Origin IGS: taaggcaggatgttacgaatactgaagagatacaaaatctaccgtatccatcggttttttctttccagttcgtctgacagttactgtgggggtaaatgctctttctttcttcttcggacctctccgtagaaaaatagcctttatcctttgaattacaagtttaaaaccagcctttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaggctggttttaaacttgtaattcaaaggataaaggctatttttctacggagaggtccgaagaagaaagaaagagcatttacccccacagtaactgtcagacgaactggaaagaaaaaaccgatggatacggtagattttgtatctcttcagtattcgtaacatcctgcctta Mask Tandem Repeat Region ================================================ taaggcaggatgttacgaatactgaagagatacaaaatctaccgtatccatcggttttttctttccagttcgtctgacagttactgtgggggtaaatgctctttctttcttcttcggacctctccgtagaaaaatagcctttatcctttgaattacaagtttaaaaccagcctttta Find is-nt database================================================ Query_seq: TF2758:TF2759|TF2758:TF2759:hypothetical protein:xylose repressor, ROK family:->->:2943531..2943707 177 taaggcaggatgttacgaatactgaagagatacaaaatctaccgtatccatcggttttttctttccagttcgtctgacagttactgtgggggtaaatgctctttctttcttcttcggacctctccgtagaaaaatagcctttatcctttgaattacaagtttaaaaccagcctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2758:TF2759|TF2758:TF2759:hypothetical protein:xylose repressor, ROK family:->->:2943531..2943707 177 taaggcaggatgttacgaatactgaagagatacaaaatctaccgtatccatcggttttttctttccagttcgtctgacagttactgtgggggtaaatgctctttctttcttcttcggacctctccgtagaaaaatagcctttatcctttgaattacaagtttaaaaccagcctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2758:TF2759|TF2758:TF2759:hypothetical protein:xylose repressor, ROK family:->->:2943531..2943707 177 taaggcaggatgttacgaatactgaagagatacaaaatctaccgtatccatcggttttttctttccagttcgtctgacagttactgtgggggtaaatgctctttctttcttcttcggacctctccgtagaaaaatagcctttatcctttgaattacaagtttaaaaccagcctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaggcaggatgttacgaatactgaagagatacaaaatctaccgtatccatcggttttttctttccagttcgtctgacagttactgtgggggtaaatgctctttctttcttcttcggacctctccgtagaaaaatagcctttatcctttgaattacaagtttaaaaccagcctttta Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 10 End: 126 ......... M L R I L K R Y K I Y R I H R F F L S S S S D S Y C G G K C S F F L L R T S P ................................................... Protein_Len: 33 Strand: + Start: 50 End: 148 ................................................. M G F F F P V R L T V T V G V N A L S F F F G P L R R K I A F I L ............................. Protein_Len: 46 Strand: - Start: 16 End: 153 ............... S Y Q L S V F D V T D M P K K K G T R R V T V T P T F A R E K K K P G R R L F I A K I R Q M ........................ Protein_Len: 32 Strand: - Start: 2 End: 97 . L C S T V F V S S I C F R G Y G D T K E K W N T Q C N S H P Y M ................................................................................ taaggcaggatgttacgaatactgaagagatacaaaatctaccgtatccatcggttttttctttccagttcgtctgacagttactgtgggggtaaatgctctttctttcttcttcggacctctccgtagaaaaatagcctttatcctttgaattacaagtttaaaaccagcctttta 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================================================ taaggcaggatgttacgaatactgaagagatacaaaatctaccgtatccatcggttttttctttccagttcgtctgacagttactgtgggggtaaatgctctttctttcttcttcggacctctccgtagaaaaatagcctttatcctttgaattacaagtttaaaaccagcctttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2758:TF2759|TF2758:TF2759:hypothetical protein:xylose repressor, ROK family:->->:2943531..2943707 177 taaggcaggatgttacgaatactgaagagatacaaaatctaccgtatccatcggttttttctttccagttcgtctgacagttactgtgggggtaaatgctctttctttcttcttcggacctctccgtagaaaaatagcctttatcctttgaattacaagtttaaaaccagcctttta Intra-Species Hit: Count: 1 Min: 1 Max: 177 Len: 177 Subject: tfor_TF2758_TF2759|hypothetical protein:xylose repressor, ROK family|POSITIVE:POSITIVE|[2943531,2943707]|177 HSP 1 e-value: 5.0E-96 bit: 351.0 Len: 177 Query Start:1 Query End:177 Subject Strand: POSITIVE Subject Start: 1 Subject End: 177 taaggcaggatgttacgaatactgaagagatacaaaatctaccgtatccatcggttttttctttccagttcgtctgacagttactgtgggggtaaatgctctttctttcttcttcggacctctccgtagaaaaatagcctttatcctttgaattacaagtttaaaaccagcctttta taaggcaggatgttacgaatactgaagagatacaaaatctaccgtatccatcggttttttctttccagttcgtctgacagttactgtgggggtaaatgctctttctttcttcttcggacctctccgtagaaaaatagcctttatcctttgaattacaagtttaaaaccagcctttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGGCAGGAUGUUACGAAUACUGAAGAGAUACAAAAUCUACCGUAUCCAUCGGUUUUUUCUUUCCAGUUCGUCUGACAGUUACUGUGGGGGUAAAUGCUCUUUCUUUCUUCUUCGGACCUCUCCGUAGAAAAAUAGCCUUUAUCCUUUGAAUUACAAGUUUAAAACCAGCCUUUUA .