Origin IGS: atcattatccctttcaaaataaaatcctcagacgcagcctgtcttcgcacaaacaaattatgccacacacacctctgcataagttgcgcaaaactacacaaaaagttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaactttttgtgtagttttgcgcaacttatgcagaggtgtgtgtggcataatttgtttgtgcgaagacaggctgcgtctgaggattttattttgaaagggataatgat Mask Tandem Repeat Region ================================================ atcattatccctttcaaaataaaatcctcagacgcagcctgtcttcgcacaaacaaattatgccacacacacctctgcataagttgcgcaaaactacacaaaaagttt Find is-nt database================================================ Query_seq: TF0780:TF0781|TF0780:TF0781:alpha-L-arabinofuranosidase, precursor A:serine protease inhibitor:->->:834502..834609 108 atcattatccctttcaaaataaaatcctcagacgcagcctgtcttcgcacaaacaaattatgccacacacacctctgcataagttgcgcaaaactacacaaaaagttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0780:TF0781|TF0780:TF0781:alpha-L-arabinofuranosidase, precursor A:serine protease inhibitor:->->:834502..834609 108 atcattatccctttcaaaataaaatcctcagacgcagcctgtcttcgcacaaacaaattatgccacacacacctctgcataagttgcgcaaaactacacaaaaagttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0780:TF0781|TF0780:TF0781:alpha-L-arabinofuranosidase, precursor A:serine protease inhibitor:->->:834502..834609 108 atcattatccctttcaaaataaaatcctcagacgcagcctgtcttcgcacaaacaaattatgccacacacacctctgcataagttgcgcaaaactacacaaaaagttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atcattatccctttcaaaataaaatcctcagacgcagcctgtcttcgcacaaacaaattatgccacacacacctctgcataagttgcgcaaaactacacaaaaagttt Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 1 End: 108 M I I P F K I K S S D A A C L R T N K L C H T H L C I S C A K L H K K F Protein_Len: 33 Strand: - Start: 3 End: 101 .. M I G K L I F D E S A A Q R R V F L N H W V C R Q M L Q A F S C M ....... atcattatccctttcaaaataaaatcctcagacgcagcctgtcttcgcacaaacaaattatgccacacacacctctgcataagttgcgcaaaactacacaaaaagttt 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================================================ atcattatccctttcaaaataaaatcctcagacgcagcctgtcttcgcacaaacaaattatgccacacacacctctgcataagttgcgcaaaactacacaaaaagttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0780:TF0781|TF0780:TF0781:alpha-L-arabinofuranosidase, precursor A:serine protease inhibitor:->->:834502..834609 108 atcattatccctttcaaaataaaatcctcagacgcagcctgtcttcgcacaaacaaattatgccacacacacctctgcataagttgcgcaaaactacacaaaaagttt Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: tfor_TF0780_TF0781|alpha-L-arabinofuranosidase, precursor A:serine protease inhibitor|POSITIVE:POSITIVE|[834502,834609]|108 HSP 1 e-value: 4.0E-55 bit: 214.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 atcattatccctttcaaaataaaatcctcagacgcagcctgtcttcgcacaaacaaattatgccacacacacctctgcataagttgcgcaaaactacacaaaaagttt atcattatccctttcaaaataaaatcctcagacgcagcctgtcttcgcacaaacaaattatgccacacacacctctgcataagttgcgcaaaactacacaaaaagttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCAUUAUCCCUUUCAAAAUAAAAUCCUCAGACGCAGCCUGUCUUCGCACAAACAAAUUAUGCCACACACACCUCUGCAUAAGUUGCGCAAAACUACACAAAAAGUUU .............................(((((.....)))))..((.(((.....((((((.............)))))).))).)).(((((........))))) (-11.52) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACUUUUUGUGUAGUUUUGCGCAACUUAUGCAGAGGUGUGUGUGGCAUAAUUUGUUUGUGCGAAGACAGGCUGCGUCUGAGGAUUUUAUUUUGAAAGGGAUAAUGAU ...((((...(((((((((((((((.....(((((..((((.....)))).)))))))))))))).....))))))...))))...(((((((....))))))).... (-25.