Origin IGS: ctaaatctccttagtcatgaagtctttcgataactttcataagtggacgaatttttaatctagagacaatacaagaggacccgttctgaaaatgaactaaccgattttctttatcaattaaagatatattataaggatttacgataaatgatctatgacattgaaataaannnnnttaattaattaannnnnataacctcatttttcctcccatttcatttactcatctcattattgtaccactttctttggaaaagacctagtagattatttgaaattttttcccctctgttggatagtcccgtctatctatgttata .........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 tataacatagatagacgggactatccaacagaggggaaaaaatttcaaataatctactaggtcttttccaaagaaagtggtacaataatgagatgagtaaatgaaatgggaggaaaaatgaggttatnnnnnttaattaattaannnnntttatttcaatgtcatagatcatttatcgtaaatccttataatatatctttaattgataaagaaaatcggttagttcattttcagaacgggtcctcttgtattgtctctagattaaaaattcgtccacttatgaaagttatcgaaagacttcatgactaaggagatttag Mask Tandem Repeat Region ================================================ ctaaatctccttagtcatgaagtctttcgataactttcataagtggacgaatttttaatctagagacaatacaagaggacccgttctgaaaatgaactaaccgattttctttatcaattaaagatatattataaggatttacgataaatgatctatgacattgaaataaannnnnttaattaattaannnnnataacctcatttttcctcccatttcatttactcatctcattattgtaccactttctttggaaaagacctagtagattatttgaaattttttcccctctgttggatagtcccgtctatctatgttata Find is-nt database================================================ Query_seq: SMT_809:SMT_810|SMT_809:SMT_810:sensor histidine kinase (homolog to BlpH Spn):oxidoreductase:<-->:719836..720154 319 ctaaatctccttagtcatgaagtctttcgataactttcataagtggacgaatttttaatctagagacaatacaagaggacccgttctgaaaatgaactaaccgattttctttatcaattaaagatatattataaggatttacgataaatgatctatgacattgaaataaannnnnttaattaattaannnnnataacctcatttttcctcccatttcatttactcatctcattattgtaccactttctttggaaaagacctagtagattatttgaaattttttcccctctgttggatagtcccgtctatctatgttata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_809:SMT_810|SMT_809:SMT_810:sensor histidine kinase (homolog to BlpH Spn):oxidoreductase:<-->:719836..720154 319 ctaaatctccttagtcatgaagtctttcgataactttcataagtggacgaatttttaatctagagacaatacaagaggacccgttctgaaaatgaactaaccgattttctttatcaattaaagatatattataaggatttacgataaatgatctatgacattgaaataaannnnnttaattaattaannnnnataacctcatttttcctcccatttcatttactcatctcattattgtaccactttctttggaaaagacctagtagattatttgaaattttttcccctctgttggatagtcccgtctatctatgttata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_809:SMT_810|SMT_809:SMT_810:sensor histidine kinase (homolog to BlpH Spn):oxidoreductase:<-->:719836..720154 319 ctaaatctccttagtcatgaagtctttcgataactttcataagtggacgaatttttaatctagagacaatacaagaggacccgttctgaaaatgaactaaccgattttctttatcaattaaagatatattataaggatttacgataaatgatctatgacattgaaataaannnnnttaattaattaannnnnataacctcatttttcctcccatttcatttactcatctcattattgtaccactttctttggaaaagacctagtagattatttgaaattttttcccctctgttggatagtcccgtctatctatgttata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 8 Min: 17 Max: 169 Len: 153 Subject: UniRef90_Q8P262 Cluster: SilA; n=3; Streptococcus pyogenes|Rep: SilA - Streptococcus pyogenes HSP 1 e-value: 1.0E-14 bit: 81.3 Len: 153 Query Start:17 Query End:169 Subject Strand: null Subject Start: 195 Subject End: 245 ................ L F Q C H R S F I V N P Y N I S L I D K E N R L V H F Q N G S S C I V S R L K I R P L M K V I E R L H ...................................................................................................................................................... ................ L F Q C H R S F V V N P Y N I S S I D R S E R L V Y L K G G L S C I V S R L K I R S L I K V V E E L H ...................................................................................................................................................... Subject: UniRef90_Q3DNZ8 Cluster: Response regulator; n=4; Streptococcus agalactiae|Rep: Response regulator - Streptococcus agalactiae 515 HSP 1 e-value: 7.0E-11 bit: 68.6 Len: 147 Query Start:23 Query End:169 Subject Strand: null Subject Start: 195 Subject End: 243 ...................... L F Q C H R S F I V N P Y N I S L I D K E N R L V H F Q N G S S C I V S R L K I R P L M K V I E R ...................................................................................................................................................... ...................... L F Q C H R S F L V N P L N I F K V D R I D R L V Y F Q N G T T C L V S R N K V R D I V S I V D K ...................................................................................................................................................... Subject: UniRef90_Q8L361 