Origin IGS: taataatctgccattgctgaatcgaaaaacttgctttaaaatacaatgcgagattgtccattaaaggataatcccgcattgtttcttataatattaaagttgtatcgaactgttctaacgatgaggcaaaacgagcatagattta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaatctatgctcgttttgcctcatcgttagaacagttcgatacaactttaatattataagaaacaatgcgggattatcctttaatggacaatctcgcattgtattttaaagcaagtttttcgattcagcaatggcagattatta Mask Tandem Repeat Region ================================================ taataatctgccattgctgaatcgaaaaacttgctttaaaatacaatgcgagattgtccattaaaggataatcccgcattgtttcttataatattaaagttgtatcgaactgttctaacgatgaggcaaaacgagcatagattta Find is-nt database================================================ Query_seq: PI0099:PI0100|PI0099:PI0100:hypothetical protein:LPS biosynthesis protein (lipopolysaccharide biosynthesis protein):->->:95838..95982 145 taataatctgccattgctgaatcgaaaaacttgctttaaaatacaatgcgagattgtccattaaaggataatcccgcattgtttcttataatattaaagttgtatcgaactgttctaacgatgaggcaaaacgagcatagattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0099:PI0100|PI0099:PI0100:hypothetical protein:LPS biosynthesis protein (lipopolysaccharide biosynthesis protein):->->:95838..95982 145 taataatctgccattgctgaatcgaaaaacttgctttaaaatacaatgcgagattgtccattaaaggataatcccgcattgtttcttataatattaaagttgtatcgaactgttctaacgatgaggcaaaacgagcatagattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0099:PI0100|PI0099:PI0100:hypothetical protein:LPS biosynthesis protein (lipopolysaccharide biosynthesis protein):->->:95838..95982 145 taataatctgccattgctgaatcgaaaaacttgctttaaaatacaatgcgagattgtccattaaaggataatcccgcattgtttcttataatattaaagttgtatcgaactgttctaacgatgaggcaaaacgagcatagattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taataatctgccattgctgaatcgaaaaacttgctttaaaatacaatgcgagattgtccattaaaggataatcccgcattgtttcttataatattaaagttgtatcgaactgttctaacgatgaggcaaaacgagcatagattta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 46 End: 144 ............................................. M R D C P L K D N P A L F L I I L K L Y R T V L T M R Q N E H R F . taataatctgccattgctgaatcgaaaaacttgctttaaaatacaatgcgagattgtccattaaaggataatcccgcattgtttcttataatattaaagttgtatcgaactgttctaacgatgaggcaaaacgagcatagattta 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: 84 Start: 13 End: 42 ............ATTGCTGAATCGAAAAACTTGCTTTAAAAT....................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taataatctgccattgctgaatcgaaaaacttgctttaaaatacaatgcgagattgtccattaaaggataatcccgcattgtttcttataatattaaagttgtatcgaactgttctaacgatgaggcaaaacgagcatagattta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 93 HP_score: -11.0 Tail_Score: -4.0896 Start: 42 End: 83 Full_Region: tttaatattataaga aacaatgcgggattatcc tttaat ggacaatctcgcattgta ttttaaagcaagttt .........................................aacaatgcgggattatcctttaatggacaatctcgcattgta.............................................................. TransTerm Strand: + Conf: 100 HP_score: -13.6 Tail_Score: -4.39277 Start: 44 End: 81 Full_Region: ACTTGCTTTAAAATA CAATGCGAGATTGTCC ATTAAA GGATAATCCCGCATTG TTTCTTATAATATTA ...........................................CAATGCGAGATTGTCCATTAAAGGATAATCCCGCATTG................................................................ TransTerm Strand: - Conf: 100 HP_score: -13.6 Tail_Score: -3.63922 Start: 44 End: 81 Full_Region: taatattataagaaa caatgcgggattatcc tttaat ggacaatctcgcattg tattttaaagcaagt ...........................................caatgcgggattatcctttaatggacaatctcgcattg................................................................ Find igs database================================================ Query_seq: PI0099:PI0100|PI0099:PI0100:hypothetical protein:LPS biosynthesis protein (lipopolysaccharide biosynthesis protein):->->:95838..95982 145 taataatctgccattgctgaatcgaaaaacttgctttaaaatacaatgcgagattgtccattaaaggataatcccgcattgtttcttataatattaaagttgtatcgaactgttctaacgatgaggcaaaacgagcatagattta Intra-Species Hit: Count: 1 Min: 1 Max: 145 Len: 145 Subject: pint_PI0099_PI0100|hypothetical protein:LPS biosynthesis protein (lipopolysaccharide biosynthesis protein)|POSITIVE:POSITIVE|[95838,95982]|145 HSP 1 e-value: 5.0E-77 bit: 287.0 Len: 145 Query Start:1 Query End:145 Subject Strand: POSITIVE Subject Start: 1 Subject End: 145 taataatctgccattgctgaatcgaaaaacttgctttaaaatacaatgcgagattgtccattaaaggataatcccgcattgtttcttataatattaaagttgtatcgaactgttctaacgatgaggcaaaacgagcatagattta taataatctgccattgctgaatcgaaaaacttgctttaaaatacaatgcgagattgtccattaaaggataatcccgcattgtttcttataatattaaagttgtatcgaactgttctaacgatgaggcaaaacgagcatagattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAUCUGCCAUUGCUGAAUCGAAAAACUUGCUUUAAAAUACAAUGCGAGAUUGUCCAUUAAAGGAUAAUCCCGCAUUGUUUCUUAUAAUAUUAAAGUUGUAUCGAACUGUUCUAACGAUGAGGCAAAACGAGCAUAGAUUUA ....