Origin IGS: taaacaaaggaagagccatatcttgccgaagcggaataaacgtcatacgcaaacgctatgccgatctgctcgtgcgtcgcgccggcacgaaaaaagacgagcagccgtaagaaaaaacgaccgcaagcaacggggcggggaagtgcccgccctatacggaaaggaaggtgaacacatggaggccggattgaaacagcaattttcgatccggcctcttcgctatcctctcgtgtgatggatgtacgttttttatctgaaggatatatta .........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 taatatatccttcagataaaaaacgtacatccatcacacgagaggatagcgaagaggccggatcgaaaattgctgtttcaatccggcctccatgtgttcaccttcctttccgtatagggcgggcacttccccgccccgttgcttgcggtcgttttttcttacggctgctcgtcttttttcgtgccggcgcgacgcacgagcagatcggcatagcgtttgcgtatgacgtttattccgcttcggcaagatatggctcttcctttgttta Mask Tandem Repeat Region ================================================ taaacaaaggaagagccatatcttgccgaagcggaataaacgtcatacgcaaacgctatgccgatctgctcgtgcgtcgcgccggcacgaaaaaagacgagcagccgtaagaaaaaacgaccgcaagcaacggggcggggaagtgcccgccctatacggaaaggaaggtgaacacatggaggccggattgaaacagcaattttcgatccggcctcttcgctatcctctcgtgtgatggatgtacgttttttatctgaaggatatatta Find is-nt database================================================ Query_seq: TF0496:TF0497|TF0496:TF0497:conserved hypothetical protein:conserved hypothetical protein:->->:523930..524197 268 taaacaaaggaagagccatatcttgccgaagcggaataaacgtcatacgcaaacgctatgccgatctgctcgtgcgtcgcgccggcacgaaaaaagacgagcagccgtaagaaaaaacgaccgcaagcaacggggcggggaagtgcccgccctatacggaaaggaaggtgaacacatggaggccggattgaaacagcaattttcgatccggcctcttcgctatcctctcgtgtgatggatgtacgttttttatctgaaggatatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0496:TF0497|TF0496:TF0497:conserved hypothetical protein:conserved hypothetical protein:->->:523930..524197 268 taaacaaaggaagagccatatcttgccgaagcggaataaacgtcatacgcaaacgctatgccgatctgctcgtgcgtcgcgccggcacgaaaaaagacgagcagccgtaagaaaaaacgaccgcaagcaacggggcggggaagtgcccgccctatacggaaaggaaggtgaacacatggaggccggattgaaacagcaattttcgatccggcctcttcgctatcctctcgtgtgatggatgtacgttttttatctgaaggatatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0496:TF0497|TF0496:TF0497:conserved hypothetical protein:conserved hypothetical protein:->->:523930..524197 268 taaacaaaggaagagccatatcttgccgaagcggaataaacgtcatacgcaaacgctatgccgatctgctcgtgcgtcgcgccggcacgaaaaaagacgagcagccgtaagaaaaaacgaccgcaagcaacggggcggggaagtgcccgccctatacggaaaggaaggtgaacacatggaggccggattgaaacagcaattttcgatccggcctcttcgctatcctctcgtgtgatggatgtacgttttttatctgaaggatatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacaaaggaagagccatatcttgccgaagcggaataaacgtcatacgcaaacgctatgccgatctgctcgtgcgtcgcgccggcacgaaaaaagacgagcagccgtaagaaaaaacgaccgcaagcaacggggcggggaagtgcccgccctatacggaaaggaaggtgaacacatggaggccggattgaaacagcaattttcgatccggcctcttcgctatcctctcgtgtgatggatgtacgttttttatctgaaggatatatta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 18 End: 107 ................. M S C R S G I N V I R K R Y A D L L V R R A G T K K D E Q P ................................................................................................................................................................. Protein_Len: 37 Strand: + Start: 58 End: 168 ......................................................... M P I C S C V A P A R K K T S S R K K K R P Q A T G R G S A R P I R K G R .................................................................................................... Protein_Len: 60 Strand: + Start: 20 End: 232 ................... M L P K R N K R H T Q T L C R S A R A S R R H E K R R A A V R K N D R K Q R G G E V P A L Y G K E G E H M E A G L K Q Q .................................... Protein_Len: 36 Strand: - Start: 155 End: 262 .......................................................................................................................................................... V S L F T F V H L G S Q F L L K R D P R K A I R E H S P H V N K I Q L M ...... Protein_Len: 54 Strand: - Start: 46 End: 207 ............................................. V C V S H R D A R A D R R C S F