Origin IGS: taatagaaaagcgcaaatacggagtgcagatacgtctgcactcttttccaatcacacactttcactattgttccttataaagttgtgggattaaagttttttaattatctttgcacggtcgtctgttttggcagtcgtctttgcgttttcagcacggacagaagcaggcagcgataacaatcggaatactataaatacagaaataatctaaaatttacaagcaaattctatgaacaaaaagactttaatggtctgtggcttgattagcctctcgctttcaatgcaggcacagacaaagggtggtggaattgacaagcagatg .........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 catctgcttgtcaattccaccaccctttgtctgtgcctgcattgaaagcgagaggctaatcaagccacagaccattaaagtctttttgttcatagaatttgcttgtaaattttagattatttctgtatttatagtattccgattgttatcgctgcctgcttctgtccgtgctgaaaacgcaaagacgactgccaaaacagacgaccgtgcaaagataattaaaaaactttaatcccacaactttataaggaacaatagtgaaagtgtgtgattggaaaagagtgcagacgtatctgcactccgtatttgcgcttttctatta Mask Tandem Repeat Region ================================================ taatagaaaagcgcaaatacggagtgcagatacgtctgcactcttttccaatcacacactttcactattgttccttataaagttgtgggattaaagttttttaattatctttgcacggtcgtctgttttggcagtcgtctttgcgttttcagcacggacagaagcaggcagcgataacaatcggaatactataaatacagaaataatctaaaatttacaagcaaattctatgaacaaaaagactttaatggtctgtggcttgattagcctctcgctttcaatgcaggcacagacaaagggtggtggaattgacaagcagatg Find is-nt database================================================ Query_seq: PI0572:PI0573|PI0572:PI0573:tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase:aminopeptidase C (bleomycin hydrolase):->->:517650..517971 322 taatagaaaagcgcaaatacggagtgcagatacgtctgcactcttttccaatcacacactttcactattgttccttataaagttgtgggattaaagttttttaattatctttgcacggtcgtctgttttggcagtcgtctttgcgttttcagcacggacagaagcaggcagcgataacaatcggaatactataaatacagaaataatctaaaatttacaagcaaattctatgaacaaaaagactttaatggtctgtggcttgattagcctctcgctttcaatgcaggcacagacaaagggtggtggaattgacaagcagatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0572:PI0573|PI0572:PI0573:tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase:aminopeptidase C (bleomycin hydrolase):->->:517650..517971 322 taatagaaaagcgcaaatacggagtgcagatacgtctgcactcttttccaatcacacactttcactattgttccttataaagttgtgggattaaagttttttaattatctttgcacggtcgtctgttttggcagtcgtctttgcgttttcagcacggacagaagcaggcagcgataacaatcggaatactataaatacagaaataatctaaaatttacaagcaaattctatgaacaaaaagactttaatggtctgtggcttgattagcctctcgctttcaatgcaggcacagacaaagggtggtggaattgacaagcagatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0572:PI0573|PI0572:PI0573:tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase:aminopeptidase C (bleomycin hydrolase):->->:517650..517971 322 taatagaaaagcgcaaatacggagtgcagatacgtctgcactcttttccaatcacacactttcactattgttccttataaagttgtgggattaaagttttttaattatctttgcacggtcgtctgttttggcagtcgtctttgcgttttcagcacggacagaagcaggcagcgataacaatcggaatactataaatacagaaataatctaaaatttacaagcaaattctatgaacaaaaagactttaatggtctgtggcttgattagcctctcgctttcaatgcaggcacagacaaagggtggtggaattgacaagcagatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatagaaaagcgcaaatacggagtgcagatacgtctgcactcttttccaatcacacactttcactattgttccttataaagttgtgggattaaagttttttaattatctttgcacggtcgtctgttttggcagtcgtctttgcgttttcagcacggacagaagcaggcagcgataacaatcggaatactataaatacagaaataatctaaaatttacaagcaaattctatgaacaaaaagactttaatggtctgtggcttgattagcctctcgctttcaatgcaggcacagacaaagggtggtggaattgacaagcagatg Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 