Origin IGS: tactaatatagaaggaagattgtccgtgaggataatctttttttcttgtattttatatcgaggtgtgatatattttatataacgaagtgcgatatatcgaactggataggaggtagctataa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttatagctacctcctatccagttcgatatatcgcacttcgttatataaaatatatcacacctcgatataaaatacaagaaaaaaagattatcctcacggacaatcttccttctatattagta Mask Tandem Repeat Region ================================================ tactaatatagaaggaagattgtccgtgaggataatctttttttcttgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncgaactggataggaggtagctataa Find is-nt database================================================ Query_seq: SMT_335:SMT_336|SMT_335:SMT_336:glutamine synthetase:hypothetical protein:->->:275240..275361 122 tactaatatagaaggaagattgtccgtgaggataatctttttttcttgtattttatatcgaggtgtgatatattttatataacgaagtgcgatatatcgaactggataggaggtagctataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_335:SMT_336|SMT_335:SMT_336:glutamine synthetase:hypothetical protein:->->:275240..275361 122 tactaatatagaaggaagattgtccgtgaggataatctttttttcttgtattttatatcgaggtgtgatatattttatataacgaagtgcgatatatcgaactggataggaggtagctataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_335:SMT_336|SMT_335:SMT_336:glutamine synthetase:hypothetical protein:->->:275240..275361 122 tactaatatagaaggaagattgtccgtgaggataatctttttttcttgtattttatatcgaggtgtgatatattttatataacgaagtgcgatatatcgaactggataggaggtagctataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tactaatatagaaggaagattgtccgtgaggataatctttttttcttgtattttatatcgaggtgtgatatattttatataacgaagtgcgatatatcgaactggataggaggtagctataa Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 19 End: 120 .................. M V R E D N L F F L Y F I S R C D I F Y I T K C D I S N W I G G S Y .. Protein_Len: 40 Strand: - Start: 1 End: 120 V L I S P L N D T L I I K K E Q I K Y R P T I Y K I Y R L A I Y R V P Y S T A M .. tactaatatagaaggaagattgtccgtgaggataatctttttttcttgtattttatatcgaggtgtgatatattttatataacgaagtgcgatatatcgaactggataggaggtagctataa 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================================================ tactaatatagaaggaagattgtccgtgaggataatctttttttcttgtattttatatcgaggtgtgatatattttatataacgaagtgcgatatatcgaactggataggaggtagctataa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 58 HP_score: -2.5 Tail_Score: -4.52589 Start: 54 End: 72 Full_Region: TTTTTTCTTGTATTT TATATCG AGGTG TGATATA TTTTATATAACGAAG .....................................................TATATCGAGGTGTGATATA.................................................. Find igs database================================================ Query_seq: SMT_335:SMT_336|SMT_335:SMT_336:glutamine synthetase:hypothetical protein:->->:275240..275361 122 tactaatatagaaggaagattgtccgtgaggataatctttttttcttgtattttatatcgaggtgtgatatattttatataacgaagtgcgatatatcgaactggataggaggtagctataa Intra-Species Hit: Count: 1 Min: 1 Max: 122 Len: 122 Subject: smit_SMT_335_SMT_336|glutamine synthetase:hypothetical protein|POSITIVE:POSITIVE|[275240,275361]|122 HSP 1 e-value: 7.0E-51 bit: 200.0 Len: 122 Query Start:1 Query End:122 Subject Strand: POSITIVE Subject Start: 1 Subject End: 122 tactaatatagaaggaagattgtccgtgaggataatcnnnnnnncttgtattttatatcgaggtgtgatatattttatataacgaagtgcgatatatcgaactggataggaggtagctataa tactaatatagaaggaagattgtccgtgaggataatctttttttcttgtattttatatcgaggtgtgatatattttatataacgaagtgcgatatatcgaactggataggaggtagctataa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACUAAUAUAGAAGGAAGAUUGUCCGUGAGGAUAAUCUUUUUUUCUUGUAUUUUAUAUCGAGGUGUGAUAUAUUUUAUAUAACGAAGUGCGAUAUAUCGAACUGGAUAGGAGGUAGCUAUAA ......(((((.(((((((((((((....)))))))))))))......((((((.((((.((...(((((((((.(((........))).)))))))))..)).)))).)))))).))))). (-37.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUAGCUACCUCCUAUCCAGUUCGAUAUAUCGCACUUCGUUAUAUAAAAUAUAUCACACCUCGAUAUAAAAUACAAGAAAAAAAGAUUAUCCUCACGGACAAUCUUCCUUCUAUAUUAGUA .....((((...........((....(((((((......((.(((((...))))).))....)))))))