Origin IGS: ctatctaaaaagaatttactgcctctcaatgcaagaaaaatataatgctcgtagaacttttattttattcattcgtcttttaattttgaccctaatattgcattcaaaaaaaccggatatctgactcgtaaaaaacggaacagcatataaagataattttcaaacta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagtttgaaaattatctttatatgctgttccgttttttacgagtcagatatccggtttttttgaatgcaatattagggtcaaaattaaaagacgaatgaataaaataaaagttctacgagcattatatttttcttgcattgagaggcagtaaattctttttagatag Mask Tandem Repeat Region ================================================ ctatctaaaaagaatttactgcctctcaatgcaagaaaaatataatgctcgtagaacttttattttattcattcgtcttttaattttgaccctaatattgcattcaaaaaaaccggatatctgactcgtaaaaaacggaacagcatataaagataattttcaaacta Find is-nt database================================================ Query_seq: TF1482:TF1483|TF1482:TF1483:alpha-amylase:glycosyltransferase family protein:->->:1577933..1578099 167 ctatctaaaaagaatttactgcctctcaatgcaagaaaaatataatgctcgtagaacttttattttattcattcgtcttttaattttgaccctaatattgcattcaaaaaaaccggatatctgactcgtaaaaaacggaacagcatataaagataattttcaaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1482:TF1483|TF1482:TF1483:alpha-amylase:glycosyltransferase family protein:->->:1577933..1578099 167 ctatctaaaaagaatttactgcctctcaatgcaagaaaaatataatgctcgtagaacttttattttattcattcgtcttttaattttgaccctaatattgcattcaaaaaaaccggatatctgactcgtaaaaaacggaacagcatataaagataattttcaaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1482:TF1483|TF1482:TF1483:alpha-amylase:glycosyltransferase family protein:->->:1577933..1578099 167 ctatctaaaaagaatttactgcctctcaatgcaagaaaaatataatgctcgtagaacttttattttattcattcgtcttttaattttgaccctaatattgcattcaaaaaaaccggatatctgactcgtaaaaaacggaacagcatataaagataattttcaaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctatctaaaaagaatttactgcctctcaatgcaagaaaaatataatgctcgtagaacttttattttattcattcgtcttttaattttgaccctaatattgcattcaaaaaaaccggatatctgactcgtaaaaaacggaacagcatataaagataattttcaaacta Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 14 End: 121 ............. M Y C L S M Q E K Y N A R R T F I L F I R L L I L T L I L H S K K P D I .............................................. Protein_Len: 34 Strand: - Start: 19 End: 120 .................. Q R E I C S F Y L A R L V K I K N M R R K I K V R I N C E F F G S M ............................................... ctatctaaaaagaatttactgcctctcaatgcaagaaaaatataatgctcgtagaacttttattttattcattcgtcttttaattttgaccctaatattgcattcaaaaaaaccggatatctgactcgtaaaaaacggaacagcatataaagataattttcaaacta 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================================================ ctatctaaaaagaatttactgcctctcaatgcaagaaaaatataatgctcgtagaacttttattttattcattcgtcttttaattttgaccctaatattgcattcaaaaaaaccggatatctgactcgtaaaaaacggaacagcatataaagataattttcaaacta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1482:TF1483|TF1482:TF1483:alpha-amylase:glycosyltransferase family protein:->->:1577933..1578099 167 ctatctaaaaagaatttactgcctctcaatgcaagaaaaatataatgctcgtagaacttttattttattcattcgtcttttaattttgaccctaatattgcattcaaaaaaaccggatatctgactcgtaaaaaacggaacagcatataaagataattttcaaacta Intra-Species Hit: Count: 1 Min: 1 Max: 167 Len: 167 Subject: tfor_TF1482_TF1483|alpha-amylase:glycosyltransferase family protein|POSITIVE:POSITIVE|[1577933,1578099]|167 HSP 1 e-value: 1.0E-77 bit: 289.0 Len: 167 Query Start:1 Query End:167 Subject Strand: POSITIVE Subject Start: 1 Subject End: 167 ctatctaaaaagaatttactgcctctcaatgcaagaaaaatataatgctcgtagaacttttattttattcattcgtcttttaattttgaccctaatattgcattcnnnnnnnccggatatctgactcgtaaaaaacggaacagcatataaagataattttcaaacta ctatctaaaaagaatttactgcctctcaatgcaagaaaaatataatgctcgtagaacttttattttattcattcgtcttttaattttgaccctaatattgcattcaaaaaaaccggatatctgactcgtaaaaaacggaacagcatataaagataattttcaaacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUAUCUAAAAAGAAUUUACUGCCUCUCAAUGCAAGAAAAAUAUAAUGCUCGUAGAACUUUUAUUUUAUUCAUUCGUCUUUUAAUUUUGACCCUAAUAUUGCAUUCAAAAAAACCGGAUAUCUGACUCGUAAAAAACGGAACAGCAUAUAAAGAUAAUUUUCAAACUA .(((((........(((..(((........)))..)))......(((((.((((((......))))))...(((((.(((((.((((((..............))))))....(((....))).....))))).)))))..)))))....)))))............ (-17.64) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUUGAAAAUUAUCUUUAUAUGCUGUUCCGUUUUUUACGAGUCAGAUAUCCGGUUUUUUUGAAUGCAAUAUUAGGGUCAAAAUUAAAAGACGAAUGAAUAAAAUAAAAGUUCUACGAGCAUUAUAUUUUUCUUGCAUUGAGAGGCAGUAAAUUCUUUUUAGAUAG ..(((((((((........((((.(((...(((.....)))...)))))))...(((((((..(((((((.......(((..........)))........((((((.((((((...)))).)).))))))..)))))))))))))).........))))))))).. (-23.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 261 100 51 193 142 tfor:TF1225|5end_conserved_hypothetical_protein_1311593..1311823_POSITIVE 248 90 44 187 141 tfor:TF0748|5end_ATP-dependent_protease_La_792890..793120_POSITIVE 239 145 113 168 134 tfor:TF2954|5end_outer_membrane_protein,_TonB_dependent_receptor_3161238..3161468_POSITIVE 239 145 113 73 39 tfor:TF2953|5end_possible_TonB-dependent_outer_membrane_receptor_3161143..3161373_POSITIVE 239 154 112 60 26 tfor:TF2767|5end_2-oxoglutarate_synthase,_alpha_subunit_2952215..2952445_POSITIVE 236 130 90 154 114 tfor:TF2549|5end_30S_ribosomal_protein_S7_2731711..2731941_POSITIVE 231 142 113 86 60 tfor:TF3071|5end_integral_membrane_protein,_possible_MotA/TolQ/ExbB_proton_channel_family_3294703..3294933_POSITIVE 231 56 19 172 135 tfor:TF2857|5end_conserved_hypothetical_protein_3043082..3043312_POSITIVE 230 158 114 191 142 tfor:TF2142|5end_hypothetical_protein_2318416..2318646_POSITIVE 227 140 92 64 11 tfor:TF0763|5end_chromate_transport_protein_809675..809905_POSITIVE 226 56 21 187 147 tfor:TF2945|5end_DNA-directed_RNA_polymerase_beta'_subunit_3147448..3147678_POSITIVE 223 155 111 217 174 tfor:TF1772|5end_ISPg4-related_transposase_(IS5_family)_1908672..1908902_POSITIVE 222 155 114 195 164 tfor:TF0596|5end_conserved_hypothetical_protein_628033..628263_POSITIVE 221 139 100 192 151 tfor:TF0968|5end_hypothetical_protein_1018908..1019138_POSITIVE 220 153 112 98 46 tfor:TF2108|5end_hypothetical_protein_2277385..2277615_POSITIVE 217 120 71 152 105 tfor:TF0738|5end_conserved_hypothetical_protein_788643..788873_POSITIVE 216 145 109 138 106 tfor:TF0664|5end_small_protein_B_(SMPB)_709029..709259_POSITIVE 214 151 113 96 62 tfor:TF2281|5end_hypothetical_protein_2439574..2439804_POSITIVE 214 129 91 197 155 tfor:TF1971|5end_biotin_carboxyl_carrier_protein_2117976..2118206_POSITIVE 214 156 112 101 53 tfor:TF0999|5end_hypothetical_protein_1053028..1053258_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 248 90 44 127 81 tfor:TF0746|3end_possible_DNA_polymerase_III_792910..793060_POSITIVE 241 146 113 133 96 tfor:TF3064|3end_oxidoreductase,_aldo/keto_reductase_family_3290984..3291134_POSITIVE 236 130 90 67 27 tfor:TF2548|3end_30S_ribosomal_protein_S12_2731704..2731854_POSITIVE 231 142 113 86 60 tfor:TF3070|3end_conserved_hypothetical_protein_3294783..3294933_POSITIVE 227 140 92 64 11 tfor:TF0762|3end_chromate_transport_protein_809755..809905_POSITIVE 224 51 21 151 115 tfor:TF2944|3end_DNA-directed_RNA_polymerase,_beta_subunit_3147496..3147646_POSITIVE 223 138 100 40 11 tfor:TF1476|3end_outer_membrane_protein_P49_1571203..1571353_POSITIVE 221 139 100 76 35 tfor:TF0967|3end_alpha_glycan_phosphorylase_1018872..1019022_POSITIVE 220 153 112 69 17 tfor:TF2107|3end_hypothetical_protein_2277436..2277586_POSITIVE 219 144 115 92 63 tfor:TF0350|3end_hypothetical_protein_371101..371251_POSITIVE 217 140 113 86 61 tfor:TF0178|3end_ferritin_188223..188373_POSITIVE 216 145 109 122 90 tfor:TF0663|3end_conserved_hypothetical_protein_709093..709243_POSITIVE 214 40 3 135 95 tfor:TF0901|3end_conserved_hypothetical_protein_947273..947423_POSITIVE 212 147 105 86 51 tfor:TF2379|3end_phosphoribosylformylglycinamidine_cyclo-ligase_(AIR_synthase)_2545092..2545242_POSITIVE 211 128 83 106 69 tfor:TF2882|3end_conserved_hypothetical_protein_3074401..3074551_POSITIVE 209 51 11 56 20 tfor:TF0458|3end_hypothetical_protein_475206..475356_POSITIVE 209 159 114 82 23 tfor:TF0007|3end_3-oxoacyl-[acyl-carrier-protein]_synthase_III_3599..3749_POSITIVE 207 145 114 56 31 tfor:TF1927|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_2075602..2075752_POSITIVE 206 119 71 114 68 tfor:TF0258|3end_hypothetical_protein_289534..289684_POSITIVE 205 141 109 146 115 tfor:TF2617|3end_conserved_hypothetical_protein_2795172..2795322_POSITIVE