Origin IGS: aagaatgacctctgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa .........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 ttctctccctttctaactacaattatagtgtaaaagttataagaataaaagagtatttcagcacaatataatctcacctactacaagtaattattgggctgaaactttttagtaattatttttcaactttctattgacttttaaaaacaaagtgatatcatttagatatcaaataacagaggtcattctt Mask Tandem Repeat Region ================================================ aagaatgacctctgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa Find is-nt database================================================ Query_seq: SMT_1563:SMT_1564|SMT_1563:SMT_1564:hypothetical protein:transcriptional antiterminator, BglG family:<-->:1555537..1555726 190 aagaatgacctctgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1563:SMT_1564|SMT_1563:SMT_1564:hypothetical protein:transcriptional antiterminator, BglG family:<-->:1555537..1555726 190 aagaatgacctctgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1563:SMT_1564|SMT_1563:SMT_1564:hypothetical protein:transcriptional antiterminator, BglG family:<-->:1555537..1555726 190 aagaatgacctctgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagaatgacctctgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa Predict ORF larger than 30AA ================================================ aagaatgacctctgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa 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================================================ aagaatgacctctgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1563:SMT_1564|SMT_1563:SMT_1564:hypothetical protein:transcriptional antiterminator, BglG family:<-->:1555537..1555726 190 aagaatgacctctgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa Intra-Species Hit: Count: 1 Min: 1 Max: 190 Len: 190 Subject: smit_SMT_1563_SMT_1564|hypothetical protein:transcriptional antiterminator, BglG family|NEGATIVE:POSITIVE|[1555537,1555726]|190 HSP 1 e-value: 1.0E-104 bit: 377.0 Len: 190 Query Start:1 Query End:190 Subject Strand: POSITIVE Subject Start: 1 Subject End: 190 aagaatgacctctgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa aagaatgacctctgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa Inter-species Hit: Count: 3 Min: 1 Max: 190 Len: 190 Subject: NC_008533_SPD_1961_SPD_1962|transcriptional regulator, BglG family protein:hypothetical protein|NEGATIVE:POSITIVE|[1930936,1931125]|190 HSP 1 e-value: 4.0E-69 bit: 262.0 Len: 176 Query Start:15 Query End:190 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 175 ..............ttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa ..............ttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaa-taatcactaaaaactttcagcccaataatttcttttaaaaggtgagattatattgtgctcaaatactcttttattcttataatttttacactataattgtagttagaaaggaagagaa Subject: NC_003098_spr1940_spr1941|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[1923404,1923593]|190 HSP 1 e-value: 4.0E-69 bit: 262.0 Len: 176 Query Start:15 Query End:190 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 175 ..............ttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa ..............ttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaa-taatcactaaaaactttcagcccaataatttcttttaaaaggtgagattatattgtgctcaaatactcttttattcttataatttttacactataattgtagttagaaaggaagagaa Subject: NC_003028_SP_2131_SP_2132|transcriptional regulator, BglG family:hypothetical protein|NEGATIVE:POSITIVE|[2044264,2044454]|191 HSP 1 e-value: 2.0E-68 bit: 260.0 Len: 190 Query Start:1 Query End:190 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 191 aagaatgacctc-tgttatttgatatctaaatgatatcactttgtttttaaaagtcaatagaaagttgaaaaataattactaaaaagtttcagcccaataattacttgtagtaggtgagattatattgtgctgaaatactcttttattcttataacttttacactataattgtagttagaaagggagagaa aagaatgacctcctgttatttgatatctaaatgatatcactttaatttataaagtcaatagaaagttgaaaaataatcactaaaaactttcagcccaataatttcttttaaaaggtgagattatattgtgctcaaatactcttttattcttataatttttacactataattgtagttagaaaggaagagaa Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAAUGACCUCUGUUAUUUGAUAUCUAAAUGAUAUCACUUUGUUUUUAAAAGUCAAUAGAAAGUUGAAAAAUAAUUACUAAAAAGUUUCAGCCCAAUAAUUACUUGUAGUAGGUGAGAUUAUAUUGUGCUGAAAUACUCUUUUAUUCUUAUAACUUUUACACUAUAAUUGUAGUUAGAAAGGGAGAGAA ..(((((((....)))))))((((((.....)))))).....((..(((....(((((.....)))))....)))..))......((((((((.(((((.(((((((...))))))).....))))).)))))))).((((((..((((.((.