Origin IGS: taagaccaaattagacaacgaattataaactataaaacaattactaaccgccaaacttcaaactaacctttatgggacggattggaagcaaggcacaaaatttaagattatgaaaaaaatagattgggagaacctttcattcgggtatcagaagacagattacaatgttcgttgctattatcgcgatggaaaatggggagaaattgaagtttcgtctgacgaaaacatcaacatacac .........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 gtgtatgttgatgttttcgtcagacgaaacttcaatttctccccattttccatcgcgataatagcaacgaacattgtaatctgtcttctgatacccgaatgaaaggttctcccaatctatttttttcataatcttaaattttgtgccttgcttccaatccgtcccataaaggttagtttgaagtttggcggttagtaattgttttatagtttataattcgttgtctaatttggtctta Mask Tandem Repeat Region ================================================ taagaccaaattagacaacgaattataaactataaaacaattactaaccgccaaacttcaaactaacctttatgggacggattggaagcaaggcacaaaatttaagattatgaaaaaaatagattgggagaacctttcattcgggtatcagaagacagattacaatgttcgttgctattatcgcgatggaaaatggggagaaattgaagtttcgtctgacgaaaacatcaacatacac Find is-nt database================================================ Query_seq: PI0869:PI0870|PI0869:PI0870:possible exodeoxyribonuclease VII (small subunit):branched-chain amino acid aminotransferase:->->:805835..806072 238 taagaccaaattagacaacgaattataaactataaaacaattactaaccgccaaacttcaaactaacctttatgggacggattggaagcaaggcacaaaatttaagattatgaaaaaaatagattgggagaacctttcattcgggtatcagaagacagattacaatgttcgttgctattatcgcgatggaaaatggggagaaattgaagtttcgtctgacgaaaacatcaacatacac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0869:PI0870|PI0869:PI0870:possible exodeoxyribonuclease VII (small subunit):branched-chain amino acid aminotransferase:->->:805835..806072 238 taagaccaaattagacaacgaattataaactataaaacaattactaaccgccaaacttcaaactaacctttatgggacggattggaagcaaggcacaaaatttaagattatgaaaaaaatagattgggagaacctttcattcgggtatcagaagacagattacaatgttcgttgctattatcgcgatggaaaatggggagaaattgaagtttcgtctgacgaaaacatcaacatacac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0869:PI0870|PI0869:PI0870:possible exodeoxyribonuclease VII (small subunit):branched-chain amino acid aminotransferase:->->:805835..806072 238 taagaccaaattagacaacgaattataaactataaaacaattactaaccgccaaacttcaaactaacctttatgggacggattggaagcaaggcacaaaatttaagattatgaaaaaaatagattgggagaacctttcattcgggtatcagaagacagattacaatgttcgttgctattatcgcgatggaaaatggggagaaattgaagtttcgtctgacgaaaacatcaacatacac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 4 Min: 107 Max: 238 Len: 132 Subject: UniRef90_Q7MV21 Cluster: Branched-chain amino acid aminotransferase; n=1; Porphyromonas gingivalis|Rep: Branched-chain amino acid aminotransferase - Porphyromonas gingivalis (Bacteroides gingivalis) HSP 1 e-value: 3.0E-14 bit: 79.7 Len: 129 Query Start:110 Query End:238 Subject Strand: null Subject Start: 1 Subject End: 43 ............................................................................................................. M K K I D W E N L S F G Y Q K T D Y N V R C Y Y R D G K W G E I E V S S D E N I N I H ............................................................................................................. M E N I D W S S L S F G Y R K T D Y N V R C Y Y R N G K W G E L E V S S E E T I T M H Subject: UniRef90_Q8A0X9 Cluster: Branched-chain amino acid aminotransferase; n=3; Bacteroides|Rep: Branched-chain amino acid aminotransferase - Bacteroides thetaiotaomicron HSP 1 e-value: 5.0E-13 bit: 75.5 Len: 129 Query Start:110 Query End:238 Subject Strand: null Subject Start: 1 Subject End: 43 ............................................................................................................. M K K I D W E N L S F G Y Q K T D Y N V R C Y Y R D G K W G E I E V S S D E N I N I H ............................................................................................................. M K E I D W A N L S F G Y M K T D Y N V R I N F R N G A W G E L E V S S D E H L N L H Subject: UniRef90_P54689 Cluster: Branched-chain-amino-acid