Origin IGS: tctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctctgcattaatgaatcggccaacgcgcggggagaggcggtttgcgtattgggcgctcttccgcttcctcgctcactgactcgctgcgctcggtcgttcggctgcggcgagcggtatcagctcactcaaaggcggtaatacggttatccacagaatcaggggataacgcaggaaagaacattcgggcagcgttgggtcctggccacgggtgcgcatgatcgtgctcctgtcgttgaggacccggctaggctggcggggttgccttactggttagcacaatgaatcaccgatactcgagcgaacgtgaannnnnttaattaattaannnnncctgataccatcgttattccaccacaatggttccctaaa .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttagggaaccattgtggtggaataacgatggtatcaggnnnnnttaattaattaannnnnttcacgttcgctcgagtatcggtgattcattgtgctaaccagtaaggcaaccccgccagcctagccgggtcctcaacgacaggagcacgatcatgcgcacccgtggccaggacccaacgctgcccgaatgttctttcctgcgttatcccctgattctgtggataaccgtattaccgcctttgagtgagctgataccgctcgccgcagccgaacgaccgagcgcagcgagtcagtgagcgaggaagcggaagagcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagagcttgcatgcctgcaggtcgactctagaggatccccctgtgctaggatggtcacctaga Mask Tandem Repeat Region ================================================ tctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctctgcattaatgaatcggccaacgcgcggggagaggcggtttgcgtattgggcgctcttccgcttcctcgctcactgactcgctgcgctcggtcgttcggctgcggcgagcggtatcagctcactcaaaggcggtaatacggttatccacagaatcaggggataacgcaggaaagaacattcgggcagcgttgggtcctggccacgggtgcgcatgatcgtgctcctgtcgttgaggacccggctaggctggcggggttgccttactggttagcacaatgaatcaccgatactcgagcgaacgtgaannnnnttaattaattaannnnncctgataccatcgttattccaccacaatggttccctaaa Find is-nt database================================================ Query_seq: SMT_1887:SMT_1888|SMT_1887:SMT_1888:LicC protein:K02026 multiple sugar transport system permease protein:->->:1841801..1842227 427 tctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctctgcattaatgaatcggccaacgcgcggggagaggcggtttgcgtattgggcgctcttccgcttcctcgctcactgactcgctgcgctcggtcgttcggctgcggcgagcggtatcagctcactcaaaggcggtaatacggttatccacagaatcaggggataacgcaggaaagaacattcgggcagcgttgggtcctggccacgggtgcgcatgatcgtgctcctgtcgttgaggacccggctaggctggcggggttgccttactggttagcacaatgaatcaccgatactcgagcgaacgtgaannnnnttaattaattaannnnncctgataccatcgttattccaccacaatggttccctaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1887:SMT_1888|SMT_1887:SMT_1888:LicC protein:K02026 multiple sugar transport system permease protein:->->:1841801..1842227 427 tctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctctgcattaatgaatcggccaacgcgcggggagaggcggtttgcgtattgggcgctcttccgcttcctcgctcactgactcgctgcgctcggtcgttcggctgcggcgagcggtatcagctcactcaaaggcggtaatacggttatccacagaatcaggggataacgcaggaaagaacattcgggcagcgttgggtcctggccacgggtgcgcatgatcgtgctcctgtcgttgaggacccggctaggctggcggggttgccttactggttagcacaatgaatcaccgatactcgagcgaacgtgaannnnnttaattaattaannnnncctgataccatcgttattccaccacaatggttccctaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1887:SMT_1888|SMT_1887:SMT_1888:LicC protein:K02026 multiple sugar transport system permease protein:->->:1841801..1842227 427 tctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctctgcattaatgaatcggccaacgcgcggggagaggcggtttgcgtattgggcgctcttccgcttcctcgctcactgactcgctgcgctcggtcgttcggctgcggcgagcggtatcagctcactcaaaggcggtaatacggttatccacagaatcaggggataacgcaggaaagaacattcgggcagcgttgggtcctggccacgggtgcgcatgatcgtgctcctgtcgttgaggacccggctaggctggcggggttgccttactggttagcacaatgaatcaccgatactcgagcgaacgtgaannnnnttaattaattaannnnncctgataccatcgttattccaccacaatggttccctaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 2 Min: 62 Max: 329 Len: 268 Subject: UniRef90_Q19NK3 Cluster: Hypothetical protein; n=2; root|Rep: Hypothetical protein - Escherichia coli O1:K1 / APEC HSP 1 e-value: 1.0E-10 bit: 67.4 Len: 105 Query Start:225 Query End:329 Subject Strand: null Subject Start: 78 Subject End: 112 ................................................................................................................................................................................................................................ R R K E H S G S V G S W P R V R M I V L L S L R T R L G W R G C L T G .................................................................................................. ................................................................................................................................................................................................................................ R T R R I S G S V G S W P R V R M I V L L S L R T R L G W R G C L T G .................................................................................................. Subject: