Origin IGS: tccaggaatcgtcgaagcaactttgccctgactagctccaacaccaggaagatcgactacaatgacatggtctttcagcttccagcacnnnnnttaattaattaannnnntgtccacgaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttcgtggacannnnnttaattaattaannnnngtgctggaagctgaaagaccatgtcattgtagtcgatcttcctggtgttggagctagtcagggcaaagttgcttcgacgattcctgga Mask Tandem Repeat Region ================================================ tccaggaatcgtcgaagcaactttgccctgactagctccaacaccaggaagatcgactacaatgacatggtctttcagcttccagcacnnnnnttaattaattaannnnntgtccacgaa Find is-nt database================================================ Query_seq: SMT_2032:SMT_2033|SMT_2032:SMT_2033:hydrolase, alpha/beta fold family:hydrolase, haloacid dehalogenase-like family:<-->:1946512..1946631 120 tccaggaatcgtcgaagcaactttgccctgactagctccaacaccaggaagatcgactacaatgacatggtctttcagcttccagcacnnnnnttaattaattaannnnntgtccacgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2032:SMT_2033|SMT_2032:SMT_2033:hydrolase, alpha/beta fold family:hydrolase, haloacid dehalogenase-like family:<-->:1946512..1946631 120 tccaggaatcgtcgaagcaactttgccctgactagctccaacaccaggaagatcgactacaatgacatggtctttcagcttccagcacnnnnnttaattaattaannnnntgtccacgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2032:SMT_2033|SMT_2032:SMT_2033:hydrolase, alpha/beta fold family:hydrolase, haloacid dehalogenase-like family:<-->:1946512..1946631 120 tccaggaatcgtcgaagcaactttgccctgactagctccaacaccaggaagatcgactacaatgacatggtctttcagcttccagcacnnnnnttaattaattaannnnntgtccacgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tccaggaatcgtcgaagcaactttgccctgactagctccaacaccaggaagatcgactacaatgacatggtctttcagcttccagcacnnnnnttaattaattaannnnntgtccacgaa Predict ORF larger than 30AA ================================================ tccaggaatcgtcgaagcaactttgccctgactagctccaacaccaggaagatcgactacaatgacatggtctttcagcttccagcacnnnnnttaattaattaannnnntgtccacgaa 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================================================ tccaggaatcgtcgaagcaactttgccctgactagctccaacaccaggaagatcgactacaatgacatggtctttcagcttccagcacnnnnnttaattaattaannnnntgtccacgaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2032:SMT_2033|SMT_2032:SMT_2033:hydrolase, alpha/beta fold family:hydrolase, haloacid dehalogenase-like family:<-->:1946512..1946631 120 tccaggaatcgtcgaagcaactttgccctgactagctccaacaccaggaagatcgactacaatgacatggtctttcagcttccagcacnnnnnttaattaattaannnnntgtccacgaa Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: smit_SMT_2032_SMT_2033|hydrolase, alpha/beta fold family:hydrolase, haloacid dehalogenase-like family|NEGATIVE:POSITIVE|[1946512,1946631]|120 HSP 1 e-value: 3.0E-44 bit: 178.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 tccaggaatcgtcgaagcaactttgccctgactagctccaacaccaggaagatcgactacaatgacatggtctttcagcttccagcacnnnnnttaattaattaa............... tccaggaatcgtcgaagcaactttgccctgactagctccaacaccaggaagatcgactacaatgacatggtctttcagcttccagcacnnnnnttaattaattaa............... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCAGGAAUCGUCGAAGCAACUUUGCCCUGACUAGCUCCAACACCAGGAAGAUCGACUACAAUGACAUGGUCUUUCAGCUUCCAGCACNNNNNUUAAUUAAUUAA ....(((.(.((((..(((....)))..)))).)..))).......(((((...(((((........)))))......)))))...................... (-18.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUAAUUAANNNNNGUGCUGGAAGCUGAAAGACCAUGUCAUUGUAGUCGAUCUUCCUGGUGUUGGAGCUAGUCAGGGCAAAGUUGCUUCGACGAUUCCUGGA ....................(..(.((((..((.((((.(..((((....))))...).)))).))..)))).(((..((((....))))..))).....)..). (-23.