Origin IGS: aaaaggaatagatccyttttaaatcccactaagattgggatttttcctgcatagtctttagttaattgagcacctaattttttagcagcttctgtannnnnttaattaattaannnnncaaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagtgactcagccaaaacggcaggaccaacaagtgtaagttcagta .........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 tactgaacttacacttgttggtcctgccgttttggctgagtcactgctacgtttggtggtgcattatcgattgctggttttgctgcattcgctttttgctgtgcatctgcttttgnnnnnttaattaattaannnnntacagaagctgctaaaaaattaggtgctcaattaactaaagactatgcaggaaaaatcccaatcttagtgggatttaaaarggatctattcctttt Mask Tandem Repeat Region ================================================ aaaaggaatagatccyttttaaatcccactaagattgggatttttcctgcatagtctttagttaattgagcacctaattttttagcagcttctgtannnnnttaattaattaannnnncaaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagtgactcagccaaaacggcaggaccaacaagtgtaagttcagta Find is-nt database================================================ Query_seq: SMT_2058:SMT_2059|SMT_2058:SMT_2059:hypoxanthine-guanine phosphoribosyltransferase:hypothetical protein:<-->:1967788..1968020 233 aaaaggaatagatccyttttaaatcccactaagattgggatttttcctgcatagtctttagttaattgagcacctaattttttagcagcttctgtannnnnttaattaattaannnnncaaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagtgactcagccaaaacggcaggaccaacaagtgtaagttcagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2058:SMT_2059|SMT_2058:SMT_2059:hypoxanthine-guanine phosphoribosyltransferase:hypothetical protein:<-->:1967788..1968020 233 aaaaggaatagatccyttttaaatcccactaagattgggatttttcctgcatagtctttagttaattgagcacctaattttttagcagcttctgtannnnnttaattaattaannnnncaaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagtgactcagccaaaacggcaggaccaacaagtgtaagttcagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2058:SMT_2059|SMT_2058:SMT_2059:hypoxanthine-guanine phosphoribosyltransferase:hypothetical protein:<-->:1967788..1968020 233 aaaaggaatagatccyttttaaatcccactaagattgggatttttcctgcatagtctttagttaattgagcacctaattttttagcagcttctgtannnnnttaattaattaannnnncaaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagtgactcagccaaaacggcaggaccaacaagtgtaagttcagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaaggaatagatccyttttaaatcccactaagattgggatttttcctgcatagtctttagttaattgagcacctaattttttagcagcttctgtannnnnttaattaattaannnnncaaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagtgactcagccaaaacggcaggaccaacaagtgtaagttcagta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 109 End: 222 ............................................................................................................ M X X X K A D A Q Q K A N A A K P A I D N A P P N V A V T Q P K R Q D Q Q V ........... Protein_Len: 30 Strand: - Start: 113 End: 202 ................................................................................................................ X X L L L H V A F L S H L L V L L R Y H V V L R L L S E A M ............................... Protein_Len: 41 Strand: - Start: 109 End: 231 ............................................................................................................ N X X X F C I C L L F R I C C F W C D I I C W W V Y C H S L W F P L V L L H L N M .. aaaaggaatagatccyttttaaatcccactaagattgggatttttcctgcatagtctttagttaattgagcacctaattttttagcagcttctgtannnnnttaattaattaannnnncaaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagtgactcagccaaaacggcaggaccaacaagtgtaagttcagta 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================================================ aaaaggaatagatccyttttaaatcccactaagattgggatttttcctgcatagtctttagttaattgagcacctaattttttagcagcttctgtannnnnttaattaattaannnnncaaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagtgactcagccaaaacggcaggaccaacaagtgtaagttcagta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2058:SMT_2059|SMT_2058:SMT_2059:hypoxanthine-guanine