Origin IGS: aaatgagctttctttttttcataaatctgattttttataacttgtttggaaaataaaaaaagctaaggaaagaatgtgaaaaaatggtaagtaaatttaggaaaaactaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgtaatggctagagatggtttttttacaggcttagatannnnnttaattaattaannnnntggaaatgtacgatttttatttggggaagtagctaagaaactccgtgaccgtggtgtccgtgcagacgtagatgagcgcaatgaaaaa .........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 tttttcattgcgctcatctacgtctgcacggacaccacggtcacggagtttcttagctacttccccaaataaaaatcgtacatttccannnnnttaattaattaannnnntatctaagcctgtaaaaaaaccatctctagccattacatcgcatcctctctcttccaaagttcaaaacttctattcaatatagctaaaatagggcatagctattcacagaatattataacacaaaaaatccaatcgtgcttagtttttcctaaatttacttaccattttttcacattctttccttagctttttttattttccaaacaagttataaaaaatcagatttatgaaaaaaagaaagctcattt Mask Tandem Repeat Region ================================================ aaatgagctttctttttttcataaatctgattttttataacttgtttggaaaataaaaaaagctaaggaaagaatgtgaaaaaatggtaagtaaatttaggaaaaactaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgtaatggctagagatggtttttttacaggcttagatannnnnttaattaattaannnnntggaaatgtacgatttttatttggggaagtagctaagaaactccgtgaccgtggtgtccgtgcagacgtagatgagcgcaatgaaaaa Find is-nt database================================================ Query_seq: SMT_2167:SMT_2168|SMT_2167:SMT_2168:hypothetical protein:threonyl-tRNA synthetase:->->:2040772..2041130 359 aaatgagctttctttttttcataaatctgattttttataacttgtttggaaaataaaaaaagctaaggaaagaatgtgaaaaaatggtaagtaaatttaggaaaaactaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgtaatggctagagatggtttttttacaggcttagatannnnnttaattaattaannnnntggaaatgtacgatttttatttggggaagtagctaagaaactccgtgaccgtggtgtccgtgcagacgtagatgagcgcaatgaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2167:SMT_2168|SMT_2167:SMT_2168:hypothetical protein:threonyl-tRNA synthetase:->->:2040772..2041130 359 aaatgagctttctttttttcataaatctgattttttataacttgtttggaaaataaaaaaagctaaggaaagaatgtgaaaaaatggtaagtaaatttaggaaaaactaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgtaatggctagagatggtttttttacaggcttagatannnnnttaattaattaannnnntggaaatgtacgatttttatttggggaagtagctaagaaactccgtgaccgtggtgtccgtgcagacgtagatgagcgcaatgaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2167:SMT_2168|SMT_2167:SMT_2168:hypothetical protein:threonyl-tRNA synthetase:->->:2040772..2041130 359 aaatgagctttctttttttcataaatctgattttttataacttgtttggaaaataaaaaaagctaaggaaagaatgtgaaaaaatggtaagtaaatttaggaaaaactaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgtaatggctagagatggtttttttacaggcttagatannnnnttaattaattaannnnntggaaatgtacgatttttatttggggaagtagctaagaaactccgtgaccgtggtgtccgtgcagacgtagatgagcgcaatgaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatgagctttctttttttcataaatctgattttttataacttgtttggaaaataaaaaaagctaaggaaagaatgtgaaaaaatggtaagtaaatttaggaaaaactaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgtaatggctagagatggtttttttacaggcttagatannnnnttaattaattaannnnntggaaatgtacgatttttatttggggaagtagctaagaaactccgtgaccgtggtgtccgtgcagacgtagatgagcgcaatgaaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 170 End: 259 ......................................................................................................................................................................... I S Y F N Q V K S S L P H S T I A L S P K K V P K S X X X M .................................................................................................... Protein_Len: 54 Strand: - Start: 66 End: 227 ................................................................. P F F T F F H Y T F K P F V L C S Q I K Q T I I N Q S Y S H G I K A I N F L L K S S Q F L S S A I Y H S S M .................................................................................................................................... aaatgagctttctttttttcataaatctgattttttataacttgtttggaaaataaaaaaagctaaggaaagaatgtgaaaaaatggtaagtaaatttaggaaaaactaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgtaatggctagagatggtttttttacaggcttagatannnnnttaattaattaannnnntggaaatgtacgatttttatttggggaagtagctaagaaactccgtgaccgtggtgtccgtgcagacgtagatgagcgcaatgaaaaa 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================================================ aaatgagctttctttttttcataaatctgattttttataacttgtttggaaaataaaaaaagctaaggaaagaatgtgaaaaaatggtaagtaaatttaggaaaaactaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgtaatggctagagatggtttttttacaggcttagatannnnnttaattaattaannnnntggaaatgtacgatttttatttggggaagtagctaagaaactccgtgaccgtggtgtccgtgcagacgtagatgagcgcaatgaaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2167:SMT_2168|SMT_2167:SMT_2168:hypothetical protein:threonyl-tRNA synthetase:->->:2040772..2041130 359 aaatgagctttctttttttcataaatctgattttttataacttgtttggaaaataaaaaaagctaaggaaagaatgtgaaaaaatggtaagtaaatttaggaaaaactaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgtaatggctagagatggtttttttacaggcttagatannnnnttaattaattaannnnntggaaatgtacgatttttatttggggaagtagctaagaaactccgtgaccgtggtgtccgtgcagacgtagatgagcgcaatgaaaaa Intra-Species Hit: Count: 7 Min: 20 Max: 359 Len: 340 Subject: smit_SMT_2167_SMT_2168|hypothetical protein:threonyl-tRNA synthetase|POSITIVE:POSITIVE|[2040772,2041130]|359 HSP 1 e-value: 1.0E-110 bit: 400.0 Len: 253 Query Start:107 Query End:359 Subject Strand: POSITIVE Subject Start: 107 Subject End: 359 ..........................................................................................................ctaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgtaatggctagagatggnnnnnnnacaggcttagatannnnnttaattaattaannnnntggaaatgtacgatttttatttggggaagtagctaagaaactccgtgaccgtggtgtccgtgcagacgtagatgagcgcaatgaaaaa ..........................................................................................................ctaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgtaatggctagagatggtttttttacaggcttagatannnnnttaattaattaannnnntggaaatgtacgatttttatttggggaagtagctaagaaactccgtgaccgtggtgtccgtgcagacgtagatgagcgcaatgaaaaa HSP 2 e-value: 2.0E-7 bit: 58.0 Len: 29 Query Start:20 Query End:48 Subject Strand: POSITIVE Subject Start: 20 Subject End: 48 ...................cataaatctgattttttataacttgtttg....................................................................................................................................................................................................................................................................................................................... ...................cataaatctgattttttataacttgtttg....................................................................................................................................................................................................................................................................................................................... Subject: smit_SMT_2157_SMT_2158|hypothetical protein:cell division protein|POSITIVE:POSITIVE|[2031460,2031673]|214 HSP 1 e-value: 1.0E-45 bit: 184.0 Len: 109 Query Start:107 Query End:215 Subject Strand: POSITIVE Subject Start: 107 Subject End: 214 ..........................................................................................................ctaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgta................................................................................................................................................ ..........................................................................................................ctaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaag-tttgaaacttggaagagagaggatgcgatgta................................................................................................................................................ HSP 2 e-value: 2.0E-7 bit: 58.0 Len: 29 Query Start:20 Query End:48 Subject Strand: POSITIVE Subject Start: 20 Subject End: 48 ...................cataaatctgattttttataacttgtttg....................................................................................................................................................................................................................................................................................................................... ...................cataaatctgattttttataacttgtttg....................................................................................................................................................................................................................................................................................................................... Subject: smit_SMT_1706_SMT_1707|hypothetical protein:cell division protein FtsA|POSITIVE:POSITIVE|[1690871,1691084]|214 HSP 1 e-value: 1.0E-45 bit: 184.0 Len: 109 Query Start:107 Query End:215 Subject Strand: POSITIVE Subject Start: 107 Subject End: 214 ..........................................................................................................ctaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgta................................................................................................................................................ ..........................................................................................................ctaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaag-tttgaaacttggaagagagaggatgcgatgta................................................................................................................................................ HSP 2 e-value: 2.0E-7 bit: 58.0 Len: 29 Query Start:20 Query End:48 Subject Strand: POSITIVE Subject Start: 20 Subject End: 48 ...................cataaatctgattttttataacttgtttg....................................................................................................................................................................................................................................................................................................................... ...................cataaatctgattttttataacttgtttg....................................................................................................................................................................................................................................................................................................................... Subject: smit_SMT_1546_SMT_1547|hypothetical protein:cell division protein FtsA|POSITIVE:POSITIVE|[1530913,1531126]|214 HSP 1 e-value: 1.0E-45 bit: 184.0 Len: 109 Query Start:107 Query End:215 Subject Strand: POSITIVE Subject Start: 107 Subject End: 214 ..........................................................................................................ctaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgta................................................................................................................................................ ..........................................................................................................ctaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaag-tttgaaacttggaagagagaggatgcgatgta................................................................................................................................................ HSP 2 e-value: 2.0E-7 bit: 58.0 Len: 29 Query Start:20 Query End:48 Subject Strand: POSITIVE Subject Start: 20 Subject End: 48 ...................cataaatctgattttttataacttgtttg....................................................................................................................................................................................................................................................................................................................... ...................cataaatctgattttttataacttgtttg....................................................................................................................................................................................................................................................................................................................... Subject: smit_SMT_2162_SMT_2163|hypothetical protein:cell division protein FtsA|POSITIVE:POSITIVE|[2037569,2037782]|214 HSP 1 e-value: 2.0E-44 bit: 180.0 Len: 109 Query Start:107 Query End:215 Subject Strand: POSITIVE Subject Start: 107 Subject End: 214 ..........................................................................................................ctaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgta................................................................................................................................................ ..........................................................................................................ctaagcrcgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaag-tttgaaacttggaagagagaggatgcgatgta................................................................................................................................................ HSP 2 e-value: 2.0E-7 bit: 58.0 Len: 29 Query Start:20 Query End:48 Subject Strand: POSITIVE Subject Start: 20 Subject End: 48 ...................cataaatctgattttttataacttgtttg....................................................................................................................................................................................................................................................................................................................... ...................cataaatctgattttttataacttgtttg....................................................................................................................................................................................................................................................................................................................... Subject: smit_SMT_2158_SMT_2159|cell division protein:cell division protein FtsA|POSITIVE:POSITIVE|[2031986,2032149]|164 HSP 1 e-value: 8.0E-41 bit: 168.0 Len: 109 Query Start:107 Query End:215 Subject Strand: POSITIVE Subject Start: 57 Subject End: 164 ..........................................................................................................ctaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgta................................................................................................................................................ ..........................................................................................................ctaagcacgattggattttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaag-cttgaaacttggaagagagtggatgcgatgta................................................................................................................................................ Subject: smit_SMT_2159_SMT_2160|cell division protein FtsA:cell division protein FtsA|POSITIVE:POSITIVE|[2033428,2033663]|236 HSP 1 e-value: 5.0E-39 bit: 163.0 Len: 109 Query Start:107 Query End:215 Subject Strand: POSITIVE Subject Start: 128 Subject End: 236 ..........................................................................................................ctaagcacgattggatttt-ttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaagttttgaactttggaagagagaggatgcgatgta................................................................................................................................................ ..........................................................................................................ctaagcacgattggatttttttgtgttataatattctgtgaatagctatgccctattttagctatattgaatagaag-tttgagacttggaagagagaggatgcgatgta................................................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUAAAUCUGAUUUUUUAUAACUUGUUUGGAAAAUAAAAAAAGCUAAGGAAAGAAUGUGAAAAAAUGGUAAGUAAAUUUAGGAAAAACUAAGCACGAUUGGAUUUUUUGUGUUAUAAUAUUCUGUGAAUAGCUAUGCCCUAUUUUAGCUAUAUUGAAUAGAAGUUUUGAACUUUGGAAGAGAGAGGAUGCGAUGUAAUGGCUAGAGAUGGUUUUUUUACAGGCUUAGAUANNNNNUUAAUUAAUUAANNNNNUGGAAAUGUACGAUUUUUAUUUGGGGAAGUAGCUAAGAAACUCCGUGACCGUGGUGUCCGUGCAGACGUAGAUGAGCGCAAUGAAAAA ...