Origin IGS: tcgccacgcactatctaccttccttcaaaaatacaggaaatagctgatgcgattataaaaatagaaaaagccatatctttttcctctttgaggatagagatatggcttttatataaacttatatttacacgaaatatgtaaatagcaagattcttacctcgtaagaacaggcagttttgcctatcattacagcatta .........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 taatgctgtaatgataggcaaaactgcctgttcttacgaggtaagaatcttgctatttacatatttcgtgtaaatataagtttatataaaagccatatctctatcctcaaagaggaaaaagatatggctttttctatttttataatcgcatcagctatttcctgtatttttgaaggaaggtagatagtgcgtggcga Mask Tandem Repeat Region ================================================ tcgccacgcactatctaccttccttcaaaaatacaggaaatagctgatgcgattataaaaatagaaaaagccatatctttttcctctttgaggatagagatatggcttttatataaacttatatttacacgaaatatgtaaatagcaagattcttacctcgtaagaacaggcagttttgcctatcattacagcatta Find is-nt database================================================ Query_seq: PI1985:PI1986|PI1985:PI1986:hypothetical protein:hypothetical protein:->->:1940806..1941002 197 tcgccacgcactatctaccttccttcaaaaatacaggaaatagctgatgcgattataaaaatagaaaaagccatatctttttcctctttgaggatagagatatggcttttatataaacttatatttacacgaaatatgtaaatagcaagattcttacctcgtaagaacaggcagttttgcctatcattacagcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1985:PI1986|PI1985:PI1986:hypothetical protein:hypothetical protein:->->:1940806..1941002 197 tcgccacgcactatctaccttccttcaaaaatacaggaaatagctgatgcgattataaaaatagaaaaagccatatctttttcctctttgaggatagagatatggcttttatataaacttatatttacacgaaatatgtaaatagcaagattcttacctcgtaagaacaggcagttttgcctatcattacagcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1985:PI1986|PI1985:PI1986:hypothetical protein:hypothetical protein:->->:1940806..1941002 197 tcgccacgcactatctaccttccttcaaaaatacaggaaatagctgatgcgattataaaaatagaaaaagccatatctttttcctctttgaggatagagatatggcttttatataaacttatatttacacgaaatatgtaaatagcaagattcttacctcgtaagaacaggcagttttgcctatcattacagcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcgccacgcactatctaccttccttcaaaaatacaggaaatagctgatgcgattataaaaatagaaaaagccatatctttttcctctttgaggatagagatatggcttttatataaacttatatttacacgaaatatgtaaatagcaagattcttacctcgtaagaacaggcagttttgcctatcattacagcatta Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 13 End: 138 ............ M Y L P S K I Q E I A D A I I K I E K A I S F S S L R I E I W L L Y K L I F T R N M ........................................................... Protein_Len: 51 Strand: - Start: 18 End: 170 ................. R G E F I C S I A S A I I F I S F A M D K E E K L I S I H S K Y L S I N V R F I Y I A L N K G R L F M ........................... tcgccacgcactatctaccttccttcaaaaatacaggaaatagctgatgcgattataaaaatagaaaaagccatatctttttcctctttgaggatagagatatggcttttatataaacttatatttacacgaaatatgtaaatagcaagattcttacctcgtaagaacaggcagttttgcctatcattacagcatta 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================================================ tcgccacgcactatctaccttccttcaaaaatacaggaaatagctgatgcgattataaaaatagaaaaagccatatctttttcctctttgaggatagagatatggcttttatataaacttatatttacacgaaatatgtaaatagcaagattcttacctcgtaagaacaggcagttttgcctatcattacagcatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -17.5 Tail_Score: -4.55118 Start: 70 End: 106 Full_Region: ATAAAAATAGAAAAA GCCATATCTTTTTCCTC TTT GAGGATAGAGATATGGC TTTTATATAAACTTA .....................................................................GCCATATCTTTTTCCTCTTTGAGGATAGAGATATGGC........................................................................................... TransTerm