Origin IGS: cgcattgataataaagggattacgtaacagttacacttgcgaaaaatatttacagcttttccacttcctttccaactataaaacaaggaataaaagagaaaagaaaatagcaggtaaagcattcttatgcttaaaaagatttcaatatacaatatgctttattatatttctaccaccccggagaagcgtcttcaatagaaataaagaacaggtgcatagatacgaaaaaaggaatcgcaagagtaaaaatctcttggattccttttctatatgtttatagaagtattacttctacatcttattaatta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattaataagatgtagaagtaatacttctataaacatatagaaaaggaatccaagagatttttactcttgcgattccttttttcgtatctatgcacctgttctttatttctattgaagacgcttctccggggtggtagaaatataataaagcatattgtatattgaaatctttttaagcataagaatgctttacctgctattttcttttctcttttattccttgttttatagttggaaaggaagtggaaaagctgtaaatatttttcgcaagtgtaactgttacgtaatccctttattatcaatgcg Mask Tandem Repeat Region ================================================ cgcattgataataaagggattacgtaacagttacacttgcgaaaaatatttacagcttttccacttcctttccaactataaaacaaggaataaaagagaaaagaaaatagcaggtaaagcattcttatgcttaaaaagatttcaatatacaatatgctttattatatttctaccaccccggagaagcgtcttcaatagaaataaagaacaggtgcatagatacgaaaaaaggaatcgcaagagtaaaaatctcttggattccttttctatatgtttatagaagtattacttctacatcttattaatta Find is-nt database================================================ Query_seq: PI1797:PI1798|PI1797:PI1798:hypothetical protein: elongation factor Ts:->->:1731620..1731927 308 cgcattgataataaagggattacgtaacagttacacttgcgaaaaatatttacagcttttccacttcctttccaactataaaacaaggaataaaagagaaaagaaaatagcaggtaaagcattcttatgcttaaaaagatttcaatatacaatatgctttattatatttctaccaccccggagaagcgtcttcaatagaaataaagaacaggtgcatagatacgaaaaaaggaatcgcaagagtaaaaatctcttggattccttttctatatgtttatagaagtattacttctacatcttattaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1797:PI1798|PI1797:PI1798:hypothetical protein: elongation factor Ts:->->:1731620..1731927 308 cgcattgataataaagggattacgtaacagttacacttgcgaaaaatatttacagcttttccacttcctttccaactataaaacaaggaataaaagagaaaagaaaatagcaggtaaagcattcttatgcttaaaaagatttcaatatacaatatgctttattatatttctaccaccccggagaagcgtcttcaatagaaataaagaacaggtgcatagatacgaaaaaaggaatcgcaagagtaaaaatctcttggattccttttctatatgtttatagaagtattacttctacatcttattaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1797:PI1798|PI1797:PI1798:hypothetical protein: elongation factor Ts:->->:1731620..1731927 308 cgcattgataataaagggattacgtaacagttacacttgcgaaaaatatttacagcttttccacttcctttccaactataaaacaaggaataaaagagaaaagaaaatagcaggtaaagcattcttatgcttaaaaagatttcaatatacaatatgctttattatatttctaccaccccggagaagcgtcttcaatagaaataaagaacaggtgcatagatacgaaaaaaggaatcgcaagagtaaaaatctcttggattccttttctatatgtttatagaagtattacttctacatcttattaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgcattgataataaagggattacgtaacagttacacttgcgaaaaatatttacagcttttccacttcctttccaactataaaacaaggaataaaagagaaaagaaaatagcaggtaaagcattcttatgcttaaaaagatttcaatatacaatatgctttattatatttctaccaccccggagaagcgtcttcaatagaaataaagaacaggtgcatagatacgaaaaaaggaatcgcaagagtaaaaatctcttggattccttttctatatgtttatagaagtattacttctacatcttattaatta Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 5 End: 277 .... M I I K G L R N S Y T C E K Y L Q L F H F L S N Y K T R N K R E K K I A G K A F L C L K R F Q Y T I C F I I F L P P R R ............................... Protein_Len: 52 Strand: + Start: 147 End: 302 .................................................................................................................................................. M Q Y A L L Y F Y H P G E A S S I E I K N R C I D T K K G I A R V K I S W I P F L Y V Y R S I T S T S Y ...... Protein_Len: 42 Strand: - Start: 145 End: 270 ................................................................................................................................................ Y V I H K I I N R G G R L L T K L L F L S C T C L Y S F L F R L L L F R K S E K E M ...................................... Protein_Len: 51 Strand: - Start: 3 End: 155 .. M S L L P I V Y C N C K R F I N V A K G S G K W S Y F L S Y F L F S F L L Y L M R I S L F I E I Y L M ......................................................................................................................................................... cgcattgataataaagggattacgtaacagttacacttgcgaaaaatatttacagcttttccacttcctttccaactataaaacaaggaataaaagagaaaagaaaatagcaggtaaagcattcttatgcttaaaaagatttcaatatacaatatgctttattatatttctaccaccccggagaagcgtcttcaatagaaataaagaacaggtgcatagatacgaaaaaaggaatcgcaagagtaaaaatctcttggattccttttctatatgtttatagaagtattacttctacatcttattaatta 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: 81 Start: 144 End: 173 ...............................................................................................................................................GTAGAAATATAATAAAGCATATTGTATATT....................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ cgcattgataataaagggattacgtaacagttacacttgcgaaaaatatttacagcttttccacttcctttccaactataaaacaaggaataaaagagaaaagaaaatagcaggtaaagcattcttatgcttaaaaagatttcaatatacaatatgctttattatatttctaccaccccggagaagcgtcttcaatagaaataaagaacaggtgcatagatacgaaaaaaggaatcgcaagagtaaaaatctcttggattccttttctatatgtttatagaagtattacttctacatcttattaatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 71 HP_score: -8.3 Tail_Score: -3.23335 Start: 226 End: 267 Full_Region: GGTGCATAGATACGA AAAAAGGAATCGCAAGAG TAAAAAT CTCTTGGATTCCTTTTC TATATGTTTATAGAA .................................................................................................................................................................................................................................AAAAAGGAATCGCAAGAGTAAAAATCTCTTGGATTCCTTTTC......................................... TransTerm Strand: + Conf: 85 HP_score: -8.2 Tail_Score: -4.70534 Start: 231 End: 262 Full_Region: ATAGATACGAAAAAA GGAATCGCAAGAG TAAAAAT CTCTTGGATTCC TTTTCTATATGTTTA ......................................................................................................................................................................................................................................GGAATCGCAAGAGTAAAAATCTCTTGGATTCC.............................................. TransTerm Strand: - Conf: 93 HP_score: -8.2 Tail_Score: -5.25893 Start: 231 End: 262 Full_Region: taaacatatagaaaa ggaatccaagag attttta ctcttgcgattcc ttttttcgtatctat ......................................................................................................................................................................................................................................ggaatccaagagatttttactcttgcgattcc.............................................. Find