Origin IGS: aatttaatgattgtatacgggtaatataatagacgtgttaagaagcgtttgcgcttctctcttgtcttaatcgggattaaaattcgatacgatatgtgcgaaagtgtgtccatacgggaaacaacgtatatttgcggacaaagataaggattttatggtaaaagaccaaaataatctttaggggtttttaaatataagaagcctgcttgcaggtgagaagtggaaatcgcctcatacggtctatccgttattcattccacaaaaattccaaaaaagaatatggaggttaaactatccggaagggggttcgtctatctctcatattaaaacgacaaacaaagaaaagaatttt .........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 aaaattcttttctttgtttgtcgttttaatatgagagatagacgaacccccttccggatagtttaacctccatattcttttttggaatttttgtggaatgaataacggatagaccgtatgaggcgatttccacttctcacctgcaagcaggcttcttatatttaaaaacccctaaagattattttggtcttttaccataaaatccttatctttgtccgcaaatatacgttgtttcccgtatggacacactttcgcacatatcgtatcgaattttaatcccgattaagacaagagagaagcgcaaacgcttcttaacacgtctattatattacccgtatacaatcattaaatt Mask Tandem Repeat Region ================================================ aatttaatgattgtatacgggtaatataatagacgtgttaagaagcgtttgcgcttctctcttgtcttaatcgggattaaaattcgatacgatatgtgcgaaagtgtgtccatacgggaaacaacgtatatttgcggacaaagataaggattttatggtaaaagaccaaaataatctttaggggtttttaaatataagaagcctgcttgcaggtgagaagtggaaatcgcctcatacggtctatccgttattcattccacaaaaattccaaaaaagaatatggaggttaaactatccggaagggggttcgtctatctctcatattaaaacgacaaacaaagaaaagaatttt Find is-nt database================================================ Query_seq: TF0070:TF0071|TF0070:TF0071:possible regulatory element:conserved hypothetical protein:->->:77796..78147 352 aatttaatgattgtatacgggtaatataatagacgtgttaagaagcgtttgcgcttctctcttgtcttaatcgggattaaaattcgatacgatatgtgcgaaagtgtgtccatacgggaaacaacgtatatttgcggacaaagataaggattttatggtaaaagaccaaaataatctttaggggtttttaaatataagaagcctgcttgcaggtgagaagtggaaatcgcctcatacggtctatccgttattcattccacaaaaattccaaaaaagaatatggaggttaaactatccggaagggggttcgtctatctctcatattaaaacgacaaacaaagaaaagaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0070:TF0071|TF0070:TF0071:possible regulatory element:conserved hypothetical protein:->->:77796..78147 352 aatttaatgattgtatacgggtaatataatagacgtgttaagaagcgtttgcgcttctctcttgtcttaatcgggattaaaattcgatacgatatgtgcgaaagtgtgtccatacgggaaacaacgtatatttgcggacaaagataaggattttatggtaaaagaccaaaataatctttaggggtttttaaatataagaagcctgcttgcaggtgagaagtggaaatcgcctcatacggtctatccgttattcattccacaaaaattccaaaaaagaatatggaggttaaactatccggaagggggttcgtctatctctcatattaaaacgacaaacaaagaaaagaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0070:TF0071|TF0070:TF0071:possible regulatory element:conserved hypothetical protein:->->:77796..78147 352 aatttaatgattgtatacgggtaatataatagacgtgttaagaagcgtttgcgcttctctcttgtcttaatcgggattaaaattcgatacgatatgtgcgaaagtgtgtccatacgggaaacaacgtatatttgcggacaaagataaggattttatggtaaaagaccaaaataatctttaggggtttttaaatataagaagcctgcttgcaggtgagaagtggaaatcgcctcatacggtctatccgttattcattccacaaaaattccaaaaaagaatatggaggttaaactatccggaagggggttcgtctatctctcatattaaaacgacaaacaaagaaaagaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatttaatgattgtatacgggtaatataatagacgtgttaagaagcgtttgcgcttctctcttgtcttaatcgggattaaaattcgatacgatatgtgcgaaagtgtgtccatacgggaaacaacgtatatttgcggacaaagataaggattttatggtaaaagaccaaaataatctttaggggtttttaaatataagaagcctgcttgcaggtgagaagtggaaatcgcctcatacggtctatccgttattcattccacaaaaattccaaaaaagaatatggaggttaaactatccggaagggggttcgtctatctctcatattaaaacgacaaacaaagaaaagaatttt Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 49 End: 144 ................................................ M R F S L V L I G I K I R Y D M C E S V S I R E T T Y I C G Q R ................................................................................................................................................................................................................ Protein_Len: 35 Strand: + Start: 220 End: 324 ........................................................................................................................................................................................................................... M E I A S Y G L S V I H S T K I P K K N M E V K L S G R G F V Y L S Y ............................ Protein_Len: 53 Strand: + Start: 194 End: 352 ................................................................................................................................................................................................. M R S L L A G E K W K S P H T V Y P L F I P Q K F Q K R I W R L N Y P E G G S S I S H I K T T N K E K N F Protein_Len: 32 Strand: - Start: 156 End: 251 ........................................................................................................................................................... P L L G F Y D K P T K L Y L F G A Q L H S T S I A E Y P R D T M ..................................................................................................... Protein_Len: 32 Strand: - Start: 80 End: 175 ............................................................................... F E I R Y T R F H T W V P F L T Y K R V F I L I K H Y F V L I M ................................................................................................................................................................................. Protein_Len: 43 Strand: - Start: 3 End: 131 .. K I I T Y P Y Y L L R T L F R K R K E R T K I P I L I R Y S I H S L T D M R S V V Y M ............................................................................................................................................................................................................................. aatttaatgattgtatacgggtaatataatagacgtgttaagaagcgtttgcgcttctctcttgtcttaatcgggattaaaattcgatacgatatgtgcgaaagtgtgtccatacgggaaacaacgtatatttgcggacaaagataaggattttatggtaaaagaccaaaataatctttaggggtttttaaatataagaagcctgcttgcaggtgagaagtggaaatcgcctcatacggtctatccgttattcattccacaaaaattccaaaaaagaatatggaggttaaactatccggaagggggttcgtctatctctcatattaaaacgacaaacaaagaaaagaatttt 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: 54 End: 83 .....................................................CTTCTCTCTTGTCTTAATCGGGATTAAAAT............................................................................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aatttaatgattgtatacgggtaatataatagacgtgttaagaagcgtttgcgcttctctcttgtcttaatcgggattaaaattcgatacgatatgtgcgaaagtgtgtccatacgggaaacaacgtatatttgcggacaaagataaggattttatggtaaaagaccaaaataatctttaggggtttttaaatataagaagcctgcttgcaggtgagaagtggaaatcgcctcatacggtctatccgttattcattccacaaaaattccaaaaaagaatatggaggttaaactatccggaagggggttcgtctatctctcatattaaaacgacaaacaaagaaaagaatttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0070:TF0071|TF0070:TF0071:possible regulatory element:conserved hypothetical protein:->->:77796..78147 352 