Origin IGS: taagaaaagacaaaacaatatataagaagagccgccatcaagaagaaatttcccatcttgatggcggctctttatatttagagttttgtaattaataatggtgccatttctcacttcccattcaacattcctaattcaaaatatctattaatgactatttttttaatgaaaaatatacacaaatgaaaaagaattgcgtatatttgcaactgtagaaacctattcatctgataaacggaaataaatattattataaccattatacactaacaattaaaaacaatttgaatt .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattcaaattgtttttaattgttagtgtataatggttataataatatttatttccgtttatcagatgaataggtttctacagttgcaaatatacgcaattctttttcatttgtgtatatttttcattaaaaaaatagtcattaatagatattttgaattaggaatgttgaatgggaagtgagaaatggcaccattattaattacaaaactctaaatataaagagccgccatcaagatgggaaatttcttcttgatggcggctcttcttatatattgttttgtcttttctta Mask Tandem Repeat Region ================================================ taagaaaagacaaaacaatatataagaagagccgccatcaagaagaaatttcccatcttgatggcggctctttatatttagagttttgtaattaataatggtgccatttctcacttcccattcaacattcctaattcaaaatatctattaatgactatttttttaatgaaaaatatacacaaatgaaaaagaattgcgtatatttgcaactgtagaaacctattcatctgataaacggaaataaatattattataaccattatacactaacaattaaaaacaatttgaatt Find is-nt database================================================ Query_seq: PI0910:PI0911|PI0910:PI0911:possible sodium hydrogen antiporter (Na+/H+ antiporter):tyrosine phenol-lyase:->->:839605..839895 291 taagaaaagacaaaacaatatataagaagagccgccatcaagaagaaatttcccatcttgatggcggctctttatatttagagttttgtaattaataatggtgccatttctcacttcccattcaacattcctaattcaaaatatctattaatgactatttttttaatgaaaaatatacacaaatgaaaaagaattgcgtatatttgcaactgtagaaacctattcatctgataaacggaaataaatattattataaccattatacactaacaattaaaaacaatttgaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0910:PI0911|PI0910:PI0911:possible sodium hydrogen antiporter (Na+/H+ antiporter):tyrosine phenol-lyase:->->:839605..839895 291 taagaaaagacaaaacaatatataagaagagccgccatcaagaagaaatttcccatcttgatggcggctctttatatttagagttttgtaattaataatggtgccatttctcacttcccattcaacattcctaattcaaaatatctattaatgactatttttttaatgaaaaatatacacaaatgaaaaagaattgcgtatatttgcaactgtagaaacctattcatctgataaacggaaataaatattattataaccattatacactaacaattaaaaacaatttgaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0910:PI0911|PI0910:PI0911:possible sodium hydrogen antiporter (Na+/H+ antiporter):tyrosine phenol-lyase:->->:839605..839895 291 taagaaaagacaaaacaatatataagaagagccgccatcaagaagaaatttcccatcttgatggcggctctttatatttagagttttgtaattaataatggtgccatttctcacttcccattcaacattcctaattcaaaatatctattaatgactatttttttaatgaaaaatatacacaaatgaaaaagaattgcgtatatttgcaactgtagaaacctattcatctgataaacggaaataaatattattataaccattatacactaacaattaaaaacaatttgaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagaaaagacaaaacaatatataagaagagccgccatcaagaagaaatttcccatcttgatggcggctctttatatttagagttttgtaattaataatggtgccatttctcacttcccattcaacattcctaattcaaaatatctattaatgactatttttttaatgaaaaatatacacaaatgaaaaagaattgcgtatatttgcaactgtagaaacctattcatctgataaacggaaataaatattattataaccattatacactaacaattaaaaacaatttgaatt Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 91 End: 183 .......................................................................................... M N N G A I S H F P F N I P N S K Y L L M T I F L M K N I H K ............................................................................................................ Protein_Len: 50 Strand: - Start: 114 End: 263 ................................................................................................................. K G N L M G L E F Y R N I V I K K I F F I C L H F L I A Y I Q L Q L F R N M Q Y V S I F I I I V M M ............................ Protein_Len: 45 Strand: - Start: 1 End: 135 L F L C F L I Y S S G G D L L F K G D Q H R S K I N L T K Y N I I T G N R V E W E V N R M ............................................................................................................................................................ taagaaaagacaaaacaatatataagaagagccgccatcaagaagaaatttcccatcttgatggcggctctttatatttagagttttgtaattaataatggtgccatttctcacttcccattcaacattcctaattcaaaatatctattaatgactatttttttaatgaaaaatatacacaaatgaaaaagaattgcgtatatttgcaactgtagaaacctattcatctgataaacggaaataaatattattataaccattatacactaacaattaaaaacaatttgaatt Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 85 Start: 250 End: 279 .........................................................................................................................................................................................................................................................TTTTAATTGTTAGTGTATAATGGTTATAAT............ PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 49 End: 78 ................................................TTTCCCATCTTGATGGCGGCTCTTTATATT..................................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taagaaaagacaaaacaatatataagaagagccgccatcaagaagaaatttcccatcttgatggcggctctttatatttagagttttgtaattaataatggtgccatttctcacttcccattcaacattcctaattcaaaatatctattaatgactatttttttaatgaaaaatatacacaaatgaaaaagaattgcgtatatttgcaactgtagaaacctattcatctgataaacggaaataaatattattataaccattatacactaacaattaaaaacaatttgaatt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 83 HP_score: -8.6 Tail_Score: -4.52747 Start: 19 End: 77 Full_Region: attacaaaactctaa atataaagagccgccatcaagatggg aaat ttcttcttgatggcggctcttcttatata ttgttttgtcttttc ..................atataaagagccgccatcaagatgggaaatttcttcttgatggcggctcttcttatata...................................................................................................................................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -18.9 Tail_Score: -4.3453 Start: 29 End: 70 Full_Region: AACAATATATAAGAA GAGCCGCCATCAAGAAG AAATTTCC CATCTTGATGGCGGCTC TTTATATTTAGAGTT ............................GAGCCGCCATCAAGAAGAAATTTCCCATCTTGATGGCGGCTC............................................................................................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -20.3 Tail_Score: -3.99553 Start: 29 End: 70 Full_Region: aactctaaatataaa gagccgccatcaagatggg aaat ttcttcttgatggcggctc ttcttatatattgtt ............................gagccgccatcaagatgggaaatttcttcttgatggcggctc............................................................................................................................................................................................................................. Find igs database================================================ Query_seq: PI0910:PI0911|PI0910:PI0911:possible sodium hydrogen antiporter (Na+/H+ antiporter):tyrosine phenol-lyase:->->:839605..839895 291 taagaaaagacaaaacaatatataagaagagccgccatcaagaagaaatttcccatcttgatggcggctctttatatttagagttttgtaattaataatggtgccatttctcacttcccattcaacattcctaattcaaaatatctattaatgactatttttttaatgaaaaatatacacaaatgaaaaagaattgcgtatatttgcaactgtagaaacctattcatctgataaacggaaataaatattattataaccattatacactaacaattaaaaacaatttgaatt Intra-Species Hit: Count: 1 Min: 1 Max: 291 Len: 291 Subject: pint_PI0910_PI0911|possible sodium hydrogen antiporter (Na+/H+ antiporter):tyrosine phenol-lyase|POSITIVE:POSITIVE|[839605,839895]|291 HSP 1 e-value: 1.0E-151 bit: 535.0 Len: 291 Query Start:1 Query End:291 Subject Strand: POSITIVE Subject Start: 1 Subject End: 291 taagaaaagacaaaacaatatataagaagagccgccatcaagaagaaatttcccatcttgatggcggctctttatatttagagttttgtaattaataatggtgccatttctcacttcccattcaacattcctaattcaaaatatctattaatgactannnnnnnaatgaaaaatatacacaaatgaaaaagaattgcgtatatttgcaactgtagaaacctattcatctgataaacggaaataaatattattataaccattatacactaacaattaaaaacaatttgaatt taagaaaagacaaaacaatatataagaagagccgccatcaagaagaaatttcccatcttgatggcggctctttatatttagagttttgtaattaataatggtgccatttctcacttcccattcaacattcctaattcaaaatatctattaatgactatttttttaatgaaaaatatacacaaatgaaaaagaattgcgtatatttgcaactgtagaaacctattcatctgataaacggaaataaatattattataaccattatacactaacaattaaaaacaatttgaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAAAAGACAAAACAAUAUAUAAGAAGAGCCGCCAUCAAGAAGAAAUUUCCCAUCUUGAUGGCGGCUCUUUAUAUUUAGAGUUUUGUAAUUAAUAAUGGUGCCAUUUCUCACUUCCCAUUCAACAUUCCUAAUUCAAAAUAUCUAUUAAUGACUAUUUUUUUAAUGAAAAAUAUACACAAAUGAAAAAGAAUUGCGUAUAUUUGCAACUGUAGAAACCUAUUCAUCUGAUAAACGGAAAUAAAUAUUAUUAUAACCAUUAUACACUAACAAUUAAAAACAAUUUGAAUU ...(((...(((((((..((.(((.((((((((((((((((((.(........).)))))))))))))))))).))).))..))))))).......((((....))))............))).........((((((((.....(((((((((.((..((((((.....((((((((.(((...........))).)))))))).......))))))..)).)))).)))))...((..((((......))))..)).........................)))))))) (-63.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUCAAAUUGUUUUUAAUUGUUAGUGUAUAAUGGUUAUAAUAAUAUUUAUUUCCGUUUAUCAGAUGAAUAGGUUUCUACAGUUGCAAAUAUACGCAAUUCUUUUUCAUUUGUGUAUAUUUUUCAUUAAAAAAAUAGUCAUUAAUAGAUAUUUUGAAUUAGGAAUGUUGAAUGGGAAGUGAGAAAUGGCACCAUUAUUAAUUACAAAACUCUAAAUAUAAAGAGCCGCCAUCAAGAUGGGAAAUUUCUUCUUGAUGGCGGCUCUUCUUAUAUAUUGUUUUGUCUUUUCUUA ((((((((.