igs database================================================ Query_seq: PI1797:PI1798|PI1797:PI1798:hypothetical protein: elongation factor Ts:->->:1731620..1731927 308 cgcattgataataaagggattacgtaacagttacacttgcgaaaaatatttacagcttttccacttcctttccaactataaaacaaggaataaaagagaaaagaaaatagcaggtaaagcattcttatgcttaaaaagatttcaatatacaatatgctttattatatttctaccaccccggagaagcgtcttcaatagaaataaagaacaggtgcatagatacgaaaaaaggaatcgcaagagtaaaaatctcttggattccttttctatatgtttatagaagtattacttctacatcttattaatta Intra-Species Hit: Count: 1 Min: 1 Max: 308 Len: 308 Subject: pint_PI1797_PI1798|hypothetical protein: elongation factor Ts|POSITIVE:POSITIVE|[1731620,1731927]|308 HSP 1 e-value: 1.0E-174 bit: 611.0 Len: 308 Query Start:1 Query End:308 Subject Strand: POSITIVE Subject Start: 1 Subject End: 308 cgcattgataataaagggattacgtaacagttacacttgcgaaaaatatttacagcttttccacttcctttccaactataaaacaaggaataaaagagaaaagaaaatagcaggtaaagcattcttatgcttaaaaagatttcaatatacaatatgctttattatatttctaccaccccggagaagcgtcttcaatagaaataaagaacaggtgcatagatacgaaaaaaggaatcgcaagagtaaaaatctcttggattccttttctatatgtttatagaagtattacttctacatcttattaatta cgcattgataataaagggattacgtaacagttacacttgcgaaaaatatttacagcttttccacttcctttccaactataaaacaaggaataaaagagaaaagaaaatagcaggtaaagcattcttatgcttaaaaagatttcaatatacaatatgctttattatatttctaccaccccggagaagcgtcttcaatagaaataaagaacaggtgcatagatacgaaaaaaggaatcgcaagagtaaaaatctcttggattccttttctatatgtttatagaagtattacttctacatcttattaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGCAUUGAUAAUAAAGGGAUUACGUAACAGUUACACUUGCGAAAAAUAUUUACAGCUUUUCCACUUCCUUUCCAACUAUAAAACAAGGAAUAAAAGAGAAAAGAAAAUAGCAGGUAAAGCAUUCUUAUGCUUAAAAAGAUUUCAAUAUACAAUAUGCUUUAUUAUAUUUCUACCACCCCGGAGAAGCGUCUUCAAUAGAAAUAAAGAACAGGUGCAUAGAUACGAAAAAAGGAAUCGCAAGAGUAAAAAUCUCUUGGAUUCCUUUUCUAUAUGUUUAUAGAAGUAUUACUUCUACAUCUUAUUAAUUA ...((((((((.....(((..............((((((...............((((((((..((((((..............))))))......(((((.......((((.(((((((((....)))))).....(....)....)))....))))........)))))........)))))))).(((.....))).........))))))....(((((....(((((((((.((((((.......)))))))))))))))((((((....)))))).)))))...))).....)))))))).. (-64.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUAAUAAGAUGUAGAAGUAAUACUUCUAUAAACAUAUAGAAAAGGAAUCCAAGAGAUUUUUACUCUUGCGAUUCCUUUUUUCGUAUCUAUGCACCUGUUCUUUAUUUCUAUUGAAGACGCUUCUCCGGGGUGGUAGAAAUAUAAUAAAGCAUAUUGUAUAUUGAAAUCUUUUUAAGCAUAAGAAUGCUUUACCUGCUAUUUUCUUUUCUCUUUUAUUCCUUGUUUUAUAGUUGGAAAGGAAGUGGAAAAGCUGUAAAUAUUUUUCGCAAGUGUAACUGUUACGUAAUCCCUUUAUUAUCAAUGCG ....(((((((.((((((((.....)))))))).......((((((((((((((((((.......)))))).))))))))))))((((.(..(((((.(((((((((.......)))))).((((.(((..((((((((..((((((((.....))))))))..............((((((....))))))...))))))))((((((((.(..((((..........))))..)))))))))..))).))))..............))).)))))...).)))).......)))))))........ (-73.