactic_enzyme_1987040..1987190_NEGATIVE 358 112 80 68 35 smit:SMT_2057|3end_cell_division_protein_FtsH_1966897..1967047_NEGATIVE 317 59 11 54 7 smit:SMT_794|3end_hypothetical_protein_703245..703395_NEGATIVE 276 154 125 150 124 smit:SMT_1693|3end_dimethyladenosine_transferase_1676752..1676902_POSITIVE 263 170 121 150 102 smit:SMT_2052|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1960662..1960812_NEGATIVE 263 130 82 49 2 smit:SMT_1225|3end_50S_ribosomal_protein_L13_1188798..1188948_POSITIVE 255 110 67 51 10 smit:SMT_1621|3end_K09134_hypothetical_protein_1607256..1607406_NEGATIVE 254 129 81 49 6 smit:SMT_1487|3end_hypothetical_protein_1467076..1467226_POSITIVE 253 105 67 76 34 smit:SMT_1925|3end_K03697_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpE_1867458..1867608_POSITIVE 250 167 123 47 3 smit:SMT_1046|3end_chaperonin_GroEL_987638..987788_NEGATIVE 249 110 66 147 100 smit:SMT_121|3end_hypothetical_protein_74414..74564_POSITIVE 247 170 127 146 93 smit:SMT_807|3end_hypothetical_protein_predicted_by_Glimmer/Critica_716708..716858_NEGATIVE 246 45 3 55 13 smit:SMT_1751|3end_indole-3-glycerol_phosphate_synthase_1729865..1730015_POSITIVE 245 171 134 97 45 smit:SMT_520|3end_glutathione_reductase_444881..445031_NEGATIVE 244 170 121 74 21 smit:SMT_2068|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1974183..1974333_NEGATIVE 243 97 64 61 27 smit:SMT_1367|3end_K02237_competence_protein_ComEA_1346872..1347022_NEGATIVE 242 110 69 91 38 smit:SMT_2073|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1977074..1977224_POSITIVE 242 169 134 148 104 smit:SMT_128|3end_K03449_MFS_transporter,_CP_family,_cyanate_transporter_78702..78852_NEGATIVE 241 170 121 56 7 smit:SMT_944|3end_PhnA_protein_894768..894918_NEGATIVE 238 60 15 83 42 smit:SMT_1632|3end_hypothetical_protein_1618371..1618521_NEGATIVE