((((((((.(((((..((((..................((((((((.((((((((......)))))))).))))))))(((.((((((......))))))..))).........))))..)))))...).))..))))).. (-37.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUCUAUGCUCGUUUUGCCUCAUCGUUAGAACAGUUCGAUACAACUUUAAUAUUAUAAGAAACAAUGCGGGAUUAUCCUUUAAUGGACAAUCUCGCAUUGUAUUUUAAAGCAAGUUUUUCGAUUCAGCAAUGGCAGAUUAUUA ..(((((..(((....((((...((((..(((((.((.....)).............(((((.(((((((((((((.(((......))).))))))))))))).)))))......))))).))))...)))).)))))))).... (-40.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 521 87 43 159 114 pint:PI0820|5end_hypothetical_protein_759694..759924_POSITIVE 361 100 52 129 81 pint:PI1005|5end_hypothetical_protein_926201..926431_POSITIVE 273 139 106 164 132 pint:PI0280|5end_conserved_hypothetical_protein_266001..266231_POSITIVE 267 137 94 101 57 pint:PI0300|5end_transposase_285163..285393_POSITIVE 260 128 83 86 41 pint:PI0530|5end_possible_membrane-fusion_protein_483772..484002_POSITIVE 254 137 98 176 145 pint:PI1925|5end_conserved_hypothetical_protein_1866387..1866617_POSITIVE 249 136 98 48 6 pint:PI2150|5end_acyl_carrier_protein_2096972..2097202_POSITIVE 243 81 45 156 122 pint:PI1639|5end_conserved_hypothetical_protein_1556725..1556955_POSITIVE 242 137 91 166 113 pint:PI0701|5end_hypothetical_protein_638356..638586_POSITIVE 241 139 104 171 128 pint:PI0683|5end_hypothetical_protein_619292..619522_POSITIVE 239 37 6 190 158 pint:PI0188|5end_phosphomethylpyrimidine_kinase_178433..178663_POSITIVE 237 52 11 37 5 pint:PI0940|5end_ribonuclease_G_872781..873011_POSITIVE 236 90 47 165 121 pint:PI2129|5end_octaprenyl-diphosphate_synthase_2076808..2077038_POSITIVE 236 56 11 129 88 pint:PI1069|5end_hypothetical_protein_988067..988297_POSITIVE 232 87 49 192 153 pint:PI1560|5end_integrase_1476962..1477192_POSITIVE 232 134 105 165 140 pint:PI1179|5end_adenylosuccinate_synthetase_1100628..1100858_POSITIVE 231 77 31 114 66 pint:PI1999|5end_hypothetical_protein_1956457..1956687_POSITIVE 231 133 101 139 108 pint:PI0790|5end_hypothetical_protein_728953..729183_POSITIVE 231 139 100 73 40 pint:PI0492|5end_hypothetical_protein_451701..451931_POSITIVE 230 139 91 164 109 pint:PI1754|5end_conserved_hypothetical_protein_1681202..1681432_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 478 87 45 44 1 pint:PI0818|3end_alpha-amylase_759659..759809_POSITIVE 421 82 43 48 9 pint:PI0099|3end_hypothetical_protein_95777..95927_POSITIVE 361 100 52 65 17 pint:PI1004|3end_conserved_hypothetical_protein_926217..926367_POSITIVE 270 84 43 48 5 pint:PI1748|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase/possible_(p)ppgpp_synthetase_II_1670922..1671072_POSITIVE 242 137 91 143 90 pint:PI0700|3end_UDP-glucose_4-epimerase_638413..638563_POSITIVE 241 139 104 55 12 pint:PI0681|3end_hypothetical_protein_619256..619406_POSITIVE 241 50 6 77 41 pint:PI0028|3end_aminopeptidase_32727..32877_POSITIVE 238 133 101 133 104 pint:PI1554|3end_hypothetical_protein_1470483..1470633_POSITIVE 236 90 47 102 58 pint:PI2128|3end_hypothetical_protein_2076825..2076975_POSITIVE 233 140 97 51 10 pint:PI0189|3end_integrase_180437..180587_POSITIVE 232 87 49 122 83 pint:PI1559|3end_hypothetical_protein_1476972..1477122_POSITIVE 227 127 82 97 51 pint:PI0133|3end_hypothetical_protein_124632..124782_POSITIVE 225 50 5 128 71 pint:PI0921|3end_acyltransferase_852919..853069_POSITIVE 221 48 8 74 38 pint:PI1466|3end_GTP-binding_protein,_possible_GTP1/OBG_family_1393133..1393283_POSITIVE 216 80 42 111 70 pint:PI0797|3end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735752..735902_POSITIVE 215 57 11 120 74 pint:PI1943|3end_hypothetical_protein_1902206..1902356_POSITIVE 215 84 44 135 97 pint:PI1150|3end_30S_ribosomal_protein_S6_1076104..1076254_POSITIVE 215 125 110 70 55 pint:PI0191|3end_O-methyltransferase_181785..181935_POSITIVE 214 94 52 76 36 pint:PI1363|3end_hypothetical_protein_1281922..1282072_POSITIVE 213 51 12 59 13 pint:PI0042|3end_hypothetical_protein_43444..43594_POSITIVE