Origin IGS: taatcgctgcatataaaatcgtaaaggagcgagaaggaaatatcgcccctttacgatagtaacattgagagaaaaccacttttcccactcacaacataaagacaaagaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattctttgtctttatgttgtgagtgggaaaagtggttttctctcaatgttactatcgtaaaggggcgatatttccttctcgctcctttacgattttatatgcagcgatta Mask Tandem Repeat Region ================================================ taatcgctgcatataaaatcgtaaaggagcgagaaggaaatatcgcccctttacgatagtaacattgagagaaaaccacttttcccactcacaacataaagacaaagaatt Find is-nt database================================================ Query_seq: PI1835:PI1836|PI1835:PI1836:L-asparaginase I:conserved hypothetical protein:->->:1777337..1777447 111 taatcgctgcatataaaatcgtaaaggagcgagaaggaaatatcgcccctttacgatagtaacattgagagaaaaccacttttcccactcacaacataaagacaaagaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1835:PI1836|PI1835:PI1836:L-asparaginase I:conserved hypothetical protein:->->:1777337..1777447 111 taatcgctgcatataaaatcgtaaaggagcgagaaggaaatatcgcccctttacgatagtaacattgagagaaaaccacttttcccactcacaacataaagacaaagaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1835:PI1836|PI1835:PI1836:L-asparaginase I:conserved hypothetical protein:->->:1777337..1777447 111 taatcgctgcatataaaatcgtaaaggagcgagaaggaaatatcgcccctttacgatagtaacattgagagaaaaccacttttcccactcacaacataaagacaaagaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatcgctgcatataaaatcgtaaaggagcgagaaggaaatatcgcccctttacgatagtaacattgagagaaaaccacttttcccactcacaacataaagacaaagaatt Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: - Start: 1 End: 105 L R Q M Y F R L P A L L F Y R G K V I T V N L S F W K E W E C C L S M ...... taatcgctgcatataaaatcgtaaaggagcgagaaggaaatatcgcccctttacgatagtaacattgagagaaaaccacttttcccactcacaacataaagacaaagaatt 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================================================ taatcgctgcatataaaatcgtaaaggagcgagaaggaaatatcgcccctttacgatagtaacattgagagaaaaccacttttcccactcacaacataaagacaaagaatt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -13.6 Tail_Score: -4.52589 Start: 19 End: 56 Full_Region: ctctcaatgttacta tcgtaaaggggcgata tttcct tctcgctcctttacga ttttatatgcagcga ..................tcgtaaaggggcgatatttccttctcgctcctttacga....................................................... Find igs database================================================ Query_seq: PI1835:PI1836|PI1835:PI1836:L-asparaginase I:conserved hypothetical protein:->->:1777337..1777447 111 taatcgctgcatataaaatcgtaaaggagcgagaaggaaatatcgcccctttacgatagtaacattgagagaaaaccacttttcccactcacaacataaagacaaagaatt Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: pint_PI1835_PI1836|L-asparaginase I:conserved hypothetical protein|POSITIVE:POSITIVE|[1777337,1777447]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 taatcgctgcatataaaatcgtaaaggagcgagaaggaaatatcgcccctttacgatagtaacattgagagaaaaccacttttcccactcacaacataaagacaaagaatt taatcgctgcatataaaatcgtaaaggagcgagaaggaaatatcgcccctttacgatagtaacattgagagaaaaccacttttcccactcacaacataaagacaaagaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCGCUGCAUAUAAAAUCGUAAAGGAGCGAGAAGGAAAUAUCGCCCCUUUACGAUAGUAACAUUGAGAGAAAACCACUUUUCCCACUCACAACAUAAAGACAAAGAAUU ...((..(((.......((((((((((.((((..........)))).))))))))))........((((.(((((....)))))...)))).........).))..))... (-24.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUCUUUGUCUUUAUGUUGUGAGUGGGAAAAGUGGUUUUCUCUCAAUGUUACUAUCGUAAAGGGGCGAUAUUUCCUUCUCGCUCCUUUACGAUUUUAUAUGCAGCGAUUA ...............((((((..(.(((((((....))))))).).((((....(((((((((((((((.(......).)))))))))))))))...)))))))))).... (-33.