Strand: - Conf: 100 HP_score: -15.3 Tail_Score: -5.38398 Start: 70 End: 106 Full_Region: taagtttatataaaa gccatatctctatcctc aaa gaggaaaaagatatggc tttttctatttttat .....................................................................gccatatctctatcctcaaagaggaaaaagatatggc........................................................................................... TransTerm Strand: - Conf: 47 HP_score: -4.3 Tail_Score: -2.73529 Start: 122 End: 144 Full_Region: aggtaagaatcttgc tatttacat atttc gtgtaaata taagtttatataaaa .........................................................................................................................tatttacatatttcgtgtaaata..................................................... Find igs database================================================ Query_seq: PI1985:PI1986|PI1985:PI1986:hypothetical protein:hypothetical protein:->->:1940806..1941002 197 tcgccacgcactatctaccttccttcaaaaatacaggaaatagctgatgcgattataaaaatagaaaaagccatatctttttcctctttgaggatagagatatggcttttatataaacttatatttacacgaaatatgtaaatagcaagattcttacctcgtaagaacaggcagttttgcctatcattacagcatta Intra-Species Hit: Count: 1 Min: 1 Max: 197 Len: 197 Subject: pint_PI1985_PI1986|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1940806,1941002]|197 HSP 1 e-value: 1.0E-108 bit: 391.0 Len: 197 Query Start:1 Query End:197 Subject Strand: POSITIVE Subject Start: 1 Subject End: 197 tcgccacgcactatctaccttccttcaaaaatacaggaaatagctgatgcgattataaaaatagaaaaagccatatctttttcctctttgaggatagagatatggcttttatataaacttatatttacacgaaatatgtaaatagcaagattcttacctcgtaagaacaggcagttttgcctatcattacagcatta tcgccacgcactatctaccttccttcaaaaatacaggaaatagctgatgcgattataaaaatagaaaaagccatatctttttcctctttgaggatagagatatggcttttatataaacttatatttacacgaaatatgtaaatagcaagattcttacctcgtaagaacaggcagttttgcctatcattacagcatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGCCACGCACUAUCUACCUUCCUUCAAAAAUACAGGAAAUAGCUGAUGCGAUUAUAAAAAUAGAAAAAGCCAUAUCUUUUUCCUCUUUGAGGAUAGAGAUAUGGCUUUUAUAUAAACUUAUAUUUACACGAAAUAUGUAAAUAGCAAGAUUCUUACCUCGUAAGAACAGGCAGUUUUGCCUAUCAUUACAGCAUUA ..((..((((.((.(((..(((((..........))))).))).)).))))..............(((((((((((((((.(((((...))))).))))))))))))))).......(((.((((((((.......))))))))..))).(((((((...))))))).((((......)))).........)).... (-53.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGCUGUAAUGAUAGGCAAAACUGCCUGUUCUUACGAGGUAAGAAUCUUGCUAUUUACAUAUUUCGUGUAAAUAUAAGUUUAUAUAAAAGCCAUAUCUCUAUCCUCAAAGAGGAAAAAGAUAUGGCUUUUUCUAUUUUUAUAAUCGCAUCAGCUAUUUCCUGUAUUUUUGAAGGAAGGUAGAUAGUGCGUGGCGA ...((((((((.((((((((....)))))))).))))...((((((((((((.(((((((((.....))))))))))))).......(((((((((((((.(.(((((...))))).).)))))))))))))...))))))))...(((((...(((((((((..........))))).))))...))))).)))). (-63.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 180 136 226 189 pint:PI0294|5end_conserved_hypothetical_protein_276223..276453_POSITIVE 283 46 2 53 17 pint:PI0894|5end_2-oxoglutarate_oxidoreductase,_gamma_subunit_(2-oxoglutarate-ferredoxin_oxidoreductase)_825776..826006_POSITIVE 279 108 61 56 12 pint:PI1864|5end_chromate_transport_protein_1810318..1810548_POSITIVE 248 186 145 201 157 pint:PI0723|5end_conserved_hypothetical_protein_656043..656273_POSITIVE 246 106 70 129 87 pint:PI1705|5end_3-oxoacyl-(acyl-carrier-protein)_synthase_III_1621781..1622011_POSITIVE 