Origin IGS: atcaatagaaaaagaatattaattataatgatggaaaaattgatgatgagattgagaataagattttttcaatcgatgtagtcaggactgcaagaattaaagcgagcggaagattatatagatattcagaatcatgggatttcttgtttttaata .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tattaaaaacaagaaatcccatgattctgaatatctatataatcttccgctcgctttaattcttgcagtcctgactacatcgattgaaaaaatcttattctcaatctcatcatcaatttttccatcattataattaatattctttttctattgat Mask Tandem Repeat Region ================================================ atcaatagaaaaagaatattaattataatgatggaaaaattgatgatgagattgagaataagattttttcaatcgatgtagtcaggactgcaagaattaaagcgagcggaagattatatagatattcagaatcatgggatttcttgtttttaata Find is-nt database================================================ Query_seq: SSA_0044:SSA_0045|SSA_0044:SSA_0045:hypothetical protein:hypothetical protein:->->:50318..50472 155 atcaatagaaaaagaatattaattataatgatggaaaaattgatgatgagattgagaataagattttttcaatcgatgtagtcaggactgcaagaattaaagcgagcggaagattatatagatattcagaatcatgggatttcttgtttttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0044:SSA_0045|SSA_0044:SSA_0045:hypothetical protein:hypothetical protein:->->:50318..50472 155 atcaatagaaaaagaatattaattataatgatggaaaaattgatgatgagattgagaataagattttttcaatcgatgtagtcaggactgcaagaattaaagcgagcggaagattatatagatattcagaatcatgggatttcttgtttttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0044:SSA_0045|SSA_0044:SSA_0045:hypothetical protein:hypothetical protein:->->:50318..50472 155 atcaatagaaaaagaatattaattataatgatggaaaaattgatgatgagattgagaataagattttttcaatcgatgtagtcaggactgcaagaattaaagcgagcggaagattatatagatattcagaatcatgggatttcttgtttttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atcaatagaaaaagaatattaattataatgatggaaaaattgatgatgagattgagaataagattttttcaatcgatgtagtcaggactgcaagaattaaagcgagcggaagattatatagatattcagaatcatgggatttcttgtttttaata Predict ORF larger than 30AA ================================================ Protein_Len: 46 Strand: + Start: 18 End: 155 ................. M N Y N D G K I D D E I E N K I F S I D V V R T A R I K A S G R L Y R Y S E S W D F L F L I Protein_Len: 43 Strand: - Start: 26 End: 154 ......................... L S P F I S S S I S F L I K E I S T T L V A L I L A L P L N Y L Y E S D H S K K N K M . atcaatagaaaaagaatattaattataatgatggaaaaattgatgatgagattgagaataagattttttcaatcgatgtagtcaggactgcaagaattaaagcgagcggaagattatatagatattcagaatcatgggatttcttgtttttaata 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================================================ atcaatagaaaaagaatattaattataatgatggaaaaattgatgatgagattgagaataagattttttcaatcgatgtagtcaggactgcaagaattaaagcgagcggaagattatatagatattcagaatcatgggatttcttgtttttaata Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0044:SSA_0045|SSA_0044:SSA_0045:hypothetical protein:hypothetical protein:->->:50318..50472 155 atcaatagaaaaagaatattaattataatgatggaaaaattgatgatgagattgagaataagattttttcaatcgatgtagtcaggactgcaagaattaaagcgagcggaagattatatagatattcagaatcatgggatttcttgtttttaata Intra-Species Hit: Count: 1 Min: 1 Max: 155 Len: 155 Subject: NC_009009_SSA_0044_SSA_0045|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[50318,50472]|155 HSP 1 e-value: 6.0E-83 bit: 307.0 Len: 155 Query Start:1 Query End:155 Subject Strand: POSITIVE Subject Start: 1 Subject End: 155 atcaatagaaaaagaatattaattataatgatggaaaaattgatgatgagattgagaataagattttttcaatcgatgtagtcaggactgcaagaattaaagcgagcggaagattatatagatattcagaatcatgggatttcttgtttttaata atcaatagaaaaagaatattaattataatgatggaaaaattgatgatgagattgagaataagattttttcaatcgatgtagtcaggactgcaagaattaaagcgagcggaagattatatagatattcagaatcatgggatttcttgtttttaata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCAAUAGAAAAAGAAUAUUAAUUAUAAUGAUGGAAAAAUUGAUGAUGAGAUUGAGAAUAAGAUUUUUUCAAUCGAUGUAGUCAGGACUGCAAGAAUUAAAGCGAGCGGAAGAUUAUAUAGAUAUUCAGAAUCAUGGGAUUUCUUGUUUUUAAUA ...........(((((((..((((...(((((.(((.............(((((((((.......))))))))).((((((((....((((..(........)..))))..)))))))).....)))...)))))..))))...))))))).... (-28.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUAAAAACAAGAAAUCCCAUGAUUCUGAAUAUCUAUAUAAUCUUCCGCUCGCUUUAAUUCUUGCAGUCCUGACUACAUCGAUUGAAAAAAUCUUAUUCUCAAUCUCAUCAUCAAUUUUUCCAUCAUUAUAAUUAAUAUUCUUUUUCUAUUGAU ...............(((....((....((((((...((((((.....(((.((..........)))))............((((((.............))))))....................))))))....))))))....))