Origin IGS: agcattggaaataagatagttacgtaacgattatgcttgcgaaaaatatttacatatctttcgccttttttccgctcgtatttaatgaataaatattgctgtactttaagttttatcgtgcagcaataagtgcaaaatcaagggctctgtgccgataaacta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagtttatcggcacagagcccttgattttgcacttattgctgcacgataaaacttaaagtacagcaatatttattcattaaatacgagcggaaaaaaggcgaaagatatgtaaatatttttcgcaagcataatcgttacgtaactatcttatttccaatgct Mask Tandem Repeat Region ================================================ agcattggaaataagatagttacgtaacgattatgcttgcgaaaaatatttacatatctttcgccttttttccgctcgtatttaatgaataaatattgctgtactttaagttttatcgtgcagcaataagtgcaaaatcaagggctctgtgccgataaacta Find is-nt database================================================ Query_seq: PI0820:PI0821|PI0820:PI0821:hypothetical protein:conserved hypothetical protein:->->:760041..760202 162 agcattggaaataagatagttacgtaacgattatgcttgcgaaaaatatttacatatctttcgccttttttccgctcgtatttaatgaataaatattgctgtactttaagttttatcgtgcagcaataagtgcaaaatcaagggctctgtgccgataaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0820:PI0821|PI0820:PI0821:hypothetical protein:conserved hypothetical protein:->->:760041..760202 162 agcattggaaataagatagttacgtaacgattatgcttgcgaaaaatatttacatatctttcgccttttttccgctcgtatttaatgaataaatattgctgtactttaagttttatcgtgcagcaataagtgcaaaatcaagggctctgtgccgataaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0820:PI0821|PI0820:PI0821:hypothetical protein:conserved hypothetical protein:->->:760041..760202 162 agcattggaaataagatagttacgtaacgattatgcttgcgaaaaatatttacatatctttcgccttttttccgctcgtatttaatgaataaatattgctgtactttaagttttatcgtgcagcaataagtgcaaaatcaagggctctgtgccgataaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agcattggaaataagatagttacgtaacgattatgcttgcgaaaaatatttacatatctttcgccttttttccgctcgtatttaatgaataaatattgctgtactttaagttttatcgtgcagcaataagtgcaaaatcaagggctctgtgccgataaacta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 37 End: 126 .................................... M R K I F T Y L S P F F R S Y L M N K Y C C T L S F I V Q Q .................................... Protein_Len: 38 Strand: - Start: 3 End: 116 .. M P F L I T V Y R N H K R F I N V Y R E G K K R E Y K I F L Y Q Q V K L K M .............................................. agcattggaaataagatagttacgtaacgattatgcttgcgaaaaatatttacatatctttcgccttttttccgctcgtatttaatgaataaatattgctgtactttaagttttatcgtgcagcaataagtgcaaaatcaagggctctgtgccgataaacta 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================================================ agcattggaaataagatagttacgtaacgattatgcttgcgaaaaatatttacatatctttcgccttttttccgctcgtatttaatgaataaatattgctgtactttaagttttatcgtgcagcaataagtgcaaaatcaagggctctgtgccgataaacta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 72 HP_score: -4.2 Tail_Score: -5.06451 Start: 38 End: 65 Full_Region: CGTAACGATTATGCT TGCGAAAAATAT TTAC ATATCTTTCGCC TTTTTTCCGCTCGTA .....................................TGCGAAAAATATTTACATATCTTTCGCC................................................................................................. TransTerm Strand: + Conf: 72 HP_score: -7.7 Tail_Score: -3.63148 Start: 39 End: 64 Full_Region: GTAACGATTATGCTT GCGAAAAATAT TTAC ATATCTTTCGC CTTTTTTCCGCTCGT ......................................GCGAAAAATATTTACATATCTTTCGC.................................................................................................. TransTerm Strand: + Conf: 44 HP_score: -2.4 Tail_Score: -3.35344 Start: 79 End: 95 Full_Region: CCTTTTTTCCGCTCG TATTTA ATGAA TAAATA TTGCTGTACTTTAAG ..............................................................................TATTTAATGAATAAATA................................................................... TransTerm Strand: - Conf: 70 HP_score: -5.8 Tail_Score: -4.33621 Start: 94 End: 128 Full_Region: ccttgattttgcact tattgctgcacgataa aac ttaaagtacagcaata tttattcattaaata .............................................................................................tattgctgcacgataaaacttaaagtacagcaata.................................. Find igs database================================================ Query_seq: PI0820:PI0821|PI0820:PI0821:hypothetical protein:conserved hypothetical protein:->->:760041..760202 162 agcattggaaataagatagttacgtaacgattatgcttgcgaaaaatatttacatatctttcgccttttttccgctcgtatttaatgaataaatattgctgtactttaagttttatcgtgcagcaataagtgcaaaatcaagggctctgtgccgataaacta Intra-Species Hit: Count: 1 Min: 1 Max: 162 Len: 162 Subject: pint_PI0820_PI0821|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[760041,760202]|162 HSP 1 e-value: 4.0E-87 bit: 321.0 Len: 162 Query Start:1 Query End:162 Subject Strand: POSITIVE Subject Start: 1 Subject End: 162 agcattggaaataagatagttacgtaacgattatgcttgcgaaaaatatttacatatctttcgccttttttccgctcgtatttaatgaataaatattgctgtactttaagttttatcgtgcagcaataagtgcaaaatcaagggctctgtgccgataaacta agcattggaaataagatagttacgtaacgattatgcttgcgaaaaatatttacatatctttcgccttttttccgctcgtatttaatgaataaatattgctgtactttaagttttatcgtgcagcaataagtgcaaaatcaagggctctgtgccgataaacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCAUUGGAAAUAAGAUAGUUACGUAACGAUUAUGCUUGCGAAAAAUAUUUACAUAUCUUUCGCCUUUUUUCCGCUCGUAUUUAAUGAAUAAAUAUUGCUGUACUUUAAGUUUUAUCGUGCAGCAAUAAGUGCAAAAUCAAGGGCUCUGUGCCGAUAAACUA .