phosphoribosyltransferase:hypothetical protein:<-->:1967788..1968020 233 aaaaggaatagatccyttttaaatcccactaagattgggatttttcctgcatagtctttagttaattgagcacctaattttttagcagcttctgtannnnnttaattaattaannnnncaaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagtgactcagccaaaacggcaggaccaacaagtgtaagttcagta Intra-Species Hit: Count: 3 Min: 1 Max: 233 Len: 233 Subject: smit_SMT_2058_SMT_2059|hypoxanthine-guanine phosphoribosyltransferase:hypothetical protein|NEGATIVE:POSITIVE|[1967788,1968020]|233 HSP 1 e-value: 1.0E-110 bit: 400.0 Len: 233 Query Start:1 Query End:233 Subject Strand: POSITIVE Subject Start: 1 Subject End: 233 aaaaggaatagatccyttttaaatcccactaagattgggatttttcctgcatagtctttagttaattgagcacctaattttttagcagcttctgtannnnnttaattaattaannnnncaaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagtgactcagccaaaacggcaggaccaacaagtgtaagttcagta aaaaggaatagatccyttttaaatcccactaagattgggatttttcctgcatagtctttagttaattgagcacctaattttttagcagcttctgtannnnnttaattaattaannnnncaaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagtgactcagccaaaacggcaggaccaacaagtgtaagttcagta Subject: smit_SMT_2055_SMT_2056|hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica|POSITIVE:POSITIVE|[1966078,1966462]|385 HSP 1 e-value: 4.0E-38 bit: 159.0 Len: 115 Query Start:119 Query End:233 Subject Strand: POSITIVE Subject Start: 270 Subject End: 385 ......................................................................................................................caaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagt-gactcagccaaaacggcaggaccaacaagtgtaagttcagta ......................................................................................................................caaaagcagatgcacaggcaaaagcgaatgcagcaaaaacagcaatcgataatgcaacaacaaacgtagcagtggactcagcccaaacggcaggaacaacaagtgtaagttcagta Subject: smit_SMT_1891_SMT_1892|putative dihydrolipoamide S-acetyltransferase:hypothetical protein|POSITIVE:POSITIVE|[1845080,1845734]|655 HSP 1 e-value: 4.0E-38 bit: 159.0 Len: 115 Query Start:119 Query End:233 Subject Strand: POSITIVE Subject Start: 540 Subject End: 655 ......................................................................................................................caaaagcagatgcacagcaaaaagcgaatgcagcaaaaccagcaatcgataatgcaccaccaaacgtagcagt-gactcagccaaaacggcaggaccaacaagtgtaagttcagta ......................................................................................................................caaaagcagatgcacaggcaaaagcgaatgcagcaaaaacagcaatcgataatgcaacaacaaacgtagcagtggactcagcccaaacggcaggaacaacaagtgtaagttcagta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAGGAAUAGAUCCYUUUUAAAUCCCACUAAGAUUGGGAUUUUUCCUGCAUAGUCUUUAGUUAAUUGAGCACCUAAUUUUUUAGCAGCUUCUGUANNNNNUUAAUUAAUUAANNNNNCAAAAGCAGAUGCACAGCAAAAAGCGAAUGCAGCAAAACCAGCAAUCGAUAAUGCACCACCAAACGUAGCAGUGACUCAGCCAAAACGGCAGGACCAACAAGUGUAAGUUCAGUA .....((((...........((((((((.......)))))))).((((((...((.(((.((....((((((((((...........((.(((((............................))))).))...(((.....(((.(((..........))).)))....)))...........)))..))).)))))).))))).)))))).............)))).... (-42.89) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACUGAACUUACACUUGUUGGUCCUGCCGUUUUGGCUGAGUCACUGCUACGUUUGGUGGUGCAUUAUCGAUUGCUGGUUUUGCUGCAUUCGCUUUUUGCUGUGCAUCUGCUUUUGNNNNNUUAAUUAAUUAANNNNNUACAGAAGCUGCUAAAAAAUUAGGUGCUCAAUUAACUAAAGACUAUGCAGGAAAAAUCCCAAUCUUAGUGGGAUUUAAAARGGAUCUAUUCCUUUU .............((((((((((..(((.....))).(((.((((......(((((((((((((...(((.(((.((.....))))).))).........))))))).(((((((.....((((....)))).......))))))).))))))......)))))))...........))))).)))))..((((((((.......)))))))).....(((.....))).... (-55.