aminotransferase; n=6; Pasteurellaceae|Rep: Branched-chain-amino-acid aminotransferase - Haemophilus influenzae HSP 1 e-value: 3.0E-6 bit: 53.1 Len: 129 Query Start:110 Query End:238 Subject Strand: null Subject Start: 1 Subject End: 43 ............................................................................................................. M K K I D W E N L S F G Y Q K T D Y N V R C Y Y R D G K W G E I E V S S D E N I N I H ............................................................................................................. M K D L D W N N L G F S Y I K T D Y R F I A H W K D G K W D E G K L T T D S T L H I H Subject: UniRef90_Q9CN73 Cluster: IvlE; n=1; Pasteurella multocida|Rep: IvlE - Pasteurella multocida HSP 1 e-value: 5.0E-6 bit: 52.4 Len: 129 Query Start:107 Query End:235 Subject Strand: null Subject Start: 1 Subject End: 43 .......................................................................................................... I M K K I D W E N L S F G Y Q K T D Y N V R C Y Y R D G K W G E I E V S S D E N I N I ... .......................................................................................................... M I K D L D W K N L G F G Y I K T D Y R Y I A Y W K D G K W S K G E L T Q D N V L H I ... taagaccaaattagacaacgaattataaactataaaacaattactaaccgccaaacttcaaactaacctttatgggacggattggaagcaaggcacaaaatttaagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 123 End: 236 .......................................................................................................................... M G R T F H S G I R R Q I T M F V A I I A M E N G E K L K F R L T K T S T Y .. Protein_Len: 60 Strand: + Start: 32 End: 238 ............................... M K Q L L T A K L Q T N L Y G T D W K Q G T K F K I M K K I D W E N L S F G Y Q K T D Y N V R C Y Y R D G K W G E I E V Protein_Len: 33 Strand: - Start: 140 End: 238 ........................................................................................................................................... E P I L L C I V I N T A I I A I S F P S F N F N R R V F V D V Y M taagaccaaattagacaacgaattataaactataaaacaattactaaccgccaaacttcaaactaacctttatgggacggattggaagcaaggcacaaaatttaagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn 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================================================ taagaccaaattagacaacgaattataaactataaaacaattactaaccgccaaacttcaaactaacctttatgggacggattggaagcaaggcacaaaatttaagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0869:PI0870|PI0869:PI0870:possible exodeoxyribonuclease VII (small subunit):branched-chain amino acid aminotransferase:->->:805835..806072 238 taagaccaaattagacaacgaattataaactataaaacaattactaaccgccaaacttcaaactaacctttatgggacggattggaagcaaggcacaaaatttaagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: pint_PI0869_PI0870|possible exodeoxyribonuclease VII (small subunit):branched-chain amino acid aminotransferase|POSITIVE:POSITIVE|[805835,806072]|238 HSP 1 e-value: 6.0E-53 bit: 208.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 taagaccaaattagacaacgaattataaactataaaacaattactaaccgccaaacttcaaactaacctttatgggacggattggaagcaaggcacaaaatttaa..................................................................................................................................... taagaccaaattagacaacgaattataaactataaaacaattactaaccgccaaacttcaaactaacctttatgggacggattggaagcaaggcacaaaatttaa..................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGACCAAAUUAGACAACGAAUUAUAAACUAUAAAACAAUUACUAACCGCCAAACUUCAAACUAACCUUUAUGGGACGGAUUGGAAGCAAGGCACAAAAUUUAA .................................................(((...((((...((..(((....)))..))....))))...)))........... (-11.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAAUUUUGUGCCUUGCUUCCAAUCCGUCCCAUAAAGGUUAGUUUGAAGUUUGGCGGUUAGUAAUUGUUUUAUAGUUUAUAAUUCGUUGUCUAAUUUGGUCUUA ...........