67 End: 174 .................................................................. M V P Y K V V G L K F F N Y L C T V V C F G S R L C V F S T D R S R Q R .................................................................................................................................................... Protein_Len: 35 Strand: + Start: 104 End: 208 ....................................................................................................... M I F A R S S V L A V V F A F S A R T E A G S D N N R N T I N T E I I .................................................................................................................. Protein_Len: 31 Strand: + Start: 230 End: 322 ..................................................................................................................................................................................................................................... M N K K T L M V C G L I S L S L S M Q A Q T K G G G I D K Q M Protein_Len: 37 Strand: - Start: 211 End: 321 .................................................................................................................................................................................................................. F K C A F E I F L F V K I T Q P K I L R E S E I C A C V F P P P I S L C M . Protein_Len: 38 Strand: - Start: 94 End: 207 ............................................................................................. L K K I I K A R D D T K A T T K A N E A R V S A P L S L L R F V I F V S I M ................................................................................................................... taatagaaaagcgcaaatacggagtgcagatacgtctgcactcttttccaatcacacactttcactattgttccttataaagttgtgggattaaagttttttaattatctttgcacggtcgtctgttttggcagtcgtctttgcgttttcagcacggacagaagcaggcagcgataacaatcggaatactataaatacagaaataatctaaaatttacaagcaaattctatgaacaaaaagactttaatggtctgtggcttgattagcctctcgctttcaatgcaggcacagacaaagggtggtggaattgacaagcagatg 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================================================ taatagaaaagcgcaaatacggagtgcagatacgtctgcactcttttccaatcacacactttcactattgttccttataaagttgtgggattaaagttttttaattatctttgcacggtcgtctgttttggcagtcgtctttgcgttttcagcacggacagaagcaggcagcgataacaatcggaatactataaatacagaaataatctaaaatttacaagcaaattctatgaacaaaaagactttaatggtctgtggcttgattagcctctcgctttcaatgcaggcacagacaaagggtggtggaattgacaagcagatg Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 71 HP_score: -9.6 Tail_Score: -2.66941 Start: 21 End: 44 Full_Region: gtgtgtgattggaaa agagtgcaga cgta tctgcactcc gtatttgcgcttttc ....................agagtgcagacgtatctgcactcc...................