Origin IGS: aagattttctttcctttctctcacaagggctaagcccttggtaatcttcactcttcaaattatatcattttttggaaaagtggcaagaagaagatttctaagaggtttgacaaaaatttagcctttatagtagaatggtcatgaatctatataccaaggagaagacaacttgaaaaacaagaagataaaagctttgctgttagta .........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 tactaacagcaaagcttttatcttcttgtttttcaagttgtcttctccttggtatatagattcatgaccattctactataaaggctaaatttttgtcaaacctcttagaaatcttcttcttgccacttttccaaaaaatgatataatttgaagagtgaagattaccaagggcttagcccttgtgagagaaaggaaagaaaatctt Mask Tandem Repeat Region ================================================ aagattttctttcctttctctcacaagggctaagcccttggtaatcttcactcttcaaattatatcattttttggaaaagtggcaagaagaagatttctaagaggtttgacaaaaatttagcctttatagtagaatggtcatgaatctatataccaaggagaagacaacttgaaaaacaagaagataaaagctttgctgttagta Find is-nt database================================================ Query_seq: SSA_0326:SSA_0327|SSA_0326:SSA_0327:Conserved uncharacterized BCR, YbaB family:Glycosyltransferase, putative:<-->:319914..320118 205 aagattttctttcctttctctcacaagggctaagcccttggtaatcttcactcttcaaattatatcattttttggaaaagtggcaagaagaagatttctaagaggtttgacaaaaatttagcctttatagtagaatggtcatgaatctatataccaaggagaagacaacttgaaaaacaagaagataaaagctttgctgttagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0326:SSA_0327|SSA_0326:SSA_0327:Conserved uncharacterized BCR, YbaB family:Glycosyltransferase, putative:<-->:319914..320118 205 aagattttctttcctttctctcacaagggctaagcccttggtaatcttcactcttcaaattatatcattttttggaaaagtggcaagaagaagatttctaagaggtttgacaaaaatttagcctttatagtagaatggtcatgaatctatataccaaggagaagacaacttgaaaaacaagaagataaaagctttgctgttagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0326:SSA_0327|SSA_0326:SSA_0327:Conserved uncharacterized BCR, YbaB family:Glycosyltransferase, putative:<-->:319914..320118 205 aagattttctttcctttctctcacaagggctaagcccttggtaatcttcactcttcaaattatatcattttttggaaaagtggcaagaagaagatttctaagaggtttgacaaaaatttagcctttatagtagaatggtcatgaatctatataccaaggagaagacaacttgaaaaacaagaagataaaagctttgctgttagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagattttctttcctttctctcacaagggctaagcccttggtaatcttcactcttcaaattatatcattttttggaaaagtggcaagaagaagatttctaagaggtttgacaaaaatttagcctttatagtagaatggtcatgaatctatataccaaggagaagacaacttgaaaaacaagaagataaaagctttgctgttagta Predict ORF larger than 30AA ================================================ aagattttctttcctttctctcacaagggctaagcccttggtaatcttcactcttcaaattatatcattttttggaaaagtggcaagaagaagatttctaagaggtttgacaaaaatttagcctttatagtagaatggtcatgaatctatataccaaggagaagacaacttgaaaaacaagaagataaaagctttgctgttagta 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================================================ aagattttctttcctttctctcacaagggctaagcccttggtaatcttcactcttcaaattatatcattttttggaaaagtggcaagaagaagatttctaagaggtttgacaaaaatttagcctttatagtagaatggtcatgaatctatataccaaggagaagacaacttgaaaaacaagaagataaaagctttgctgttagta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 71 HP_score: -8.2 Tail_Score: -3.28712 Start: 27 End: 37 Full_Region: agtgaagattaccaa gggc tta gccc ttgtgagagaaagga ..........................gggcttagccc........................................................................................................................................................................ Find igs database================================================ Query_seq: