Origin IGS: tattcttctattttttattgttatgatttcacttccaaaatatggggtgcaaaagtattcataattgtttaaacaagcaagaaaaaaacggtaaaattctaattcatagcattgccccgtatgatttatacacacagccataaaaaaaatgacgtgcatgaattcattcctaatttttttcgtacctttgaacctgattttttcacctataacacaagaaaca .........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 tgtttcttgtgttataggtgaaaaaatcaggttcaaaggtacgaaaaaaattaggaatgaattcatgcacgtcattttttttatggctgtgtgtataaatcatacggggcaatgctatgaattagaattttaccgtttttttcttgcttgtttaaacaattatgaatacttttgcaccccatattttggaagtgaaatcataacaataaaaaatagaagaata Mask Tandem Repeat Region ================================================ tattcttctattttttattgttatgatttcacttccaaaatatggggtgcaaaagtattcataattgtttaaacaagcaagaaaaaaacggtaaaattctaattcatagcattgccccgtatgatttatacacacagccataaaaaaaatgacgtgcatgaattcattcctaatttttttcgtacctttgaacctgattttttcacctataacacaagaaaca Find is-nt database================================================ Query_seq: TF0986:TF0985|TF0986:TF0985:50S ribosomal protein L31:fructose-bisphosphate aldolase:->->:1041818..1042040 223 tattcttctattttttattgttatgatttcacttccaaaatatggggtgcaaaagtattcataattgtttaaacaagcaagaaaaaaacggtaaaattctaattcatagcattgccccgtatgatttatacacacagccataaaaaaaatgacgtgcatgaattcattcctaatttttttcgtacctttgaacctgattttttcacctataacacaagaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0986:TF0985|TF0986:TF0985:50S ribosomal protein L31:fructose-bisphosphate aldolase:->->:1041818..1042040 223 tattcttctattttttattgttatgatttcacttccaaaatatggggtgcaaaagtattcataattgtttaaacaagcaagaaaaaaacggtaaaattctaattcatagcattgccccgtatgatttatacacacagccataaaaaaaatgacgtgcatgaattcattcctaatttttttcgtacctttgaacctgattttttcacctataacacaagaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0986:TF0985|TF0986:TF0985:50S ribosomal protein L31:fructose-bisphosphate aldolase:->->:1041818..1042040 223 tattcttctattttttattgttatgatttcacttccaaaatatggggtgcaaaagtattcataattgtttaaacaagcaagaaaaaaacggtaaaattctaattcatagcattgccccgtatgatttatacacacagccataaaaaaaatgacgtgcatgaattcattcctaatttttttcgtacctttgaacctgattttttcacctataacacaagaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tattcttctattttttattgttatgatttcacttccaaaatatggggtgcaaaagtattcataattgtttaaacaagcaagaaaaaaacggtaaaattctaattcatagcattgccccgtatgatttatacacacagccataaaaaaaatgacgtgcatgaattcattcctaatttttttcgtacctttgaacctgattttttcacctataacacaagaaaca Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 42 End: 140 ......................................... M G C K S I H N C L N K Q E K N G K I L I H S I A P Y D L Y T Q P ................................................................................... Protein_Len: 39 Strand: + Start: 106 End: 222 ......................................................................................................... M A L P R M I Y T H S H K K N D V H E F I P N F F R T F E P D F F T Y N T R N . Protein_Len: 32 Strand: + Start: 128 End: 223 ............................................................................................................................... M H T A I K K M T C M N S F L I F F V P L N L I F S P I T Q E T Protein_Len: 60 Strand: - Start: 1 End: 210 S G F Y P T C F Y E Y N N L C A L F F R Y F E L E Y C Q G T H N I C V A M F F I V H M F E N R I K K T G K F R I K E G M ............. tattcttctattttttattgttatgatttcacttccaaaatatggggtgcaaaagtattcataattgtttaaacaagcaagaaaaaaacggtaaaattctaattcatagcattgccccgtatgatttatacacacagccataaaaaaaatgacgtgcatgaattcattcctaatttttttcgtacctttgaacctgattttttcacctataacacaagaaaca 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================================================ tattcttctattttttattgttatgatttcacttccaaaatatggggtgcaaaagtattcataattgtttaaacaagcaagaaaaaaacggtaaaattctaattcatagcattgccccgtatgatttatacacacagccataaaaaaaatgacgtgcatgaattcattcctaatttttttcgtacctttgaacctgattttttcacctataacacaagaaaca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0986:TF0985|TF0986:TF0985:50S ribosomal protein L31:fructose-bisphosphate aldolase:->->:1041818..1042040 223 tattcttctattttttattgttatgatttcacttccaaaatatggggtgcaaaagtattcataattgtttaaacaagcaagaaaaaaacggtaaaattctaattcatagcattgccccgtatgatttatacacacagccataaaaaaaatgacgtgcatgaattcattcctaatttttttcgtacctttgaacctgattttttcacctataacacaagaaaca Intra-Species Hit: Count: 1 Min: 1 Max: 223 Len: 223 Subject: tfor_TF0986_TF0985|50S ribosomal protein L31:fructose-bisphosphate aldolase|POSITIVE:POSITIVE|[1041818,1042040]|223 HSP 1 e-value: 5.0E-84 bit: 311.0 Len: 223 Query Start:1 Query End:223 Subject Strand: POSITIVE Subject Start: 1 Subject End: 223 tattcttctattttttattgttatgatttcacttccaaaatatggggtgcaaaagtattcataattgtttaaacaagcaagnnnnnnncggtaaaattctaattcatagcattgccccgtatgatttatacacacagccatnnnnnnnntgacgtgcatgaattcattcctaannnnnnncgtacctttgaacctgattttttcacctataacacaagaaaca tattcttctattttttattgttatgatttcacttccaaaatatggggtgcaaaagtattcataattgtttaaacaagcaagaaaaaaacggtaaaattctaattcatagcattgccccgtatgatttatacacacagccataaaaaaaatgacgtgcatgaattcattcctaatttttttcgtacctttgaacctgattttttcacctataacacaagaaaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUCUUCUAUUUUUUAUUGUUAUGAUUUCACUUCCAAAAUAUGGGGUGCAAAAGUAUUCAUAAUUGUUUAAACAAGCAAGAAAAAAACGGUAAAAUUCUAAUUCAUAGCAUUGCCCCGUAUGAUUUAUACACACAGCCAUAAAAAAAAUGACGUGCAUGAAUUCAUUCCUAAUUUUUUUCGUACCUUUGAACCUGAUUUUUUCACCUAUAACACAAGAAACA ..........((((((..((((((..........(((.....)))((((.((((((.((((...((((((....))))))((((((((.((.........(((((((.((((......(((((...))))).......(((.......)))..)))))))))))....))...)))))))).......))))....)))))).)))).)))))).)))))).. (-29.72) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUCUUGUGUUAUAGGUGAAAAAAUCAGGUUCAAAGGUACGAAAAAAAUUAGGAAUGAAUUCAUGCACGUCAUUUUUUUUAUGGCUGUGUGUAUAAAUCAUACGGGGCAAUGCUAUGAAUUAGAAUUUUACCGUUUUUUUCUUGCUUGUUUAAACAAUUAUGAAUACUUUUGCACCCCAUAUUUUGGAAGUGAAAUCAUAACAAUAAAAAAUAGAAGAAUA ...(((((.((((...((((...(((....(((((..((((.(((((((((..(((((.((((((((((.(((((.......))))).(((((.......))))).......))).)))))))...)))))...))))))))).))))(((....)))....)))))...))).)))).......(((...(((....)))..))).....)))).))))).. (-43.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 273 158 116 177 137 tfor:TF2658|5end_transposase_2831155..2831385_POSITIVE 267 129 88 100 56 tfor:TF1436|5end_phosphoglycolate_phosphatase_1521128..1521358_POSITIVE 257 156 112 56 5 tfor:TF1788|5end_conserved_hypothetical_protein_1927415..1927645_POSITIVE 247 125 110 151 136 tfor:TF1251|5end_riboflavin_synthase,_alpha_subunit_1333744..1333974_POSITIVE 246 120 73 135 88 tfor:TF2187|5end_conserved_hypothetical_protein_2361693..2361923_POSITIVE 245 197 153 205 161 tfor:TF2441|5end_10_kDa_chaperonin_2618239..2618469_POSITIVE 