aatttaatgattgtatacgggtaatataatagacgtgttaagaagcgtttgcgcttctctcttgtcttaatcgggattaaaattcgatacgatatgtgcgaaagtgtgtccatacgggaaacaacgtatatttgcggacaaagataaggattttatggtaaaagaccaaaataatctttaggggtttttaaatataagaagcctgcttgcaggtgagaagtggaaatcgcctcatacggtctatccgttattcattccacaaaaattccaaaaaagaatatggaggttaaactatccggaagggggttcgtctatctctcatattaaaacgacaaacaaagaaaagaatttt Intra-Species Hit: Count: 1 Min: 1 Max: 352 Len: 352 Subject: tfor_TF0070_TF0071|possible regulatory element:conserved hypothetical protein|POSITIVE:POSITIVE|[77796,78147]|352 HSP 1 e-value: 0.0 bit: 698.0 Len: 352 Query Start:1 Query End:352 Subject Strand: POSITIVE Subject Start: 1 Subject End: 352 aatttaatgattgtatacgggtaatataatagacgtgttaagaagcgtttgcgcttctctcttgtcttaatcgggattaaaattcgatacgatatgtgcgaaagtgtgtccatacgggaaacaacgtatatttgcggacaaagataaggattttatggtaaaagaccaaaataatctttaggggtttttaaatataagaagcctgcttgcaggtgagaagtggaaatcgcctcatacggtctatccgttattcattccacaaaaattccaaaaaagaatatggaggttaaactatccggaagggggttcgtctatctctcatattaaaacgacaaacaaagaaaagaatttt aatttaatgattgtatacgggtaatataatagacgtgttaagaagcgtttgcgcttctctcttgtcttaatcgggattaaaattcgatacgatatgtgcgaaagtgtgtccatacgggaaacaacgtatatttgcggacaaagataaggattttatggtaaaagaccaaaataatctttaggggtttttaaatataagaagcctgcttgcaggtgagaagtggaaatcgcctcatacggtctatccgttattcattccacaaaaattccaaaaaagaatatggaggttaaactatccggaagggggttcgtctatctctcatattaaaacgacaaacaaagaaaagaatttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUAAUGAUUGUAUACGGGUAAUAUAAUAGACGUGUUAAGAAGCGUUUGCGCUUCUCUCUUGUCUUAAUCGGGAUUAAAAUUCGAUACGAUAUGUGCGAAAGUGUGUCCAUACGGGAAACAACGUAUAUUUGCGGACAAAGAUAAGGAUUUUAUGGUAAAAGACCAAAAUAAUCUUUAGGGGUUUUUAAAUAUAAGAAGCCUGCUUGCAGGUGAGAAGUGGAAAUCGCCUCAUACGGUCUAUCCGUUAUUCAUUCCACAAAAAUUCCAAAAAAGAAUAUGGAGGUUAAACUAUCCGGAAGGGGGUUCGUCUAUCUCUCAUAUUAAAACGACAAACAAAGAAAAGAAUUUU .......((.((((....(((((((...((((((.(((...((.((((((.((((((((.((((((((.((((((.......)))))).((..(((((((....(((.(((.....))).))).)))))))...))....))))))))..(((((((...(((((((..((......))...)))))))...))))))).(((((....))))))))))))).))).))).))..)))))))))..))))))).......................(((((((((((..((((.(((....))))))).....))))).))))))......)))).)).............. (-88.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUUCUUUUCUUUGUUUGUCGUUUUAAUAUGAGAGAUAGACGAACCCCCUUCCGGAUAGUUUAACCUCCAUAUUCUUUUUUGGAAUUUUUGUGGAAUGAAUAACGGAUAGACCGUAUGAGGCGAUUUCCACUUCUCACCUGCAAGCAGGCUUCUUAUAUUUAAAAACCCCUAAAGAUUAUUUUGGUCUUUUACCAUAAAAUCCUUAUCUUUGUCCGCAAAUAUACGUUGUUUCCCGUAUGGACACACUUUCGCACAUAUCGUAUCGAAUUUUAAUCCCGAUUAAGACAAGAGAGAAGCGCAAACGCUUCUUAACACGUCUAUUAUAUUACCCGUAUACAAUCAUUAAAUU (((((((.....((((((((((.((((.....))))))))))))))......((((....(((((...((((((((((.....)))))....))))).)))))..))))...((.(((((..((((.............((((....)))).....................(((.((((....((((.....))))...)))).)))....(((((......(((((........)))))))))).....)))).))))).))...)))))))......((((.((((....((((((((....)))))))).....))))..(((((.....))))).))))........ (-67.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 401 77 31 157 119 tfor:TF2975|5end_endonuclease_IV_3182394..3182624_POSITIVE 352 248 203 216 177 tfor:TF0212|5end_DNA/pantothenate_metabolism_flavoprotein_237719..237949_POSITIVE 345 248 201 123 62 tfor:TF1742|5end_TPR_repeat-containing_protein_1873129..1873359_POSITIVE 340 312 282 218 188 tfor:TF3155|5end_glycosyltransferase,_group_2_family_protein_3390417..3390647_POSITIVE 339 248 203 199 151 tfor:TF2611|5end_conserved_hypothetical_protein_2787204..2787434_POSITIVE 338 251 219 159 