Cluster: Response regulator; n=4; Streptococcus agalactiae|Rep: Response regulator - Streptococcus agalactiae HSP 1 e-value: 1.0E-10 bit: 67.8 Len: 144 Query Start:26 Query End:169 Subject Strand: null Subject Start: 163 Subject End: 210 ......................... L F Q C H R S F I V N P Y N I S L I D K E N R L V H F Q N G S S C I V S R L K I R P L M K V I E ...................................................................................................................................................... ......................... L F Q C H R S F L V N P S N I F K V D R S N K L I Y L K N G S N C L I S R N K I K D I M V V I E ...................................................................................................................................................... Subject: UniRef90_Q9F2F6 Cluster: Response regulator; n=5; Streptococcus pneumoniae|Rep: Response regulator - Streptococcus pneumoniae HSP 1 e-value: 5.0E-9 bit: 62.4 Len: 153 Query Start:17 Query End:169 Subject Strand: null Subject Start: 195 Subject End: 245 ................ L F Q C H R S F I V N P Y N I S L I D K E N R L V H F Q N G S S C I V S R L K I R P L M K V I E R L H ...................................................................................................................................................... ................ L L Q C H R S F L I N P A N V V H L D K K E K L L F F P N G G S C L I A R Y K V R E V S E A I N N L H ...................................................................................................................................................... Subject: UniRef90_Q8KQN2 Cluster: Response regulator FasA; n=1; Streptococcus dysgalactiae subsp. equisimilis|Rep: Response regulator FasA - Streptococcus equisimilis HSP 1 e-value: 3.0E-7 bit: 56.6 Len: 153 Query Start:17 Query End:169 Subject Strand: null Subject Start: 196 Subject End: 246 ................ L F Q C H R S F I V N P Y N I S L I D K E N R L V H F Q N G S S C I V S R L K I R P L M K V I E R L H ...................................................................................................................................................... ................ L F L C H R S Y L V N L D K V V R I D K S K Q L L Y F D N G D S C M V S R L K M K C L F E K W E A L H ...................................................................................................................................................... Subject: UniRef90_O32833 Cluster: Response regulator protein; n=1; Lactobacillus plantarum|Rep: Response regulator protein - Lactobacillus plantarum HSP 1 e-value: 1.0E-6 bit: 54.7 Len: 150 Query Start:20 Query End:169 Subject Strand: null Subject Start: 199 Subject End: 248 ................... L F Q C H R S F I V N P Y N I S L I D K E N R L V H F Q N G S S C I V S R L K I R P L M K V I E R L ...................................................................................................................................................... ................... L F K C H K S Y V V N L L N I Q K V D R V K R I I Y F E N N E H C L V S R S K V K I L L K K M T E L ...................................................................................................................................................... Subject: UniRef90_Q1JIQ2 Cluster: Response regulator FasA; n=10; Streptococcus pyogenes|Rep: Response regulator FasA - Streptococcus pyogenes serotype M2 (strain MGAS10270) HSP 1 e-value: 2.0E-6 bit: 53.9 Len: 150 Query Start:20 Query End:169 Subject Strand: null Subject Start: 196 Subject End: 245 ................... L F Q C H R S F I V N P Y N I S L I D K E N R L V H F Q N G S S C I V S R L K I R P L M K V I E R L ...................................................................................................................................................... ................... L F L C H R S Y L V N L D K V V R I D K S K Q L L Y F E N G D S C M V S R L K M K C L F E R W E A L ...................................................................................................................................................... Subject: UniRef90_A0PCB8 Cluster: Putative response regulator of the competence regulon ComE1; n=1; Streptococcus bovis|Rep: Putative response regulator of the competence regulon ComE1 - Streptococcus bovis