Origin IGS: tgacggatattttaatctgtagtttcaacctgtcaaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctcctttatta .........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 taataaaggagataacaggaactcgtgtccggagaattttgagggtgtgtcaaaacgctatgtttgggcacaccctcttttagatgtgtaaattcctccggactttatttagcctgcttggtgctgttcgaacagactgttgtgaccggatttgacaggttgaaactacagattaaaatatccgtca Mask Tandem Repeat Region ================================================ tgacggatattttaatctgtagtttcaacctgtcaaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctcctttatta Find is-nt database================================================ Query_seq: TF2535:TF2536|TF2535:TF2536:histidyl-tRNA synthetase:subtilisin-like serine protease:->->:2719239..2719425 187 tgacggatattttaatctgtagtttcaacctgtcaaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctcctttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2535:TF2536|TF2535:TF2536:histidyl-tRNA synthetase:subtilisin-like serine protease:->->:2719239..2719425 187 tgacggatattttaatctgtagtttcaacctgtcaaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctcctttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2535:TF2536|TF2535:TF2536:histidyl-tRNA synthetase:subtilisin-like serine protease:->->:2719239..2719425 187 tgacggatattttaatctgtagtttcaacctgtcaaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctcctttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgacggatattttaatctgtagtttcaacctgtcaaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctcctttatta Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: - Start: 2 End: 124 . V S I K I Q L K L R D F G T V V T Q E F L V L C A L Y L G S S N V C R F S P T G M ............................................................... tgacggatattttaatctgtagtttcaacctgtcaaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctcctttatta 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================================================ tgacggatattttaatctgtagtttcaacctgtcaaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctcctttatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 42 HP_score: -3.3 Tail_Score: -2.57132 Start: 108 End: 150 Full_Region: GAATTTACACATCTA AAAGAGGGTGTGCCCAAAC ATAGC GTTTTGACACACCCTCAAA ATTCTCCGGACACGA ...........................................................................................................AAAGAGGGTGTGCCCAAACATAGCGTTTTGACACACCCTCAAA..................................... TransTerm Strand: - Conf: 100 HP_score: -16.7 Tail_Score: -4.26188 Start: 111 End: 147 Full_Region: tgtccggagaatttt gagggtgtgtcaaaacg cta tgtttgggcacaccctc ttttagatgtgtaaa ..............................................................................................................gagggtgtgtcaaaacgctatgtttgggcacaccctc........................................ Find igs database================================================ Query_seq: TF2535:TF2536|TF2535:TF2536:histidyl-tRNA synthetase:subtilisin-like serine protease:->->:2719239..2719425 187 tgacggatattttaatctgtagtttcaacctgtcaaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctcctttatta Intra-Species Hit: Count: 2 Min: 1 Max: 187 Len: 187 Subject: tfor_TF2535_TF2536|histidyl-tRNA synthetase:subtilisin-like serine protease|POSITIVE:POSITIVE|[2719239,2719425]|187 HSP 1 e-value: 1.0E-102 bit: 371.0 Len: 187 Query Start:1 Query End:187 Subject Strand: POSITIVE Subject Start: 1 Subject End: 187 tgacggatattttaatctgtagtttcaacctgtcaaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctcctttatta tgacggatattttaatctgtagtttcaacctgtcaaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctcctttatta Subject: tfor_TF2765_TF2766|subtilisin-like serine protease:shikimate kinase|POSITIVE:POSITIVE|[2951521,2951758]|238 HSP 1 e-value: 7.0E-77 bit: 287.0 Len: 149 Query Start:35 Query End:183 Subject Strand: NEGATIVE Subject Start: 6 Subject End: 154 ..................................aaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccggacacgagttcctgttatctccttt.... ..................................aaatccggtcacaacagtctgttcgaacagcaccaagcaggctaaataaagtccggaggaatttacacatctaaaagagggtgtgcccaaacatagcgttttgacacaccctcaaaattctccgaacacgagttcctgttatctccttt.... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACGGAUAUUUUAAUCUGUAGUUUCAACCUGUCAAAUCCGGUCACAACAGUCUGUUCGAACAGCACCAAGCAGGCUAAAUAAAGUCCGGAGGAAUUUACACAUCUAAAAGAGGGUGUGCCCAAACAUAGCGUUUUGACACACCCUCAAAAUUCUCCGGACACGAGUUCCUGUUAUCUCCUUUAUUA ((((((....