SSA_0326:SSA_0327|SSA_0326:SSA_0327:Conserved uncharacterized BCR, YbaB family:Glycosyltransferase, putative:<-->:319914..320118 205 aagattttctttcctttctctcacaagggctaagcccttggtaatcttcactcttcaaattatatcattttttggaaaagtggcaagaagaagatttctaagaggtttgacaaaaatttagcctttatagtagaatggtcatgaatctatataccaaggagaagacaacttgaaaaacaagaagataaaagctttgctgttagta Intra-Species Hit: Count: 1 Min: 1 Max: 205 Len: 205 Subject: NC_009009_SSA_0326_SSA_0327|Conserved uncharacterized BCR, YbaB family:Glycosyltransferase, putative|NEGATIVE:POSITIVE|[319914,320118]|205 HSP 1 e-value: 1.0E-112 bit: 406.0 Len: 205 Query Start:1 Query End:205 Subject Strand: POSITIVE Subject Start: 1 Subject End: 205 aagattttctttcctttctctcacaagggctaagcccttggtaatcttcactcttcaaattatatcattttttggaaaagtggcaagaagaagatttctaagaggtttgacaaaaatttagcctttatagtagaatggtcatgaatctatataccaaggagaagacaacttgaaaaacaagaagataaaagctttgctgttagta aagattttctttcctttctctcacaagggctaagcccttggtaatcttcactcttcaaattatatcattttttggaaaagtggcaagaagaagatttctaagaggtttgacaaaaatttagcctttatagtagaatggtcatgaatctatataccaaggagaagacaacttgaaaaacaagaagataaaagctttgctgttagta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAUUUUCUUUCCUUUCUCUCACAAGGGCUAAGCCCUUGGUAAUCUUCACUCUUCAAAUUAUAUCAUUUUUUGGAAAAGUGGCAAGAAGAAGAUUUCUAAGAGGUUUGACAAAAAUUUAGCCUUUAUAGUAGAAUGGUCAUGAAUCUAUAUACCAAGGAGAAGACAACUUGAAAAACAAGAAGAUAAAAGCUUUGCUGUUAGUA .((((((.....((.((((((...(((((((((((((((((.(((((((..((((...(((.(.(((.....))).).)))...)))).))))))).))))).)))...........)))))))))..)).)))).))....))))))......((((..........))))...((((.((((.......))))..)))).... (-42.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACUAACAGCAAAGCUUUUAUCUUCUUGUUUUUCAAGUUGUCUUCUCCUUGGUAUAUAGAUUCAUGACCAUUCUACUAUAAAGGCUAAAUUUUUGUCAAACCUCUUAGAAAUCUUCUUCUUGCCACUUUUCCAAAAAAUGAUAUAAUUUGAAGAGUGAAGAUUACCAAGGGCUUAGCCCUUGUGAGAGAAAGGAAAGAAAAUCUU ............(((((((((...((((.....))))............((((.(((......))))))).......)))))))))...(((((.((....((((((..(((((((........(((((((....((((......))))))))))))))))))..(((((((...)))))))))))))....)).)))))..... (-39.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 902 60 11 151 102 NC_009009:SSA_0326|5end_Conserved_uncharacterized_BCR,_YbaB_family_319823..320053_NEGATIVE 328 46 3 132 83 NC_009009:SSA_0485|5end_Porphobilinogen_deaminase,_putative_485732..485962_POSITIVE 326 42 8 143 99 NC_009009:SSA_1444|5end_Imidazole_glycerol-phosphate_synthase_subunit_hisH,_putative_1447267..1447497_NEGATIVE 298 60 11 106 51 NC_009009:SSA_0310|5end_hypothetical_protein_305306..305536_POSITIVE 281 55 12 140 97 NC_009009:SSA_0496|5end_Succinylglutamate_desuccinylase_/_Aspartoacylase_family,_putative_495946..496176_POSITIVE 276 56 14 195 150 NC_009009:SSA_1442|5end_Imidazole_glycerol-phosphate_synthase_subunit_hisF,_putative_1445941..1446171_NEGATIVE 273 50 8 140 96 NC_009009:SSA_1784|5end_Glutamate_racemase,_putative_1769897..1770127_NEGATIVE 269 58 17 131 96 NC_009009:SSA_2345|5end_hypothetical_protein_2346919..2347149_POSITIVE 268 44 8 177 136 NC_009009:SSA_1436|5end_hypothetical_protein_1443125..1443355_NEGATIVE 268 126 81 212 161 NC_009009:SSA_2393|5end_Transcriptional_regulator,_XRE_family,_putative_204056..204286_POSITIVE 267 47 12 129 99 NC_009009:SSA_1806|5end_Replication_initiation/membrane_attachment_protein_DnaB,_putative_1790749..1790979_NEGATIVE 261 138 91 