Origin IGS: taatacggacagtccttcttttaggaatcttttagaaaaaaagaaattaaggagtatgtcagaccaacagtgattgctgacatgctcttttttatcttttttctttggatagatcgtagaaaaagcctacttttgctcctcaataatgactatacctgctaaataaaaagg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cctttttatttagcaggtatagtcattattgaggagcaaaagtaggctttttctacgatctatccaaagaaaaaagataaaaaagagcatgtcagcaatcactgttggtctgacatactccttaatttctttttttctaaaagattcctaaaagaaggactgtccgtatta Mask Tandem Repeat Region ================================================ taatacggacagtccttcttttaggaatcttttagaaaaaaagaaattaaggagtatgtcagaccaacagtgattgctgacatgctcttttttatcttttttctttggatagatcgtagaaaaagcctacttttgctcctcaataatgactatacctgctaaataaaaagg Find is-nt database================================================ Query_seq: TF0644:TF0645|TF0644:TF0645:pyruvate phosphate dikinase:hypothetical protein:->->:688642..688812 171 taatacggacagtccttcttttaggaatcttttagaaaaaaagaaattaaggagtatgtcagaccaacagtgattgctgacatgctcttttttatcttttttctttggatagatcgtagaaaaagcctacttttgctcctcaataatgactatacctgctaaataaaaagg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0644:TF0645|TF0644:TF0645:pyruvate phosphate dikinase:hypothetical protein:->->:688642..688812 171 taatacggacagtccttcttttaggaatcttttagaaaaaaagaaattaaggagtatgtcagaccaacagtgattgctgacatgctcttttttatcttttttctttggatagatcgtagaaaaagcctacttttgctcctcaataatgactatacctgctaaataaaaagg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0644:TF0645|TF0644:TF0645:pyruvate phosphate dikinase:hypothetical protein:->->:688642..688812 171 taatacggacagtccttcttttaggaatcttttagaaaaaaagaaattaaggagtatgtcagaccaacagtgattgctgacatgctcttttttatcttttttctttggatagatcgtagaaaaagcctacttttgctcctcaataatgactatacctgctaaataaaaagg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatacggacagtccttcttttaggaatcttttagaaaaaaagaaattaaggagtatgtcagaccaacagtgattgctgacatgctcttttttatcttttttctttggatagatcgtagaaaaagcctacttttgctcctcaataatgactatacctgctaaataaaaagg Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 46 End: 159 ............................................. M K E Y V R P T V I A D M L F F I F F L W I D R R K S L L L L L N N D Y T C ............ Protein_Len: 40 Strand: - Start: 24 End: 143 ....................... S D K L F F S I L S Y T L G V T I A S M S K K I K K R Q I S R L F L R S K S R M ............................ Protein_Len: 38 Strand: - Start: 1 End: 114 L V S L G E K L F R K S F F F N L L I D S W C H N S V H E K K D K K K P Y M ......................................................... taatacggacagtccttcttttaggaatcttttagaaaaaaagaaattaaggagtatgtcagaccaacagtgattgctgacatgctcttttttatcttttttctttggatagatcgtagaaaaagcctacttttgctcctcaataatgactatacctgctaaataaaaagg 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================================================ taatacggacagtccttcttttaggaatcttttagaaaaaaagaaattaaggagtatgtcagaccaacagtgattgctgacatgctcttttttatcttttttctttggatagatcgtagaaaaagcctacttttgctcctcaataatgactatacctgctaaataaaaagg Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -6.2 Tail_Score: -5.72118 Start: 52 End: 87 Full_Region: AAAAAAGAAATTAAG GAGTATGTCAGACCAAC AGT