Origin IGS: taagaaggaaagcagaaattatatcattgcagtatcgcaattattcatattcgtatgagtaattgcgatattttgtttatacgatattttcatattctgaaaaaataatataaatttgcgttataacctaataaatggatagatagcgagcaagtccatacatatttgtttataatagtatgaaaatgcagcttgatagttagcatggagaagcatttatattgtattactttaaataattgaatt .........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 aattcaattatttaaagtaatacaatataaatgcttctccatgctaactatcaagctgcattttcatactattataaacaaatatgtatggacttgctcgctatctatccatttattaggttataacgcaaatttatattattttttcagaatatgaaaatatcgtataaacaaaatatcgcaattactcatacgaatatgaataattgcgatactgcaatgatataatttctgctttccttctta Mask Tandem Repeat Region ================================================ taagaaggaaagcagaaattatatcattgcagtatcgcaattattcatattcgtatgagtaattgcgatattttgtttatacgatattttcatattctgaaaaaataatataaatttgcgttataacctaataaatggatagatagcgagcaagtccatacatatttgtttataatagtatgaaaatgcagcttgatagttagcatggagaagcatttatattgtattactttaaataattgaatt Find is-nt database================================================ Query_seq: PI0453:PI0455|PI0453:PI0455:conserved hypothetical protein:hypothetical protein:->->:427255..427500 246 taagaaggaaagcagaaattatatcattgcagtatcgcaattattcatattcgtatgagtaattgcgatattttgtttatacgatattttcatattctgaaaaaataatataaatttgcgttataacctaataaatggatagatagcgagcaagtccatacatatttgtttataatagtatgaaaatgcagcttgatagttagcatggagaagcatttatattgtattactttaaataattgaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0453:PI0455|PI0453:PI0455:conserved hypothetical protein:hypothetical protein:->->:427255..427500 246 taagaaggaaagcagaaattatatcattgcagtatcgcaattattcatattcgtatgagtaattgcgatattttgtttatacgatattttcatattctgaaaaaataatataaatttgcgttataacctaataaatggatagatagcgagcaagtccatacatatttgtttataatagtatgaaaatgcagcttgatagttagcatggagaagcatttatattgtattactttaaataattgaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0453:PI0455|PI0453:PI0455:conserved hypothetical protein:hypothetical protein:->->:427255..427500 246 taagaaggaaagcagaaattatatcattgcagtatcgcaattattcatattcgtatgagtaattgcgatattttgtttatacgatattttcatattctgaaaaaataatataaatttgcgttataacctaataaatggatagatagcgagcaagtccatacatatttgtttataatagtatgaaaatgcagcttgatagttagcatggagaagcatttatattgtattactttaaataattgaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagaaggaaagcagaaattatatcattgcagtatcgcaattattcatattcgtatgagtaattgcgatattttgtttatacgatattttcatattctgaaaaaataatataaatttgcgttataacctaataaatggatagatagcgagcaagtccatacatatttgtttataatagtatgaaaatgcagcttgatagttagcatggagaagcatttatattgtattactttaaataattgaatt Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 124 End: 216 ........................................................................................................................... L R I F P Y I A L L D M C I Q K Y Y Y S F A A Q Y N A H L L M .............................. Protein_Len: 51 Strand: - Start: 93 End: 245 ............................................................................................ I R F F Y Y L N A N Y G L L H I S L S C T W V Y K N I I T H F H L K I T L M S F C K Y Q I V K F L Q M . Protein_Len: 30 Strand: - Start: 22 End: 111 ..................... I M A T D C N N M N T H T I A I N Q K Y S I K M N Q F F L M ....................................................................................................................................... taagaaggaaagcagaaattatatcattgcagtatcgcaattattcatattcgtatgagtaattgcgatattttgtttatacgatattttcatattctgaaaaaataatataaatttgcgttataacctaataaatggatagatagcgagcaagtccatacatatttgtttataatagtatgaaaatgcagcttgatagttagcatggagaagcatttatattgtattactttaaataattgaatt 