117 tfor:TF0520|5end_tetraacyldisaccharide_4'-kinase_544752..544982_POSITIVE 336 238 196 218 179 tfor:TF2760|5end_MarR__family_transcriptional_regulator_2945019..2945249_POSITIVE 334 119 73 148 93 tfor:TF1727|5end_hypothetical_protein_1852311..1852541_POSITIVE 332 240 196 142 96 tfor:TF2652|5end_hypothetical_protein_2821803..2822033_POSITIVE 332 240 196 94 48 tfor:TF2651|5end_hypothetical_protein_2821755..2821985_POSITIVE 328 330 281 196 141 tfor:TF0357|5end_lysyl_endopeptidase_374517..374747_POSITIVE 326 247 201 131 78 tfor:TF2187|5end_conserved_hypothetical_protein_2361693..2361923_POSITIVE 326 250 201 72 17 tfor:TF0388|5end_conserved_hypothetical_protein;_possible_integral_membrane_protein_408002..408232_POSITIVE 325 328 282 70 26 tfor:TF2507|5end_ATP-dependent_DNA_helicase_2683928..2684158_POSITIVE 325 255 211 71 21 tfor:TF0323|5end_NAD-dependent_epimerase/dehydratase_family_protein_349933..350163_POSITIVE 324 100 51 166 112 tfor:TF2465|5end_O-methyltransferase_2643737..2643967_POSITIVE 323 238 197 225 192 tfor:TF2207|5end_exo-alpha-sialidase_(neuraminidase)_2380907..2381137_POSITIVE 322 247 201 74 28 tfor:TF2341|5end_hypothetical_protein_2505735..2505965_POSITIVE 322 250 202 191 121 tfor:TF1966|5end_conserved_hypothetical_protein_2114989..2115219_POSITIVE 321 76 34 47 4 tfor:TF2261|5end_transfer_region-related_protein,_TraM_2430496..2430726_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 401 77 31 122 84 tfor:TF2974|3end_conserved_hypothetical_protein;_possible_hydrolase_3182439..3182589_POSITIVE 338 251 219 141 99 tfor:TF0519|3end_thiamine_monophosphate_kinase_544814..544964_POSITIVE 332 240 196 65 19 tfor:TF2650|3end_succinate_dehydrogenase,_iron-sulfur_subunit_2821806..2821956_POSITIVE 324 100 51 95 41 tfor:TF2464|3end_RNA_polymerase_ECF-type_sigma_factor_2643746..2643896_POSITIVE 321 76 34 63 20 tfor:TF2260|3end_transfer_region-related_protein,_TraL_2430592..2430742_POSITIVE 319 316 273 141 96 tfor:TF0217|3end_50S_ribosomal_protein_L35_243194..243344_POSITIVE 317 250 204 119 69 tfor:TF1690|3end_chaperone_protein_dnaK_1808721..1808871_POSITIVE 317 250 202 63 6 tfor:TF1447|3end_D-ribulose-phosphate-3_epimerase_1531764..1531914_POSITIVE 311 249 203 85 27 tfor:TF3126|3end_glycosyltransferase,_group_2_family_3361685..3361835_POSITIVE 311 58 18 124 79 tfor:TF2873|3end_conserved_hypothetical_protein_3064966..3065116_POSITIVE 307 93 51 75 33 tfor:TF1326|3end_hypothetical_protein_1404100..1404250_POSITIVE 298 248 201 70 13 tfor:TF2264|3end_transfer_region-related_protein,_TraO_2433542..2433692_POSITIVE 298 247 201 151 85 tfor:TF0818|3end_bifunctional_protein:__aspartokinase_I;_homoserine_dehydrogenase_878517..878667_POSITIVE 298 242 201 151 100 tfor:TF0538|3end_hypothetical_protein_567135..567285_POSITIVE 297 100 52 128 78 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE 296 229 181 55 7 tfor:TF1980|3end_conserved_hypothetical_protein_2130860..2131010_POSITIVE 293 242 202 115 71 tfor:TF1916|3end_conserved_hypothetical_protein;_possible_ATPase_2069938..2070088_POSITIVE 292 235 200 64 16 tfor:TF1403|3end_hypothetical_protein_1478025..1478175_POSITIVE 291 247 202 60 15 tfor:TF0463|3end_precorrin-6Y_C5,15-methyltransferase_480291..480441_POSITIVE 290 310 268 146 112 tfor:TF2521|3end_TPR-repeat-containing_protein_2701598..2701748_POSITIVE