Origin IGS: taaaaaagaaaaagctggagaaagaagcgaatatatacccttatcgtccaagcgatgtttgcgataaatgaagtcatttcaaggtattaaaaaaacaaaaatctgccgtcggctatttggtgcttttcgttataacttgtacgtttgtagaaaaatcagataaaaaaacaaaatact .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agtattttgtttttttatctgatttttctacaaacgtacaagttataacgaaaagcaccaaatagccgacggcagatttttgtttttttaataccttgaaatgacttcatttatcgcaaacatcgcttggacgataagggtatatattcgcttctttctccagctttttctttttta Mask Tandem Repeat Region ================================================ taaaaaagaaaaagctggagaaagaagcgaatatatacccttatcgtccaagcgatgtttgcgataaatgaagtcatttcaaggtattaaaaaaacaaaaatctgccgtcggctatttggtgcttttcgttataacttgtacgtttgtagaaaaatcagataaaaaaacaaaatact Find is-nt database================================================ Query_seq: TF1358:TF1359|TF1358:TF1359:hypothetical protein:hypothetical protein:->->:1438940..1439116 177 taaaaaagaaaaagctggagaaagaagcgaatatatacccttatcgtccaagcgatgtttgcgataaatgaagtcatttcaaggtattaaaaaaacaaaaatctgccgtcggctatttggtgcttttcgttataacttgtacgtttgtagaaaaatcagataaaaaaacaaaatact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1358:TF1359|TF1358:TF1359:hypothetical protein:hypothetical protein:->->:1438940..1439116 177 taaaaaagaaaaagctggagaaagaagcgaatatatacccttatcgtccaagcgatgtttgcgataaatgaagtcatttcaaggtattaaaaaaacaaaaatctgccgtcggctatttggtgcttttcgttataacttgtacgtttgtagaaaaatcagataaaaaaacaaaatact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1358:TF1359|TF1358:TF1359:hypothetical protein:hypothetical protein:->->:1438940..1439116 177 taaaaaagaaaaagctggagaaagaagcgaatatatacccttatcgtccaagcgatgtttgcgataaatgaagtcatttcaaggtattaaaaaaacaaaaatctgccgtcggctatttggtgcttttcgttataacttgtacgtttgtagaaaaatcagataaaaaaacaaaatact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaaagaaaaagctggagaaagaagcgaatatatacccttatcgtccaagcgatgtttgcgataaatgaagtcatttcaaggtattaaaaaaacaaaaatctgccgtcggctatttggtgcttttcgttataacttgtacgtttgtagaaaaatcagataaaaaaacaaaatact Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 68 End: 160 ................................................................... M K S F Q G I K K T K I C R R L F G A F R Y N L Y V C R K I R ................. taaaaaagaaaaagctggagaaagaagcgaatatatacccttatcgtccaagcgatgtttgcgataaatgaagtcatttcaaggtattaaaaaaacaaaaatctgccgtcggctatttggtgcttttcgttataacttgtacgtttgtagaaaaatcagataaaaaaacaaaatact 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================================================ taaaaaagaaaaagctggagaaagaagcgaatatatacccttatcgtccaagcgatgtttgcgataaatgaagtcatttcaaggtattaaaaaaacaaaaatctgccgtcggctatttggtgcttttcgttataacttgtacgtttgtagaaaaatcagataaaaaaacaaaatact Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1358:TF1359|TF1358:TF1359:hypothetical protein:hypothetical protein:->->:1438940..1439116 177 taaaaaagaaaaagctggagaaagaagcgaatatatacccttatcgtccaagcgatgtttgcgataaatgaagtcatttcaaggtattaaaaaaacaaaaatctgccgtcggctatttggtgcttttcgttataacttgtacgtttgtagaaaaatcagataaaaaaacaaaatact Intra-Species Hit: Count: 1 Min: 14 Max: 161 Len: 148 Subject: tfor_TF1358_TF1359|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1438940,1439116]|177 HSP 1 e-value: 4.0E-35 bit: 149.0 Len: 75 Query Start:14 Query End:88 Subject Strand: POSITIVE Subject Start: 14 Subject End: 88 .............gctggagaaagaagcgaatatatacccttatcgtccaagcgatgtttgcgataaatgaagtcatttcaaggtatt......................................................................................... .............gctggagaaagaagcgaatatatacccttatcgtccaagcgatgtttgcgataaatgaagtcatttcaaggtatt......................................................................................... HSP 2 e-value: 3.0E-26 bit: 119.0 Len: 60 Query Start:102 Query End:161 Subject Strand: POSITIVE Subject Start: 102 Subject End: 161 .....................................................................................................tctgccgtcggctatttggtgcttttcgttataacttgtacgtttgtagaaaaatcagat................ .....................................................................................................tctgccgtcggctatttggtgcttttcgttataacttgtacgtttgtagaaaaatcagat................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUGGAGAAAGAAGCGAAUAUAUACCCUUAUCGUCCAAGCGAUGUUUGCGAUAAAUGAAGUCAUUUCAAGGUAUUAAAAAAACAAAAAUCUGCCGUCGGCUAUUUGGUGCUUUUCGUUAUAACUUGUACGUUUGUAGAAAAAUCAGAU ((((..(..(((.((((((..........