Origin IGS: tataacacctccttaaaaccagtttaggttttcaccttaaaagagtactttactgtttgccatttttcatacttaggacaccagatcacaatcacacactcagcgattcggacttaccatatcatccgtaaaaaaacaatcctcacgaaataaagaaaaatcttcgttttgatattgttccattagtaaactgaacctacaatatctccaactattgctcctagcatccgtttcctccttgtaagatatcgggaatttgaccatcaactatagtttttaaattatctattaacgaattttttataatttataggtattcatctaatcaaattataattaaataacttttttgattccattatgtactacatcttcctattatac .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtataataggaagatgtagtacataatggaatcaaaaaagttatttaattataatttgattagatgaatacctataaattataaaaaattcgttaatagataatttaaaaactatagttgatggtcaaattcccgatatcttacaaggaggaaacggatgctaggagcaatagttggagatattgtaggttcagtttactaatggaacaatatcaaaacgaagatttttctttatttcgtgaggattgtttttttacggatgatatggtaagtccgaatcgctgagtgtgtgattgtgatctggtgtcctaagtatgaaaaatggcaaacagtaaagtactcttttaaggtgaaaacctaaactggttttaaggaggtgttata Mask Tandem Repeat Region ================================================ tataacacctccttaaaaccagtttaggttttcaccttaaaagagtactttactgtttgccatttttcatacttaggacaccagatcacaatcacacactcagcgattcggacttaccatatcatccgtaaaaaaacaatcctcacgaaataaagaaaaatcttcgttttgatattgttccattagtaaactgaacctacaatatctccaactattgctcctagcatccgtttcctccttgtaagatatcgggaatttgaccatcaactatagtttttaaattatctattaacgaattttttataatttataggtattcatctaatcaaattataattaaataacttttttgattccattatgtactacatcttcctattatac Find is-nt database================================================ Query_seq: SMT_1438:SMT_1439|SMT_1438:SMT_1439:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:<-<-:1422968..1423351 384 tataacacctccttaaaaccagtttaggttttcaccttaaaagagtactttactgtttgccatttttcatacttaggacaccagatcacaatcacacactcagcgattcggacttaccatatcatccgtaaaaaaacaatcctcacgaaataaagaaaaatcttcgttttgatattgttccattagtaaactgaacctacaatatctccaactattgctcctagcatccgtttcctccttgtaagatatcgggaatttgaccatcaactatagtttttaaattatctattaacgaattttttataatttataggtattcatctaatcaaattataattaaataacttttttgattccattatgtactacatcttcctattatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1438:SMT_1439|SMT_1438:SMT_1439:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:<-<-:1422968..1423351 384 tataacacctccttaaaaccagtttaggttttcaccttaaaagagtactttactgtttgccatttttcatacttaggacaccagatcacaatcacacactcagcgattcggacttaccatatcatccgtaaaaaaacaatcctcacgaaataaagaaaaatcttcgttttgatattgttccattagtaaactgaacctacaatatctccaactattgctcctagcatccgtttcctccttgtaagatatcgggaatttgaccatcaactatagtttttaaattatctattaacgaattttttataatttataggtattcatctaatcaaattataattaaataacttttttgattccattatgtactacatcttcctattatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1438:SMT_1439|SMT_1438:SMT_1439:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:<-<-:1422968..1423351 384 