Origin IGS: taatacaacaaaaggacaaaaaggtaaggacgacaagcccacctttttgtccttttgttctttctataacaccttgtaacaccctaacatcgcccaagtattatgaaatacagcatcatcgttcccgttttcaaccgcccagacgaagtagacgaacttctgtcgagcctg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 caggctcgacagaagttcgtctacttcgtctgggcggttgaaaacgggaacgatgatgctgtatttcataatacttgggcgatgttagggtgttacaaggtgttatagaaagaacaaaaggacaaaaaggtgggcttgtcgtccttacctttttgtccttttgttgtatta Mask Tandem Repeat Region ================================================ taatacaacaaaaggacaaaaaggtaaggacgacaagcccacctttttgtccttttgttctttctataacaccttgtaacaccctaacatcgcccaagtattatgaaatacagcatcatcgttcccgttttcaaccgcccagacgaagtagacgaacttctgtcgagcctg Find is-nt database================================================ Query_seq: PI2019:PI2020|PI2019:PI2020:elongation factor P:glycosyl transferase, group 2 family protein:->->:1976835..1977005 171 taatacaacaaaaggacaaaaaggtaaggacgacaagcccacctttttgtccttttgttctttctataacaccttgtaacaccctaacatcgcccaagtattatgaaatacagcatcatcgttcccgttttcaaccgcccagacgaagtagacgaacttctgtcgagcctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2019:PI2020|PI2019:PI2020:elongation factor P:glycosyl transferase, group 2 family protein:->->:1976835..1977005 171 taatacaacaaaaggacaaaaaggtaaggacgacaagcccacctttttgtccttttgttctttctataacaccttgtaacaccctaacatcgcccaagtattatgaaatacagcatcatcgttcccgttttcaaccgcccagacgaagtagacgaacttctgtcgagcctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2019:PI2020|PI2019:PI2020:elongation factor P:glycosyl transferase, group 2 family protein:->->:1976835..1977005 171 taatacaacaaaaggacaaaaaggtaaggacgacaagcccacctttttgtccttttgttctttctataacaccttgtaacaccctaacatcgcccaagtattatgaaatacagcatcatcgttcccgttttcaaccgcccagacgaagtagacgaacttctgtcgagcctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatacaacaaaaggacaaaaaggtaaggacgacaagcccacctttttgtccttttgttctttctataacaccttgtaacaccctaacatcgcccaagtattatgaaatacagcatcatcgttcccgttttcaaccgcccagacgaagtagacgaacttctgtcgagcctg Predict ORF larger than 30AA ================================================ Protein_Len: 56 Strand: + Start: 3 End: 170 .. M Q Q K D K K V R T T S P P F C P F V L S I T P C N T L T S P K Y Y E I Q H H R S R F Q P P R R S R R T S V E P . Protein_Len: 32 Strand: - Start: 2 End: 97 . I C C F S L F T L V V L G G K Q G K T R E I V G Q L V R V D G M .......................................................................... taatacaacaaaaggacaaaaaggtaaggacgacaagcccacctttttgtccttttgttctttctataacaccttgtaacaccctaacatcgcccaagtattatgaaatacagcatcatcgttcccgttttcaaccgcccagacgaagtagacgaacttctgtcgagcctg 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================================================ taatacaacaaaaggacaaaaaggtaaggacgacaagcccacctttttgtccttttgttctttctataacaccttgtaacaccctaacatcgcccaagtattatgaaatacagcatcatcgttcccgttttcaaccgcccagacgaagtagacgaacttctgtcgagcctg Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 53 HP_score: -5.0 Tail_Score: -3.32095 Start: 17 End: 49 Full_Region: gaaagaacaaaagga caaaaaggtggg cttgtcgtc cttacctttttg tccttttgttgtatt ................caaaaaggtgggcttgtcgtccttacctttttg.......................................................................................................................... TransTerm Strand: - Conf: 48 HP_score: -2.8 Tail_Score: -3.4968 Start: 28 End: 52 Full_Region: atagaaagaacaaaa ggacaaaaag gtggg cttgtcgtcc ttacctttttgtcct ...........................ggacaaaaaggtgggcttgtcgtcc....................................................................................................................... Find igs database================================================ Query_seq: PI2019:PI2020|PI2019:PI2020:elongation factor P:glycosyl transferase, group 2 family protein:->->:1976835..1977005 171 taatacaacaaaaggacaaaaaggtaaggacgacaagcccacctttttgtccttttgttctttctataacaccttgtaacaccctaacatcgcccaagtattatgaaatacagcatcatcgttcccgttttcaaccgcccagacgaagtagacgaacttctgtcgagcctg Intra-Species Hit: Count: 1 Min: 1 Max: 171 Len: 171 Subject: pint_PI2019_PI2020|elongation factor P:glycosyl transferase, group 2 family protein|POSITIVE:POSITIVE|[1976835,1977005]|171 HSP 1 e-value: 2.0E-92 bit: 339.0 Len: 171 Query Start:1 Query End:171 Subject Strand: POSITIVE Subject Start: 1 Subject End: 171 taatacaacaaaaggacaaaaaggtaaggacgacaagcccacctttttgtccttttgttctttctataacaccttgtaacaccctaacatcgcccaagtattatgaaatacagcatcatcgttcccgttttcaaccgcccagacgaagtagacgaacttctgtcgagcctg taatacaacaaaaggacaaaaaggtaaggacgacaagcccacctttttgtccttttgttctttctataacaccttgtaacaccctaacatcgcccaagtattatgaaatacagcatcatcgttcccgttttcaaccgcccagacgaagtagacgaacttctgtcgagcctg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUACAACAAAAGGACAAAAAGGUAAGGACGACAAGCCCACCUUUUUGUCCUUUUGUUCUUUCUAUAACACCUUGUAACACCCUAACAUCGCCCAAGUAUUAUGAAAUACAGCAUCAUCGUUCCCGUUUUCAACCGCCCAGACGAAGUAGACGAACUUCUGUCGAGCCUG ((((((.