(((((....)))))))))))...(((((....)))))......................)))..)..)))).(((((((..(((((.....(((......)))....)))))))))))) (-23.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUGAUUUUUCUACAAACGUACAAGUUAUAACGAAAAGCACCAAAUAGCCGACGGCAGAUUUUUGUUUUUUUAAUACCUUGAAAUGACUUCAUUUAUCGCAAACAUCGCUUGGACGAUAAGGGUAUAUAUUCGCUUCUUUCUCCAGC ......................((((.(((...((((((((..((((.(((...)))..)))).))))))))..))).))))(((((....)))))............(((.(((.((.(..(((........)))..).)))))))) (-20.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 347 136 91 222 176 tfor:TF3152|5end_hypothetical_protein_3386690..3386920_POSITIVE 342 130 90 77 27 tfor:TF1062|5end_glycosyltransferase_1131727..1131957_POSITIVE 326 133 91 125 86 tfor:TF0789|5end_preprotein_translocase,_secDF_family_841293..841523_POSITIVE 323 128 88 87 41 tfor:TF1455|5end_conserved_hypothetical_protein_1540688..1540918_POSITIVE 302 47 6 79 42 tfor:TF0237|5end_outer_membrane_protein,_TonB_dependent_receptor_263669..263899_POSITIVE 301 60 13 146 101 tfor:TF2083|5end_conserved_hypothetical_protein_2250834..2251064_POSITIVE 300 49 1 154 111 tfor:TF0528|5end_two-component_system_sensor_histidine_kinase_552357..552587_POSITIVE 299 50 1 192 141 tfor:TF1439|5end_outer_membrane_protein,_TonB_dependent_receptor_1522479..1522709_POSITIVE 299 50 1 149 112 tfor:TF0983|5end_nitroreductase_family_protein,__possible_NADH_dehydrogenase/NAD(P)H_nitroreductase_1039394..1039624_POSITIVE 298 137 91 56 18 tfor:TF2624|5end_methlytransferase,_UbiE/COQ5_family_2798266..2798496_POSITIVE 298 117 89 213 186 tfor:TF1824|5end_ABC_transporter,_ATP-binding_protein_1972537..1972767_POSITIVE 295 130 88 222 171 tfor:TF2259|5end_transfer_region-related_protein,_TraK_2429577..2429807_POSITIVE 291 128 89 152 108 tfor:TF2332|5end_signal_peptidase_I_2491694..2491924_POSITIVE 291 130 87 219 165 tfor:TF0565|5end_hypothetical_protein_597765..597995_POSITIVE 290 136 92 90 35 tfor:TF0419|5end_conserved_hypothetical_protein_435250..435480_POSITIVE 289 48 1 77 27 tfor:TF0371|5end_beta-mannosidase_precursor_386763..386993_POSITIVE 287 136 91 206 159 tfor:TF2305|5end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_2461348..2461578_POSITIVE 285 137 98 207 170 tfor:TF2746|5end_hypothetical_protein_2927996..2928226_POSITIVE 283 50 1 186 130 tfor:TF2820|5end_argininosuccinate_synthetase_3009876..3010106_POSITIVE 283 116 88 218 186 tfor:TF1739|5end_possible_sulfatase_1866983..1867213_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 130 90 77 27 tfor:TF1061|3end_glycosyltransferase_1131807..1131957_POSITIVE 326 133 91 122 83 tfor:TF0788|3end_protein-export_membrane_protein_841370..841520_POSITIVE 312 129 81 83 26 tfor:TF2646|3end_conserved_hypothetical_protein_2816697..2816847_POSITIVE 301 60 13 139 94 tfor:TF2082|3end_DNA_topoisomerase_IV,_subunit_B_2250907..2251057_POSITIVE 299 50 1 149 112 tfor:TF0982|3end_conserved_hypothetical_protein_1039474..1039624_POSITIVE 291 128 89 145 101 tfor:TF2331|3end_conserved_hypothetical_protein_2491767..2491917_POSITIVE 291 42 1 146 106 tfor:TF1438|3end_hypothetical_protein_1522524..1522674_POSITIVE 291 130 87 124 70 tfor:TF0564|3end_conserved_hypothetical_protein_597750..597900_POSITIVE 290 136 92 86 31 tfor:TF0418|3end_possible_methyl-accepting_chemotaxis_protein_435326..435476_POSITIVE 289 138 94 133 78 tfor:TF0939|3end_ISPg1_transposase,_IS1106-related_transposase_981115..981265_POSITIVE 287 139 93 128 76 tfor:TF1738|3end_outer_membrane_protein_1866946..1867096_POSITIVE 285 137 98 78 41 tfor:TF2745|3end_hypothetical_protein_2927947..2928097_POSITIVE 284 130 88 123 66 tfor:TF0135|3end_hypothetical_protein_146554..146704_POSITIVE 281 49 3 59 10 tfor:TF2655|3end_DNA_topoisomerase_I_2826962..2827112_POSITIVE 281 111 90 56 33 tfor:TF1474|3end_6-phosphogluconolactonase_1568123..1568273_POSITIVE 276 43 1 48 6 tfor:TF2502|3end_conserved_hypothetical_protein_2678491..2678641_POSITIVE 276 126 90 138 109 tfor:TF1818|3end_conserved_hypothetical_protein_1958754..1958904_POSITIVE 274 130 87 144 107 tfor:TF3052|3end_conserved_hypothetical_protein_3278654..3278804_POSITIVE 271 130 91 151 111 tfor:TF3151|3end_glyoxalase_family_protein_3386705..3386855_POSITIVE 271 128 89 54 16 tfor:TF1621|3end_DNA_replication_and_repair_protein_RecF_1736473..1736623_POSITIVE