(((..(((((.(((....((......))...))).)))))..))).(((((....((..(((((...)))))..))....)))))......... (-16.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 305 97 75 169 146 pint:PI1299|5end_glycosyltransferase_1212191..1212421_POSITIVE 293 93 63 54 9 pint:PI0544|5end_hypoxanthine-guanine_phosphoribosyltransferase_(hypoxanthine_phosphoribosyltransferase)_495645..495875_POSITIVE 287 100 53 158 104 pint:PI0884|5end_hypothetical_protein_817302..817532_POSITIVE 287 100 53 136 82 pint:PI0885|5end_hypothetical_protein_817280..817510_POSITIVE 277 98 51 208 135 pint:PI1138|5end_hypothetical_protein_1064560..1064790_POSITIVE 273 100 64 53 19 pint:PI0012|5end_conserved_hypothetical_protein_13406..13636_POSITIVE 270 87 47 55 20 pint:PI0665|5end_dihydroorotate_dehydrogenase_607865..608095_POSITIVE 242 99 66 146 114 pint:PI0491|5end_hypothetical_protein_451010..451240_POSITIVE 241 89 44 73 22 pint:PI0576|5end_helicase,_UvrD/Rep_520226..520456_POSITIVE 231 89 48 202 159 pint:PI1000|5end_conserved_hypothetical_protein_923332..923562_POSITIVE 230 98 70 162 140 pint:PI0748|5end_possible_mobilization_protein_676616..676846_POSITIVE 229 85 50 217 175 pint:PI1187|5end_conserved_hypothetical_protein_1106692..1106922_POSITIVE 228 97 64 164 123 pint:PI0280|5end_conserved_hypothetical_protein_266001..266231_POSITIVE 227 94 51 57 13 pint:PI0604|5end_O-succinylbenzoic_acid--CoA_ligase_550825..551055_POSITIVE 224 96 69 218 188 pint:PI1640|5end_hypothetical_protein_1558062..1558292_POSITIVE 223 84 42 175 131 pint:PI0959|5end_uridine_kinase_890495..890725_POSITIVE 222 89 48 50 18 pint:PI0221|5end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_212356..212586_POSITIVE 220 89 45 212 169 pint:PI1335|5end_Fe-S_oxidoreductase_1252818..1253048_POSITIVE 220 89 41 75 12 pint:PI0611|5end_hypothetical_protein_559387..559617_POSITIVE 219 94 74 170 151 pint:PI1162|5end_hemolysin-related_protein,_with_CBS_domain_1086443..1086673_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 293 93 63 124 79 pint:PI0542|3end_hypothetical_protein_495795..495945_POSITIVE 293 93 63 51 6 pint:PI0543|3end_adenylate_kinase_495722..495872_POSITIVE 282 98 56 140 100 pint:PI1178|3end_histidyl-tRNA_synthetase_1100564..1100714_POSITIVE 242 99 66 146 114 pint:PI0490|3end_DNA_primase_451090..451240_POSITIVE 231 89 48 126 83 pint:PI0998|3end_possible_flavin_reductase_domain_protein_923336..923486_POSITIVE 220 94 67 136 96 pint:PI0573|3end_aminopeptidase_C_(bleomycin_hydrolase)_519219..519369_POSITIVE 215 95 68 135 115 pint:PI1609|3end_Na+/H+_anti-porter_1537100..1537250_POSITIVE 214 96 56 101 64 pint:PI1254|3end_probable_glucokinase_1176646..1176796_POSITIVE 212 79 47 61 31 pint:PI0237|3end_predicted_two-component_system_sensor_histidine_kinase_237081..237231_POSITIVE 211 95 73 130 98 pint:PI2095|3end_hypothetical_protein_2050216..2050366_POSITIVE 209 97 70 97 70 pint:PI1436|3end_hypothetical_protein_1356232..1356382_POSITIVE 207 54 11 137 88 pint:PI1882|3end_hypothetical_protein_1826487..1826637_POSITIVE 206 85 47 87 45 pint:PI0583|3end_hypothetical_protein_526276..526426_POSITIVE 206 99 65 53 19 pint:PI0068|3end_arginine_repressor_67019..67169_POSITIVE 205 85 41 71 21 pint:PI0036|3end_glutathione_peroxidase_39289..39439_POSITIVE 204 97 51 146 105 pint:PI0422|3end_conserved_hypothetical_protein_388025..388175_POSITIVE 202 95 51 111 68 pint:PI1366|3end_conserved_hypothetical_protein;_possible_hydrolase,_HAD_superfamily_1286647..1286797_POSITIVE 201 94 60 37 1 pint:PI1457|3end_N-acetylmuramoyl-L-alanine_amidase_1381228..1381378_POSITIVE 200 99 68 130 90 pint:PI0684|3end_coproporphyrinogen_III_oxidase_620507..620657_POSITIVE 197 99 60 111 66 pint:PI2032|3end_RNA_polymerase_sigma_factor,_ECF_subfamily_1987121..1987271_POSITIVE