Origin IGS: tcaacatcgaccgatacctgaaaaaggcatcggtttttttattacttgaatatattgcacaaaatactcatgccaaacattgaaaggaaccgtataatgagagagtaataaagaaacggaggaatgaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttcattcctccgtttctttattactctctcattatacggttcctttcaatgtttggcatgagtattttgtgcaatatattcaagtaataaaaaaaccgatgcctttttcaggtatcggtcgatgttga Mask Tandem Repeat Region ================================================ tcaacatcgaccgatacctgaaaaaggcatcggtttttttattacttgaatatattgcacaaaatactcatgccaaacattgaaaggaaccgtataatgagagagtaataaagaaacggaggaatgaa Find is-nt database================================================ Query_seq: SMT_420:SMT_421|SMT_420:SMT_421:hypothetical protein predicted by Glimmer/Critica:K02003:->->:363043..363170 128 tcaacatcgaccgatacctgaaaaaggcatcggtttttttattacttgaatatattgcacaaaatactcatgccaaacattgaaaggaaccgtataatgagagagtaataaagaaacggaggaatgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_420:SMT_421|SMT_420:SMT_421:hypothetical protein predicted by Glimmer/Critica:K02003:->->:363043..363170 128 tcaacatcgaccgatacctgaaaaaggcatcggtttttttattacttgaatatattgcacaaaatactcatgccaaacattgaaaggaaccgtataatgagagagtaataaagaaacggaggaatgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_420:SMT_421|SMT_420:SMT_421:hypothetical protein predicted by Glimmer/Critica:K02003:->->:363043..363170 128 tcaacatcgaccgatacctgaaaaaggcatcggtttttttattacttgaatatattgcacaaaatactcatgccaaacattgaaaggaaccgtataatgagagagtaataaagaaacggaggaatgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcaacatcgaccgatacctgaaaaaggcatcggtttttttattacttgaatatattgcacaaaatactcatgccaaacattgaaaggaaccgtataatgagagagtaataaagaaacggaggaatgaa Predict ORF larger than 30AA ================================================ tcaacatcgaccgatacctgaaaaaggcatcggtttttttattacttgaatatattgcacaaaatactcatgccaaacattgaaaggaaccgtataatgagagagtaataaagaaacggaggaatgaa 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: 83 Start: 69 End: 98 ....................................................................CATGCCAAACATTGAAAGGAACCGTATAAT.............................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tcaacatcgaccgatacctgaaaaaggcatcggtttttttattacttgaatatattgcacaaaatactcatgccaaacattgaaaggaaccgtataatgagagagtaataaagaaacggaggaatgaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_420:SMT_421|SMT_420:SMT_421:hypothetical protein predicted by Glimmer/Critica:K02003:->->:363043..363170 128 tcaacatcgaccgatacctgaaaaaggcatcggtttttttattacttgaatatattgcacaaaatactcatgccaaacattgaaaggaaccgtataatgagagagtaataaagaaacggaggaatgaa Intra-Species Hit: Count: 1 Min: 1 Max: 128 Len: 128 Subject: smit_SMT_420_SMT_421|hypothetical protein predicted by Glimmer/Critica:K02003|POSITIVE:POSITIVE|[363043, 363170]|128 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 128 Query Start:1 Query End:128 Subject Strand: POSITIVE Subject Start: 1 Subject End: 128 tcaacatcgaccgatacctgaaaaaggcatcggnnnnnnnattacttgaatatattgcacaaaatactcatgccaaacattgaaaggaaccgtataatgagagagtaataaagaaacggaggaatgaa tcaacatcgaccgatacctgaaaaaggcatcggtttttttattacttgaatatattgcacaaaatactcatgccaaacattgaaaggaaccgtataatgagagagtaataaagaaacggaggaatgaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCAACAUCGACCGAUACCUGAAAAAGGCAUCGGUUUUUUUAUUACUUGAAUAUAUUGCACAAAAUACUCAUGCCAAACAUUGAAAGGAACCGUAUAAUGAGAGAGUAAUAAAGAAACGGAGGAAUGAA (((.....(((((((.(((.....))).)))))))((((((((((((.........(((...........)))....(((((...(....)...)))))...))))))))))))..........))). (-25.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCAUUCCUCCGUUUCUUUAUUACUCUCUCAUUAUACGGUUCCUUUCAAUGUUUGGCAUGAGUAUUUUGUGCAAUAUAUUCAAGUAAUAAAAAAACCGAUGCCUUUUUCAGGUAUCGGUCGAUGUUGA .........((((......................))))......((((((((..((.(((((((.((....)).))))))).)).........