L R A A T L F F S R L C R P P S T G A R Y P F S P S C M S A P N F C C N E M ............................................................. Protein_Len: 60 Strand: - Start: 3 End: 266 .. R F F V L L R L F F R G C A V P R P L A R G I R F P L H V C P P R I S V A I K S G A E E S D E R T I S T R K K D S P Y M .. taaacaaaggaagagccatatcttgccgaagcggaataaacgtcatacgcaaacgctatgccgatctgctcgtgcgtcgcgccggcacgaaaaaagacgagcagccgtaagaaaaaacgaccgcaagcaacggggcggggaagtgcccgccctatacggaaaggaaggtgaacacatggaggccggattgaaacagcaattttcgatccggcctcttcgctatcctctcgtgtgatggatgtacgttttttatctgaaggatatatta 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================================================ taaacaaaggaagagccatatcttgccgaagcggaataaacgtcatacgcaaacgctatgccgatctgctcgtgcgtcgcgccggcacgaaaaaagacgagcagccgtaagaaaaaacgaccgcaagcaacggggcggggaagtgcccgccctatacggaaaggaaggtgaacacatggaggccggattgaaacagcaattttcgatccggcctcttcgctatcctctcgtgtgatggatgtacgttttttatctgaaggatatatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -17.5 Tail_Score: -3.1544 Start: 179 End: 215 Full_Region: GAAGGTGAACACATG GAGGCCGGATTGAAA CAGCAAT TTTCGATCCGGCCTC TTCGCTATCCTCTCG ..................................................................................................................................................................................GAGGCCGGATTGAAACAGCAATTTTCGATCCGGCCTC..................................................... Find igs database================================================ Query_seq: TF0496:TF0497|TF0496:TF0497:conserved hypothetical protein:conserved hypothetical protein:->->:523930..524197 268 taaacaaaggaagagccatatcttgccgaagcggaataaacgtcatacgcaaacgctatgccgatctgctcgtgcgtcgcgccggcacgaaaaaagacgagcagccgtaagaaaaaacgaccgcaagcaacggggcggggaagtgcccgccctatacggaaaggaaggtgaacacatggaggccggattgaaacagcaattttcgatccggcctcttcgctatcctctcgtgtgatggatgtacgttttttatctgaaggatatatta Intra-Species Hit: Count: 1 Min: 1 Max: 268 Len: 268 Subject: tfor_TF0496_TF0497|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[523930,524197]|268 HSP 1 e-value: 1.0E-150 bit: 531.0 Len: 268 Query Start:1 Query End:268 Subject Strand: POSITIVE Subject Start: 1 Subject End: 268 taaacaaaggaagagccatatcttgccgaagcggaataaacgtcatacgcaaacgctatgccgatctgctcgtgcgtcgcgccggcacgaaaaaagacgagcagccgtaagaaaaaacgaccgcaagcaacggggcggggaagtgcccgccctatacggaaaggaaggtgaacacatggaggccggattgaaacagcaattttcgatccggcctcttcgctatcctctcgtgtgatggatgtacgttttttatctgaaggatatatta taaacaaaggaagagccatatcttgccgaagcggaataaacgtcatacgcaaacgctatgccgatctgctcgtgcgtcgcgccggcacgaaaaaagacgagcagccgtaagaaaaaacgaccgcaagcaacggggcggggaagtgcccgccctatacggaaaggaaggtgaacacatggaggccggattgaaacagcaattttcgatccggcctcttcgctatcctctcgtgtgatggatgtacgttttttatctgaaggatatatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAAAGGAAGAGCCAUAUCUUGCCGAAGCGGAAUAAACGUCAUACGCAAACGCUAUGCCGAUCUGCUCGUGCGUCGCGCCGGCACGAAAAAAGACGAGCAGCCGUAAGAAAAAACGACCGCAAGCAACGGGGCGGGGAAGUGCCCGCCCUAUACGGAAAGGAAGGUGAACACAUGGAGGCCGGAUUGAAACAGCAAUUUUCGAUCCGGCCUCUUCGCUAUCCUCUCGUGUGAUGGAUGUACGUUUUUUAUCUGAAGGAUAUAUUA .................(((((((((((..(((..............)))...(((.(((((((.....))).)))).))).))))..((.((((((((.(((.((((.......................((((((((......))))))))((((((..((((.(((((......((((((((((((((((.......))))))))))))))))))))).)))).)))))).)))).))).)))))))).))...))))))).... (-99.04) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUAUCCUUCAGAUAAAAAACGUACAUCCAUCACACGAGAGGAUAGCGAAGAGGCCGGAUCGAAAAUUGCUGUUUCAAUCCGGCCUCCAUGUGUUCACCUUCCUUUCCGUAUAGGGCGGGCACUUCCCCGCCCCGUUGCUUGCGGUCGUUUUUUCUUACGGCUGCUCGUCUUUUUUCGUGCCGGCGCGACGCACGAGCAGAUCGGCAUAGCGUUUGCGUAUGACGUUUAUUCCGCUUCGGCAAGAUAUGGCUCUUCCUUUGUUUA ...((((((.....((.((((.(((..............(((((((..(.(((((((((((((.((((.......)))).))))))))))......))).)..))))))).(((..(((((((......)))))))...)))..((((((((........)))))))).))).)))).)).((((((.(((..((.(((.....)))))