HSP 1 e-value: 5.0E-6 bit: 52.4 Len: 132 Query Start:38 Query End:169 Subject Strand: null Subject Start: 196 Subject End: 239 ..................................... L F Q C H R S F I V N P Y N I S L I D K E N R L V H F Q N G S S C I V S R L K I R P L M ...................................................................................................................................................... ..................................... L L K C H R S F V I N V N N V T E F D K S T R T A Y F E N G S Y C Q V S R D K V K K L M ...................................................................................................................................................... ctaaatctccttagtcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnannnnnttaattaattaannnnnataacctcatttttcctcccatttcatttactcatctcattattgtaccactttctttggaaaagacctagtagattatttgaaattttttcccctctgttggatagtcccgtctatctatgttata Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 193 End: 318 ................................................................................................................................................................................................ M T S F F L P F H L L I S L L Y H F L W K R P S R L F E I F S P L L D S P V Y L C Y . Protein_Len: 34 Strand: + Start: 218 End: 319 ......................................................................................................................................................................................................................... M Y S S H Y C T T F F G K D L V D Y L K F F P L C W I V P S I Y V I Protein_Len: 44 Strand: - Start: 14 End: 145 ............. D H L R E I V K M L P R I K L R S V I C S S G N Q F H V L R N E K D I L S I N Y P N V M .............................................................................................................................................................................. ctaaatctccttagtcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnannnnnttaattaattaannnnnataacctcatttttcctcccatttcatttactcatctcattattgtaccactttctttggaaaagacctagtagattatttgaaattttttcccctctgttggatagtcccgtctatctatgttata 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: 82 Start: 271 End: 300 ..............................................................................................................................................................................................................................................................................TTTGAAATTTTTTCCCCTCTGTTGGATAGT................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ctaaatctccttagtcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnannnnnttaattaattaannnnnataacctcatttttcctcccatttcatttactcatctcattattgtaccactttctttggaaaagacctagtagattatttgaaattttttcccctctgttggatagtcccgtctatctatgttata Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_809:SMT_810|SMT_809:SMT_810:sensor histidine kinase (homolog to BlpH Spn):oxidoreductase:<-->:719836..720154 319 ctaaatctccttagtcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnannnnnttaattaattaannnnnataacctcatttttcctcccatttcatttactcatctcattattgtaccactttctttggaaaagacctagtagattatttgaaattttttcccctctgttggatagtcccgtctatctatgttata Intra-Species Hit: Count: 1 Min: 176 Max: 319 Len: 144 Subject: smit_SMT_809_SMT_810|sensor histidine kinase (homolog to BlpH Spn):oxidoreductase|NEGATIVE:POSITIVE|[719836, 720154]|319 HSP 1 e-value: 4.0E-67 bit: 256.0 Len: 144 Query Start:176 Query End:319 Subject Strand: POSITIVE Subject Start: 176 Subject End: 319 ...............................................................................................................................................................................ttaattaattaannnnnataacctcatttttcctcccatttcatttactcatctcattattgtaccactttctttggaaaagacctagtagattatttgaaattttttcccctctgttggatagtcccgtctatctatgttata ...............................................................................................................................................................................ttaattaattaannnnnataacctcatttttcctcccatttcatttactcatctcattattgtaccactttctttggaaaagacctagtagattatttgaaattttttcccctctgttggatagtcccgtctatctatgttata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUAAUUAANNNNNAUAACCUCAUUUUUCCUCCCAUUUCAUUUACUCAUCUCAUUAUUGUACCACUUUCUUUGGAAAAGACCUAGUAGAUUAUUUGAAAUUUUUUCCCCUCUGUUGGAUAGUCCCGUCUAUCUAUGUUAUA .................