(((((.((..((((.((..((((.(((((....(((...((((.......)))).)))))))).))))...)))))).((......(((((((((.(((.(((.....((((.((((....)))).))))))).))).)))))))))......))..........)).)))))... (-43.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGGCUGGUUUUAAACUUGUAAUUCAAAGGAUAAAGGCUAUUUUUCUACGGAGAGGUCCGAAGAAGAAAGAAAGAGCAUUUACCCCCACAGUAACUGUCAGACGAACUGGAAAGAAAAAACCGAUGGAUACGGUAGAUUUUGUAUCUCUUCAGUAUUCGUAACAUCCUGCCUUA ...(((((.((((((...(((.((.(((...((.((((.(((.(((((((.((((....)))).)))))))......))).)))).))..((((...)))).....))).))..)))..)))))).((((((((((.((((.....))))..)).))))))))........))))). (-39.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 378 100 53 175 120 tfor:TF1519|5end_hypothetical_protein_1627667..1627897_POSITIVE 350 96 52 64 1 tfor:TF1388|5end_hypothetical_protein_1461785..1462015_POSITIVE 327 90 41 58 12 tfor:TF1133|5end_conserved_hypothetical_protein_1209618..1209848_POSITIVE 317 107 69 71 26 tfor:TF1369|5end_hypothetical_protein_1447192..1447422_POSITIVE 311 127 89 209 170 tfor:TF2948|5end_2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxy_late_synthase_3154823..3155053_POSITIVE 311 118 71 188 137 tfor:TF0656|5end_acetyltransferase,_possible_GNAT_family_702045..702275_POSITIVE 310 107 69 71 26 tfor:TF1386|5end_hypothetical_protein_1460103..1460333_POSITIVE 306 120 74 182 132 tfor:TF0310|5end_conserved_hypothetical_protein_334685..334915_POSITIVE 303 126 83 132 88 tfor:TF0612|5end_conserved_hypothetical_protein_644066..644296_POSITIVE 298 130 86 172 131 tfor:TF0782|5end_ThiJ/PfpI_family_protein_835976..836206_POSITIVE 297 101 62 204 166 tfor:TF0955|5end_conserved_hypothetical_protein_999215..999445_POSITIVE 296 125 84 69 8 tfor:TF1699|5end_mobilization_protein,_BmgA_1819695..1819925_POSITIVE 292 100 52 157 100 tfor:TF0134|5end_transposase_element_145542..145772_POSITIVE 290 90 42 78 35 tfor:TF2226|5end_CTn_excision_protein_2395529..2395759_POSITIVE 290 91 52 231 185 tfor:TF0136|5end_transposase_element_145627..145857_POSITIVE 289 138 100 171 138 tfor:TF2915|5end_hypothetical_protein_3110422..3110652_POSITIVE 289 150 109 110 71 tfor:TF2435|5end_DNA_repair_protein_radC_2614352..2614582_POSITIVE 289 116 72 141 95 tfor:TF1905|5end_conserved_hypothetical_protein_2059932..2060162_POSITIVE 289 127 86 180 137 tfor:TF1842|5end_hypothetical_protein_1992571..1992801_POSITIVE 289 117 72 112 51 tfor:TF1003|5end_conserved_hypothetical_protein;_possible_secreted_glycosylhydrolase_1058177..1058407_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 359 99 53 151 97 tfor:TF1518|3end_peroxiredoxin_1627724..1627874_POSITIVE 346 118 71 138 86 tfor:TF1574|3end_two-component_system_response_regulator_1685045..1685195_POSITIVE 327 90 41 64 18 tfor:TF1132|3end_conserved_hypothetical_protein_1209704..1209854_POSITIVE 317 107 69 71 26 tfor:TF1367|3end_hypothetical_protein_1447272..1447422_POSITIVE 317 107 69 67 22 tfor:TF1368|3end_hypothetical_protein_1447268..1447418_POSITIVE 316 107 69 71 26 tfor:TF1382|3end_hypothetical_protein_1457777..1457927_POSITIVE 316 107 69 67 22 tfor:TF1383|3end_hypothetical_protein_1457773..1457923_POSITIVE 301 140 91 97 37 tfor:TF0075|3end_transcriptional_regulator_83118..83268_POSITIVE 298 130 86 120 79 tfor:TF0781|3end_serine_protease_inhibitor_836004..836154_POSITIVE 296 125 84 76 15 tfor:TF1698|3end_mobilization_protein_1819782..1819932_POSITIVE 292 100 52 91 34 tfor:TF0133|3end_transposase_element_145556..145706_POSITIVE 290 90 42 71 28 tfor:TF2225|3end_CTn_excision_protein_2395602..2395752_POSITIVE 289 150 109 41 2 tfor:TF2434|3end_conserved_hypothetical_protein_2614363..2614513_POSITIVE 289 127 86 69 26 tfor:TF1841|3end_hypothetical_protein_1992267..1992417_POSITIVE 289 117 72 87 26 tfor:TF1002|3end_replicative_DNA_helicase_1058232..1058382_POSITIVE 286 44 2 112 63 tfor:TF1909|3end_cobalamin_(5`-phosphate)_synthase_2064075..2064225_POSITIVE 285 90 42 97 46 tfor:TF2472|3end_GAF_domain-containing_protein_2650468..2650618_POSITIVE 285 100 51 77 29 tfor:TF0818|3end_bifunctional_protein:__aspartokinase_I;_homoserine_dehydrogenase_878517..878667_POSITIVE 283 94 54 137 79 tfor:TF3084|3end_conserved_hypothetical_protein_3318642..3318792_POSITIVE 283 94 54 137 79 tfor:TF3082|3end_conserved_hypothetical_protein_3317338..3317488_POSITIVE