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 370 50 2 125 77 pint:PI0200|5end_hypothetical_protein_191545..191775_POSITIVE 347 60 11 163 111 pint:PI1076|5end_hypothetical_protein_998893..999123_POSITIVE 345 50 1 110 61 pint:PI1905|5end_hypothetical_protein_1847628..1847858_POSITIVE 334 88 41 218 171 pint:PI0851|5end_hypothetical_protein_784310..784540_POSITIVE 329 50 3 84 37 pint:PI0928|5end_hypothetical_protein_859851..860081_POSITIVE 323 50 1 125 78 pint:PI2131|5end_hypothetical_protein_2080678..2080908_POSITIVE 321 67 24 171 127 pint:PI1346|5end_hypothetical_protein_1260814..1261044_POSITIVE 315 198 152 152 88 pint:PI1849|5end_conserved_hypothetical_protein;_possible_acyltransferase_family_protein_1794916..1795146_POSITIVE 305 66 29 152 115 pint:PI0755|5end_hypothetical_protein_686691..686921_POSITIVE 299 54 11 44 2 pint:PI0759|5end_hypothetical_protein_693763..693993_POSITIVE 297 55 12 206 165 pint:PI0157|5end_hypothetical_protein_151185..151415_POSITIVE 297 55 12 63 22 pint:PI0158|5end_hypothetical_protein_151042..151272_POSITIVE 296 50 2 180 132 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 292 89 41 74 26 pint:PI0670|5end_hypothetical_protein_611000..611230_POSITIVE 291 67 22 80 12 pint:PI0689|5end_hypothetical_protein_625624..625854_POSITIVE 284 60 29 134 104 pint:PI0004|5end_hypothetical_protein_6199..6429_POSITIVE 274 67 24 143 83 pint:PI1733|5end_hypothetical_protein_1652160..1652390_POSITIVE 270 70 23 60 9 pint:PI1244|5end_hypothetical_protein_1168803..1169033_POSITIVE 269 43 1 154 114 pint:PI1679|5end_hypothetical_protein_1594744..1594974_POSITIVE 268 89 53 165 125 pint:PI0064|5end_hypothetical_protein_63622..63852_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 323 50 1 78 31 pint:PI2130|3end_DNA_polymerase_I_2080711..2080861_POSITIVE 292 89 41 141 93 pint:PI0669|3end_hypothetical_protein_611147..611297_POSITIVE 291 67 22 126 58 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 288 80 36 77 33 pint:PI1485|3end_hypothetical_protein_1405339..1405489_POSITIVE 276 50 1 57 8 pint:PI0051|3end_hypothetical_protein_53388..53538_POSITIVE 274 59 36 43 20 pint:PI0770|3end_hypothetical_protein_706354..706504_POSITIVE 268 89 53 83 43 pint:PI0063|3end_transcriptional_regulator,_GntR_family_63620..63770_POSITIVE 265 90 41 49 1 pint:PI0687|3end_hypothetical_protein_625652..625802_POSITIVE 259 62 22 59 9 pint:PI0412|3end_primosomal_protein_N',_replication_factor_Y_382152..382302_POSITIVE 257 270 227 64 14 pint:PI1027|3end_hypothetical_protein_943399..943549_POSITIVE 255 213 173 83 42 pint:PI0123|3end_outer_membrane_protein,_ompH_family_114501..114651_POSITIVE 249 79 33 50 4 pint:PI1165|3end_hypothetical_protein_1089636..1089786_POSITIVE 246 145 107 61 18 pint:PI1117|3end_glycosyl_transferase,_family_2_1042279..1042429_POSITIVE 240 220 177 63 9 pint:PI1885|3end_cell_division_protein_1827639..1827789_POSITIVE 240 193 170 129 107 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 239 187 155 143 122 pint:PI0203|3end_conserved_hypothetical_protein_196064..196214_POSITIVE 237 196 155 85 40 pint:PI0042|3end_hypothetical_protein_43444..43594_POSITIVE 234 184 152 146 107 pint:PI1848|3end_hypothetical_protein_1795015..1795165_POSITIVE 234 220 174 61 8 pint:PI0842|3end_5-formyltetrahydrofolate_cyclo-ligase_776191..776341_POSITIVE 231 130 94 113 76 pint:PI0060|3end_long-chain-fatty-acid--CoA_ligase_(acyl-CoA_synthetase)_60166..60316_POSITIVE