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================================================ taagaaggaaagcagaaattatatcattgcagtatcgcaattattcatattcgtatgagtaattgcgatattttgtttatacgatattttcatattctgaaaaaataatataaatttgcgttataacctaataaatggatagatagcgagcaagtccatacatatttgtttataatagtatgaaaatgcagcttgatagttagcatggagaagcatttatattgtattactttaaataattgaatt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -16.7 Tail_Score: -4.99645 Start: 33 End: 70 Full_Region: ATTATATCATTGCAG TATCGCAATTATTCATA TTCG TATGAGTAATTGCGATA TTTTGTTTATACGAT ................................TATCGCAATTATTCATATTCGTATGAGTAATTGCGATA................................................................................................................................................................................ Find igs database================================================ Query_seq: PI0453:PI0455|PI0453:PI0455:conserved hypothetical protein:hypothetical protein:->->:427255..427500 246 taagaaggaaagcagaaattatatcattgcagtatcgcaattattcatattcgtatgagtaattgcgatattttgtttatacgatattttcatattctgaaaaaataatataaatttgcgttataacctaataaatggatagatagcgagcaagtccatacatatttgtttataatagtatgaaaatgcagcttgatagttagcatggagaagcatttatattgtattactttaaataattgaatt Intra-Species Hit: Count: 1 Min: 1 Max: 246 Len: 246 Subject: pint_PI0453_PI0455|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[427255,427500]|246 HSP 1 e-value: 1.0E-137 bit: 488.0 Len: 246 Query Start:1 Query End:246 Subject Strand: POSITIVE Subject Start: 1 Subject End: 246 taagaaggaaagcagaaattatatcattgcagtatcgcaattattcatattcgtatgagtaattgcgatattttgtttatacgatattttcatattctgaaaaaataatataaatttgcgttataacctaataaatggatagatagcgagcaagtccatacatatttgtttataatagtatgaaaatgcagcttgatagttagcatggagaagcatttatattgtattactttaaataattgaatt taagaaggaaagcagaaattatatcattgcagtatcgcaattattcatattcgtatgagtaattgcgatattttgtttatacgatattttcatattctgaaaaaataatataaatttgcgttataacctaataaatggatagatagcgagcaagtccatacatatttgtttataatagtatgaaaatgcagcttgatagttagcatggagaagcatttatattgtattactttaaataattgaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAAGGAAAGCAGAAAUUAUAUCAUUGCAGUAUCGCAAUUAUUCAUAUUCGUAUGAGUAAUUGCGAUAUUUUGUUUAUACGAUAUUUUCAUAUUCUGAAAAAAUAAUAUAAAUUUGCGUUAUAACCUAAUAAAUGGAUAGAUAGCGAGCAAGUCCAUACAUAUUUGUUUAUAAUAGUAUGAAAAUGCAGCUUGAUAGUUAGCAUGGAGAAGCAUUUAUAUUGUAUUACUUUAAAUAAUUGAAUU ......(((..((.................(((((((((((((((((((....)))))))))))))))))))..(((((((..((.((((((.....)))))).))..)))))))...((((((..((........))....)))))).))...)))...((...(((((((...(((((..(((((((..(((.((.(....))).)))..))))))...)..)))))...))))))).)).... (-56.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUCAAUUAUUUAAAGUAAUACAAUAUAAAUGCUUCUCCAUGCUAACUAUCAAGCUGCAUUUUCAUACUAUUAUAAACAAAUAUGUAUGGACUUGCUCGCUAUCUAUCCAUUUAUUAGGUUAUAACGCAAAUUUAUAUUAUUUUUUCAGAAUAUGAAAAUAUCGUAUAAACAAAAUAUCGCAAUUACUCAUACGAAUAUGAAUAAUUGCGAUACUGCAAUGAUAUAAUUUCUGCUUUCCUUCUUA ................(((((.....(((((((.........(((........))).(((..(((((((((((.......)))).)))))))..)))............)))))))...)))))...(((((.((((((((((....(((.((((((.....))))))........(((((((((((.(((((....))))).)))))))))))))).)))))))))).)).)))........... (-48.