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 292 86 41 150 100 tfor:TF3040|5end_inosine-5'-monophosphate_dehydrogenase_3267655..3267885_POSITIVE 291 78 31 229 176 tfor:TF3149|5end_conserved_hypothetical_protein_3384424..3384654_POSITIVE 276 89 54 40 2 tfor:TF2568|5end_30S_ribosomal_protein_S8_2741207..2741437_POSITIVE 276 80 34 179 128 tfor:TF2229.1|5end_rteR_regulatory_ortholog_(with_internal_stop)_2399454..2399684_POSITIVE 263 79 32 57 8 tfor:TF2616|5end_outer_membrane_protein,_TonB_dependent_receptor_2791470..2791700_POSITIVE 263 75 33 62 2 tfor:TF2322|5end_conserved_hypothetical_protein;_possible_lipoprotein_2482743..2482973_POSITIVE 258 90 41 60 18 tfor:TF3094|5end_translation_elongation_factor_Ts_3326122..3326352_POSITIVE 257 48 8 188 140 tfor:TF2582|5end_ABC_transporter,_ATP-binding_protein_2749433..2749663_POSITIVE 256 56 26 52 19 tfor:TF2321|5end_hypothetical_protein_2482347..2482577_POSITIVE 252 78 36 153 103 tfor:TF2954|5end_outer_membrane_protein,_TonB_dependent_receptor_3161238..3161468_POSITIVE 252 78 36 58 8 tfor:TF2953|5end_possible_TonB-dependent_outer_membrane_receptor_3161143..3161373_POSITIVE 251 80 32 144 93 tfor:TF2205|5end_conserved_hypothetical_protein;_possible_transcriptional_regulator_2379055..2379285_POSITIVE 248 78 34 208 165 tfor:TF1857|5end_conserved_hypothetical_protein_2014366..2014596_POSITIVE 248 47 1 187 145 tfor:TF1480|5end_ABC_transporter,_permease_component_1573512..1573742_POSITIVE 247 65 26 226 183 tfor:TF2583|5end_possible_ABC_transporter,__permease_component_2750206..2750436_POSITIVE 245 74 32 69 24 tfor:TF2228|5end_CTn_excision_protein_2395899..2396129_POSITIVE 245 89 45 152 103 tfor:TF0633|5end_hypothetical_protein_668922..669152_POSITIVE 243 90 41 65 17 tfor:TF0228|5end_probable_integral_outer_membrane_protein_253851..254081_POSITIVE 241 64 25 158 108 tfor:TF0013|5end_conserved_hypothetical_protein;_possible_TPR-repeat-containing_protein_6414..6644_POSITIVE 240 64 24 204 161 tfor:TF2820|5end_argininosuccinate_synthetase_3009876..3010106_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 292 86 41 112 62 tfor:TF3039|3end_ABC_transporter,_ATP-binding_protein_3267697..3267847_POSITIVE 275 78 35 117 62 tfor:TF2850|3end_endoribonuclease_L-PSP_3038871..3039021_POSITIVE 272 78 33 60 14 tfor:TF3060|3end_conserved_hypothetical_protein_3285130..3285280_POSITIVE 267 78 33 148 100 tfor:TF2663|3end_hypothetical_protein_2841323..2841473_POSITIVE 251 80 32 131 80 tfor:TF2204|3end_conserved_hypothetical_protein_2379122..2379272_POSITIVE 245 74 32 46 1 tfor:TF2226|3end_CTn_excision_protein_2395956..2396106_POSITIVE 239 100 51 126 81 tfor:TF0229|3end_beta-galactosidase_257003..257153_POSITIVE 235 48 8 122 78 tfor:TF3006|3end_response_regulator,_transcriptional_regulator_RprY_3227162..3227312_POSITIVE 235 77 37 106 73 tfor:TF2891|3end_lipoprotein_3079381..3079531_POSITIVE 235 64 22 106 69 tfor:TF2519|3end_membrane_protein,_metallopeptidase_M23/M37_family_2698997..2699147_POSITIVE 235 80 34 51 9 tfor:TF2449|3end_undecaprenyl_diphosphate_synthase_2626541..2626691_POSITIVE 234 52 27 40 13 tfor:TF0121|3end_hypothetical_protein_133217..133367_POSITIVE 233 52 21 73 36 tfor:TF0414|3end_N-ethylammeline_chlorohydrolase_433128..433278_POSITIVE 229 89 44 122 80 tfor:TF0397|3end_ferredoxin-like_protein_419064..419214_POSITIVE 227 69 30 58 19 tfor:TF2160|3end_magnesium_chelatase,_subunit_I_2337049..2337199_POSITIVE 226 80 32 120 68 tfor:TF2166|3end_hypothetical_protein_2342362..2342512_POSITIVE 226 78 32 149 101 tfor:TF1074|3end_hypothetical_protein_1144517..1144667_POSITIVE 225 64 34 77 41 tfor:TF2464|3end_RNA_polymerase_ECF-type_sigma_factor_2643746..2643896_POSITIVE 224 49 2 131 84 tfor:TF2896|3end_conserved_hypothetical_protein;_possible_ATPase,_AAA_superfamily_3085687..3085837_POSITIVE 223 41 4 115 79 tfor:TF1324|3end_conserved_hypothetical_protein_1403946..1404096_POSITIVE