tataacacctccttaaaaccagtttaggttttcaccttaaaagagtactttactgtttgccatttttcatacttaggacaccagatcacaatcacacactcagcgattcggacttaccatatcatccgtaaaaaaacaatcctcacgaaataaagaaaaatcttcgttttgatattgttccattagtaaactgaacctacaatatctccaactattgctcctagcatccgtttcctccttgtaagatatcgggaatttgaccatcaactatagtttttaaattatctattaacgaattttttataatttataggtattcatctaatcaaattataattaaataacttttttgattccattatgtactacatcttcctattatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tataacacctccttaaaaccagtttaggttttcaccttaaaagagtactttactgtttgccatttttcatacttaggacaccagatcacaatcacacactcagcgattcggacttaccatatcatccgtaaaaaaacaatcctcacgaaataaagaaaaatcttcgttttgatattgttccattagtaaactgaacctacaatatctccaactattgctcctagcatccgtttcctccttgtaagatatcgggaatttgaccatcaactatagtttttaaattatctattaacgaattttttataatttataggtattcatctaatcaaattataattaaataacttttttgattccattatgtactacatcttcctattatac Predict ORF larger than 30AA ================================================ Protein_Len: 55 Strand: - Start: 103 End: 267 ...................................................................................................... R N P S V M D D T F F C D E R F L S F D E N Q Y Q E M L L S F R C Y R W S N S R A D T E E K Y S I P F K V M M ..................................................................................................................... tataacacctccttaaaaccagtttaggttttcaccttaaaagagtactttactgtttgccatttttcatacttaggacaccagatcacaatcacacactcagcgattcggacttaccatatcatccgtaaaaaaacaatcctcacgaaataaagaaaaatcttcgttttgatattgttccattagtaaactgaacctacaatatctccaactattgctcctagcatccgtttcctccttgtaagatatcgggaatttgaccatcaactatagtttttaaattatctattaacgaattttttataatttataggtattcatctaatcaaattataattaaataacttttttgattccattatgtactacatcttcctattatac 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================================================ tataacacctccttaaaaccagtttaggttttcaccttaaaagagtactttactgtttgccatttttcatacttaggacaccagatcacaatcacacactcagcgattcggacttaccatatcatccgtaaaaaaacaatcctcacgaaataaagaaaaatcttcgttttgatattgttccattagtaaactgaacctacaatatctccaactattgctcctagcatccgtttcctccttgtaagatatcgggaatttgaccatcaactatagtttttaaattatctattaacgaattttttataatttataggtattcatctaatcaaattataattaaataacttttttgattccattatgtactacatcttcctattatac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1438:SMT_1439|SMT_1438:SMT_1439:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:<-<-:1422968..1423351 384 tataacacctccttaaaaccagtttaggttttcaccttaaaagagtactttactgtttgccatttttcatacttaggacaccagatcacaatcacacactcagcgattcggacttaccatatcatccgtaaaaaaacaatcctcacgaaataaagaaaaatcttcgttttgatattgttccattagtaaactgaacctacaatatctccaactattgctcctagcatccgtttcctccttgtaagatatcgggaatttgaccatcaactatagtttttaaattatctattaacgaattttttataatttataggtattcatctaatcaaattataattaaataacttttttgattccattatgtactacatcttcctattatac Intra-Species Hit: Count: 1 Min: 1 Max: 384 Len: 384 Subject: smit_SMT_1438_SMT_1439|hypothetical protein:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:NEGATIVE|[1422968,1423351]|384 HSP 1 e-value: 0.0 bit: 720.0 Len: 384 Query Start:1 Query End:384 Subject Strand: POSITIVE Subject Start: 1 Subject End: 384 tataacacctccttaaaaccagtttaggttttcaccttaaaagagtactttactgtttgccatttttcatacttaggacaccagatcacaatcacacactcagcgattcggacttaccatatcatccgtnnnnnnncaatcctcacgaaataaagaaaaatcttcgttttgatattgttccattagtaaactgaacctacaatatctccaactattgctcctagcatccgtttcctccttgtaagatatcgggaatttgaccatcaactatagtttttaaattatctattaacgaattttttataatttataggtattcatctaatcaaattataattaaataacttttttgattccattatgtactacatcttcctattatac