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1015 50 1 141 92 smit:SMT_2032|5end_hydrolase,_alpha/beta_fold_family_1946421..1946651_NEGATIVE 391 70 21 98 34 smit:SMT_148|5end_glycoprotein_endopeptidase_98033..98263_POSITIVE 378 56 13 197 148 smit:SMT_1043|5end_chaperonin_GroEL_985766..985996_NEGATIVE 340 46 1 231 181 smit:SMT_2051|5end_enoyl-CoA_hydratase_1960639..1960869_NEGATIVE 309 47 2 63 18 smit:SMT_171|5end_50S_ribosomal_protein_L4_115557..115787_POSITIVE 306 88 46 135 98 smit:SMT_2026|5end_K03466_DNA_segregation_ATPase_FtsK/SpoIIIE,_S-DNA-T_family_1942432..1942662_NEGATIVE 302 88 53 39 9 smit:SMT_1047|5end_chaperonin,_10_kDa_988090..988320_NEGATIVE 302 88 53 225 195 smit:SMT_1046|5end_chaperonin_GroEL_987904..988134_NEGATIVE 302 88 53 78 48 smit:SMT_1045|5end_cochaperonin_GroES_987582..987812_NEGATIVE 302 88 53 225 195 smit:SMT_1044|5end_chaperonin_GroEL_(HSP60_family)_987435..987665_NEGATIVE 294 88 42 174 118 smit:SMT_1927|5end_cell_division_protein_FtsH_1868779..1869009_NEGATIVE 294 87 43 142 91 smit:SMT_1850|5end_K01421_putative_membrane_protein_1815062..1815292_POSITIVE 294 45 1 124 78 smit:SMT_1609|5end_hypothetical_protein_1598113..1598343_POSITIVE 289 44 1 165 122 smit:SMT_1915|5end_pyridoxine_biosynthesis_protein_1860329..1860559_POSITIVE 285 56 15 192 142 smit:SMT_1797|5end_threonine_dehydratase_1772684..1772914_NEGATIVE 284 70 25 231 170 smit:SMT_447|5end_ABC-type_cobalt_transport_system,_permease_component_CbiQ_related_transporter_386257..386487_POSITIVE 281 88 47 105 50 smit:SMT_1813|5end_amino_acid_transporter_1787142..1787372_POSITIVE 281 57 32 147 126 smit:SMT_169|5end_30S_ribosomal_protein_S10_114515..114745_POSITIVE 280 48 10 170 116 smit:SMT_1694|5end_GTPase_1676674..1676904_POSITIVE 276 47 4 66 24 smit:SMT_1316|5end_dTDP-glucose_4,6-dehydratase_1280894..1281124_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 294 45 1 127 81 smit:SMT_1608|3end_hypothetical_protein_1598196..1598346_POSITIVE 289 44 1 80 37 smit:SMT_1914|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1860324..1860474_POSITIVE 285 56 15 58 8 smit:SMT_1798|3end_exonuclease_RexA_1772818..1772968_NEGATIVE 284 47 10 38 3 smit:SMT_170|3end_50S_ribosomal_protein_L3_115612..115762_POSITIVE 281 88 47 76 21 smit:SMT_1812|3end_K07485_transposase_1787193..1787343_POSITIVE 276 47 4 44 2 smit:SMT_1315|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1280952..1281102_POSITIVE 276 50 16 64 23 smit:SMT_998|3end_peptide_chain_release_factor_3_939699..939849_NEGATIVE 273 88 48 77 42 smit:SMT_2008|3end_K07485_transposase_1928165..1928315_NEGATIVE 269 49 2 148 100 smit:SMT_1690|3end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1673370..1673520_NEGATIVE 266 77 31 110 60 smit:SMT_2073|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1977074..1977224_POSITIVE 265 58 17 50 8 smit:SMT_785|3end_hypothetical_protein_696307..696457_NEGATIVE 264 46 1 57 13 smit:SMT_413|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_357641..357791_POSITIVE 263 86 47 50 6 smit:SMT_1733|3end_DNA_repair_protein_RecN_1718636..1718786_POSITIVE 262 49 7 51 1 smit:SMT_1607|3end_K03341_putative_deoxyribonucleotide_triphosphate_pyrophosphatase_1597699..1597849_POSITIVE 259 86 42 114 59 smit:SMT_492|3end_branched-chain_amino_acid_ABC_transporter,_ATP-binding_protein_427217..427367_POSITIVE 256 88 44 91 41 smit:SMT_902|3end_hypothetical_protein_851424..851574_NEGATIVE 255 100 54 57 2 smit:SMT_227|3end_hypothetical_protein_164418..164568_POSITIVE 254 66 24 62 27 smit:SMT_1182|3end_K02796_PTS_system,_mannose-specific_IID_component_1139821..1139971_NEGATIVE 253 43 1 81 34 smit:SMT_300|3end_hypothetical_protein_244113..244263_POSITIVE 252 88 43 84 36 smit:SMT_1863|3end_glutamyl_aminopeptidase_1826556..1826706_POSITIVE