Origin IGS: aaatatttcctcctagttggaatttattttacaggaatcgtgttacaaacgtgttaatgatagggtttcaatttaattgcgagacagatgcattagttgttaaactaattttcagtggacattcatccatttttttttatataattttagtcaaccaaatagttgacttataaatttgtgaggaggcgtact .........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 agtacgcctcctcacaaatttataagtcaactatttggttgactaaaattatataaaaaaaaatggatgaatgtccactgaaaattagtttaacaactaatgcatctgtctcgcaattaaattgaaaccctatcattaacacgtttgtaacacgattcctgtaaaataaattccaactaggaggaaatattt Mask Tandem Repeat Region ================================================ aaatatttcctcctagttggaatttattttacaggaatcgtgttacaaacgtgttaatgatagggtttcaatttaattgcgagacagatgcattagttgttaaactaattttcagtggacattcatccatttttttttatataattttagtcaaccaaatagttgacttataaatttgtgaggaggcgtact Find is-nt database================================================ Query_seq: SMT_1242:SMT_1243|SMT_1242:SMT_1243:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1203474..1203665 192 aaatatttcctcctagttggaatttattttacaggaatcgtgttacaaacgtgttaatgatagggtttcaatttaattgcgagacagatgcattagttgttaaactaattttcagtggacattcatccatttttttttatataattttagtcaaccaaatagttgacttataaatttgtgaggaggcgtact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1242:SMT_1243|SMT_1242:SMT_1243:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1203474..1203665 192 aaatatttcctcctagttggaatttattttacaggaatcgtgttacaaacgtgttaatgatagggtttcaatttaattgcgagacagatgcattagttgttaaactaattttcagtggacattcatccatttttttttatataattttagtcaaccaaatagttgacttataaatttgtgaggaggcgtact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1242:SMT_1243|SMT_1242:SMT_1243:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1203474..1203665 192 aaatatttcctcctagttggaatttattttacaggaatcgtgttacaaacgtgttaatgatagggtttcaatttaattgcgagacagatgcattagttgttaaactaattttcagtggacattcatccatttttttttatataattttagtcaaccaaatagttgacttataaatttgtgaggaggcgtact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatatttcctcctagttggaatttattttacaggaatcgtgttacaaacgtgttaatgatagggtttcaatttaattgcgagacagatgcattagttgttaaactaattttcagtggacattcatccatttttttttatataattttagtcaaccaaatagttgacttataaatttgtgaggaggcgtact Predict ORF larger than 30AA ================================================ Protein_Len: 56 Strand: + Start: 3 End: 170 .. M F P P S W N L F Y R N R V T N V L M I G F Q F N C E T D A L V V K L I F S G H S S I F F Y I I L V N Q I V D L ...................... aaatatttcctcctagttggaatttattttacaggaatcgtgttacaaacgtgttaatgatagggtttcaatttaattgcgagacagatgcattagttgttaaactaattttcagtggacattcatccatttttttttatataattttagtcaaccaaatagttgacttataaatttgtgaggaggcgtact 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================================================ aaatatttcctcctagttggaatttattttacaggaatcgtgttacaaacgtgttaatgatagggtttcaatttaattgcgagacagatgcattagttgttaaactaattttcagtggacattcatccatttttttttatataattttagtcaaccaaatagttgacttataaatttgtgaggaggcgtact Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 87 HP_score: -2.4 Tail_Score: -6.30182 Start: 116 End: 129 Full_Region: TAAACTAATTTTCAG TGGA CATTCA TCCA TTTTTTTTTATATAA ...................................................................................................................TGGACATTCATCCA............................................................... Find igs database================================================ Query_seq: SMT_1242:SMT_1243|SMT_1242:SMT_1243:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1203474..1203665 192 aaatatttcctcctagttggaatttattttacaggaatcgtgttacaaacgtgttaatgatagggtttcaatttaattgcgagacagatgcattagttgttaaactaattttcagtggacattcatccatttttttttatataattttagtcaaccaaatagttgacttataaatttgtgaggaggcgtact Intra-Species Hit: Count: 1 Min: 1 Max: 192 Len: 192 Subject: smit_SMT_1242_SMT_1243|hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:POSITIVE|[1203474,1203665]|192 HSP 1 e-value: 8.0E-89 bit: 327.0 Len: 192 Query Start:1 Query End:192 Subject Strand: POSITIVE Subject Start: 1 Subject End: 192 aaatatttcctcctagttggaatttattttacaggaatcgtgttacaaacgtgttaatgatagggtttcaatttaattgcgagacagatgcattagttgttaaactaattttcagtggacattcatccannnnnnnnnatataattttagtcaaccaaatagttgacttataaatttgtgaggaggcgtact aaatatttcctcctagttggaatttattttacaggaatcgtgttacaaacgtgttaatgatagggtttcaatttaattgcgagacagatgcattagttgttaaactaattttcagtggacattcatccatttttttttatataattttagtcaaccaaatagttgacttataaatttgtgaggaggcgtact Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUAUUUCCUCCUAGUUGGAAUUUAUUUUACAGGAAUCGUGUUACAAACGUGUUAAUGAUAGGGUUUCAAUUUAAUUGCGAGACAGAUGCAUUAGUUGUUAAACUAAUUUUCAGUGGACAUUCAUCCAUUUUUUUUUAUAUAAUUUUAGUCAACCAAAUAGUUGACUUAUAAAUUUGUGAGGAGGCGUACU ........(((((....