((..(((.....)))..)).)).))))..)))))).. (-40.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUCUCCCUUUCUAACUACAAUUAUAGUGUAAAAGUUAUAAGAAUAAAAGAGUAUUUCAGCACAAUAUAAUCUCACCUACUACAAGUAAUUAUUGGGCUGAAACUUUUUAGUAAUUAUUUUUCAACUUUCUAUUGACUUUUAAAAACAAAGUGAUAUCAUUUAGAUAUCAAAUAACAGAGGUCAUUCUU .(((((.....................((.(((((((((..((((..(((((((..((((((.(((((....((...........))....))))).))))))))))))).((............)).))))..)))))))))...))....(((((((.....)))))))......)))))........ (-33.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 817 140 91 231 182 smit:SMT_1563|5end_hypothetical_protein_1555446..1555676_NEGATIVE 237 126 84 83 38 smit:SMT_326|5end_K02029_polar_amino_acid_transport_system_permease_protein_263864..264094_NEGATIVE 230 132 93 49 8 smit:SMT_911|5end_hypothetical_protein_862023..862253_POSITIVE 228 160 113 124 71 smit:SMT_981|5end_hypothetical_protein_928709..928939_POSITIVE 221 168 122 157 106 smit:SMT_837|5end_cation_transport_ATPase_782667..782897_NEGATIVE 215 160 113 63 2 smit:SMT_1867|5end_peptide_chain_release_factor_1_1828218..1828448_NEGATIVE 212 47 9 86 48 smit:SMT_520|5end_glutathione_reductase_445285..445515_NEGATIVE 211 118 78 181 142 smit:SMT_1963|5end_ribonuclease_BN,_putative_1896462..1896692_NEGATIVE 211 118 78 168 129 smit:SMT_483|5end_transcriptional_activator_TipA,_putative_418827..419057_POSITIVE 209 188 146 184 132 smit:SMT_180|5end_50S_ribosomal_protein_L14_119678..119908_POSITIVE 206 139 91 182 124 smit:SMT_311|5end_3-oxoacyl-_252123..252353_POSITIVE 203 129 87 193 151 smit:SMT_2063|5end_hypothetical_protein_1971792..1972022_NEGATIVE 203 130 86 221 176 smit:SMT_1491|5end_capsular_polysaccharide_biosynthesis_protein,_putative_1471588..1471818_POSITIVE 199 121 87 142 106 smit:SMT_282|5end_hypothetical_protein_224866..225096_POSITIVE 197 133 91 86 42 smit:SMT_847|5end_thioredoxin_reductase_792800..793030_POSITIVE 195 185 156 56 23 smit:SMT_1048|5end_K06518_holin-like_protein_988142..988372_POSITIVE 194 133 93 135 87 smit:SMT_1742|5end_sodium-dependent_phosphate_transporter_1723553..1723783_POSITIVE 194 122 85 57 18 smit:SMT_1184|5end_phosphotransferase_system,_mannose/fructose/N-acetylgalactosamine-specific_component_IIB_1142037..1142267_NEGATIVE 193 129 91 180 130 smit:SMT_1151|5end_histidyl-tRNA_synthetase_1096168..1096398_NEGATIVE 191 79 31 165 112 smit:SMT_1985|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1914571..1914801_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 233 133 93 141 98 smit:SMT_1264|3end_oligoendopeptidase_F_1230734..1230884_POSITIVE 228 118 77 140 106 smit:SMT_1883|3end_hypothetical_protein_1838034..1838184_NEGATIVE 225 118 78 47 8 smit:SMT_1536|3end_trigger_factor_1520636..1520786_NEGATIVE 225 118 78 52 13 smit:SMT_915|3end_sucrose_operon_repressor_868619..868769_POSITIVE 215 160 113 66 5 smit:SMT_1868|3end_thymidine_kinase_1828215..1828365_NEGATIVE 211 118 78 47 8 smit:SMT_1964|3end_sodium/hydrogen_exchanger_family_protein_1896596..1896746_NEGATIVE 208 119 85 140 101 smit:SMT_1754|3end_leader_peptidase_(prepilin_peptidase)_/_N-methyltransferase_1732363..1732513_NEGATIVE 205 147 101 90 39 smit:SMT_110|3end_alpha-L-fucosidase_59207..59357_POSITIVE 195 117 78 55 12 smit:SMT_2109|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1999061..1999211_NEGATIVE 195 117 78 55 12 smit:SMT_1180|3end_putative_tagatose-6-phosphate_aldose/ketose_isomerase_1138036..1138186_NEGATIVE 194 122 85 60 21 smit:SMT_1185|3end_beta-galactosidase_1142034..1142184_NEGATIVE 190 119 72 122 71 smit:SMT_1637|3end_hypothetical_protein_1623848..1623998_POSITIVE 189 157 111 108 58 smit:SMT_1133|3end_cytidine/deoxycytidylate_deaminase_family_protein,_putative_1074556..1074706_NEGATIVE 188 140 91 114 54 smit:SMT_1828|3end_PTS_system,_galactose-specific_IIC_component_1798137..1798287_POSITIVE 188 97 53 101 63 smit:SMT_693|3end_hypothetical_protein_604078..604228_POSITIVE 185 117 78 53 10 smit:SMT_799|3end_hypothetical_protein_707296..707446_NEGATIVE 185 190 142 77 23 smit:SMT_377|3end_hypothetical_protein_315848..315998_POSITIVE 181 117 78 55 12 smit:SMT_1809|3end_MutT/NUDIX_family_protein_1785134..1785284_POSITIVE 181 185 145 148 101 smit:SMT_1730|3end_geranyltranstransferase_1715730..1715880_POSITIVE 181 137 92 74 18 smit:SMT_1663|3end_DNA-binding_response_regulator_1652357..1652507_NEGATIVE