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PI0572:PI0573|PI0572:PI0573:tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase:aminopeptidase C (bleomycin hydrolase):->->:517650..517971 322 taatagaaaagcgcaaatacggagtgcagatacgtctgcactcttttccaatcacacactttcactattgttccttataaagttgtgggattaaagttttttaattatctttgcacggtcgtctgttttggcagtcgtctttgcgttttcagcacggacagaagcaggcagcgataacaatcggaatactataaatacagaaataatctaaaatttacaagcaaattctatgaacaaaaagactttaatggtctgtggcttgattagcctctcgctttcaatgcaggcacagacaaagggtggtggaattgacaagcagatg Intra-Species Hit: Count: 1 Min: 1 Max: 322 Len: 322 Subject: pint_PI0572_PI0573|tRNA (5-methylaminomethyl-2-thiouridylate)- methyltransferase:aminopeptidase C (bleomycin hydrolase)|POSITIVE:POSITIVE|[517650,517971]|322 HSP 1 e-value: 0.0 bit: 638.0 Len: 322 Query Start:1 Query End:322 Subject Strand: POSITIVE Subject Start: 1 Subject End: 322 taatagaaaagcgcaaatacggagtgcagatacgtctgcactcttttccaatcacacactttcactattgttccttataaagttgtgggattaaagttttttaattatctttgcacggtcgtctgttttggcagtcgtctttgcgttttcagcacggacagaagcaggcagcgataacaatcggaatactataaatacagaaataatctaaaatttacaagcaaattctatgaacaaaaagactttaatggtctgtggcttgattagcctctcgctttcaatgcaggcacagacaaagggtggtggaattgacaagcagatg taatagaaaagcgcaaatacggagtgcagatacgtctgcactcttttccaatcacacactttcactattgttccttataaagttgtgggattaaagttttttaattatctttgcacggtcgtctgttttggcagtcgtctttgcgttttcagcacggacagaagcaggcagcgataacaatcggaatactataaatacagaaataatctaaaatttacaagcaaattctatgaacaaaaagactttaatggtctgtggcttgattagcctctcgctttcaatgcaggcacagacaaagggtggtggaattgacaagcagatg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAGAAAAGCGCAAAUACGGAGUGCAGAUACGUCUGCACUCUUUUCCAAUCACACACUUUCACUAUUGUUCCUUAUAAAGUUGUGGGAUUAAAGUUUUUUAAUUAUCUUUGCACGGUCGUCUGUUUUGGCAGUCGUCUUUGCGUUUUCAGCACGGACAGAAGCAGGCAGCGAUAACAAUCGGAAUACUAUAAAUACAGAAAUAAUCUAAAAUUUACAAGCAAAUUCUAUGAACAAAAAGACUUUAAUGGUCUGUGGCUUGAUUAGCCUCUCGCUUUCAAUGCAGGCACAGACAAAGGGUGGUGGAAUUGACAAGCAGAUG ............((......((((((((((....))))))))))............((.(((((((((....((((.............(((((((((((((..((((.(((((...((((.(((((...((..((((((.(((.......))).)))).)).)).)))))))))................(((((..(((.....)))...)))))...)))))....))))...))))))))))))).(((((((.(((((..(((.....))).)))....)).))))))).))))))))))))).))....))..... (-82.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUCUGCUUGUCAAUUCCACCACCCUUUGUCUGUGCCUGCAUUGAAAGCGAGAGGCUAAUCAAGCCACAGACCAUUAAAGUCUUUUUGUUCAUAGAAUUUGCUUGUAAAUUUUAGAUUAUUUCUGUAUUUAUAGUAUUCCGAUUGUUAUCGCUGCCUGCUUCUGUCCGUGCUGAAAACGCAAAGACGACUGCCAAAACAGACGACCGUGCAAAGAUAAUUAAAAAACUUUAAUCCCACAACUUUAUAAGGAACAAUAGUGAAAGUGUGUGAUUGGAAAAGAGUGCAGACGUAUCUGCACUCCGUAUUUGCGCUUUUCUAUUA .......(((((................(((((((...((.((((.(((.....)))..)))))))))))))......(((((((((((((.(((((((((....)))))))))))...((((.((((..((((.....((((....))))..........))))..)))).))))..))))))).)))).........)))))..(((((((..............(((((((.((((..(((((...........)))))..)))).)))))))...(((((((((....)))))))))....))))))).......... (-75.06) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 410 179 131 210 165 pint:PI2136|5end_hypothetical_protein_2082605..2082835_POSITIVE 389 169 124 150 98 pint:PI0927|5end_transglutaminase-related_protein_857283..857513_POSITIVE 387 300 253 80 22 pint:PI0351|5end_hypothetical_protein_324317..324547_POSITIVE 378 155 112 173 129 pint:PI1638|5end_conserved_hypothetical_protein_1555337..1555567_POSITIVE 366 176 131 179 127 pint:PI0008|5end_exoribonuclease_II_(ribonuclease_II)_7238..7468_POSITIVE 366 176 131 140 88 pint:PI0006|5end_hypothetical_protein_7199..7429_POSITIVE 364 174 134 63 23 