Origin IGS: tgggtcgtatttttattgatgaatgaatatccttctttgtatctgttctctacgtggtgcaatattagatgttatttatcagaataacaaattaatctcttctttgcggcatatttttcataaaaaccggtatcccgaaagaaaagaaccttatctttgcgacttaaacaataataacgtgt .........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 acacgttattattgtttaagtcgcaaagataaggttcttttctttcgggataccggtttttatgaaaaatatgccgcaaagaagagattaatttgttattctgataaataacatctaatattgcaccacgtagagaacagatacaaagaaggatattcattcatcaataaaaatacgaccca Mask Tandem Repeat Region ================================================ tgggtcgtatttttattgatgaatgaatatccttctttgtatctgttctctacgtggtgcaatattagatgttatttatcagaataacaaattaatctcttctttgcggcatatttttcataaaaaccggtatcccgaaagaaaagaaccttatctttgcgacttaaacaataataacgtgt Find is-nt database================================================ Query_seq: TF0080:TF0081|TF0080:TF0081:phosphate ABC transporter, periplasmic phosphate-binding protein:pantothenate kinase:->->:87422..87603 182 tgggtcgtatttttattgatgaatgaatatccttctttgtatctgttctctacgtggtgcaatattagatgttatttatcagaataacaaattaatctcttctttgcggcatatttttcataaaaaccggtatcccgaaagaaaagaaccttatctttgcgacttaaacaataataacgtgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0080:TF0081|TF0080:TF0081:phosphate ABC transporter, periplasmic phosphate-binding protein:pantothenate kinase:->->:87422..87603 182 tgggtcgtatttttattgatgaatgaatatccttctttgtatctgttctctacgtggtgcaatattagatgttatttatcagaataacaaattaatctcttctttgcggcatatttttcataaaaaccggtatcccgaaagaaaagaaccttatctttgcgacttaaacaataataacgtgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0080:TF0081|TF0080:TF0081:phosphate ABC transporter, periplasmic phosphate-binding protein:pantothenate kinase:->->:87422..87603 182 tgggtcgtatttttattgatgaatgaatatccttctttgtatctgttctctacgtggtgcaatattagatgttatttatcagaataacaaattaatctcttctttgcggcatatttttcataaaaaccggtatcccgaaagaaaagaaccttatctttgcgacttaaacaataataacgtgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgggtcgtatttttattgatgaatgaatatccttctttgtatctgttctctacgtggtgcaatattagatgttatttatcagaataacaaattaatctcttctttgcggcatatttttcataaaaaccggtatcccgaaagaaaagaaccttatctttgcgacttaaacaataataacgtgt Predict ORF larger than 30AA ================================================ Protein_Len: 53 Strand: + Start: 23 End: 181 ...................... M N I L L C I C S L R G A I L D V I Y Q N N K L I S S L R H I F H K N R Y P E R K E P Y L C D L N N N N V . tgggtcgtatttttattgatgaatgaatatccttctttgtatctgttctctacgtggtgcaatattagatgttatttatcagaataacaaattaatctcttctttgcggcatatttttcataaaaaccggtatcccgaaagaaaagaaccttatctttgcgacttaaacaataataacgtgt 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================================================ tgggtcgtatttttattgatgaatgaatatccttctttgtatctgttctctacgtggtgcaatattagatgttatttatcagaataacaaattaatctcttctttgcggcatatttttcataaaaaccggtatcccgaaagaaaagaaccttatctttgcgacttaaacaataataacgtgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0080:TF0081|TF0080:TF0081:phosphate ABC transporter, periplasmic phosphate-binding protein:pantothenate kinase:->->:87422..87603 182 tgggtcgtatttttattgatgaatgaatatccttctttgtatctgttctctacgtggtgcaatattagatgttatttatcagaataacaaattaatctcttctttgcggcatatttttcataaaaaccggtatcccgaaagaaaagaaccttatctttgcgacttaaacaataataacgtgt Intra-Species Hit: Count: 1 Min: 1 Max: 182 Len: 182 Subject: tfor_TF0080_TF0081|phosphate ABC transporter, periplasmic phosphate-binding protein:pantothenate kinase|POSITIVE:POSITIVE|[87422,87603]|182 HSP 1 e-value: 5.0E-99 bit: 361.0 Len: 182 Query Start:1 Query End:182 Subject Strand: POSITIVE Subject Start: 1 Subject End: 182 tgggtcgtatttttattgatgaatgaatatccttctttgtatctgttctctacgtggtgcaatattagatgttatttatcagaataacaaattaatctcttctttgcggcatatttttcataaaaaccggtatcccgaaagaaaagaaccttatctttgcgacttaaacaataataacgtgt tgggtcgtatttttattgatgaatgaatatccttctttgtatctgttctctacgtggtgcaatattagatgttatttatcagaataacaaattaatctcttctttgcggcatatttttcataaaaaccggtatcccgaaagaaaagaaccttatctttgcgacttaaacaataataacgtgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGGGUCGUAUUUUUAUUGAUGAAUGAAUAUCCUUCUUUGUAUCUGUUCUCUACGUGGUGCAAUAUUAGAUGUUAUUUAUCAGAAUAACAAAUUAAUCUCUUCUUUGCGGCAUAUUUUUCAUAAAAACCGGUAUCCCGAAAGAAAAGAACCUUAUCUUUGCGACUUAAACAAUAAUAACGUGU (((((((((......(((((((((((.((((.....((((((((((.....))).))))))).....))))))))))))))).............(((.((((((.(((.(((((.............))))).))))))))).)))..........)))))))))................ (-41.02) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACACGUUAUUAUUGUUUAAGUCGCAAAGAUAAGGUUCUUUUCUUUCGGGAUACCGGUUUUUAUGAAAAAUAUGCCGCAAAGAAGAGAUUAAUUUGUUAUUCUGAUAAAUAACAUCUAAUAUUGCACCACGUAGAGAACAGAUACAAAGAAGGAUAUUCAUUCAUCAAUAAAAAUACGACCCA ..((.(((((.((((.......)))).))))).))(((((((((((((.(((....(((....)))...))).))).))))))))))...(((((((.(((((........((........)).......)))))))))))).....((.((((....)))).))................. (-30.06) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 374 137 96 212 175 tfor:TF2951|5end_O-succinylbenzoic_acid--CoA_ligase_3158496..3158726_POSITIVE 310 162 127 86 51 tfor:TF0797|5end_conserved_hypothetical_protein_853296..853526_POSITIVE 292 48 1 162 111 tfor:TF0845|5end_hypothetical_protein_896419..896649_POSITIVE 289 150 103 104 42 tfor:TF3160|5end_conserved_hypothetical_protein_3395531..3395761_POSITIVE 289 137 96 208 168 tfor:TF2789|5end_enoyl-[acyl-carrier-protein]_reductase_2972431..2972661_POSITIVE 284 145 101 152 116 tfor:TF0073|5end_possible_dTDP-glucose_4,6-dehydratase,_NAD-dependent_epimerase/dehydratase_family_80946..81176_POSITIVE 281 136 94 219 171 tfor:TF2282|5end_hypothetical_protein_2439401..2439631_POSITIVE 272 142 101 172 133 tfor:TF1734|5end_conserved_hypothetical_protein_1856556..1856786_POSITIVE 270 50 1 221 169 tfor:TF1247|5end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_1330387..1330617_POSITIVE 268 160 127 137 104 tfor:TF1080|5end_conserved_hypothetical_protein;_possible_Fe-S_oxidoreductase_1149751..1149981_POSITIVE 267 150 105 121 72 tfor:TF0824|5end_glucosamine-6-phosphate_isomerase_881600..881830_POSITIVE 266 150 107 215 169 tfor:TF2886|5end_RNA_methylase_SpoU_family_3075651..3075881_POSITIVE 266 60 13 44 3 tfor:TF1451|5end_conserved_hypothetical_protein_1535876..1536106_POSITIVE 264 139 92 79 34 tfor:TF0239|5end_conserved_hypothetical_protein_268894..269124_POSITIVE 261 137 106 59 21 tfor:TF3124|5end_dTDP-glucose_4,6-dehydratase_3358655..3358885_POSITIVE 261 138 106 178 154 tfor:TF2402|5end_outer_membrane_protein,_possibly_involved_in_nutrient_binding_2574582..2574812_POSITIVE 260 80 32 145 93 tfor:TF2098|5end_excinuclease_ABC,_subunit_C_2271060..2271290_POSITIVE 258 68 40 42 14 tfor:TF0603|5end_glycosyltransferase_633811..634041_POSITIVE 253 45 4 52 14 tfor:TF0720|5end_ABC_transporter,_permease_component_770046..770276_POSITIVE 252 48 2 109 61 tfor:TF0902|5end_methyltransferase_947237..947467_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 316 168 133 92 60 tfor:TF0383|3end_alkyl_hydroperoxide_reductase,_subunit_C_406056..406206_POSITIVE 289 150 103 104 42 tfor:TF3159|3end_conserved_hypothetical_protein;_possible_transcriptional_regulator_3395611..3395761_POSITIVE 272 142 101 98 59 tfor:TF1733|3end_conserved_hypothetical_protein_1856562..1856712_POSITIVE 268 160 127 75 42 tfor:TF2952|3end_transposase_3160989..3161139_POSITIVE 268 160 127 75 42 tfor:TF1079|3end_transposase_1149769..1149919_POSITIVE 267 150 105 74 25 tfor:TF0823|3end_conserved_hypothetical_protein_881633..881783_POSITIVE 264 139 92 62 17 tfor:TF0238|3end_outer_membrane_protein_268957..269107_POSITIVE 261 137 106 45 7 tfor:TF3123|3end_dTDP-4-dehydrorhamnose_3,5-epimerase_3358721..3358871_POSITIVE 260 80 32 96 44 tfor:TF2097|3end_glucose_inhibited_division_protein_A_2271091..2271241_POSITIVE 252 48 2 65 17 tfor:TF0901|3end_conserved_hypothetical_protein_947273..947423_POSITIVE 251 145 106 52 19 tfor:TF1554|3end_UDP-glucose_dehydrogenase_1661013..1661163_POSITIVE 249 148 101 97 51 tfor:TF1674|3end_ATP_synthase,_A_subunit_1788695..1788845_POSITIVE 248 150 101 50 6 tfor:TF0210|3end_DNA_polymerase_III,_beta_subunit_236970..237120_POSITIVE 246 170 127 151 106 tfor:TF0669|3end_hypothetical_protein_714051..714201_POSITIVE 244 115 94 149 126 tfor:TF1016|3end_30S_ribosomal_protein_S6_1074584..1074734_POSITIVE 243 72 34 61 12 tfor:TF3139|3end_Na+-translocating_NADH-quinone_reductase,_subunit_C_3373389..3373539_POSITIVE 242 133 94 82 46 tfor:TF0608|3end_isoleucyl-tRNA_synthetase_641418..641568_POSITIVE 242 69 29 64 18 tfor:TF0560|3end_DNA-binding_protein_593632..593782_POSITIVE 239 60 16 130 86 tfor:TF3088|3end_conserved_hypothetical_protein_3323791..3323941_POSITIVE 239 150 101 78 28 tfor:TF2396|3end_dimethyladenosine_transferase_2568617..2568767_POSITIVE