Origin IGS: taatcctgctaattcattgataaaagtgcggtcaaaaaacacattatttttcgaccgcactttcactttatttttgtgataaatggagatgtattatctttacctatattaaaaatctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aagatttttaatataggtaaagataatacatctccatttatcacaaaaataaagtgaaagtgcggtcgaaaaataatgtgttttttgaccgcacttttatcaatgaattagcaggatta Mask Tandem Repeat Region ================================================ taatcctgctaattcattgataaaagtgcggtcaaaaaacacattatttttcgaccgcactttcactttatttttgtgataaatggagatgtattatctttacctatattaaaaatctt Find is-nt database================================================ Query_seq: AA01963:AA01965|AA01963:AA01965:dnaK suppressor protein:poly(A) polymerase:->->:1329499..1329617 119 taatcctgctaattcattgataaaagtgcggtcaaaaaacacattatttttcgaccgcactttcactttatttttgtgataaatggagatgtattatctttacctatattaaaaatctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01963:AA01965|AA01963:AA01965:dnaK suppressor protein:poly(A) polymerase:->->:1329499..1329617 119 taatcctgctaattcattgataaaagtgcggtcaaaaaacacattatttttcgaccgcactttcactttatttttgtgataaatggagatgtattatctttacctatattaaaaatctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01963:AA01965|AA01963:AA01965:dnaK suppressor protein:poly(A) polymerase:->->:1329499..1329617 119 taatcctgctaattcattgataaaagtgcggtcaaaaaacacattatttttcgaccgcactttcactttatttttgtgataaatggagatgtattatctttacctatattaaaaatctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatcctgctaattcattgataaaagtgcggtcaaaaaacacattatttttcgaccgcactttcactttatttttgtgataaatggagatgtattatctttacctatattaaaaatctt Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 16 End: 117 ............... M D K S A V K K H I I F R P H F H F I F V I N G D V L S L P I L K I .. Protein_Len: 30 Strand: - Start: 1 End: 90 L G A L E N I F T R D F F V N N K S R V K V K N K H Y I S M ............................. taatcctgctaattcattgataaaagtgcggtcaaaaaacacattatttttcgaccgcactttcactttatttttgtgataaatggagatgtattatctttacctatattaaaaatctt 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================================================ taatcctgctaattcattgataaaagtgcggtcaaaaaacacattatttttcgaccgcactttcactttatttttgtgataaatggagatgtattatctttacctatattaaaaatctt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -9.6 Tail_Score: -4.98911 Start: 20 End: 66 Full_Region: CCTGCTAATTCATTG ATAAAAGTGCGGTCAAAAAACA CAT TATTTTTCGACCGCACTTTCAC TTTATTTTTGTGATA ...................ATAAAAGTGCGGTCAAAAAACACATTATTTTTCGACCGCACTTTCAC..................................................... TransTerm Strand: + Conf: 100 HP_score: -13.1 Tail_Score: -3.5772 Start: 21 End: 65 Full_Region: CTGCTAATTCATTGA TAAAAGTGCGGTCAAAAAACA CAT TATTTTTCGACCGCACTTTCA CTTTATTTTTGTGAT ....................TAAAAGTGCGGTCAAAAAACACATTATTTTTCGACCGCACTTTCA...................................................... TransTerm Strand: - Conf: 100 HP_score: -17.4 Tail_Score: -4.43501 Start: 26 End: 60 Full_Region: aaaaataaagtgaaa gtgcggtcgaaaaata atg tgttttttgaccgcac ttttatcaatgaatt .........................gtgcggtcgaaaaataatgtgttttttgaccgcac........................................................... Find igs database================================================ Query_seq: AA01963:AA01965|AA01963:AA01965:dnaK suppressor protein:poly(A) polymerase:->->:1329499..1329617 119 taatcctgctaattcattgataaaagtgcggtcaaaaaacacattatttttcgaccgcactttcactttatttttgtgataaatggagatgtattatctttacctatattaaaaatctt Intra-Species Hit: Count: 1 Min: 1 Max: 119 Len: 119 Subject: aact_AA01963_AA01965|dnaK suppressor protein:poly(A) polymerase|POSITIVE:POSITIVE|[1329499,1329617]|119 HSP 1 e-value: 1.0E-61 bit: 236.0 Len: 119 Query Start:1 Query End:119 Subject Strand: POSITIVE Subject Start: 1 Subject End: 119 taatcctgctaattcattgataaaagtgcggtcaaaaaacacattatttttcgaccgcactttcactttatttttgtgataaatggagatgtattatctttacctatattaaaaatctt taatcctgctaattcattgataaaagtgcggtcaaaaaacacattatttttcgaccgcactttcactttatttttgtgataaatggagatgtattatctttacctatattaaaaatctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCCUGCUAAUUCAUUGAUAAAAGUGCGGUCAAAAAACACAUUAUUUUUCGACCGCACUUUCACUUUAUUUUUGUGAUAAAUGGAGAUGUAUUAUCUUUACCUAUAUUAAAAAUCUU ......(((...((((((.....((((((((((.(((((.......))))).))))))))))((((.........))))..))))))...))).......................... (-25.