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 57 18 205 153 pint:PI0735|5end_ABC_transporter,_ATP-binding_/_permease_668793..669023_POSITIVE 296 53 16 77 37 pint:PI0248|5end_protein_associated_with_conjugate_transformation/chromosome_partioning_246139..246369_POSITIVE 279 70 21 199 141 pint:PI0505|5end_mobilization_protein_464578..464808_POSITIVE 279 70 21 80 22 pint:PI0504|5end_hypothetical_protein_464459..464689_POSITIVE 266 44 3 179 133 pint:PI0190|5end_3-dehydroquinate_dehydratase_II_180618..180848_POSITIVE 259 37 4 70 37 pint:PI1102|5end_conserved_hypothetical_protein_1025316..1025546_POSITIVE 257 56 21 195 157 pint:PI2115|5end_hypothetical_protein_2064966..2065196_POSITIVE 257 64 24 114 71 pint:PI1542|5end_mobilization_protein_1461728..1461958_POSITIVE 255 49 6 149 103 pint:PI1300|5end_probable_glycosyltransferase_1213190..1213420_POSITIVE 251 55 18 106 59 pint:PI0985|5end_aspartyl-tRNA_synthetase_910174..910404_POSITIVE 250 50 3 55 4 pint:PI0188|5end_phosphomethylpyrimidine_kinase_178433..178663_POSITIVE 243 70 25 164 122 pint:PI0533|5end_ABC_transporter,_permease_protein_487259..487489_POSITIVE 242 63 30 130 100 pint:PI1784|5end_possible_dTDP-glucose_4,6-dehydratase,_NAD-dependent_epimerase/dehydratase_family_1716201..1716431_POSITIVE 242 45 6 106 63 pint:PI0698|5end_conserved_hypothetical_protein_635372..635602_POSITIVE 242 50 6 54 12 pint:PI0247|5end_conjugative_transposon_protein,_TraA_245373..245603_POSITIVE 241 68 25 231 188 pint:PI1992|5end_hypothetical_protein_1946427..1946657_POSITIVE 241 60 19 76 33 pint:PI0570|5end_exsB_protein;_possible_aluminum_resistance_protein_514665..514895_POSITIVE 238 56 23 90 52 pint:PI1639|5end_conserved_hypothetical_protein_1556725..1556955_POSITIVE 238 68 25 48 8 pint:PI0113|5end_arginyl-tRNA_synthetase_108371..108601_POSITIVE 237 56 21 48 2 pint:PI1987|5end_conserved_hypothetical_protein;_possible_outer_outer_membrane_lipoprotein_Omp28_1941556..1941786_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 57 18 92 40 pint:PI0734|3end_ABC_transporter,_ATP-binding_/_permease_668760..668910_POSITIVE 298 57 18 73 34 pint:PI1835|3end_L-asparaginase_I_1777276..1777426_POSITIVE 296 53 16 90 50 pint:PI0247|3end_conjugative_transposon_protein,_TraA_246232..246382_POSITIVE 279 49 6 75 33 pint:PI1943|3end_hypothetical_protein_1902206..1902356_POSITIVE 275 50 8 98 33 pint:PI1062|3end_TPR_repeat_protein_980780..980930_POSITIVE 269 89 45 141 93 pint:PI0822|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_762025..762175_POSITIVE 262 55 18 105 60 pint:PI0914|3end_ATPase,_AAA_family_844992..845142_POSITIVE 259 56 20 75 43 pint:PI1440|3end_conserved_hypothetical_protein_1363009..1363159_POSITIVE 257 64 24 77 34 pint:PI1540|3end_hypothetical_protein_1461771..1461921_POSITIVE 255 49 6 130 84 pint:PI1299|3end_glycosyltransferase_1213251..1213401_POSITIVE 243 49 3 70 9 pint:PI0377|3end_DNA_primase/mobilizable_transposon,_excision_protein_347823..347973_POSITIVE 241 68 25 94 51 pint:PI1991|3end_conserved_hypothetical_protein_1946370..1946520_POSITIVE 238 87 43 137 107 pint:PI0694|3end_Na+/dicarboxylate_or_sulfate_symporter_631177..631327_POSITIVE 238 68 25 124 84 pint:PI0114|3end_hypothetical_protein_108527..108677_POSITIVE 237 47 3 72 13 pint:PI1006|3end_conserved_hypothetical_protein_927049..927199_POSITIVE 235 46 1 144 95 pint:PI1450|3end_hypothetical_protein_1372891..1373041_POSITIVE 232 48 3 124 79 pint:PI1343|3end_conserved_hypothetical_protein_1258539..1258689_POSITIVE 232 73 40 54 23 pint:PI0507|3end_transcriptional_regulator_466547..466697_POSITIVE 231 68 26 119 76 pint:PI0421|3end_hypothetical_protein_387774..387924_POSITIVE 226 51 26 109 82 pint:PI0040|3end_conserved_hypothetical_protein_(possible_integral_membrane_protein)_41872..42022_POSITIVE