GATTGCTGACATGCTC TTTTTTATCTTTTTT ...................................................GAGTATGTCAGACCAACAGTGATTGCTGACATGCTC.................................................................................... Find igs database================================================ Query_seq: TF0644:TF0645|TF0644:TF0645:pyruvate phosphate dikinase:hypothetical protein:->->:688642..688812 171 taatacggacagtccttcttttaggaatcttttagaaaaaaagaaattaaggagtatgtcagaccaacagtgattgctgacatgctcttttttatcttttttctttggatagatcgtagaaaaagcctacttttgctcctcaataatgactatacctgctaaataaaaagg Intra-Species Hit: Count: 1 Min: 1 Max: 171 Len: 171 Subject: tfor_TF0644_TF0645|pyruvate phosphate dikinase:hypothetical protein|POSITIVE:POSITIVE|[688642,688812]|171 HSP 1 e-value: 8.0E-30 bit: 131.0 Len: 87 Query Start:1 Query End:87 Subject Strand: POSITIVE Subject Start: 1 Subject End: 87 taatacggacagtccttcttttaggaatcttttagnnnnnnngaaattaaggagtatgtcagaccaacagtgattgctgacatgctc.................................................................................... taatacggacagtccttcttttaggaatcttttagaaaaaaagaaattaaggagtatgtcagaccaacagtgattgctgacatgctc.................................................................................... HSP 2 e-value: 3.0E-29 bit: 129.0 Len: 65 Query Start:107 Query End:171 Subject Strand: POSITIVE Subject Start: 107 Subject End: 171 ..........................................................................................................ggatagatcgtagaaaaagcctacttttgctcctcaataatgactatacctgctaaataaaaagg ..........................................................................................................ggatagatcgtagaaaaagcctacttttgctcctcaataatgactatacctgctaaataaaaagg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUACGGACAGUCCUUCUUUUAGGAAUCUUUUAGAAAAAAAGAAAUUAAGGAGUAUGUCAGACCAACAGUGAUUGCUGACAUGCUCUUUUUUAUCUUUUUUCUUUGGAUAGAUCGUAGAAAAAGCCUACUUUUGCUCCUCAAUAAUGACUAUACCUGCUAAAUAAAAAGG ......((..((((.....((.((((.(((((((((((((((((.(..((((((((((((((..(((......)))))))))))))))))..).)))))))).)))))).)))..((((.......))))......)))).))....))))...))............... (-39.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCUUUUUAUUUAGCAGGUAUAGUCAUUAUUGAGGAGCAAAAGUAGGCUUUUUCUACGAUCUAUCCAAAGAAAAAAGAUAAAAAAGAGCAUGUCAGCAAUCACUGUUGGUCUGACAUACUCCUUAAUUUCUUUUUUUCUAAAAGAUUCCUAAAAGAAGGACUGUCCGUAUUA ...............((.((((((.......((((((....(((((.....)))))............(((((((((.......(((.(((((((..((((....))))))))))).))).......)))))))))......).)))))........))))))))...... (-38.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 301 148 103 96 45 tfor:TF2901|5end_conserved_hypothetical_protein_3090365..3090595_POSITIVE 294 117 78 84 48 tfor:TF0766|5end_hypothetical_protein_811934..812164_POSITIVE 290 140 109 124 91 tfor:TF0681|5end_sugar_kinase,_PfkB_family_723155..723385_POSITIVE 276 90 41 75 32 tfor:TF1046|5end_hypothetical_protein_1108178..1108408_POSITIVE 269 88 53 179 130 tfor:TF2004|5end_thymidylate_synthase_2156372..2156602_POSITIVE 268 96 57 203 155 tfor:TF0136|5end_transposase_element_145627..145857_POSITIVE 