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAUUUUUAAUAUAGGUAAAGAUAAUACAUCUCCAUUUAUCACAAAAAUAAAGUGAAAGUGCGGUCGAAAAAUAAUGUGUUUUUUGACCGCACUUUUAUCAAUGAAUUAGCAGGAUUA ...((((((...((((((..((((.....))))..))))))...))))))...(((((((((((((((((((((.....)))))))))))))))))))))................... (-32.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 515 63 22 94 53 aact:AA00233|5end_hypothetical_protein_162339..162569_POSITIVE 504 69 23 160 114 aact:AA02113|5end_conserved_hypothetical_protein_1442183..1442413_POSITIVE 492 63 23 188 146 aact:AA02893|5end_oligopeptide_transport_system_permease_protein,_N-terminal_2027201..2027431_POSITIVE 473 63 22 94 53 aact:AA00235|5end_hypothetical_protein_168596..168826_POSITIVE 464 63 22 79 38 aact:AA02213|5end_hypothetical_protein_1506996..1507226_POSITIVE 442 63 22 141 100 aact:AA00126|5end_conserved_hypothetical_protein_91053..91283_POSITIVE 434 63 21 169 122 aact:AA00721|5end_probable_beta-N-acetylhexosaminidase_(lacto-N-biosidase);_dispersin_B_494739..494969_POSITIVE 434 63 21 57 10 aact:AA00719|5end_hypothetical_protein_494627..494857_POSITIVE 428 69 23 211 165 aact:AA02754|5end_conserved_hypothetical_protein_1928949..1929179_POSITIVE 423 65 21 57 11 aact:AA00697|5end_hypothetical_protein_476999..477229_POSITIVE 422 67 23 80 32 aact:AA02002|5end_hypothetical_protein_1360196..1360426_POSITIVE 422 63 22 212 171 aact:AA01625|5end_riboflavin_synthase,_beta_chain_1099964..1100194_POSITIVE 414 70 22 162 108 aact:AA02010|5end_peptide_methionine_sulfoxide_reductase;_cytochrome_C-TYPE_biogenesis_protein;_transcriptional_regulator_1367180..1367410_POSITIVE 409 66 21 140 93 aact:AA00091|5end_short-patch_reverse_transcription_protein_67741..67971_POSITIVE 408 68 22 190 143 aact:AA02722|5end_cytidine_deaminase_1905379..1905609_POSITIVE 408 63 22 213 171 aact:AA01145|5end_glycyl-tRNA_synthetase_alpha_subunit_783478..783708_POSITIVE 406 68 21 161 109 aact:AA00801|5end_lysine--tRNA_ligase_548494..548724_POSITIVE 401 63 23 158 118 aact:AA00759|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_I_520603..520833_POSITIVE 395 63 22 194 151 aact:AA02902|5end_aerobic_respiration_control_protein_2031171..2031401_POSITIVE 395 65 23 180 135 aact:AA00654|5end_conserved_hypothetical_protein_447772..448002_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 515 63 22 74 33 aact:AA00231|3end_long-chain-fatty-acid--CoA_ligase_162399..162549_POSITIVE 504 69 23 81 35 aact:AA02112|3end_cell_division_protein_1442184..1442334_POSITIVE 492 63 23 84 42 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE 473 63 22 59 18 aact:AA00234|3end_collagen_adhesin_168641..168791_POSITIVE 464 63 22 81 40 aact:AA02212|3end_ribonucleoside-diphosphate_reductase_beta_chain_1507078..1507228_POSITIVE 434 63 21 73 26 aact:AA00718|3end_ABC-related_ATP-binding_protein;_MRP_protein_494723..494873_POSITIVE 428 69 23 50 4 aact:AA02751|3end_L-lactate_permease_1928868..1929018_POSITIVE 423 65 21 84 38 aact:AA00696|3end_iron(III)_ABC_transporter,_periplasmic_iron-compound-binding_protein_477106..477256_POSITIVE 422 63 22 69 28 aact:AA01624|3end_glucose-6-phosphate_isomerase_1099901..1100051_POSITIVE 418 63 21 149 106 aact:AA00697|3end_hypothetical_protein_477174..477324_POSITIVE 410 63 21 57 15 aact:AA00010|3end_transposase_orfB_fragment_6297..6447_POSITIVE 409 66 21 68 21 aact:AA00089|3end_S-adenosylmethionine_synthase;_methionine_adenosyltransferase_67749..67899_POSITIVE 408 68 22 65 18 aact:AA02721|3end_spermidine/putrescine_ABC_transporter,_periplasmic-binding_protein_1905334..1905484_POSITIVE 406 68 21 89 37 aact:AA00799|3end_iron(III)_dicitrate_transport_ATP-binding_protein_548502..548652_POSITIVE 395 63 22 81 38 aact:AA02899|3end_oligopeptide_ABC_transporter,_ATP-binding_protein_2031138..2031288_POSITIVE 391 70 22 85 30 aact:AA02886|3end_OBG-related_GTP-binding_protein_2024634..2024784_POSITIVE 388 63 21 67 24 aact:AA02035|3end_translation_initiation_factor_IF-3_1386905..1387055_POSITIVE 387 63 22 85 39 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 386 60 20 74 33 aact:AA00896|3end_prolyl-tRNA_synthetase_(proline-tRNA_ligase)_623206..623356_POSITIVE 380 68 28 40 1 aact:AA02001|3end_conserved_hypothetical_protein_1360239..1360389_POSITIVE