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 252 227 190 164 125 pint:PI0962|5end_phosphoglycerate_mutase_892101..892331_POSITIVE 250 37 5 70 37 pint:PI1500|5end_hypothetical_protein_1420626..1420856_POSITIVE 245 68 29 98 49 pint:PI0572|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_516382..516612_POSITIVE 243 218 180 67 24 pint:PI1974|5end_hypothetical_protein_1931193..1931423_POSITIVE 242 224 186 47 13 pint:PI1799|5end_30S_ribosomal_protein_S2_1732900..1733130_POSITIVE 235 157 117 63 27 pint:PI1405|5end_conserved_hypothetical_protein_1326035..1326265_POSITIVE 232 68 27 72 26 pint:PI0523|5end_hypothetical_protein_479468..479698_POSITIVE 229 214 186 47 19 pint:PI2001|5end_hypothetical_protein_1959850..1960080_POSITIVE 228 220 181 118 81 pint:PI0310|5end_outer_membrane_protein_291657..291887_POSITIVE 226 43 4 97 52 pint:PI1290|5end_ATP_synthase,_beta_subunit_1203059..1203289_POSITIVE 225 226 187 180 138 pint:PI1448|5end_hypothetical_protein_1371579..1371809_POSITIVE 225 230 181 191 132 pint:PI0719|5end_conserved_hypothetical_protein_653043..653273_POSITIVE 224 215 177 49 6 pint:PI1677|5end_cell_division_protein_FtsH_1591766..1591996_POSITIVE 222 200 151 65 21 pint:PI1352|5end_conserved_hypothetical_protein_1268400..1268630_POSITIVE 222 150 119 64 31 pint:PI1337|5end_conserved_hypothetical_protein_1254406..1254636_POSITIVE 221 100 53 188 148 pint:PI1278|5end_ribulose-phosphate_3-epimerase_(pentose-5-phosphate-3-epimerase)_1194567..1194797_POSITIVE 221 100 53 55 15 pint:PI1277|5end_hypothetical_protein_1194434..1194664_POSITIVE 221 230 190 97 51 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 220 225 187 223 180 pint:PI2085|5end_conserved_hypothetical_protein_2041100..2041330_POSITIVE 220 238 193 149 110 pint:PI1045|5end_cytidine/deoxycytidylate_deaminase_family_protein_965104..965334_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 470 72 31 60 19 pint:PI0453|3end_conserved_hypothetical_protein_427194..427344_POSITIVE 290 155 114 113 73 pint:PI1720|3end_conserved_hypothetical_protein_1637992..1638142_POSITIVE 249 184 145 70 27 pint:PI0487|3end_50S_ribosomal_protein_L17_446703..446853_POSITIVE 245 156 115 141 92 pint:PI1906|3end_zinc_protease,_immunoreactive_106_kDa_antigen_PG115_1850901..1851051_POSITIVE 245 68 29 85 36 pint:PI0571|3end_conserved_hypothetical_protein;_possible_permease_516449..516599_POSITIVE 241 233 191 102 60 pint:PI0011|3end_conserved_hypothetical_protein_13328..13478_POSITIVE 240 226 190 40 1 pint:PI0663|3end_possible_transcriptional_regulator_606543..606693_POSITIVE 238 48 2 75 31 pint:PI0743|3end_hypothetical_protein_673026..673176_POSITIVE 237 74 31 128 79 pint:PI0508|3end_possible_cell_filamentation_protein_467436..467586_POSITIVE 231 232 192 121 75 pint:PI2114|3end_conserved_hypothetical_protein_2064789..2064939_POSITIVE 230 180 136 72 24 pint:PI0953|3end_hypothetical_protein_885390..885540_POSITIVE 230 180 136 130 82 pint:PI0951|3end_hypothetical_protein_885448..885598_POSITIVE 228 220 181 110 73 pint:PI0309|3end_hypothetical_protein_291729..291879_POSITIVE 226 217 187 89 52 pint:PI2041|3end_conserved_hypothetical_protein_1994660..1994810_POSITIVE 226 43 4 66 21 pint:PI1289|3end_ATP_synthase,_delta/epsilon_subunit_1203108..1203258_POSITIVE 225 155 117 122 92 pint:PI0963|3end_hypothetical_protein_893637..893787_POSITIVE 224 215 175 108 73 pint:PI1993|3end_thiol_protease/hemagglutinin,_PrtT_precursor_1948992..1949142_POSITIVE 222 200 151 71 27 pint:PI1351|3end_conserved_hypothetical_protein_1268486..1268636_POSITIVE 222 150 119 45 12 pint:PI1336|3end_dTDP-4-dehydrorhamnose_3,5-epimerase_1254467..1254617_POSITIVE 221 230 190 87 41 pint:PI0087|3end_conserved_hypothetical_protein_86733..86883_POSITIVE