242 107 69 44 11 pint:PI1598|5end_phosphate_ABC_transporter,_phosphate-binding_component_1526646..1526876_POSITIVE 238 188 154 50 13 pint:PI0814|5end_conserved_hypothetical_protein_752946..753176_POSITIVE 238 49 1 169 113 pint:PI0043|5end_thiamine_phosphate_pyrophosphorylase_42294..42524_POSITIVE 234 188 142 154 115 pint:PI1122|5end_pyridoxal-phosphate-dependent_aminotransferase_1046636..1046866_POSITIVE 234 110 69 64 17 pint:PI0478|5end_50S_ribosomal_protein_L30_440923..441153_POSITIVE 233 36 3 69 34 pint:PI1829|5end_hypothetical_protein_1769255..1769485_POSITIVE 231 48 3 109 64 pint:PI0872|5end_hypothetical_protein_807371..807601_POSITIVE 230 48 1 90 42 pint:PI0096|5end_glycerol-3-phosphate_cytidylyltransferase_91885..92115_POSITIVE 229 183 152 48 6 pint:PI1696|5end_conserved_hypothetical_protein_1610544..1610774_POSITIVE 229 49 1 164 122 pint:PI0265|5end_conjugative_transposon_protein,_TraO_257296..257526_POSITIVE 228 105 65 60 8 pint:PI1902|5end_hypothetical_protein_1844931..1845161_POSITIVE 228 110 70 203 161 pint:PI0220|5end_conserved_hypothetical_protein_211980..212210_POSITIVE 227 178 144 115 77 pint:PI0588|5end_hypothetical_protein_535016..535246_POSITIVE 225 113 71 65 8 pint:PI1626|5end_hypothetical_protein_1550194..1550424_POSITIVE 224 106 70 215 180 pint:PI0355|5end_probable__N-acetylmuramoyl-L-alanine_amidase_326157..326387_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 507 110 66 65 21 pint:PI1984|3end_MutT/nudix_family_protein_1940785..1940935_POSITIVE 279 108 61 50 6 pint:PI1863|3end_phosphoribosylformylglycinamidine_synthase_1810392..1810542_POSITIVE 248 106 68 87 50 pint:PI0214|3end_hypothetical_protein_208650..208800_POSITIVE 247 107 69 73 37 pint:PI1577|3end_conserved_hypothetical_protein_1503879..1504029_POSITIVE 240 186 169 122 105 pint:PI2039|3end_hypothetical_protein_1992991..1993141_POSITIVE 234 188 142 145 106 pint:PI1121|3end_glycosyltransferase_1046707..1046857_POSITIVE 225 113 71 59 2 pint:PI1625|3end_conserved_hypothetical_protein;_possible_phage_transposase_1550268..1550418_POSITIVE 224 110 90 25 5 pint:PI1985|3end_hypothetical_protein_1940745..1940895_POSITIVE 223 183 155 97 74 pint:PI0243|3end_hypothetical_protein_240738..240888_POSITIVE 219 173 136 68 36 pint:PI0738|3end_conserved_hypothetical_protein_671871..672021_POSITIVE 217 28 1 50 8 pint:PI0868|3end_exodeoxyribonuclease_VII,_large_subunit_805576..805726_POSITIVE 217 23 1 149 122 pint:PI0817|3end_glycosyl_transferase,_group_1_family_protein_758209..758359_POSITIVE 216 54 16 46 18 pint:PI0747|3end_possible_mobilization_protein_676702..676852_POSITIVE 215 183 145 134 94 pint:PI0184|3end_possible_fibronectin_type_III_domain_protein_176516..176666_POSITIVE 210 110 69 45 10 pint:PI1404|3end_hypothetical_protein_1325999..1326149_POSITIVE 209 189 169 137 114 pint:PI1151|3end_hypothetical_protein_1076382..1076532_POSITIVE 209 105 85 94 74 pint:PI0925|3end_ribosomal_protein_L11_methyltransferase_856638..856788_POSITIVE 209 115 72 58 15 pint:PI0176|3end_hypothetical_protein_168441..168591_POSITIVE 208 57 14 109 60 pint:PI1524|3end_phosphatidylserine_decarboxylase_1446657..1446807_POSITIVE 206 180 140 40 3 pint:PI1748|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase/possible_(p)ppgpp_synthetase_II_1670922..1671072_POSITIVE