((((((((((.....)))))))))).)))))))) (-26.75) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 239 41 2 144 107 smit:SMT_109|5end_beta-galactosidase_53925..54155_POSITIVE 235 48 1 155 88 smit:SMT_1696|5end_hypothetical_protein_1678182..1678412_POSITIVE 227 50 2 86 52 smit:SMT_1826|5end_ATP_synthase_beta_chain_1797408..1797638_POSITIVE 227 50 2 86 52 smit:SMT_586|5end_ATP_synthase_F1,_beta_subunit_502533..502763_POSITIVE 225 49 4 83 33 smit:SMT_913|5end_putative_sucrose-specific_PTS_permease,_enzyme_II_865809..866039_NEGATIVE 224 33 4 66 36 smit:SMT_1046|5end_chaperonin_GroEL_987904..988134_NEGATIVE 224 33 4 66 36 smit:SMT_1044|5end_chaperonin_GroEL_(HSP60_family)_987435..987665_NEGATIVE 223 35 2 77 37 smit:SMT_1606|5end_glutamate_racemase_1595857..1596087_POSITIVE 221 37 5 231 191 smit:SMT_929|5end_hypothetical_protein_883342..883572_NEGATIVE 219 93 55 66 31 smit:SMT_945|5end_cytidylate_kinase_895908..896138_NEGATIVE 216 50 6 107 62 smit:SMT_2097|5end_type_I_restriction_enzyme_M_protein_1991272..1991502_NEGATIVE 214 105 67 221 180 smit:SMT_2051|5end_enoyl-CoA_hydratase_1960639..1960869_NEGATIVE 214 61 25 65 23 smit:SMT_1206|5end_similar_to_sensor_histidine_kinase_(AgrC_from_Staphylococcus)_1167043..1167273_NEGATIVE 214 60 17 64 10 smit:SMT_744|5end_putative_glycosyltransferase_YibD_649282..649512_NEGATIVE 212 106 68 219 175 smit:SMT_2149|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-_diaminopimelate--D-alanyl-D-alanine_ligase_2023671..2023901_POSITIVE 210 42 1 223 181 smit:SMT_1585|5end_phosphopantetheine_adenylyltransferase_1575242..1575472_POSITIVE 209 60 15 173 121 smit:SMT_1591|5end_DNA-entry_nuclease_1578873..1579103_POSITIVE 207 119 81 210 166 smit:SMT_392|5end_acetyltransferase,_GNAT_family_323616..323846_POSITIVE 206 34 6 205 169 smit:SMT_1293|5end_K02051_sulfonate/nitrate/taurine_transport_system_substrate-binding_protein_1254976..1255206_POSITIVE 205 50 1 142 84 smit:SMT_821|5end_UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-_diaminopimelate_ligase_732775..733005_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 243 120 71 151 111 smit:SMT_1557|3end_hypothetical_protein_1543650..1543800_POSITIVE 225 37 6 31 2 smit:SMT_1607|3end_K03341_putative_deoxyribonucleotide_triphosphate_pyrophosphatase_1597699..1597849_POSITIVE 224 47 5 129 80 smit:SMT_1908|3end_isochorismatase_family_protein_1855237..1855387_POSITIVE 224 33 4 50 20 smit:SMT_1047|3end_chaperonin,_10_kDa_987920..988070_NEGATIVE 224 33 4 50 20 smit:SMT_1045|3end_cochaperonin_GroES_987451..987601_NEGATIVE 219 93 55 56 21 smit:SMT_946|3end_hypothetical_protein_895918..896068_NEGATIVE 214 60 17 62 8 smit:SMT_745|3end_glycosyl_transferase,_group_1_family_protein_649284..649434_NEGATIVE 206 33 3 68 35 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 206 58 11 107 56 smit:SMT_1149|3end_hypothetical_protein_1094040..1094190_NEGATIVE 202 49 1 51 7 smit:SMT_209|3end_acetyltransferase,_GNAT_family_143448..143598_POSITIVE 199 37 4 146 105 smit:SMT_349|3end_sensor_histidine_kinase_(homolog_to_BlpH_Spn)_288636..288786_POSITIVE 196 104 71 31 1 smit:SMT_932|3end_tellurite_resistance_protein_885402..885552_POSITIVE 196 94 56 144 113 smit:SMT_454|3end_hypothetical_protein_391740..391890_POSITIVE 195 50 11 78 31 smit:SMT_1640|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1625989..1626139_NEGATIVE 193 58 11 68 17 smit:SMT_1161|3end_K05837_rod_shape_determining_protein_RodA_1105185..1105335_NEGATIVE 193 49 4 139 93 smit:SMT_654|3end_K06158_ATP-binding_cassette,_sub-family_F,_member_3_564157..564307_NEGATIVE 188 44 1 61 2 smit:SMT_1864|3end_integral_membrane_protein_1827172..1827322_POSITIVE 188 48 4 148 107 smit:SMT_1653|3end_hydrolase_1642226..1642376_POSITIVE 188 118 72 133 68 smit:SMT_1430|3end_hypothetical_protein_1415842..1415992_POSITIVE 188 93 52 56 21 smit:SMT_955|3end_acyltransferase_family_protein_904703..904853_POSITIVE