UniRef90_Q9KHC4 Cluster: SocE; n=1; Myxococcus xanthus|Rep: SocE - Myxococcus xanthus HSP 1 e-value: 4.0E-7 bit: 55.8 Len: 168 Query Start:62 Query End:229 Subject Strand: null Subject Start: 266 Subject End: 322 ............................................................. C I N E S A N A R G E A V C V L G A L P L P R S L T R C A R S F G C G E R Y Q L - T Q R R * Y G Y P Q N Q G I T Q ...................................................................................................................................................................................................... ............................................................. C I R D P A T A R S E A V W V L V A L P L L R S R T R C V R S V G C G G A V S A H S P G R P Y G D P Q P Q G M A Q ...................................................................................................................................................................................................... tctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgaatcaccgatactcgagcgaacgtgaannnnnttaattaattaannnnncctgataccatcgttattccaccacaatggttccctaaa Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 6 End: 134 ..... M T I L A Q G D P L E S T C R H A S S A L M N R P T R G E R R F A Y W A L F R F L A H ..................................................................................................................................................................................................................................................................................................... Protein_Len: 50 Strand: + Start: 44 End: 193 ........................................... M Q A C K L C I N E S A N A R G E A V C V L G A L P L P R S L T R C A R S F G C G E R Y Q L T Q R R .......................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 73 End: 273 ........................................................................ M G Q R A G R G G L R I G R S S A S S L T D S L R S V V R L R R A V S A H S K A V I R L S T E S G D N A G K N I R A A L .......................................................................................................................................................... Protein_Len: 39 Strand: + Start: 221 End: 337 ............................................................................................................................................................................................................................ M T Q E R T F G Q R W V L A T G A H D R A P V V E D P A R L A G L P Y W L A Q .......................................................................................... Protein_Len: 48 Strand: - Start: 134 End: 277 ..................................................................................................................................... Q S A A S P R E A A A L P I L E S L P P L V T I W L I L P Y R L F S C E P L T P D Q G R T R M M ...................................................................................................................................................... tctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgaatcaccgatactcgagcgaacgtgaannnnnttaattaattaannnnncctgataccatcgttattccaccacaatggttccctaaa 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================================================ tctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgaatcaccgatactcgagcgaacgtgaannnnnttaattaattaannnnncctgataccatcgttattccaccacaatggttccctaaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 43 HP_score: -3.7 Tail_Score: -2.70932 Start: 264 End: 287 Full_Region: GTTGGGTCCTGGCCA CGGGTGCGC ATGATC GTGCTCCTG TCGTTGAGGACCCGG .......................................................................................................................................................................................................................................................................CGGGTGCGCATGATCGTGCTCCTG............................................................................................................................................ TransTerm Strand: + Conf: 40 HP_score: -2.7 Tail_Score: -2.90075 Start: 266 End: 285 Full_Region: TGGGTCCTGGCCACG GGTGCGC ATGATC GTGCTCC TGTCGTTGAGGACCC .........................................................................................................................................................................................................................................................................GGTGCGCATGATCGTGCTCC.............................................................................................................................................. Find igs database================================================ Query_seq: SMT_1887:SMT_1888|SMT_1887:SMT_1888:LicC protein:K02026 multiple sugar transport system permease protein:->->:1841801..1842227 427 tctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgaatcaccgatactcgagcgaacgtgaannnnnttaattaattaannnnncctgataccatcgttattccaccacaatggttccctaaa Intra-Species Hit: Count: 1 Min: 1 Max: 427 Len: 427 Subject: smit_SMT_1887_SMT_1888|LicC protein:K02026 multiple sugar transport system permease protein|POSITIVE:POSITIVE|[1841801,1842227]|427 HSP 1 e-value: 2.0E-26 bit: 121.0 Len: 61 Query Start:1 Query End:61 Subject Strand: POSITIVE Subject Start: 1 Subject End: 61 tctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctc.............................................................................................................................................................................................................................................................................................................................................................................. tctaggtgaccatcctagcacagggggatcctctagagtcgacctgcaggcatgcaagctc.............................................................................................................................................................................................................................................................................................................................................................................. HSP 2 e-value: 8.0E-26 bit: 119.0 Len: 90 Query Start:338 Query End:427 Subject Strand: POSITIVE Subject Start: 338 Subject End: 427 .................................................................................................................................................................................................................................................................................................................................................tgaatcaccgatactcgagcgaacgtgaannnnnttaattaattaannnnncctgataccatcgttattccaccacaatggttccctaaa .................................................................................................................................................................................................................................................................................................................................................tgaatcaccgatactcgagcgaacgtgaannnnnttaattaattaannnnncctgataccatcgttattccaccacaatggttccctaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUAGGUGACCAUCCUAGCACAGGGGGAUCCUCUAGAGUCGACCUGCAGGCAUGCAAGCUCUGCAUUAAUGAAUCGGCCAACGCGCGGGGAGAGGCGGUUUGCGUAUUGGGCGCUCUUCCGCUUCCUCGCUCACUGACUCGCUGCGCUCGGUCGUUCGGCUGCGGCGAGCGGUAUCAGCUCACUCAAAGGCGGUAAUACGGUUAUCCACAGAAUCAGGGGAUAACGCAGGAAAGAACAUUCGGGCAGCGUUGGGUCCUGGCCACGGGUGCGCAUGAUCGUGCUCCUGUCGUUGAGGACCCGGCUAGGCUGGCGGGGUUGCCUUACUGGUUAGCACAAUGAAUCACCGAUACUCGAGCGAACGUGAANNNNNUUAAUUAAUUAANNNNNCCUGAUACCAUCGUUAUUCCACCACAAUGGUUCCCUAAA .(((((.......)))))....((((((((.....((((.((.(((..((((((((.....)))))..........))).....(((((((..(((((...((((.....))))....))))))))))))..((((.((((((((((.(((....))))).))))))))))))..))).))))))...((.((....((((((((((.(........)))))))).((((.........((((.....(((((((((((((.(((((.((((......)))).))))).))).))))))))))...((((((.((.........)).))))))...........))))..(.((......)).)........................)))).......)))....)).)).....))))))))... (-151.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAGGGAACCAUUGUGGUGGAAUAACGAUGGUAUCAGGNNNNNUUAAUUAAUUAANNNNNUUCACGUUCGCUCGAGUAUCGGUGAUUCAUUGUGCUAACCAGUAAGGCAACCCCGCCAGCCUAGCCGGGUCCUCAACGACAGGAGCACGAUCAUGCGCACCCGUGGCCAGGACCCAACGCUGCCCGAAUGUUCUUUCCUGCGUUAUCCCCUGAUUCUGUGGAUAACCGUAUUACCGCCUUUGAGUGAGCUGAUACCGCUCGCCGCAGCCGAACGACCGAGCGCAGCGAGUCAGUGAGCGAGGAAGCGGAAGAGCGCCCAAUACGCAAACCGCCUCUCCCCGCGCGUUGGCCGAUUCAUUAAUGCAGAGCUUGCAUGCCUGCAGGUCGACUCUAGAGGAUCCCCCUGUGCUAGGAUGGUCACCUAGA ((((((..((((.((((((((......(.(((((((.((.....((((....))))......))..(((((((((((...(((((((.(...........(((.((((.(((..