Origin IGS: taacctcaatcggtagttaaattgcgctgtcttttgctgtaaatgccaattgctaaacgttactatgacagtatctatcttgccccacctatgtaaagataatgattttaaagctaaccacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggga .........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 tccctattttccagctctctttttctctatttcaccctttccgcttgtgttaaatttattgccccatttacttgattttagaacaataaatcggaagtgtcgttggttgtggttagctttaaaatcattatctttacataggtggggcaagatagatactgtcatagtaacgtttagcaattggcatttacagcaaaagacagcgcaatttaactaccgattgaggtta Mask Tandem Repeat Region ================================================ taacctcaatcggtagttaaattgcgctgtcttttgctgtaaatgccaattgctaaacgttactatgacagtatctatcttgccccacctatgtaaagataatgattttaaagctaaccacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggga Find is-nt database================================================ Query_seq: PI1838:PI1839|PI1838:PI1839:conserved hypothetical protein:hypothetical protein:->->:1782089..1782317 229 taacctcaatcggtagttaaattgcgctgtcttttgctgtaaatgccaattgctaaacgttactatgacagtatctatcttgccccacctatgtaaagataatgattttaaagctaaccacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1838:PI1839|PI1838:PI1839:conserved hypothetical protein:hypothetical protein:->->:1782089..1782317 229 taacctcaatcggtagttaaattgcgctgtcttttgctgtaaatgccaattgctaaacgttactatgacagtatctatcttgccccacctatgtaaagataatgattttaaagctaaccacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1838:PI1839|PI1838:PI1839:conserved hypothetical protein:hypothetical protein:->->:1782089..1782317 229 taacctcaatcggtagttaaattgcgctgtcttttgctgtaaatgccaattgctaaacgttactatgacagtatctatcttgccccacctatgtaaagataatgattttaaagctaaccacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacctcaatcggtagttaaattgcgctgtcttttgctgtaaatgccaattgctaaacgttactatgacagtatctatcttgccccacctatgtaaagataatgattttaaagctaaccacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggga Predict ORF larger than 30AA ================================================ Protein_Len: 58 Strand: + Start: 50 End: 223 ................................................. M L N V T M T V S I L P H L C K D N D F K A N H N Q R H F R F I V L K S S K W G N K F N T S G K G E I E K K R A G K ...... Protein_Len: 60 Strand: - Start: 1 End: 201 Q A T K Q Q L H W N S F T V I V T D I K G W R H L S L S K L A L W L W R C K R N I T R F D L L H P L L N L V L P F P S M ............................ taacctcaatcggtagttaaattgcgctgtcttttgctgtaaatgccaattgctaaacgttactatgacagtatctatcttgccccacctatgtaaagataatgattttaaagctaaccacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggga 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================================================ taacctcaatcggtagttaaattgcgctgtcttttgctgtaaatgccaattgctaaacgttactatgacagtatctatcttgccccacctatgtaaagataatgattttaaagctaaccacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1838:PI1839|PI1838:PI1839:conserved hypothetical protein:hypothetical protein:->->:1782089..1782317 229 taacctcaatcggtagttaaattgcgctgtcttttgctgtaaatgccaattgctaaacgttactatgacagtatctatcttgccccacctatgtaaagataatgattttaaagctaaccacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggga Intra-Species Hit: Count: 2 Min: 1 Max: 229 Len: 229 Subject: pint_PI1838_PI1839|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1782089,1782317]|229 HSP 1 e-value: 1.0E-127 bit: 454.0 Len: 229 Query Start:1 Query End:229 Subject Strand: POSITIVE Subject Start: 1 Subject End: 229 taacctcaatcggtagttaaattgcgctgtcttttgctgtaaatgccaattgctaaacgttactatgacagtatctatcttgccccacctatgtaaagataatgattttaaagctaaccacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggga taacctcaatcggtagttaaattgcgctgtcttttgctgtaaatgccaattgctaaacgttactatgacagtatctatcttgccccacctatgtaaagataatgattttaaagctaaccacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggga Subject: pint_PI1844_PI1845|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1790340,1791596]|1257 HSP 1 e-value: 2.0E-46 bit: 186.0 Len: 110 Query Start:119 Query End:228 Subject Strand: POSITIVE Subject Start: 1120 Subject End: 1229 ......................................................................................................................cacaaccaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcggaaagggtgaaatagagaaaaagagagctggaaaataggg. ......................................................................................................................cacaactaacgacacttccgatttattgttctaaaatcaagtaaatggggcaataaatttaacacaagcgaaaaggggaaaatagagaaaaagagagctggaaaataggg. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCUCAAUCGGUAGUUAAAUUGCGCUGUCUUUUGCUGUAAAUGCCAAUUGCUAAACGUUACUAUGACAGUAUCUAUCUUGCCCCACCUAUGUAAAGAUAAUGAUUUUAAAGCUAACCACAACCAACGACACUUCCGAUUUAUUGUUCUAAAAUCAAGUAAAUGGGGCAAUAAAUUUAACACAAGCGGAAAGGGUGAAAUAGAGAAAAAGAGAGCUGGAAAAUAGGGA ..