((((......((((((((...(((((..((((......))))..))))).....((((((...((....))......((((((((((((...........))))))))))))))))))...........)))))))))))).))))))))(((((.....(((((...((.(....).)).))))).......(((((((..((.(((..(((((((((((((((((.(((....))).)))))))))))))))))..))).))..)))))))...))))). (-78.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 306 69 29 77 17 pint:PI1950|5end_iron-regulated_membrane_permease_1904468..1904698_POSITIVE 299 67 25 152 109 pint:PI0907|5end_NAD-dependent_DNA_ligase_834887..835117_POSITIVE 287 229 182 214 159 pint:PI1983|5end_possible_xylanase_1939151..1939381_POSITIVE 279 69 22 163 124 pint:PI1230|5end_probable_metallo-beta-lactamase_family_protein_1151840..1152070_POSITIVE 275 68 25 55 19 pint:PI1043|5end_conserved_hypothetical_protein_960855..961085_POSITIVE 271 70 22 181 138 pint:PI2171|5end_conserved_hypothetical_protein_2112735..2112965_POSITIVE 265 46 8 90 37 pint:PI0720|5end_conserved_hypothetical_protein_653949..654179_POSITIVE 264 71 34 214 182 pint:PI1887|5end_cell_division_protein_1829115..1829345_POSITIVE 261 70 25 117 74 pint:PI0715|5end_hypothetical_protein_652311..652541_POSITIVE 257 68 31 68 31 pint:PI0412|5end_primosomal_protein_N',_replication_factor_Y_379751..379981_POSITIVE 256 70 41 199 172 pint:PI1833|5end_bacterioferritin_comigratory_protein_1773957..1774187_POSITIVE 255 75 32 91 51 pint:PI1825|5end_2-C-methyl-D-erythritol_4-phosphate_cytidylyltransferase_1764996..1765226_POSITIVE 255 68 25 70 18 pint:PI0762|5end_mannose-6-phosphate_isomerase,_class_I_696420..696650_POSITIVE 251 76 45 185 146 pint:PI2028|5end_shikimate_kinase_1982162..1982392_POSITIVE 250 123 82 220 171 pint:PI1082|5end_polypeptide_deformylase_1001282..1001512_POSITIVE 249 67 25 209 167 pint:PI2168|5end_hypothetical_protein_2111286..2111516_POSITIVE 248 70 22 103 56 pint:PI1005|5end_hypothetical_protein_926201..926431_POSITIVE 247 68 31 45 10 pint:PI0666|5end_chorismate_synthase_609006..609236_POSITIVE 247 110 63 114 53 pint:PI0124|5end_outer_membrane_protein/protective_antigen_OMA87_114487..114717_POSITIVE 243 68 28 143 100 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 646 70 21 62 15 pint:PI0910|3end_possible_sodium_hydrogen_antiporter_(Na+/H+_antiporter)_839544..839694_POSITIVE 306 69 32 59 1 pint:PI1949|3end_aminotransferase,_class_V_1904530..1904680_POSITIVE 302 71 31 79 48 pint:PI0005|3end_hypothetical_protein_7450..7600_POSITIVE 273 67 32 97 55 pint:PI0541|3end_GTP-binding_protein,_GTP1/OBG_family_495009..495159_POSITIVE 271 67 28 29 1 pint:PI1882|3end_hypothetical_protein_1826487..1826637_POSITIVE 265 46 8 71 18 pint:PI0719|3end_conserved_hypothetical_protein_654010..654160_POSITIVE 264 69 31 46 7 pint:PI0245|3end_possible_mobilization_protein_244258..244408_POSITIVE 257 68 31 65 28 pint:PI0411|3end_conserved_hypothetial_protein;_possible_hydrolase_379828..379978_POSITIVE 251 76 45 73 34 pint:PI2027|3end_arginine_decarboxylase_1982130..1982280_POSITIVE 249 67 25 48 6 pint:PI2165|3end_conserved_hypothetical_protein;_possible_membrane_protein_2111205..2111355_POSITIVE 249 66 26 147 93 pint:PI0667|3end_hypothetical_protein_610477..610627_POSITIVE 243 68 28 146 103 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 243 70 21 141 73 pint:PI1514|3end_tRNA_nucleotidyltransferase/poly(A)_polymerase_1434072..1434222_POSITIVE 241 67 25 70 41 pint:PI0981|3end_outer_membrane_protein,_TonB_dependent_receptor_909390..909540_POSITIVE 239 70 34 39 1 pint:PI1004|3end_conserved_hypothetical_protein_926217..926367_POSITIVE 234 65 22 147 111 pint:PI2170|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_2112788..2112938_POSITIVE 230 119 71 114 71 pint:PI1184|3end_conserved_hypothetical_protein_1106163..1106313_POSITIVE 229 217 177 147 110 pint:PI0994|3end_glutaminyl-tRNA_synthetase_920209..920359_POSITIVE 229 74 40 140 104 pint:PI0607|3end_2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxy_lic_acid_synthase/2-oxoglutarate_decarboxylase_555548..555698_POSITIVE 228 67 24 63 31 pint:PI0642|3end_thioredoxin_family_protein_585582..585732_POSITIVE