((((..((((.(((...(((.(......).)))...))).((((((....)))).))...))))..))))....((((((((((.((((......)))).(((((((((.(.((((.....)))).).)))))))))....))))))))))........))))))............ (-53.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAAGGAGAUAACAGGAACUCGUGUCCGGAGAAUUUUGAGGGUGUGUCAAAACGCUAUGUUUGGGCACACCCUCUUUUAGAUGUGUAAAUUCCUCCGGACUUUAUUUAGCCUGCUUGGUGCUGUUCGAACAGACUGUUGUGACCGGAUUUGACAGGUUGAAACUACAGAUUAAAAUAUCCGUCA .................(((......(((((((((((((.(((((((((((.((((.....)))).)))))))))))............))))).))))))))....(((((((((.(..(..(((.((((((.....))).))).)))..)..))))))))))................))).... (-59.52) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 977 90 41 231 182 tfor:TF2766|5end_shikimate_kinase_2951619..2951849_POSITIVE 735 147 101 211 166 tfor:TF1505|5end_conserved_hypothetical_protein_1610773..1611003_POSITIVE 711 147 101 197 151 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 613 147 108 74 35 tfor:TF1046|5end_hypothetical_protein_1108178..1108408_POSITIVE 592 147 104 158 113 tfor:TF0187|5end_ferredoxin_202151..202381_POSITIVE 534 147 101 201 155 tfor:TF2593|5end_amino_acid_transport_protein_2762882..2763112_POSITIVE 511 147 108 147 108 tfor:TF2947|5end_isochorismate_synthase_3153633..3153863_POSITIVE 485 147 107 226 186 tfor:TF1999|5end_ArgK_protein_with_ATPase_and_kinase_domains_2152769..2152999_POSITIVE 466 147 111 190 155 tfor:TF3007|5end_conserved_hypothetical_protein_3227256..3227486_POSITIVE 437 147 101 159 113 tfor:TF2357|5end_collagenase_2522561..2522791_POSITIVE 426 147 110 161 124 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 405 143 111 231 199 tfor:TF2414|5end_hypothetical_protein_2590725..2590955_POSITIVE 357 77 38 105 67 tfor:TF0720|5end_ABC_transporter,_permease_component_770046..770276_POSITIVE 343 180 131 197 128 tfor:TF2158|5end_conserved_hypothetical_protein_2333857..2334087_POSITIVE 342 147 101 201 155 tfor:TF2289|5end_secretion_protein,_possible_HlyD_family_2442725..2442955_POSITIVE 337 132 96 231 193 tfor:TF0682|5end_outer_membrane_protein,_TonB_dependent_receptor_724450..724680_POSITIVE 335 146 109 138 100 tfor:TF2893|5end_conserved_hypothetical_protein;_possible_phosphoesterase_3080766..3080996_POSITIVE 334 94 53 42 1 tfor:TF2224|5end_CTn_excision_protein_2394592..2394822_POSITIVE 332 174 132 224 178 tfor:TF2729|5end_possible_outer_membrane_protein_2908216..2908446_POSITIVE 323 76 31 182 138 tfor:TF1440|5end_hypothetical_protein_1524599..1524829_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 949 160 111 62 13 tfor:TF2765|3end_subtilisin-like_serine_protease_2951460..2951610_POSITIVE 711 147 101 58 12 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 613 147 108 61 22 tfor:TF1045|3end_conserved_hypothetical_protein_1108245..1108395_POSITIVE 518 147 102 46 1 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 516 147 111 110 74 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 485 147 107 63 23 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE 457 180 131 62 3 tfor:TF0178|3end_ferritin_188223..188373_POSITIVE 410 147 108 54 15 tfor:TF1416|3end_outer_membrane_protein_1499413..1499563_POSITIVE 386 146 101 57 14 tfor:TF1354|3end_TonB_protein_1435216..1435366_POSITIVE 351 174 145 77 41 tfor:TF1262|3end_PDZ_domain_protein_1348831..1348981_POSITIVE 318 147 107 44 4 tfor:TF0182|3end_DNA-binding_protein,_HU-related_195528..195678_POSITIVE 318 159 111 74 24 tfor:TF0105|3end_DNA-binding_stress_protein,_Dps_family_113907..114057_POSITIVE 311 155 125 30 1 tfor:TF1504|3end_conserved_hypothetical_protein_1610665..1610815_POSITIVE 300 87 41 124 73 tfor:TF0299|3end_hypothetical_protein_325365..325515_POSITIVE 293 170 122 142 84 tfor:TF0362|3end_hypothetical_protein_380199..380349_POSITIVE 291 68 21 138 98 tfor:TF2257|3end_transfer_region-related_protein,_TraJ_2429622..2429772_POSITIVE 289 147 109 53 24 tfor:TF2804|3end_conserved_hypothetical_protein_2994449..2994599_POSITIVE 289 170 122 142 84 tfor:TF2166|3end_hypothetical_protein_2342362..2342512_POSITIVE 285 65 21 127 93 tfor:TF2188|3end_conserved_hypothetical_protein_2363535..2363685_POSITIVE 278 148 110 63 7 tfor:TF1585|3end_hypothetical_protein_1690610..1690760_POSITIVE