((((((((((((((((((..((.(.....))).))))))))))))))))))......(((((....)))))...................))))))(((((...(((......))).....)))))...((...((((((((......))))).)))..))... (-40.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGGCUCGACAGAAGUUCGUCUACUUCGUCUGGGCGGUUGAAAACGGGAACGAUGAUGCUGUAUUUCAUAAUACUUGGGCGAUGUUAGGGUGUUACAAGGUGUUAUAGAAAGAACAAAAGGACAAAAAGGUGGGCUUGUCGUCCUUACCUUUUUGUCCUUUUGUUGUAUUA ...(((((((.(((((......)))))))).)))).........((....)).((((((....(((((((((((((..(..(..(....)..)..).))))))))).)))).(((((((((((((((((((((((.....))))..))))))))))))))))))))))))) (-59.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 377 98 51 201 145 pint:PI0058|5end_conserved_hypothetical_protein_56398..56628_POSITIVE 309 168 121 59 10 pint:PI1950|5end_iron-regulated_membrane_permease_1904468..1904698_POSITIVE 308 170 126 142 96 pint:PI1381|5end_conserved_hypothetical_protein_1303060..1303290_POSITIVE 307 169 127 150 82 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 305 168 126 74 28 pint:PI1139|5end_endopeptidase,_endothelin-converting_enzyme_1065216..1065446_POSITIVE 303 137 92 177 125 pint:PI0336|5end_hypothetical_protein_314499..314729_POSITIVE 298 153 112 122 87 pint:PI0915|5end_hypothetical_protein_845183..845413_POSITIVE 296 169 121 190 125 pint:PI1439|5end_hypothetical_protein_1360009..1360239_POSITIVE 289 39 7 58 25 pint:PI1579|5end_penicillin-binding_protein_2_1505713..1505943_POSITIVE 280 170 122 63 12 pint:PI1463|5end_fumarate_hydratase,_class_I_1385349..1385579_POSITIVE 279 169 125 220 161 pint:PI0840|5end_conserved_hypothetical_protein;_possible_transposase_774227..774457_POSITIVE 279 142 110 61 27 pint:PI0356|5end_hypothetical_protein_326642..326872_POSITIVE 278 160 111 64 17 pint:PI1447|5end_probable_OPT_oligopeptide_transporter_protein_1369972..1370202_POSITIVE 277 117 71 171 134 pint:PI1448|5end_hypothetical_protein_1371579..1371809_POSITIVE 275 164 126 89 50 pint:PI0715|5end_hypothetical_protein_652311..652541_POSITIVE 273 169 121 219 162 pint:PI1735|5end_conserved_hypothetical_protein_1653428..1653658_POSITIVE 273 168 136 210 175 pint:PI1609|5end_Na+/H+_anti-porter_1536058..1536288_POSITIVE 273 168 136 202 166 pint:PI0937|5end_hypothetical_protein_869235..869465_POSITIVE 272 168 136 167 132 pint:PI1903|5end_hypothetical_protein_1845292..1845522_POSITIVE 272 168 136 43 8 pint:PI1904|5end_glutamine_synthetase_1845168..1845398_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 430 59 11 84 36 pint:PI2019|3end_elongation_factor_P_1976774..1976924_POSITIVE 324 139 91 55 1 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 310 155 113 145 101 pint:PI0203|3end_conserved_hypothetical_protein_196064..196214_POSITIVE 301 61 23 147 112 pint:PI2075|3end_conserved_hypothetical_protein_2035355..2035505_POSITIVE 294 168 125 41 1 pint:PI1949|3end_aminotransferase,_class_V_1904530..1904680_POSITIVE 286 170 136 39 4 pint:PI1729|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase,_trigger_factor_1649935..1650085_POSITIVE 279 169 125 123 64 pint:PI0839|3end_conserved_hypothetical_protein_774210..774360_POSITIVE 279 142 110 37 3 pint:PI0355|3end_probable__N-acetylmuramoyl-L-alanine_amidase_326698..326848_POSITIVE 269 170 124 59 9 pint:PI2028|3end_shikimate_kinase_1982802..1982952_POSITIVE 267 169 127 147 85 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 263 148 113 46 6 pint:PI1944|3end_hypothetical_protein_1901990..1902140_POSITIVE 258 66 23 66 28 pint:PI0728|3end_integrase_661508..661658_POSITIVE 258 166 142 97 75 pint:PI0540|3end_conserved_hypothetical_protein_493865..494015_POSITIVE 258 156 111 58 1 pint:PI0507|3end_transcriptional_regulator_466547..466697_POSITIVE 257 156 120 91 52 pint:PI1795|3end_conserved_hypothetical_protein_1730486..1730636_POSITIVE 256 129 84 88 46 pint:PI1884|3end_conserved_hypothetical_protein_1827457..1827607_POSITIVE 256 169 125 120 74 pint:PI1065|3end_hypothetical_protein_983650..983800_POSITIVE 253 77 34 149 94 pint:PI1514|3end_tRNA_nucleotidyltransferase/poly(A)_polymerase_1434072..1434222_POSITIVE 253 155 112 125 71 pint:PI0428|3end_hypothetical_protein_396321..396471_POSITIVE 252 68 25 56 3 pint:PI0685|3end_elongation_factor_G_623048..623198_POSITIVE