....)).((((...((((((.(((....))).))))))..))))....)))). (-17.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 261 48 3 114 67 smit:SMT_1414|5end_hypothetical_protein_1398446..1398676_NEGATIVE 255 48 2 109 66 smit:SMT_1531|5end_hypothetical_protein_1515997..1516227_NEGATIVE 247 32 5 131 104 smit:SMT_2044|5end_transcriptional_activator_TipA,_putative_1955885..1956115_NEGATIVE 247 116 88 167 139 smit:SMT_890|5end_K02029_polar_amino_acid_transport_system_permease_protein_836953..837183_POSITIVE 239 67 25 127 89 smit:SMT_1680|5end_hypothetical_protein_1663494..1663724_POSITIVE 234 118 81 162 121 smit:SMT_121|5end_hypothetical_protein_73303..73533_POSITIVE 233 46 12 82 48 smit:SMT_1968|5end_transcription-repair_coupling_factor_1900640..1900870_NEGATIVE 232 119 83 178 138 smit:SMT_1630|5end_hypothetical_protein_1617291..1617521_POSITIVE 232 119 83 178 138 smit:SMT_1241|5end_hypothetical_protein_1201040..1201270_POSITIVE 232 59 14 114 63 smit:SMT_108|5end_hypothetical_protein_53488..53718_POSITIVE 230 117 73 197 141 smit:SMT_878|5end_excinuclease_ABC,_subunit_C_826249..826479_NEGATIVE 221 54 14 117 81 smit:SMT_1409|5end_hypothetical_protein_1388514..1388744_NEGATIVE 221 120 83 39 4 smit:SMT_367|5end_hypothetical_protein_302318..302548_POSITIVE 218 118 78 163 113 smit:SMT_974|5end_DNA-binding_response_regulator_922847..923077_NEGATIVE 217 51 14 224 173 smit:SMT_2026|5end_K03466_DNA_segregation_ATPase_FtsK/SpoIIIE,_S-DNA-T_family_1942432..1942662_NEGATIVE 215 119 81 212 167 smit:SMT_1663|5end_DNA-binding_response_regulator_1653052..1653282_NEGATIVE 213 114 79 96 60 smit:SMT_436|5end_amidase_related_to_nicotinamidase_378198..378428_NEGATIVE 213 70 21 90 33 smit:SMT_105|5end_hypothetical_protein_50919..51149_POSITIVE 212 50 12 181 132 smit:SMT_1884|5end_hypothetical_protein_1838964..1839194_POSITIVE 212 50 12 181 132 smit:SMT_1875|5end_hypothetical_protein_1832965..1833195_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 302 33 7 138 108 smit:SMT_1698|3end_CMP-binding_factor_1681113..1681263_POSITIVE 280 46 5 81 39 smit:SMT_335|3end_glutamine_synthetase_275179..275329_POSITIVE 261 48 3 117 70 smit:SMT_1415|3end_carboxynorspermidine_decarboxylase_1398443..1398593_NEGATIVE 255 48 2 112 69 smit:SMT_1532|3end_hypothetical_protein_1515994..1516144_NEGATIVE 241 70 24 62 19 smit:SMT_969|3end_30S_ribosomal_protein_S15_914653..914803_NEGATIVE 239 67 25 143 105 smit:SMT_1679|3end_hypothetical_protein_1663590..1663740_POSITIVE 237 100 58 43 1 smit:SMT_130|3end_capsular_polysaccharide_biosynthesis_protein_82925..83075_POSITIVE 221 120 87 37 2 smit:SMT_2030|3end_chromosomal_replication_initiator_protein_DnaA_1944790..1944940_NEGATIVE 221 120 87 105 70 smit:SMT_2024|3end_hypothetical_protein_1940690..1940840_POSITIVE 221 120 87 94 59 smit:SMT_2002|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1924145..1924295_NEGATIVE 221 120 87 105 70 smit:SMT_1981|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912868..1913018_POSITIVE 221 120 87 110 75 smit:SMT_1971|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1903526..1903676_POSITIVE 221 120 87 94 59 smit:SMT_1966|3end_DNA_polymerase_III_alpha_subunit_1898328..1898478_POSITIVE 221 120 87 105 70 smit:SMT_1942|3end_zinc_metalloprotease_ZmpB,_truncated_1878384..1878534_POSITIVE 221 120 87 94 59 smit:SMT_1927|3end_cell_division_protein_FtsH_1868408..1868558_NEGATIVE 221 120 87 105 70 smit:SMT_1926|3end_mevalonate_kinase_1868062..1868212_POSITIVE 221 120 87 105 70 smit:SMT_1887|3end_LicC_protein_1841740..1841890_POSITIVE 221 120 87 94 59 smit:SMT_1885|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1839830..1839980_NEGATIVE 221 120 87 94 59 smit:SMT_1873|3end_K02006_cobalt_transport_system_ATP-binding_protein_1832351..1832501_POSITIVE 221 120 87 110 75 smit:SMT_1852|3end_1,4-alpha-glucan_branching_enzyme_1816467..1816617_NEGATIVE