((((.(((((.(((...(((....)))..........((((((.((((....)))).))))))))).)))))..((((.....)))).....(((((((((((..((.....))..))))))))))).)))).........(((.....)))......... (-36.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUUAUCGGCACAGAGCCCUUGAUUUUGCACUUAUUGCUGCACGAUAAAACUUAAAGUACAGCAAUAUUUAUUCAUUAAAUACGAGCGGAAAAAAGGCGAAAGAUAUGUAAAUAUUUUUCGCAAGCAUAAUCGUUACGUAACUAUCUUAUUUCCAAUGCU ....(((..(((.....)))..)))....(((..((((((((.((.............)).)))))))).............(((((((((.......(((((((((((....)))))))))))........))))).))))................))). (-36.58) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 538 80 32 114 66 pint:PI0928|5end_hypothetical_protein_859851..860081_POSITIVE 480 59 14 134 89 pint:PI0200|5end_hypothetical_protein_191545..191775_POSITIVE 461 54 11 129 86 pint:PI2131|5end_hypothetical_protein_2080678..2080908_POSITIVE 434 76 32 206 158 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 406 72 36 158 122 pint:PI0755|5end_hypothetical_protein_686691..686921_POSITIVE 371 80 31 231 183 pint:PI0157|5end_hypothetical_protein_151185..151415_POSITIVE 371 80 31 88 40 pint:PI0158|5end_hypothetical_protein_151042..151272_POSITIVE 359 58 11 137 86 pint:PI0182|5end_hypothetical_protein_174093..174323_POSITIVE 357 50 2 62 14 pint:PI0689|5end_hypothetical_protein_625624..625854_POSITIVE 354 50 1 125 74 pint:PI1733|5end_hypothetical_protein_1652160..1652390_POSITIVE 347 75 33 60 18 pint:PI0670|5end_hypothetical_protein_611000..611230_POSITIVE 346 54 14 157 117 pint:PI1076|5end_hypothetical_protein_998893..999123_POSITIVE 345 80 31 63 16 pint:PI1814|5end_hypothetical_protein_1752953..1753183_POSITIVE 344 54 14 157 117 pint:PI1694|5end_hypothetical_protein_1609717..1609947_POSITIVE 341 60 14 132 89 pint:PI0004|5end_hypothetical_protein_6199..6429_POSITIVE 333 55 11 207 163 pint:PI0055|5end_hypothetical_protein_54815..55045_POSITIVE 333 55 11 119 75 pint:PI0053|5end_hypothetical_protein_54727..54957_POSITIVE 329 88 41 148 105 pint:PI1057|5end_hypothetical_protein_977286..977516_POSITIVE 328 135 96 51 7 pint:PI1379|5end_hypothetical_protein_1301817..1302047_POSITIVE 325 155 120 135 94 pint:PI1642|5end_conserved_hypothetical_protein_1558800..1559030_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 461 54 11 82 39 pint:PI2130|3end_DNA_polymerase_I_2080711..2080861_POSITIVE 357 50 2 108 60 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 347 75 33 127 85 pint:PI0669|3end_hypothetical_protein_611147..611297_POSITIVE 345 57 14 57 14 pint:PI2172|3end_hypothetical_protein_2113991..2114141_POSITIVE 345 80 31 116 69 pint:PI1813|3end_hypothetical_protein_1753086..1753236_POSITIVE 333 55 11 141 97 pint:PI0054|3end_hypothetical_protein_54829..54979_POSITIVE 325 155 120 138 97 pint:PI1641|3end_hypothetical_protein_1558883..1559033_POSITIVE 319 75 34 72 31 pint:PI1485|3end_hypothetical_protein_1405339..1405489_POSITIVE 312 75 31 80 37 pint:PI1117|3end_glycosyl_transferase,_family_2_1042279..1042429_POSITIVE 297 156 117 39 3 pint:PI1779|3end_16S_rRNA_processing_protein_1711933..1712083_POSITIVE 282 54 19 38 3 pint:PI0770|3end_hypothetical_protein_706354..706504_POSITIVE 275 73 36 82 43 pint:PI0051|3end_hypothetical_protein_53388..53538_POSITIVE 272 78 56 43 21 pint:PI1944|3end_hypothetical_protein_1901990..1902140_POSITIVE 272 155 120 138 97 pint:PI0347|3end_hypothetical_protein_321655..321805_POSITIVE 269 57 24 36 3 pint:PI0103|3end_conserved_hypothetical_protein;_possible_permease_99100..99250_POSITIVE 268 154 117 100 50 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 268 160 117 63 23 pint:PI0264|3end_transfer_region-related_protein,_TraN_257371..257521_POSITIVE 267 148 104 145 94 pint:PI0355|3end_probable__N-acetylmuramoyl-L-alanine_amidase_326698..326848_POSITIVE 259 129 98 39 11 pint:PI1292|3end_conserved_hypothetical_protein_1207028..1207178_POSITIVE 255 155 111 77 27 pint:PI1065|3end_hypothetical_protein_983650..983800_POSITIVE