241 155 113 110 74 tfor:TF1143|5end_ABC_transporter,_ATP-binding/permease_component_1221704..1221934_POSITIVE 238 62 27 62 28 tfor:TF2211|5end_conserved_hypothetical_protein_2384392..2384622_POSITIVE 238 125 89 49 7 tfor:TF0386|5end_transcriptional_regulator,_possible_LuxR_family_406900..407130_POSITIVE 234 61 24 194 158 tfor:TF0379|5end_conserved_hypothetical_protein,_nif3_family_399458..399688_POSITIVE 229 199 151 68 15 tfor:TF2348|5end_outer_membrane_protein,_possibly_involved_in_nutrient_binding_2511088..2511318_POSITIVE 228 146 116 165 137 tfor:TF2541|5end_transposase_2723914..2724144_POSITIVE 226 140 97 185 138 tfor:TF3150|5end_conserved_hypothetical_protein_3385512..3385742_POSITIVE 226 216 172 185 124 tfor:TF2448|5end_conserved_hypothetical_protein_2624962..2625192_POSITIVE 226 137 91 129 72 tfor:TF1721|5end_2,3-bisphosphoglycerate-independent_phosphoglycerate_mutase_1844374..1844604_POSITIVE 225 50 13 166 121 tfor:TF2924|5end_DNA-binding_response_regulator/sensor_histidine_kinase_3122584..3122814_POSITIVE 222 209 179 203 171 tfor:TF1151|5end_conserved_hypothetical_protein_1232922..1233152_POSITIVE 222 71 31 45 1 tfor:TF0173|5end_hypothetical_protein_185170..185400_POSITIVE 221 200 153 222 180 tfor:TF2498|5end_electron_transfer_flavoprotein,_alpha_subunit_2672801..2673031_POSITIVE 220 140 108 154 124 tfor:TF3049|5end_conserved_hypothetical_protein_3276517..3276747_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 258 80 31 111 52 tfor:TF0001|3end_hypothetical_protein_158..308_POSITIVE 247 125 110 128 113 tfor:TF1250|3end_possible_cation_efflux_pump_1333801..1333951_POSITIVE 238 36 3 141 111 tfor:TF1097|3end_hypothetical_protein_1165893..1166043_POSITIVE 238 125 89 49 7 tfor:TF0385|3end_conserved_hypothetical_protein_406980..407130_POSITIVE 232 90 44 73 27 tfor:TF0365|3end_hypothetical_protein_383152..383302_POSITIVE 226 216 172 133 72 tfor:TF2447|3end_lipoprotein_2624990..2625140_POSITIVE 225 139 108 76 49 tfor:TF0795|3end_hypothetical_protein_853199..853349_POSITIVE 225 139 108 80 53 tfor:TF0145|3end_glutamine_synthetase_154718..154868_POSITIVE 218 220 174 118 65 tfor:TF0499|3end_hypothetical_protein_526651..526801_POSITIVE 215 142 102 121 78 tfor:TF2884|3end_conserved_hypothetical_protein_3075748..3075898_POSITIVE 214 138 108 56 16 tfor:TF1717|3end_DNA_mismatch_repair_protein_1840494..1840644_POSITIVE 214 118 89 138 108 tfor:TF0494|3end_conserved_hypothetical_protein_520906..521056_POSITIVE 214 119 77 136 96 tfor:TF0235|3end_hypothetical_protein_261849..261999_POSITIVE 211 50 8 112 75 tfor:TF2981|3end_conserved_hypothetical_protein_3196900..3197050_POSITIVE 211 139 96 49 11 tfor:TF0478|3end_conserved_hypothetical_protein_498627..498777_POSITIVE 210 213 179 51 23 tfor:TF2086|3end_transglutaminase-related_protein_2256767..2256917_POSITIVE 210 216 178 109 73 tfor:TF1906|3end_conserved_hypothetical_protein_2061646..2061796_POSITIVE 210 138 108 115 81 tfor:TF1448|3end_possible_competence_protein_1533050..1533200_POSITIVE 209 142 108 63 31 tfor:TF1755|3end_periplasmic_protease_1892867..1893017_POSITIVE 209 120 71 144 84 tfor:TF1335|3end_conserved_hypothetical_protein;_possible_alpha-1,2-mannosidase_family_protein_1418677..1418827_POSITIVE