pint:PI2159|5end_immunoreactive_84_kDa_antigen_PG93_2105267..2105497_POSITIVE 363 170 121 215 158 pint:PI1721|5end_peptidyl-prolyl_cis-trans_isomerase,_PPIC-type_1638086..1638316_POSITIVE 352 172 131 78 36 pint:PI1985|5end_hypothetical_protein_1940291..1940521_POSITIVE 350 148 108 217 169 pint:PI1634|5end_conserved_hypothetical_protein_1553179..1553409_POSITIVE 350 174 131 86 47 pint:PI1495|5end_conserved_hypothetical_protein_1414432..1414662_POSITIVE 350 148 108 217 169 pint:PI0340|5end_conserved_hypothetical_protein_316095..316325_POSITIVE 350 118 73 167 109 pint:PI0075|5end_uridine_kinase_73748..73978_POSITIVE 349 307 261 103 49 pint:PI1992|5end_hypothetical_protein_1946427..1946657_POSITIVE 347 155 112 194 142 pint:PI0458|5end_translation_elongation_factor_G_(EF-G)/tetracycline_resistance_factor_Q_429877..430107_POSITIVE 345 170 121 65 15 pint:PI1699|5end_conserved_hypothetical_protein_1616604..1616834_POSITIVE 344 159 117 169 130 pint:PI0264|5end_transfer_region-related_protein,_TraN_256494..256724_POSITIVE 344 156 111 195 145 pint:PI0211|5end_hypothetical_protein_204067..204297_POSITIVE 343 156 113 227 177 pint:PI0711|5end_ISPg3-related_transposase_647934..648164_POSITIVE 342 172 131 208 159 pint:PI1675|5end_TonB-dependent_outer_membrane_receptor_1588107..1588337_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 427 69 21 95 39 pint:PI0434|3end_possible_beta-lactamase_406890..407040_POSITIVE 364 174 134 63 23 pint:PI2158|3end_glycosyl_transferase,_group_2_family_protein_2105347..2105497_POSITIVE 347 320 272 91 39 pint:PI0059|3end_peptide_chain_release_factor_RF-2_58171..58321_POSITIVE 340 180 131 129 79 pint:PI0684|3end_coproporphyrinogen_III_oxidase_620507..620657_POSITIVE 336 320 273 52 3 pint:PI0540|3end_conserved_hypothetical_protein_493865..494015_POSITIVE 330 193 154 138 98 pint:PI0954|3end_hypothetical_protein_886300..886450_POSITIVE 325 156 111 120 69 pint:PI0819|3end_hypothetical_protein_759919..760069_POSITIVE 325 275 232 151 102 pint:PI0101|3end_lauroyl/myristoyl_acyltransferase_97753..97903_POSITIVE 321 308 264 133 82 pint:PI1012|3end_DNA-binding_protein,_histone-like_family_933544..933694_POSITIVE 320 179 131 103 51 pint:PI1882|3end_hypothetical_protein_1826487..1826637_POSITIVE 319 170 122 50 1 pint:PI1698|3end_subtilisin-like_serine_protease_1616669..1616819_POSITIVE 318 174 134 45 3 pint:PI1720|3end_conserved_hypothetical_protein_1637992..1638142_POSITIVE 318 167 124 75 25 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 317 157 111 104 42 pint:PI0567|3end_hypothetical_protein_513055..513205_POSITIVE 317 156 111 119 71 pint:PI0091|3end_hypothetical_protein_89774..89924_POSITIVE 316 158 111 150 94 pint:PI1710|3end_ABC-type_permease_component_1627356..1627506_POSITIVE 313 147 103 52 8 pint:PI1689|3end_conserved_hypothetical_protein_1605202..1605352_POSITIVE 313 180 135 71 19 pint:PI0789|3end_NAD-utilizing_dehydrogenase_728385..728535_POSITIVE 304 155 111 126 74 pint:PI1725|3end_hypothetical_protein_1643220..1643370_POSITIVE 303 158 111 86 38 pint:PI0128|3end_dipeptidase,_pathogenicity_island-encoded_protein_D_121826..121976_POSITIVE