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 805 70 21 161 112 smit:SMT_2058|5end_hypoxanthine-guanine_phosphoribosyltransferase_1967697..1967927_NEGATIVE 683 96 53 44 1 smit:SMT_100|5end_hypoxanthine-guanine_phosphoribosyltransferase_31471..31701_POSITIVE 328 180 131 80 32 smit:SMT_793|5end_K02029_polar_amino_acid_transport_system_permease_protein_703236..703466_NEGATIVE 305 220 172 189 148 smit:SMT_1190|5end_phosphoribosylaminoimidazole_carboxylase,_catalytic_subunit_1148232..1148462_NEGATIVE 303 230 183 45 8 smit:SMT_741|5end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_645618..645848_NEGATIVE 301 217 172 224 187 smit:SMT_1454|5end_cytidine_deaminase_1437886..1438116_NEGATIVE 299 222 182 78 27 smit:SMT_927|5end_KH_domain_protein_882677..882907_NEGATIVE 294 199 152 79 28 smit:SMT_1382|5end_glutamate_5-kinase_1360744..1360974_NEGATIVE 291 227 186 74 39 smit:SMT_1208|5end_choline_binding_protein_PcpA_1169690..1169920_NEGATIVE 290 200 156 71 30 smit:SMT_578|5end_lipoprotein_signal_peptidase_496061..496291_POSITIVE 285 215 171 77 28 smit:SMT_2010|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1929514..1929744_POSITIVE 283 216 174 91 54 smit:SMT_1797|5end_threonine_dehydratase_1772684..1772914_NEGATIVE 283 178 131 227 177 smit:SMT_877|5end_hypothetical_protein_824412..824642_NEGATIVE 281 193 155 49 7 smit:SMT_1747|5end_anthranilate_synthase_component_I_1726279..1726509_POSITIVE 279 199 151 59 12 smit:SMT_1977|5end_endopeptidase_O_1907832..1908062_POSITIVE 277 189 141 164 111 smit:SMT_835|5end_polypeptide_deformylase_777549..777779_NEGATIVE 275 217 171 61 29 smit:SMT_1622|5end_K03499_trk_system_potassium_uptake_protein_TrkA_1608243..1608473_POSITIVE 275 193 157 37 3 smit:SMT_1373|5end_K02838_ribosome_recycling_factor_1352274..1352504_NEGATIVE 272 230 183 77 15 smit:SMT_847|5end_thioredoxin_reductase_792800..793030_POSITIVE 272 200 157 84 43 smit:SMT_486|5end_hypothetical_protein_422305..422535_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 584 96 58 39 1 smit:SMT_99|3end_tRNA(Ile)-lysidine_synthetase_31546..31696_POSITIVE 351 228 187 63 25 smit:SMT_1867|3end_peptide_chain_release_factor_1_1827910..1828060_NEGATIVE 328 180 131 71 23 smit:SMT_794|3end_hypothetical_protein_703245..703395_NEGATIVE 290 200 156 74 33 smit:SMT_577|3end_transcriptional_regulator,_LysR_family_496144..496294_POSITIVE 271 215 175 80 45 smit:SMT_2125|3end_3-phosphoshikimate_1-carboxyvinyltransferase_2009098..2009248_POSITIVE 270 214 174 41 9 smit:SMT_1580|3end_MutT/NUDIX_family_protein_1573153..1573303_POSITIVE 268 199 159 138 93 smit:SMT_807|3end_hypothetical_protein_predicted_by_Glimmer/Critica_716708..716858_NEGATIVE 259 174 133 69 42 smit:SMT_2057|3end_cell_division_protein_FtsH_1966897..1967047_NEGATIVE 255 93 52 136 92 smit:SMT_947|3end_ferredoxin_896682..896832_POSITIVE 254 169 127 43 10 smit:SMT_1621|3end_K09134_hypothetical_protein_1607256..1607406_NEGATIVE 254 214 183 36 2 smit:SMT_213|3end_leucyl-tRNA_synthetase_146167..146317_POSITIVE 252 70 22 111 55 smit:SMT_1693|3end_dimethyladenosine_transferase_1676752..1676902_POSITIVE 252 206 165 85 34 smit:SMT_855|3end_dihydrofolate_reductase_799492..799642_NEGATIVE 250 228 183 72 35 smit:SMT_1367|3end_K02237_competence_protein_ComEA_1346872..1347022_NEGATIVE 250 207 163 139 93 smit:SMT_1058|3end_primosomal_protein_DnaI_997462..997612_POSITIVE 249 199 160 45 5 smit:SMT_2092|3end_malolactic_enzyme_1987040..1987190_NEGATIVE 248 80 34 55 2 smit:SMT_2073|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1977074..1977224_POSITIVE 248 208 165 87 35 smit:SMT_773|3end_UDP-N-acetylenolpyruvoylglucosamine_reductase_683460..683610_NEGATIVE 246 209 163 73 26 smit:SMT_677|3end_DNA_topoisomerase_I_585303..585453_NEGATIVE 244 220 177 147 94 smit:SMT_1202|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1163945..1164095_NEGATIVE