Origin IGS: aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacattttttaaaaaattaaaaaaagttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacagcac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtgctgtcctcctgataaagatcttgaggatgtttcctctttacacttactagtatacaaaataaagcgctttcttgtttatcaactttttttaattttttaaaaaatgtgaggagattgtgtgaatttcacaaaaaaggcctggaacaaccaagcctt Mask Tandem Repeat Region ================================================ aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacattttttaaaaaattaaaaaaagttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacagcac Find is-nt database================================================ Query_seq: SMT_1304:SMT_1305|SMT_1304:SMT_1305:hypothetical protein:glycerol kinase:->->:1268198..1268356 159 aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacattttttaaaaaattaaaaaaagttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacagcac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1304:SMT_1305|SMT_1304:SMT_1305:hypothetical protein:glycerol kinase:->->:1268198..1268356 159 aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacattttttaaaaaattaaaaaaagttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacagcac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1304:SMT_1305|SMT_1304:SMT_1305:hypothetical protein:glycerol kinase:->->:1268198..1268356 159 aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacattttttaaaaaattaaaaaaagttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacagcac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacattttttaaaaaattaaaaaaagttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacagcac Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: - Start: 1 End: 105 L S P Q E L G K K H F E C L R R V N K L F N F F T S L C S L A K N Q M ...................................................... aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacattttttaaaaaattaaaaaaagttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacagcac 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================================================ aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacattttttaaaaaattaaaaaaagttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacagcac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1304:SMT_1305|SMT_1304:SMT_1305:hypothetical protein:glycerol kinase:->->:1268198..1268356 159 aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacattttttaaaaaattaaaaaaagttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacagcac Intra-Species Hit: Count: 1 Min: 1 Max: 159 Len: 159 Subject: smit_SMT_1304_SMT_1305|hypothetical protein:glycerol kinase|POSITIVE:POSITIVE|[1268198,1268356]|159 HSP 1 e-value: 9.0E-42 bit: 170.0 Len: 86 Query Start:74 Query End:159 Subject Strand: POSITIVE Subject Start: 74 Subject End: 159 .........................................................................gttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacagcac .........................................................................gttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacagcac HSP 2 e-value: 4.0E-25 bit: 115.0 Len: 58 Query Start:1 Query End:58 Subject Strand: POSITIVE Subject Start: 1 Subject End: 58 aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacatttttt..................................................................................................... aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacatttttt..................................................................................................... Inter-species Hit: Count: 3 Min: 1 Max: 156 Len: 156 Subject: NC_008533_SPD_2013_SPD_2014|glycerol kinase:hypothetical protein|NEGATIVE:NEGATIVE|[1991225,1991382]|158 HSP 1 e-value: 3.0E-35 bit: 149.0 Len: 83 Query Start:74 Query End:156 Subject Strand: NEGATIVE Subject Start: 4 Subject End: 85 .........................................................................gttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacag... .........................................................................gttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaaca-cctcaagatctttatcaggaggacag... HSP 2 e-value: 7.0E-18 bit: 91.7 Len: 58 Query Start:1 Query End:58 Subject Strand: NEGATIVE Subject Start: 101 Subject End: 158 aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacatttttt..................................................................................................... aaggcttggttaatccaggtcttttttgtgaaattcacacaatctcctcacatttttt..................................................................................................... Subject: NC_003098_spr1991_spr1992|glycerol kinase:hypothetical protein|NEGATIVE:NEGATIVE|[1983725,1983882]|158 HSP 1 e-value: 3.0E-35 bit: 149.0 Len: 83 Query Start:74 Query End:156 Subject Strand: NEGATIVE Subject Start: 4 Subject End: 85 .........................................................................gttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacag... .........................................................................gttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaaca-cctcaagatctttatcaggaggacag... HSP 2 e-value: 7.0E-18 bit: 91.7 Len: 58 Query Start:1 Query End:58 Subject Strand: NEGATIVE Subject Start: 101 Subject End: 158 aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacatttttt..................................................................................................... aaggcttggttaatccaggtcttttttgtgaaattcacacaatctcctcacatttttt..................................................................................................... Subject: NC_003028_SP_2186_SP_2187|glycerol kinase:hypothetical protein|NEGATIVE:NEGATIVE|[2106196,2106353]|158 HSP 1 e-value: 3.0E-35 bit: 149.0 Len: 83 Query Start:74 Query End:156 Subject Strand: NEGATIVE Subject Start: 4 Subject End: 85 .........................................................................gttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaacatcctcaagatctttatcaggaggacag... .........................................................................gttgataaacaagaaagcgctttattttgtatactagtaagtgtaaagaggaaaca-cctcaagatctttatcaggaggacag... HSP 2 e-value: 7.0E-18 bit: 91.7 Len: 58 Query Start:1 Query End:58 Subject Strand: NEGATIVE Subject Start: 101 Subject End: 158 aaggcttggttgttccaggccttttttgtgaaattcacacaatctcctcacatttttt..................................................................................................... aaggcttggttaatccaggtcttttttgtgaaattcacacaatctcctcacatttttt..................................................................................................... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGGCUUGGUUGUUCCAGGCCUUUUUUGUGAAAUUCACACAAUCUCCUCACAUUUUUUAAAAAAUUAAAAAAAGUUGAUAAACAAGAAAGCGCUUUAUUUUGUAUACUAGUAAGUGUAAAGAGGAAACAUCCUCAAGAUCUUUAUCAGGAGGACAG (((((((((.....)))))))))...((((.....)))).....(((((...((((((((....))))))))...(((((((.......((((((.(((.........)))))))))...(((((....)))))......))))))).)))))... (-41.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGUCCUCCUGAUAAAGAUCUUGAGGAUGUUUCCUCUUUACACUUACUAGUAUACAAAAUAAAGCGCUUUCUUGUUUAUCAACUUUUUUUAAUUUUUUAAAAAAUGUGAGGAGAUUGUGUGAAUUUCACAAAAAAGGCCUGGAACAACCAAGCCUU ..((((((..(((....)))..)))))).....((((((((....................(((((......))))).......((((((((....)))))))).))))))))....((((.....))))...(((((.(((.....))).))))) (-36.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 277 130 88 198 139 smit:SMT_985|5end_guanylate_kinase_930954..931184_POSITIVE 274 41 3 201 166 smit:SMT_215|5end_leucyl-tRNA_synthetase_147045..147275_POSITIVE 258 48 2 220 153 smit:SMT_1680|5end_hypothetical_protein_1663494..1663724_POSITIVE 247 48 8 104 59 smit:SMT_151|5end_K02073_D-methionine_transport_system_substrate-binding_protein_99474..99704_POSITIVE 246 48 3 101 35 smit:SMT_265|5end_DNA-binding_protein_204073..204303_NEGATIVE 244 48 1 118 69 smit:SMT_825|5end_aspartate_aminotransferase_749594..749824_NEGATIVE 241 32 3 67 35 smit:SMT_1709|5end_aminopeptidase_P_1695450..1695680_NEGATIVE 241 45 1 77 24 smit:SMT_1273|5end_K02006_cobalt_transport_system_ATP-binding_protein_1236909..1237139_POSITIVE 240 49 1 198 152 smit:SMT_346|5end_K01992_ABC-2_type_transport_system_permease_protein_284720..284950_POSITIVE 238 50 4 100 35 smit:SMT_230|5end_hypothetical_protein_predicted_by_Glimmer/Critica_165830..166060_NEGATIVE 236 48 1 161 113 smit:SMT_1590|5end_DNA-entry_nuclease_1578565..1578795_POSITIVE 235 150 102 47 3 smit:SMT_965|5end_putative_transposase_911366..911596_NEGATIVE 233 47 1 70 32 smit:SMT_1734|5end_serine/threonine_protein_phosphatase_1718558..1718788_POSITIVE 233 48 7 47 10 smit:SMT_156|5end_hypothetical_protein_102869..103099_POSITIVE 231 46 2 103 50 smit:SMT_1378|5end_DNA_polymerase_III,_delta'_subunit_1356803..1357033_NEGATIVE 231 44 1 42 3 smit:SMT_1088|5end_hypothetical_protein_1024346..1024576_NEGATIVE 231 44 1 223 184 smit:SMT_1087|5end_K01990_ABC-2_type_transport_system_ATP-binding_protein_1024165..1024395_NEGATIVE 229 48 2 54 3 smit:SMT_1731|5end_K06442_putative_hemolysin_1715643..1715873_POSITIVE 229 129 87 231 193 smit:SMT_1108|5end_acetate_kinase_1049312..1049542_NEGATIVE 227 112 74 150 112 smit:SMT_694|5end_putative_ATP-binding_component_of_a_transport_system_604362..604592_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 47 1 118 68 smit:SMT_1304|3end_hypothetical_protein_1268137..1268287_POSITIVE 274 41 3 142 107 smit:SMT_214|3end_leucyl-tRNA_synthetase_147066..147216_POSITIVE 269 48 3 62 11 smit:SMT_1612|3end_K06024_segregation_and_condensation_protein_B_1600701..1600851_POSITIVE 254 48 1 112 61 smit:SMT_1620|3end_hypothetical_protein_1606695..1606845_NEGATIVE 251 47 1 114 57 smit:SMT_1511|3end_hypothetical_protein_1493902..1494052_POSITIVE 250 31 1 108 72 smit:SMT_304|3end_hypothetical_protein_247583..247733_POSITIVE 244 48 1 121 72 smit:SMT_826|3end_hypothetical_protein_749591..749741_NEGATIVE 241 45 1 92 39 smit:SMT_1272|3end_K02006_cobalt_transport_system_ATP-binding_protein_1237004..1237154_POSITIVE 236 48 1 122 74 smit:SMT_1589|3end_hypothetical_protein_1578606..1578756_POSITIVE 235 48 4 44 1 smit:SMT_1868|3end_thymidine_kinase_1828215..1828365_NEGATIVE 234 47 1 115 56 smit:SMT_461|3end_mannose-6-phosphate_isomerase_400403..400553_POSITIVE 233 47 1 68 30 smit:SMT_1733|3end_DNA_repair_protein_RecN_1718636..1718786_POSITIVE 231 46 2 106 53 smit:SMT_1379|3end_thymidylate_kinase_1356800..1356950_NEGATIVE 231 44 1 45 6 smit:SMT_1089|3end_hypothetical_protein_1024343..1024493_NEGATIVE 230 49 6 52 12 smit:SMT_2071|3end_phosphoenolpyruvate_carboxylase_1975594..1975744_NEGATIVE 229 48 2 61 10 smit:SMT_1730|3end_geranyltranstransferase_1715730..1715880_POSITIVE 228 54 14 68 17 smit:SMT_1007|3end_radical_SAM_domain_protein_947549..947699_POSITIVE 225 50 3 69 20 smit:SMT_1214|3end_K03584_DNA_repair_protein_RecO_(recombination_protein_O)_1172652..1172802_NEGATIVE 223 40 1 104 61 smit:SMT_1910|3end_pyruvate-formate_lyase_activating_enzyme_1857654..1857804_POSITIVE 222 136 91 143 87 smit:SMT_2026|3end_K03466_DNA_segregation_ATPase_FtsK/SpoIIIE,_S-DNA-T_family_1941905..1942055_NEGATIVE