tataacacctccttaaaaccagtttaggttttcaccttaaaagagtactttactgtttgccatttttcatacttaggacaccagatcacaatcacacactcagcgattcggacttaccatatcatccgtaaaaaaacaatcctcacgaaataaagaaaaatcttcgttttgatattgttccattagtaaactgaacctacaatatctccaactattgctcctagcatccgtttcctccttgtaagatatcgggaatttgaccatcaactatagtttttaaattatctattaacgaattttttataatttataggtattcatctaatcaaattataattaaataacttttttgattccattatgtactacatcttcctattatac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUAACACCUCCUUAAAACCAGUUUAGGUUUUCACCUUAAAAGAGUACUUUACUGUUUGCCAUUUUUCAUACUUAGGACACCAGAUCACAAUCACACACUCAGCGAUUCGGACUUACCAUAUCAUCCGUAAAAAAACAAUCCUCACGAAAUAAAGAAAAAUCUUCGUUUUGAUAUUGUUCCAUUAGUAAACUGAACCUACAAUAUCUCCAACUAUUGCUCCUAGCAUCCGUUUCCUCCUUGUAAGAUAUCGGGAAUUUGACCAUCAACUAUAGUUUUUAAAUUAUCUAUUAACGAAUUUUUUAUAAUUUAUAGGUAUUCAUCUAAUCAAAUUAUAAUUAAAUAACUUUUUUGAUUCCAUUAUGUACUACAUCUUCCUAUUAUAC ....(((.......((((((......))))))....((((((((((.....(((((...((.....((.(((..((((.....(((....)))...........((..((((..................................((((..((((....))))..))))((((((((....((((....))))....)))))))).........(((.....)))))))..)).)))).))).)).....))...(((.....)))..)))))......................((..(((((((((.(((((....)))))...)))))))))..))...))))))))))........))).................... (-49.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAUAAUAGGAAGAUGUAGUACAUAAUGGAAUCAAAAAAGUUAUUUAAUUAUAAUUUGAUUAGAUGAAUACCUAUAAAUUAUAAAAAAUUCGUUAAUAGAUAAUUUAAAAACUAUAGUUGAUGGUCAAAUUCCCGAUAUCUUACAAGGAGGAAACGGAUGCUAGGAGCAAUAGUUGGAGAUAUUGUAGGUUCAGUUUACUAAUGGAACAAUAUCAAAACGAAGAUUUUUCUUUAUUUCGUGAGGAUUGUUUUUUUACGGAUGAUAUGGUAAGUCCGAAUCGCUGAGUGUGUGAUUGUGAUCUGGUGUCCUAAGUAUGAAAAAUGGCAAACAGUAAAGUACUCUUUUAAGGUGAAAACCUAAACUGGUUUUAAGGAGGUGUUAUA ((((.(((......))).))))....(((.(((((.....(((((((((((.....))))))))))).......((((((((.................))))))))..........)))))..)))..((((...(((((((.((((((.....((((((((((.(((((..(((((..(((..((.((((.(((....))).))))...........(((((....)))))..((((((((((.....))))))))))...))..)))..)))))..(((.....)))..)))))..))))))))))...((.((........)).)).........)))))))))))))((((((......))))))..))))........ (-76.83) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 951 120 71 211 162 smit:SMT_1438|5end_hypothetical_protein_1422877..1423107_NEGATIVE 502 209 161 73 24 smit:SMT_1437|5end_ADP-ribosylglycohydrolase_1422219..1422449_NEGATIVE 332 250 202 160 93 smit:SMT_1801|5end_heavy_metal_translocating_P-type_ATPase_1773916..1774146_POSITIVE 320 100 57 127 82 smit:SMT_1681|5end_D-alanine-activating_enzyme_1664184..1664414_POSITIVE 297 241 207 230 189 smit:SMT_774|5end_hypothetical_protein_685231..685461_NEGATIVE 295 238 192 122 66 smit:SMT_962|5end_putative_hemin_transport_system_ATP-binding_protein_fecE_908584..908814_NEGATIVE 295 249 202 118 63 smit:SMT_924|5end_primosomal_protein_N'_879903..880133_NEGATIVE 286 230 191 208 166 smit:SMT_794|5end_hypothetical_protein_703487..703717_NEGATIVE 284 89 42 153 109 smit:SMT_1627|5end_hypothetical_protein_1616415..1616645_NEGATIVE 284 254 211 53 14 