....))) (-12.02) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 296 109 64 141 103 NC_009009:SSA_0579|5end_Hydrolase,_HAD_superfamily,_putative_572220..572450_POSITIVE 295 113 75 57 14 NC_009009:SSA_0406|5end_hypothetical_protein_402918..403148_NEGATIVE 285 108 61 48 10 NC_009009:SSA_0415|5end_Permease,_putative_410568..410798_POSITIVE 258 150 106 106 48 NC_009009:SSA_1227|5end_Aminoglycoside_adenylyltransferase,_putative_1252297..1252527_NEGATIVE 255 145 101 101 48 NC_009009:SSA_0002|5end_DNA_polymerase_III,_beta_chain,_putative_1585..1815_POSITIVE 254 148 101 172 131 NC_009009:SSA_1581|5end_Metal-binding_ABC_transporter_(probably_hemin),_putative_1583662..1583892_POSITIVE 254 109 64 84 26 NC_009009:SSA_0744|5end_S-adenosylmethio_nine:tRNA-ribosyltransferase-isomerase_(queuine_synthetase),_putative_726804..727034_NEGATIVE 252 109 61 48 4 NC_009009:SSA_1972|5end_Two-component_system_transcriptional_regulator_(CheY_domain_and_HTH-like_DNA-binding_domain),_putative_1968410..1968640_NEGATIVE 244 109 74 66 20 NC_009009:SSA_1949|5end_AliA_protein,_putative_1944373..1944603_NEGATIVE 243 128 84 84 37 NC_009009:SSA_2122|5end_hypothetical_protein_2127607..2127837_NEGATIVE 236 140 92 55 11 NC_009009:SSA_0648|5end_hypothetical_protein_631468..631698_POSITIVE 235 112 75 188 147 NC_009009:SSA_1565|5end_Two-component_response_transcriptional_regulator_(CheY-like_receiver_and_winged-helix_DNA-binding_domains),_putative_1569309..1569539_NEGATIVE 235 113 77 41 5 NC_009009:SSA_0900|5end_Tetratricopeptide_repeat_(TPR)_family_protein_891068..891298_POSITIVE 234 108 74 225 197 NC_009009:SSA_1662|5end_NADH-dependent_oxidoreductase,_putative_1659422..1659652_NEGATIVE 233 116 72 74 32 NC_009009:SSA_0721|5end_Mn/Fe-dependent_superoxide_dismutase,_putative_706215..706445_POSITIVE 232 144 106 185 148 NC_009009:SSA_1003|5end_ABC_transporter_substrate-binding_protein-multiple_sugars,_putative_1003875..1004105_POSITIVE 231 113 80 199 152 NC_009009:SSA_1665|5end_hypothetical_protein_1665353..1665583_NEGATIVE 228 107 62 77 29 NC_009009:SSA_0776|5end_Glucose-1-phosphate_adenylyltransferase,_putative_758298..758528_POSITIVE 227 92 54 90 38 NC_009009:SSA_0887|5end_hypothetical_protein_881266..881496_NEGATIVE 227 115 72 97 47 NC_009009:SSA_0236|5end_Chromosome_segregation_helicase,_putative_232443..232673_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 150 101 71 25 NC_009009:SSA_0102|3end_Kinase,_putative_104627..104777_POSITIVE 296 109 64 144 106 NC_009009:SSA_0578|3end_Nicotinate-nucleotide_adenylyltransferase,_putative_572303..572453_POSITIVE 295 113 75 64 21 NC_009009:SSA_0407|3end_ABC-type_multidrug_transport_system_(3-component_subtilin_immunity_exporter),_ATPase_component,_putative_402911..403061_NEGATIVE 268 137 99 40 9 NC_009009:SSA_1794|3end_Two-component_response_transcriptional_regulator_(CheY-like_receiver_and_winged-helix_DNA-binding_domains),_putative_1776345..1776495_NEGATIVE 265 107 71 146 112 NC_009009:SSA_0990|3end_hypothetical_protein_992550..992700_POSITIVE 258 150 106 89 31 NC_009009:SSA_1229|3end_hypothetical_protein_1252314..1252464_NEGATIVE 255 117 82 90 54 NC_009009:SSA_0294|3end_hypothetical_protein_287772..287922_NEGATIVE 254 148 101 116 75 NC_009009:SSA_1579|3end_ABC-type_Fe3+-siderophore_transport_system,_ATPase_component,_putative_1583686..1583836_POSITIVE 254 109 64 74 16 NC_009009:SSA_0745|3end_hypothetical_protein_726814..726964_NEGATIVE 252 109 61 51 7 NC_009009:SSA_1973|3end_Histidine_kinase,_putative_1968407..1968557_NEGATIVE 247 109 65 49 3 NC_009009:SSA_0899|3end_Conserved_permease,_putative_891161..891311_POSITIVE 243 110 67 150 114 NC_009009:SSA_1205|3end_Bta,_putative_1230057..1230207_POSITIVE 234 108 74 61 33 NC_009009:SSA_1663|3end_Collagen-binding_protein_A_1659586..1659736_NEGATIVE 234 107 61 57 12 NC_009009:SSA_0170|3end_hypothetical_protein_168130..168280_NEGATIVE 231 110 64 148 100 NC_009009:SSA_0406|3end_hypothetical_protein_402196..402346_NEGATIVE 230 113 72 54 13 NC_009009:SSA_0718|3end_Conserved_uncharacterized_protein_704935..705085_POSITIVE 228 107 62 70 22 NC_009009:SSA_0775|3end_1,4-alpha-glucan_branching_enzyme,_putative_758371..758521_POSITIVE 226 108 77 36 8 NC_009009:SSA_1087|3end_ABC-type_transporter_(antibiotic_resistance_protein),_ATPase_component,_putative_1106472..1106622_POSITIVE 221 128 96 89 49 NC_009009:SSA_1617|3end_hypothetical_protein_1620436..1620586_NEGATIVE 221 88 47 117 70 NC_009009:SSA_1529|3end_Lysyl-tRNA_synthetase,_putative_1537441..1537591_POSITIVE