190 123 NC_009009:SSA_0437|5end_30S_ribosomal_protein_S6,_putative_440313..440543_POSITIVE 260 53 11 152 97 NC_009009:SSA_0533|5end_Glycerol_dehydratase_large_subunit_pduC,_putative_528970..529200_POSITIVE 259 43 2 54 15 NC_009009:SSA_1218|5end_DNA_repair_protein_radC,_putative_1240459..1240689_NEGATIVE 258 56 12 101 47 NC_009009:SSA_2056|5end_Cinnamoyl_ester_hydrolase,_putative_2058587..2058817_POSITIVE 258 55 17 49 6 NC_009009:SSA_1491|5end_Methionine_aminopeptidase_A,_putative_1497637..1497867_NEGATIVE 257 47 4 162 115 NC_009009:SSA_0487|5end_Delta-aminolevulinic_acid_dehydratase,_putative_487349..487579_POSITIVE 257 46 6 133 86 NC_009009:SSA_0136|5end_ABC_transporter,_Zn_porter,_putative_131014..131244_POSITIVE 255 49 2 125 78 NC_009009:SSA_1355|5end_hypothetical_protein_1369859..1370089_NEGATIVE 252 46 8 143 94 NC_009009:SSA_2097|5end_Amino_acid_ABC_transporter,_ATP-binding_protein,_putative_2102918..2103148_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 328 46 3 145 96 NC_009009:SSA_0484|3end_Glutamyl-tRNA_reductase,_putative_485825..485975_POSITIVE 326 42 8 108 64 NC_009009:SSA_1445|3end_Imidazole_glycerol-phosphate_dehydratase,_putative_1447302..1447452_NEGATIVE 298 70 23 58 11 NC_009009:SSA_0375|3end_D-methionine-binding_lipoprotein_(ABC-type_transporter),_putative_365209..365359_POSITIVE 298 60 11 113 58 NC_009009:SSA_0309|3end_Glyoxalase/Bleomycin_resistance_protein/dioxygenase_domain,_putative_305393..305543_POSITIVE 293 40 3 48 3 NC_009009:SSA_0470|3end_Precorrin-4_methylase,_putative_473732..473882_POSITIVE 287 54 11 107 61 NC_009009:SSA_0983|3end_Conserved_uncharacterized_protein_986945..987095_POSITIVE 281 55 12 150 107 NC_009009:SSA_0495|3end_ABC-type_oligopeptide/nickel_transport_system,_ATPase_component,_putative_496036..496186_POSITIVE 272 49 1 70 12 NC_009009:SSA_0451|3end_Conserved_uncharacterized_protein_451636..451786_POSITIVE 269 110 63 126 75 NC_009009:SSA_1126|3end_Thiamine_biosynthesis_lipoprotein,_putative_1150587..1150737_NEGATIVE 267 47 12 128 98 NC_009009:SSA_1807|3end_hypothetical_protein_1790750..1790900_NEGATIVE 267 50 7 77 30 NC_009009:SSA_0688|3end_2,3-bisphosphoglycerate-dependent_phosphoglycerate_mutase,_putative_672132..672282_POSITIVE 260 53 11 130 75 NC_009009:SSA_0532|3end_Propanediol_utilization_protein_PduB,_putative_529028..529178_POSITIVE 257 46 6 136 89 NC_009009:SSA_0135|3end_Multiple_antibiotic_resistance_operon_transcriptional_repressor_(MarR),_putative_131097..131247_POSITIVE 255 49 2 57 10 NC_009009:SSA_1356|3end_Helicase_subunit_of_the_DNA_excision_repair_complex,_subunit_B,_putative_1369927..1370077_NEGATIVE 253 49 5 147 108 NC_009009:SSA_0829|3end_Platelet-binding_glycoprotein_812165..812315_POSITIVE 252 46 8 130 81 NC_009009:SSA_2098|3end_ABC-type_arginine/histidine_transporter,_permease_protein,_putative_2102931..2103081_NEGATIVE 252 57 19 61 27 NC_009009:SSA_0832|3end_SecY-like_protein,_putative_818011..818161_POSITIVE 250 56 11 141 94 NC_009009:SSA_1806|3end_Replication_initiation/membrane_attachment_protein_DnaB,_putative_1789565..1789715_NEGATIVE 250 50 14 41 1 NC_009009:SSA_1786|3end_Conserved_uncharacterized_protein_1769996..1770146_NEGATIVE 250 48 2 151 100 NC_009009:SSA_0905|3end_CshA-like_fibrillar_surface_protein_B_909060..909210_POSITIVE