smit:SMT_308|5end_trans-2-enoyl-ACP_reductase_II_249439..249669_POSITIVE 283 266 223 223 184 smit:SMT_346|5end_K01992_ABC-2_type_transport_system_permease_protein_284720..284950_POSITIVE 281 129 84 221 176 smit:SMT_178|5end_50S_ribosomal_protein_L29_119161..119391_POSITIVE 272 111 71 220 174 smit:SMT_1541|5end_isopentenyl-diphosphate_delta-isomerase_1526093..1526323_NEGATIVE 272 261 221 127 86 smit:SMT_686|5end_LPS_biosynthesis_protein_595159..595389_POSITIVE 266 260 211 132 64 smit:SMT_446|5end_ABC-type_cobalt_transport_system,_ATPase_component_384870..385100_POSITIVE 265 240 195 158 100 smit:SMT_1257|5end_acetolactate_synthase_small_subunit_1223173..1223403_NEGATIVE 264 278 236 153 113 smit:SMT_1925|5end_K03697_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpE_1867262..1867492_POSITIVE 264 238 196 102 58 smit:SMT_1646|5end_3-isopropylmalate_dehydratase_large_subunit_1632011..1632241_POSITIVE 262 118 74 99 61 smit:SMT_1938|5end_zinc_metalloprotease_ZmpB,_putative_1875374..1875604_POSITIVE 260 130 83 104 46 smit:SMT_1670|5end_K02030_polar_amino_acid_transport_system_substrate-binding_protein_1658613..1658843_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 480 239 193 62 16 smit:SMT_1438|3end_hypothetical_protein_1422260..1422410_NEGATIVE 295 238 192 120 64 smit:SMT_963|3end_K02015_iron_complex_transport_system_permease_protein_908586..908736_NEGATIVE 275 252 215 142 99 smit:SMT_1581|3end_transcriptional_regulator,_biotin_repressor_family_1573120..1573270_NEGATIVE 272 261 221 125 84 smit:SMT_685|3end_LPS_biosynthesis_protein_595237..595387_POSITIVE 266 260 211 131 63 smit:SMT_445|3end_hypothetical_protein_384949..385099_POSITIVE 264 238 196 98 54 smit:SMT_1645|3end_hypothetical_protein_1632087..1632237_POSITIVE 262 118 74 67 29 smit:SMT_1937|3end_glycosyl_transferase,_family_2_1875422..1875572_POSITIVE 260 103 66 41 1 smit:SMT_1680|3end_hypothetical_protein_1664173..1664323_POSITIVE 257 240 197 42 1 smit:SMT_925|3end_DNA-directed_RNA_polymerase_omega_chain_879969..880119_NEGATIVE 252 258 213 148 105 smit:SMT_1627|3end_hypothetical_protein_1616089..1616239_NEGATIVE 252 239 191 112 56 smit:SMT_902|3end_hypothetical_protein_851424..851574_NEGATIVE 251 252 215 97 56 smit:SMT_1608|3end_hypothetical_protein_1598196..1598346_POSITIVE 251 248 214 145 107 smit:SMT_852|3end_K03978_GTP-binding_protein_797457..797607_NEGATIVE 250 266 221 124 91 smit:SMT_464|3end_ribonuclease_Z_403303..403453_POSITIVE 250 266 221 124 91 smit:SMT_416|3end_ribonuclease_Z_360432..360582_POSITIVE 249 114 76 92 54 smit:SMT_1454|3end_cytidine_deaminase_1437497..1437647_NEGATIVE 246 238 215 139 114 smit:SMT_1284|3end_predicted_amidophosphoribosyltransferase_1247704..1247854_POSITIVE 243 232 195 148 107 smit:SMT_1258|3end_acetolactate_synthase_large_subunit_1223166..1223316_NEGATIVE 243 241 202 133 103 smit:SMT_846|3end_hypothetical_protein_791855..792005_NEGATIVE 242 238 191 136 77 smit:SMT_1443|3end_23S_rRNA_m(5)U_1939_methyltransferase_1426503..1426653_NEGATIVE