268 96 57 118 70 tfor:TF0134|5end_transposase_element_145542..145772_POSITIVE 264 114 71 189 151 tfor:TF1456|5end_GMP_synthase_1541690..1541920_POSITIVE 261 127 82 192 148 tfor:TF2790|5end_prismane_protein,_hybrid-cluster_protein_2973397..2973627_POSITIVE 261 144 101 203 156 tfor:TF1968|5end_conserved_hypothetical_protein_2115415..2115645_POSITIVE 260 140 91 221 172 tfor:TF1595|5end_conserved_hypothetical_protein_1710181..1710411_POSITIVE 256 138 105 107 80 tfor:TF1753|5end_topoisomerase_IV_subunit_A_1888130..1888360_POSITIVE 252 141 116 173 144 tfor:TF1245|5end_LemA_protein_1328822..1329052_POSITIVE 251 93 51 210 178 tfor:TF2631|5end_conserved_hypothetical_protein_2801694..2801924_POSITIVE 249 86 46 42 5 tfor:TF2243|5end_possible_mobilization_protein_2417384..2417614_POSITIVE 249 109 71 82 36 tfor:TF1235|5end_L-rhamnose/H+_symporter_1319708..1319938_POSITIVE 245 86 51 165 122 tfor:TF2466|5end_pyruvate_kinase_2644385..2644615_POSITIVE 245 160 114 180 134 tfor:TF2185|5end_outer_membrane_protein,_TonB_dependent_receptor_2357262..2357492_POSITIVE 244 98 58 225 185 tfor:TF3149|5end_conserved_hypothetical_protein_3384424..3384654_POSITIVE 244 140 91 86 27 tfor:TF0427|5end_methylmalonyl-CoA_mutase,_alpha_subunit_445884..446114_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 373 90 49 42 1 tfor:TF0644|3end_pyruvate_phosphate_dikinase_688581..688731_POSITIVE 294 117 78 84 48 tfor:TF0765|3end_conserved_hypothetical_protein_812014..812164_POSITIVE 290 140 109 62 29 tfor:TF0680|3end_tail-specific_protease_723173..723323_POSITIVE 276 90 41 62 19 tfor:TF1045|3end_conserved_hypothetical_protein_1108245..1108395_POSITIVE 268 96 57 52 4 tfor:TF0133|3end_transposase_element_145556..145706_POSITIVE 264 114 71 80 42 tfor:TF1455|3end_conserved_hypothetical_protein_1541661..1541811_POSITIVE 263 88 51 121 84 tfor:TF0789|3end_preprotein_translocase,_secDF_family_843670..843820_POSITIVE 261 127 82 80 36 tfor:TF2789|3end_enoyl-[acyl-carrier-protein]_reductase_2973365..2973515_POSITIVE 260 119 75 59 11 tfor:TF1696|3end_conserved_hypothetical_protein_1818175..1818325_POSITIVE 256 138 105 69 42 tfor:TF1752|3end_hypothetical_protein_1888172..1888322_POSITIVE 252 141 116 84 55 tfor:TF1244|3end_hypothetical_protein_1328813..1328963_POSITIVE 249 109 71 55 9 tfor:TF1234|3end_rhamnulose-1-phosphate_aldolase_1319761..1319911_POSITIVE 245 86 51 143 100 tfor:TF2465|3end_O-methyltransferase_2644443..2644593_POSITIVE 243 130 82 53 2 tfor:TF2615|3end_conserved_hypothetical_protein_2791209..2791359_POSITIVE 242 117 71 67 22 tfor:TF2562|3end_50S_ribosomal_protein_L29_2739407..2739557_POSITIVE 241 32 5 89 62 tfor:TF2656|3end_valyl-tRNA_synthetase_2829822..2829972_POSITIVE 241 118 72 106 63 tfor:TF1341|3end_glycogen_synthase_1423200..1423350_POSITIVE 240 84 41 73 26 tfor:TF2691|3end_prephenate_dehydrogenase_2867394..2867544_POSITIVE 240 140 95 89 47 tfor:TF0886|3end_conjugative_transposon_protein_fragment_938152..938302_POSITIVE 240 117 76 78 41 tfor:TF0664|3end_small_protein_B_(SMPB)_709570..709720_POSITIVE