..((((((.......)))))).....))).)))))).))))))................ (-92.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 543 89 47 47 1 tfor:TF1474|5end_6-phosphogluconolactonase_1567342..1567572_POSITIVE 530 89 41 222 174 tfor:TF2259|5end_transfer_region-related_protein,_TraK_2429577..2429807_POSITIVE 490 170 122 222 173 tfor:TF2329|5end_conserved_hypothetical_protein_2488324..2488554_POSITIVE 487 159 119 40 1 tfor:TF1733|5end_conserved_hypothetical_protein_1856015..1856245_POSITIVE 473 89 41 213 145 tfor:TF2820|5end_argininosuccinate_synthetase_3009876..3010106_POSITIVE 460 159 118 187 140 tfor:TF2775|5end_conserved_hypothetical_protein;_possible_mucoidy_inhibitor-related_protein_2959668..2959898_POSITIVE 459 120 72 223 177 tfor:TF0009|5end_transcriptional_regulator_3491..3721_POSITIVE 455 169 121 139 72 tfor:TF2296|5end_hypothetical_protein_2448892..2449122_POSITIVE 446 107 61 70 13 tfor:TF0700|5end_possible_lipoprotein_742649..742879_POSITIVE 439 90 41 185 130 tfor:TF3022|5end_chorismate_synthase_3246136..3246366_POSITIVE 439 152 121 202 163 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 439 152 121 195 156 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 438 105 62 231 179 tfor:TF1845|5end_hypothetical_protein_1996620..1996850_POSITIVE 438 87 41 42 5 tfor:TF0826|5end_primosomal_protein_N'_883751..883981_POSITIVE 436 110 61 75 10 tfor:TF1935|5end_ATP-dependent_RNA_helicase,_DEAD/DEAH-related_helicase_2082002..2082232_POSITIVE 431 107 62 77 24 tfor:TF2817|5end_hypothetical_protein_3007358..3007588_POSITIVE 430 88 41 143 99 tfor:TF1623|5end_5-formyltetrahydrofolate_cyclo-ligase_1736698..1736928_POSITIVE 426 90 41 199 141 tfor:TF1667|5end_biotin_acetyl-CoA_carboxylase_ligase/biotin_operon_repressor_bifunctional_protein_1779809..1780039_POSITIVE 425 107 61 142 91 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 425 100 54 57 7 tfor:TF0038|5end_conserved_hypothetical_protein_39907..40137_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 446 107 61 86 29 tfor:TF0699|3end_pyridoxal_phosphate_biosynthetic_protein_742745..742895_POSITIVE 439 152 121 67 28 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE 438 87 41 61 24 tfor:TF0825|3end_hypothetical_protein_883850..884000_POSITIVE 431 180 131 82 20 tfor:TF2922|3end_surface_antigen_BspA_3121538..3121688_POSITIVE 430 88 41 128 84 tfor:TF1622|3end_conserved_hypothetical_protein_1736763..1736913_POSITIVE 425 107 61 142 91 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 425 100 54 61 11 tfor:TF0037|3end_sialic_acid-specific_9-O-acetylesterase_39991..40141_POSITIVE 422 106 61 64 22 tfor:TF2994|3end_hypothetical_protein_3210849..3210999_POSITIVE 422 83 41 51 9 tfor:TF2312|3end_conserved_hypothetical_protein;_possible_glycosyl_transferase_2472522..2472672_POSITIVE 421 106 61 90 48 tfor:TF1577|3end_hypothetical_protein_1686234..1686384_POSITIVE 421 108 62 111 52 tfor:TF0600|3end_oxidoreductase/dehydrogenase_631161..631311_POSITIVE 419 165 121 101 40 tfor:TF0145|3end_glutamine_synthetase_154718..154868_POSITIVE 416 84 41 151 108 tfor:TF3021|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_3246194..3246344_POSITIVE 416 148 101 61 7 tfor:TF1255|3end_conserved_hypothetical_protein_1338151..1338301_POSITIVE 412 149 101 90 36 tfor:TF3107|3end_hypothetical_protein_3338736..3338886_POSITIVE 412 89 41 62 2 tfor:TF0809|3end_cation_efflux_protein_868518..868668_POSITIVE 409 187 143 80 18 tfor:TF1720|3end_conserved_hypothetical_protein_1844376..1844526_POSITIVE 408 108 61 76 17 tfor:TF2266|3end_transfer_region-related_protein,_TraQ_2434949..2435099_POSITIVE 407 150 101 150 102 tfor:TF2774|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_2959719..2959869_POSITIVE 406 119 72 126 73 tfor:TF2773|3end_S-adenosylmethionine_tRNA_ribosyltransferase_2959243..2959393_POSITIVE