(((((..((((((((((.(((.(((((.............)))))..)))..)))))))..............(((((......)))))...)))..))))).(((((((....(((((((((....((((((.....((((((((((.(..((((((((((.....((((........))))..((..(((((.(((((....)))))...))))).))........................................))))))))))..)....))))))))))..(.....)..)))))).....)))))).)))....)))))))....... (-57.42) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUCAUUGCGCUCAUCUACGUCUGCACGGACACCACGGUCACGGAGUUUCUUAGCUACUUCCCCAAAUAAAAAUCGUACAUUUCCANNNNNUUAAUUAAUUAANNNNNUAUCUAAGCCUGUAAAAAAACCAUCUCUAGCCAUUACAUCGCAUCCUCUCUCUUCCAAAGUUCAAAACUUCUAUUCAAUAUAGCUAAAAUAGGGCAUAGCUAUUCACAGAAUAUUAUAACACAAAAAAUCCAAUCGUGCUUAGUUUUUCCUAAAUUUACUUACCAUUUUUUCACAUUCUUUCCUUAGCUUUUUUUAUUUUCCAAACAAGUUAUAAAAAAUCAGAUUUAUG .....................((((....)))).....((((..((((....(((((((..........................................................((.(((((..................)))))..))...............((((.....))))..........)))))))..(((((...(((((..(((.((.......................)))))..)))))..)))))...........................)))).((((((.(((........))).))))))..........)))).... (-30.37) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 426 278 236 141 99 smit:SMT_2149|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-_diaminopimelate--D-alanyl-D-alanine_ligase_2023671..2023901_POSITIVE 426 278 236 190 148 smit:SMT_2145|5end_K05832_putative_ABC_transport_system_permease_protein_2022019..2022249_NEGATIVE 402 278 236 155 114 smit:SMT_2171|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-_diaminopimelate--D-alanyl-D-alanine_ligase_2042271..2042501_POSITIVE 330 330 282 176 127 smit:SMT_169|5end_30S_ribosomal_protein_S10_114515..114745_POSITIVE 327 320 294 47 13 smit:SMT_1696|5end_hypothetical_protein_1678182..1678412_POSITIVE 320 211 172 73 30 smit:SMT_476|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_414134..414364_NEGATIVE 314 312 276 145 111 smit:SMT_2052|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1961591..1961821_NEGATIVE 310 308 265 227 187 smit:SMT_2041|5end_transcription-repair_coupling_factor_1952518..1952748_NEGATIVE 305 336 296 51 7 smit:SMT_2010|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1929514..1929744_POSITIVE 303 275 236 231 193 smit:SMT_2152|5end_cell_division_protein_2025649..2025879_POSITIVE 298 336 294 155 96 smit:SMT_1919|5end_aspartate_kinase_1862018..1862248_POSITIVE 295 319 272 177 120 smit:SMT_1661|5end_K02986_small_subunit_ribosomal_protein_S4_1651110..1651340_NEGATIVE 295 320 274 52 5 smit:SMT_186|5end_50S_ribosomal_protein_L18_122623..122853_POSITIVE 293 330 284 64 17 smit:SMT_716|5end_50S_ribosomal_protein_L31_622410..622640_POSITIVE 289 319 274 186 136 smit:SMT_1004|5end_thioredoxin_945430..945660_POSITIVE 289 331 291 127 83 smit:SMT_740|5end_50S_ribosomal_protein_L10_644116..644346_NEGATIVE 288 331 294 54 11 smit:SMT_490|5end_branched-chain_amino_acid_ABC_transporter,_permease_protein_424544..424774_POSITIVE 285 310 263 119 61 smit:SMT_142|5end_hypothetical_protein_95088..95318_NEGATIVE 282 331 294 111 75 smit:SMT_379|5end_acetyltransferase,_GNAT_family_316095..316325_POSITIVE 282 316 276 47 7 smit:SMT_141|5end_K03495_glucose_inhibited_division_protein_A_91408..91638_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 348 317 271 146 89 smit:SMT_1971|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1903526..1903676_POSITIVE 327 320 294 84 50 smit:SMT_1695|3end_ribulose-phosphate_3-epimerase_1678299..1678449_POSITIVE 321 314 271 151 106 smit:SMT_574|3end_PTS_system,_fructose_specific_IIABC_components_493847..493997_POSITIVE 307 332 292 69 22 smit:SMT_2057|3end_cell_division_protein_FtsH_1966897..1967047_NEGATIVE 306 329 281 83 32 smit:SMT_2075|3end_phosphoribosylamine--glycine_ligase_1977769..1977919_NEGATIVE 300 311 280 150 124 smit:SMT_134|3end_LysM_domain_protein_86157..86307_POSITIVE 295 203 164 119 84 smit:SMT_1307|3end_glycerol_uptake_facilitator_protein_1272448..1272598_POSITIVE 285 311 271 67 12 smit:SMT_1624|3end_formate_acetyltransferase_1611421..1611571_NEGATIVE 285 310 263 117 59 smit:SMT_143|3end_hypothetical_protein_95090..95240_NEGATIVE 282 316 276 57 17 smit:SMT_140|3end_NUDIX_family_hydrolase_91498..91648_POSITIVE 279 317 271 137 89 smit:SMT_326|3end_K02029_polar_amino_acid_transport_system_permease_protein_263217..263367_NEGATIVE 275 318 271 145 84 smit:SMT_1981|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912868..1913018_POSITIVE 265 209 161 76 39 smit:SMT_1072|3end_Cof_family_protein_1010357..1010507_NEGATIVE 265 335 294 144 97 smit:SMT_656|3end_bacteriocin_transport_accessory_protein,_putative_568419..568569_POSITIVE 262 316 276 76 41 smit:SMT_540|3end_DNA_gyrase,_B_subunit_457157..457307_POSITIVE 260 313 271 137 84 smit:SMT_1942|3end_zinc_metalloprotease_ZmpB,_truncated_1878384..1878534_POSITIVE 259 210 164 55 10 smit:SMT_1114|3end_competence_protein_1052076..1052226_NEGATIVE 259 311 271 65 28 smit:SMT_545|3end_hypothetical_protein_predicted_by_Glimmer/Critica_461424..461574_POSITIVE 257 223 186 150 114 smit:SMT_218|3end_undecaprenyl_pyrophosphate_synthetase_150993..151143_POSITIVE 256 328 297 147 104 smit:SMT_2008|3end_K07485_transposase_1928165..1928315_NEGATIVE