(((......)))...........(((.((((((.((((...((((..(((((....(.((((.....)))).)....((((((((.((......))....((((((((.(((...............................))).))))))))......)))))))).............)))))....))))..))))...)))))).)))............. (-41.68) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCCUAUUUUCCAGCUCUCUUUUUCUCUAUUUCACCCUUUCCGCUUGUGUUAAAUUUAUUGCCCCAUUUACUUGAUUUUAGAACAAUAAAUCGGAAGUGUCGUUGGUUGUGGUUAGCUUUAAAAUCAUUAUCUUUACAUAGGUGGGGCAAGAUAGAUACUGUCAUAGUAACGUUUAGCAAUUGGCAUUUACAGCAAAAGACAGCGCAAUUUAACUACCGAUUGAGGUUA .............(((.((((((.((.((..(..........(((..((((((((...((((((((((((..(((((((((((((((....(((.....)))...))))).......))))))))))...........))))))))))))(((((...)))))........))))))))...))))..)).)).)))))).)))...........(((......))).. (-46.13) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 320 60 11 212 154 pint:PI1299|5end_glycosyltransferase_1212191..1212421_POSITIVE 315 53 21 127 90 pint:PI0179|5end_hypothetical_protein_171757..171987_POSITIVE 312 217 184 132 94 pint:PI0102|5end_hypothetical_protein_97856..98086_POSITIVE 298 46 3 79 26 pint:PI1627|5end_hypothetical_protein_1550445..1550675_POSITIVE 296 199 164 54 17 pint:PI0185|5end_conserved_hypothetical_protein_176992..177222_POSITIVE 294 204 164 114 69 pint:PI1487|5end_hypothetical_protein_1407624..1407854_POSITIVE 292 58 12 81 41 pint:PI0093|5end_riboflavin_biosynthesis_protein_90489..90719_POSITIVE 282 205 165 64 19 pint:PI0892|5end_acyl-ACP_thioesterase_823131..823361_POSITIVE 281 65 21 100 58 pint:PI1204|5end_hypothetical_protein_1124430..1124660_POSITIVE 277 60 11 170 134 pint:PI0976|5end_dihydrolipoamide_dehydrogenase_(dihydrolipoyl_dehydrogenanse)_902297..902527_POSITIVE 273 80 31 163 117 pint:PI0867|5end_hypothetical_protein_803859..804089_POSITIVE 273 80 31 80 34 pint:PI0866|5end_hypothetical_protein_803776..804006_POSITIVE 273 130 81 219 168 pint:PI0275|5end_hypothetical_protein_263138..263368_POSITIVE 272 64 24 132 88 pint:PI1880|5end_phosphoenolpyruvate_carboxykinase_(ATP)_1821667..1821897_POSITIVE 270 220 182 45 3 pint:PI0490|5end_DNA_primase_449070..449300_POSITIVE 266 60 11 127 70 pint:PI1782|5end_possible_LPS_biosynthesis_protein_1714482..1714712_POSITIVE 266 59 11 191 137 pint:PI1525|5end_CDP-diacylglycerol--serine_O-phosphatidyltransferase_1446758..1446988_POSITIVE 266 64 21 71 24 pint:PI1004|5end_conserved_hypothetical_protein_925820..926050_POSITIVE 265 53 11 202 159 pint:PI0211|5end_hypothetical_protein_204067..204297_POSITIVE 263 52 11 222 177 pint:PI1437|5end_hypothetical_protein_1356088..1356318_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 591 216 171 50 5 pint:PI1512|3end_hypothetical_protein_1429893..1430043_POSITIVE 528 210 161 149 100 pint:PI1511|3end_hypothetical_protein_1429998..1430148_POSITIVE 298 46 3 76 23 pint:PI1626|3end_hypothetical_protein_1550522..1550672_POSITIVE 277 60 11 146 110 pint:PI0975|3end_glycine_dehydrogenase_[decarboxylating]_subunit_2_902353..902503_POSITIVE 271 90 44 122 69 pint:PI0203|3end_conserved_hypothetical_protein_196064..196214_POSITIVE 269 53 11 146 94 pint:PI0664|3end_dihydroorotate_dehydrogenase,_electron_transfer_subunit_607819..607969_POSITIVE 266 60 11 116 59 pint:PI1781|3end_membrane-associated_zinc_metalloprotease_1714551..1714701_POSITIVE 259 129 81 130 77 pint:PI0537|3end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_492412..492562_POSITIVE 253 58 24 39 5 pint:PI0114|3end_hypothetical_protein_108527..108677_POSITIVE 252 60 24 100 67 pint:PI1940|3end_conserved_hypothetical_protein;_possible_outer_membrane_protein_1897267..1897417_POSITIVE 252 159 120 97 66 pint:PI1027|3end_hypothetical_protein_943399..943549_POSITIVE 251 220 180 88 35 pint:PI1749|3end_conserved_hypothetical_protein_1671637..1671787_POSITIVE 250 159 111 100 52 pint:PI0789|3end_NAD-utilizing_dehydrogenase_728385..728535_POSITIVE 250 220 185 125 86 pint:PI0059|3end_peptide_chain_release_factor_RF-2_58171..58321_POSITIVE 248 61 21 70 26 pint:PI1520|3end_hypothetical_protein_1441370..1441520_POSITIVE 248 48 4 119 77 pint:PI0748|3end_possible_mobilization_protein_677214..677364_POSITIVE 245 119 71 70 15 pint:PI1650|3end_N-acetylmuramoyl-L-alanine_amidase_1563901..1564051_POSITIVE 243 65 21 86 44 pint:PI1818|3end_hypothetical_protein_1757270..1757420_POSITIVE 243 217 182 105 64 pint:PI1545|3end_conserved_hypothetical_protein_1464134..1464284_POSITIVE 243 54 12 45 6 pint:PI1321|3end_conserved_hypothetical_protein_1240401..1240551_POSITIVE