((.((((......(((((((...(.((.((.((.(......).)).)).)).)..)))))))...))))..))...))))))).))).(((((((.(.......).))))))).).)))))))..))))))))))).)))))))))))))))).........((.(((((((.(.(((.....(((.(((.((((....(((.......)))...))))...))).)))..(((((((..........(((((.((......)))))))))))))).......)))..).))))))).)).))))..)))))) (-136.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1200 130 81 140 91 smit:SMT_2005|5end_pullulanase,_type_I_1926289..1926519_NEGATIVE 1200 130 81 208 159 smit:SMT_304|5end_hypothetical_protein_246580..246810_POSITIVE 1166 120 71 224 175 smit:SMT_1967|5end_dicarboxylate/amino_acid:cation_(Na+_or_H+)_symporter_(DAACS)_family_protein_1899683..1899913_NEGATIVE 1166 120 71 224 175 smit:SMT_1690|5end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1674779..1675009_NEGATIVE 1166 120 71 224 175 smit:SMT_779|5end_ribonuclease_BN,_putative_688530..688760_NEGATIVE 1109 90 41 231 182 smit:SMT_2008|5end_K07485_transposase_1928662..1928892_NEGATIVE 1109 90 41 194 145 smit:SMT_1955|5end_carbamoyl-phosphate_synthase_small_chain_1889408..1889638_NEGATIVE 1109 90 41 229 180 smit:SMT_1944|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1879494..1879724_NEGATIVE 1109 90 41 115 66 smit:SMT_464|5end_ribonuclease_Z_402867..403097_POSITIVE 1109 90 41 194 145 smit:SMT_388|5end_branched-chain_amino_acid_transport_system_II_carrier_protein_321172..321402_POSITIVE 1101 60 11 228 179 smit:SMT_2016|5end_tyrosine_recombinase_1933425..1933655_NEGATIVE 1101 60 11 219 170 smit:SMT_2001|5end_membrane_protease_protein_family_1923387..1923617_POSITIVE 1101 60 11 164 115 smit:SMT_1961|5end_K07485_transposase_1894206..1894436_POSITIVE 1101 60 11 208 159 smit:SMT_1954|5end_6-phospho-beta-glucosidase_1888548..1888778_POSITIVE 1101 60 11 213 164 smit:SMT_1155|5end_ABC-type_oligopeptide_transport_system,_periplasmic_component_1099665..1099895_NEGATIVE 1094 50 1 230 181 smit:SMT_1686|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1670175..1670405_POSITIVE 1032 48 1 231 184 smit:SMT_2044|5end_transcriptional_activator_TipA,_putative_1955885..1956115_NEGATIVE 654 32 1 215 184 smit:SMT_2006|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1926472..1926702_POSITIVE 536 120 74 144 93 smit:SMT_2052|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1961591..1961821_NEGATIVE 474 179 133 210 166 smit:SMT_1982|5end_conserved_hypothetical_protein_1913036..1913266_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1223 170 121 52 3 smit:SMT_780|3end_peptidase_family_U32_688752..688902_NEGATIVE 1216 290 241 68 19 smit:SMT_478|3end_hypothetical_protein_predicted_by_Glimmer/Critica_415257..415407_POSITIVE 1109 90 41 65 16 smit:SMT_1956|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1889537..1889687_NEGATIVE 1109 90 41 60 11 smit:SMT_387|3end_hypothetical_protein_predicted_by_Glimmer/Critica_321118..321268_POSITIVE 1002 290 245 46 1 smit:SMT_2025|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1940995..1941145_NEGATIVE 917 260 211 60 11 smit:SMT_1874|3end_hypothetical_protein_1832623..1832773_NEGATIVE 879 328 282 65 20 smit:SMT_1559|3end_6-phosphofructokinase_1544614..1544764_NEGATIVE 508 190 165 26 1 smit:SMT_1968|3end_transcription-repair_coupling_factor_1899951..1900101_NEGATIVE 430 147 102 55 2 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 423 166 121 84 25 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 423 307 261 71 22 smit:SMT_904|3end_hypothetical_protein_852294..852444_NEGATIVE 415 130 83 53 5 smit:SMT_2044|3end_transcriptional_activator_TipA,_putative_1955274..1955424_NEGATIVE 415 130 83 53 5 smit:SMT_2016|3end_tyrosine_recombinase_1933021..1933171_NEGATIVE 415 130 83 63 15 smit:SMT_2001|3end_membrane_protease_protein_family_1923889..1924039_POSITIVE 415 130 83 53 5 smit:SMT_1957|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1890829..1890979_POSITIVE 415 130 83 53 5 smit:SMT_1886|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1841198..1841348_POSITIVE 415 130 83 53 5 smit:SMT_1658|3end_hypothetical_protein_1648937..1649087_POSITIVE 415 130 83 53 5 smit:SMT_1558|3end_hypothetical_protein_1543855..1544005_NEGATIVE 415 130 83 53 5 smit:SMT_1155|3end_ABC-type_oligopeptide_transport_system,_periplasmic_component_1099183..1099333_NEGATIVE 408 105 84 22 1 smit:SMT_463|3end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_402839..402989_POSITIVE