((((......(((((.((((((.(((((..((....))..))))).)))))).................((...(((((((....)))))))..)).)))))......)))).......(((((.(((((.(((((((......)))))))...)))))))))))))))...... (-38.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUACGCCUCCUCACAAAUUUAUAAGUCAACUAUUUGGUUGACUAAAAUUAUAUAAAAAAAAAUGGAUGAAUGUCCACUGAAAAUUAGUUUAACAACUAAUGCAUCUGUCUCGCAAUUAAAUUGAAACCCUAUCAUUAACACGUUUGUAACACGAUUCCUGUAAAAUAAAUUCCAACUAGGAGGAAAUAUUU ......((((((....(((((((.((((((((....)))))))).......((((((......(((((....))))).((...(((((((....))))))).)).......................................))))))................)))))))......))))))........ (-31.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 805 100 51 191 142 smit:SMT_1242|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1203383..1203613_NEGATIVE 264 115 80 44 5 smit:SMT_680|5end_choline_transport_protein_589962..590192_NEGATIVE 247 92 52 54 17 smit:SMT_826|5end_hypothetical_protein_750022..750252_NEGATIVE 246 99 72 231 204 smit:SMT_263|5end_hypothetical_protein_predicted_by_Glimmer/Critica_202957..203187_NEGATIVE 239 41 10 124 98 smit:SMT_860|5end_homoserine_O-succinyltransferase_805011..805241_NEGATIVE 227 108 62 58 16 smit:SMT_859|5end_K02086_DNA_replication_protein_804058..804288_NEGATIVE 224 106 61 57 11 smit:SMT_244|5end_PTS_system,_mannose-specific_IIAB_component_181857..182087_NEGATIVE 218 101 76 99 70 smit:SMT_438|5end_hypothetical_protein_predicted_by_Glimmer/Critica_379136..379366_POSITIVE 216 37 7 131 98 smit:SMT_934|5end_pyridine_nucleotide-disulfide_oxidoreductase_885911..886141_POSITIVE 215 100 60 68 21 smit:SMT_1888|5end_K02026_multiple_sugar_transport_system_permease_protein_1842088..1842318_POSITIVE 214 82 48 72 35 smit:SMT_1633|5end_formate--tetrahydrofolate_ligase_1619240..1619470_POSITIVE 213 123 83 204 160 smit:SMT_817|5end_aminotransferase_728699..728929_NEGATIVE 213 99 57 97 50 smit:SMT_381|5end_hypothetical_protein_317034..317264_POSITIVE 211 43 6 133 92 smit:SMT_1993|5end_hypothetical_protein_1919800..1920030_NEGATIVE 211 119 77 123 58 smit:SMT_1246|5end_ISSag9,_transposase_1207149..1207379_NEGATIVE 210 31 3 122 90 smit:SMT_260|5end_phage_transcriptional_repressor_199470..199700_POSITIVE 206 102 72 220 193 smit:SMT_2014|5end_tryptophan_synthase_beta_chain_1932471..1932701_POSITIVE 206 100 52 98 56 smit:SMT_1831|5end_galactose-6-phosphate_isomerase_1799912..1800142_POSITIVE 204 45 4 143 93 smit:SMT_968|5end_K01990_ABC-2_type_transport_system_ATP-binding_protein_914015..914245_NEGATIVE 203 92 58 224 188 smit:SMT_1924|5end_isoleucyl-tRNA_synthetase_1866188..1866418_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 264 115 80 54 15 smit:SMT_681|3end_choline_kinase_589952..590102_NEGATIVE 243 91 51 81 30 smit:SMT_1961|3end_K07485_transposase_1894885..1895035_POSITIVE 227 108 62 49 7 smit:SMT_860|3end_homoserine_O-succinyltransferase_804067..804217_NEGATIVE 224 106 61 51 5 smit:SMT_245|3end_hypothetical_protein_predicted_by_Glimmer/Critica_181863..182013_NEGATIVE 208 129 83 144 95 smit:SMT_1799|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1773612..1773762_POSITIVE 202 129 85 73 35 smit:SMT_1937|3end_glycosyl_transferase,_family_2_1875422..1875572_POSITIVE 202 189 141 57 11 smit:SMT_669|3end_ribose-phosphate_pyrophosphokinase_579199..579349_POSITIVE 202 99 52 56 18 smit:SMT_132|3end_L-serine_dehydratase_alpha_subunit_83685..83835_NEGATIVE 201 78 32 92 33 smit:SMT_1014|3end_galactokinase_950645..950795_NEGATIVE 198 103 61 58 14 smit:SMT_624|3end_K07584_hypothetical_protein_530090..530240_POSITIVE 197 139 91 68 22 smit:SMT_2104|3end_UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-_diaminopimelate_ligase_1996151..1996301_POSITIVE 196 82 42 60 14 smit:SMT_988|3end_N-acetylneuraminate_lyase_932242..932392_NEGATIVE 195 90 50 43 8 smit:SMT_1430|3end_hypothetical_protein_1415842..1415992_POSITIVE 195 41 6 110 72 smit:SMT_359|3end_transcription_termination-antitermination_factor_295686..295836_POSITIVE 193 133 93 147 101 smit:SMT_1365|3end_translation_initiation_factor_IF-3_1343898..1344048_NEGATIVE 192 80 33 70 22 smit:SMT_985|3end_guanylate_kinase_931147..931297_POSITIVE 192 80 33 70 22 smit:SMT_926|3end_guanylate_kinase_880308..880458_NEGATIVE 192 64 32 143 112 smit:SMT_580|3end_K04094_glucose_inhibited_division_protein_Gid_498034..498184_POSITIVE 192 70 31 73 26 smit:SMT_204|3end_K02012_iron(III)_transport_system_substrate-binding_protein_134925..135075_NEGATIVE 190 132 95 58 23 smit:SMT_2037|3end_lysine_decarboxylase_1947880..1948030_NEGATIVE