(((((...............((((((..((...((((.((((..((.....((((....))))..)).))))))))))..))))))..............(((((((......))))))).))))). (-14.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUAACAUAGAUAGACGGGACUAUCCAACAGAGGGGAAAAAAUUUCAAAUAAUCUACUAGGUCUUUUCCAAAGAAAGUGGUACAAUAAUGAGAUGAGUAAAUGAAAUGGGAGGAAAAAUGAGGUUAUNNNNNUUAAUUAAUUAA .(((((...(((((......)))))...((...........((((((......(((((...((((.....)))).)))))........))))))............))..............)))))................. (-14.84) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 281 130 85 72 19 smit:SMT_408|5end_hypothetical_protein_353087..353317_POSITIVE 279 120 85 51 13 smit:SMT_601|5end_hypothetical_protein_516864..517094_POSITIVE 279 78 32 155 99 smit:SMT_380|5end_hypothetical_protein_316376..316606_POSITIVE 279 78 32 155 99 smit:SMT_371|5end_hypothetical_protein_305248..305478_POSITIVE 275 65 24 128 88 smit:SMT_1569|5end_dihydroxy-acid_dehydratase_1561285..1561515_POSITIVE 267 68 24 133 88 smit:SMT_953|5end_hypothetical_protein_901576..901806_NEGATIVE 265 61 23 109 74 smit:SMT_1037|5end_alpha-galactosidase_979609..979839_NEGATIVE 265 61 23 109 74 smit:SMT_1030|5end_alpha-galactosidase_967829..968059_NEGATIVE 251 86 42 197 148 smit:SMT_976|5end_hypothetical_protein_925183..925413_NEGATIVE 250 60 24 126 88 smit:SMT_421|5end_K02003_363031..363261_POSITIVE 249 68 22 131 85 smit:SMT_1605|5end_hypothetical_protein_1595406..1595636_POSITIVE 245 78 31 143 84 smit:SMT_1302|5end_hypothetical_protein_1263883..1264113_POSITIVE 245 67 24 132 88 smit:SMT_254|5end_K02025_multiple_sugar_transport_system_permease_protein_190796..191026_POSITIVE 244 70 27 128 75 smit:SMT_856|5end_peroxide_resistance_protein,non-heme_iron-containing_ferritin_800648..800878_NEGATIVE 243 125 88 85 51 smit:SMT_1622|5end_K03499_trk_system_potassium_uptake_protein_TrkA_1608243..1608473_POSITIVE 243 70 21 102 49 smit:SMT_901|5end_hypothetical_protein_851434..851664_NEGATIVE 242 70 24 134 88 smit:SMT_2029|5end_acetyltransferase,_GNAT_family_1943749..1943979_POSITIVE 242 130 81 69 9 smit:SMT_1966|5end_DNA_polymerase_III_alpha_subunit_1897934..1898164_POSITIVE 242 70 24 134 88 smit:SMT_1755|5end_acetyltransferase,_GNAT_family_1733042..1733272_POSITIVE 236 67 24 128 88 smit:SMT_692|5end_hypothetical_protein_603550..603780_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 296 138 105 78 39 smit:SMT_1960|3end_UDP-galactopyranose_mutase_1894094..1894244_POSITIVE 281 130 85 71 18 smit:SMT_407|3end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_353166..353316_POSITIVE 279 120 85 39 1 smit:SMT_600|3end_ADP-ribose_pyrophosphatase_516932..517082_POSITIVE 266 136 109 32 3 smit:SMT_1979|3end_possible_cell_surface_protein_1910282..1910432_NEGATIVE 251 86 42 128 79 smit:SMT_977|3end_conserved_hypothetical_protein,_Rrf2_family_protein_925252..925402_NEGATIVE 245 69 26 118 72 smit:SMT_1290|3end_autolysin_1253753..1253903_POSITIVE 243 70 21 112 59 smit:SMT_902|3end_hypothetical_protein_851424..851574_NEGATIVE 239 99 60 70 26 smit:SMT_1772|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1749370..1749520_POSITIVE 236 138 102 135 93 smit:SMT_365|3end_hypothetical_protein_301747..301897_POSITIVE 235 100 60 85 47 smit:SMT_321|3end_hypothetical_protein_260270..260420_POSITIVE 233 136 109 131 109 smit:SMT_161|3end_putative_folyl-polyglutamate_synthetase_106586..106736_POSITIVE 231 64 25 109 77 smit:SMT_1527|3end_two-component_sensor_kinase_1510566..1510716_NEGATIVE 226 53 23 117 90 smit:SMT_1206|3end_similar_to_sensor_histidine_kinase_(AgrC_from_Staphylococcus)_1165697..1165847_NEGATIVE 221 74 32 151 99 smit:SMT_379|3end_acetyltransferase,_GNAT_family_316456..316606_POSITIVE 221 74 32 151 99 smit:SMT_370|3end_acetyltransferase,_GNAT_family_305328..305478_POSITIVE 220 137 97 51 13 smit:SMT_1944|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1879075..1879225_NEGATIVE 220 128 98 67 32 smit:SMT_353|3end_immunity_protein_BlpL_291364..291514_POSITIVE 220 85 49 102 70 smit:SMT_254|3end_K02025_multiple_sugar_transport_system_permease_protein_191793..191943_POSITIVE 218 77 39 43 2 smit:SMT_954|3end_cation-transporting_ATPase,_E1-E2_family_901677..901827_NEGATIVE 218 138 96 72 29 smit:SMT_287|3end_UDP-galactopyranose_mutase_231274..231424_POSITIVE