Origin IGS: ttacacatttccaatggtatgcaataggagagaaaggtatgagcttgccaataaaaggttcttctgttaaatagatggatttatacgtttgttaacatttagaggagctattcttgtctccccatatactgcatagcgagcaattaaccaactgtacatcaatattatatagagatttatgcgagatactaatcccttaacatcctgtaaacatcaaggagcttcatttacgcatttaacagaagaccccaataaaaggggtaacatacccacaaaccgtcaagaggtgaaaaggttatttatacaacctgctatcaataaaaatgcaactgtaaatgccgaaaatgcaactgtaagtccca .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgggacttacagttgcattttcggcatttacagttgcatttttattgatagcaggttgtataaataaccttttcacctcttgacggtttgtgggtatgttaccccttttattggggtcttctgttaaatgcgtaaatgaagctccttgatgtttacaggatgttaagggattagtatctcgcataaatctctatataatattgatgtacagttggttaattgctcgctatgcagtatatggggagacaagaatagctcctctaaatgttaacaaacgtataaatccatctatttaacagaagaaccttttattggcaagctcatacctttctctcctattgcataccattggaaatgtgtaa Mask Tandem Repeat Region ================================================ ttacacatttccaatggtatgcaataggagagaaaggtatgagcttgccaataaaaggttcttctgttaaatagatggatttatacgtttgttaacatttagaggagctattcttgtctccccatatactgcatagcgagcaattaaccaactgtacatcaatattatatagagatttatgcgagatactaatcccttaacatcctgtaaacatcaaggagcttcatttacgcatttaacagaagaccccaataaaaggggtaacatacccacaaaccgtcaagaggtgaaaaggttatttatacaacctgctatcaataaaaatgcaactgtaaatgccgaaaatgcaactgtaagtccca Find is-nt database================================================ Query_seq: TF2964:TF2965|TF2964:TF2965:type I restriction enzyme:conserved hypothetical protein:->->:3176334..3176695 362 ttacacatttccaatggtatgcaataggagagaaaggtatgagcttgccaataaaaggttcttctgttaaatagatggatttatacgtttgttaacatttagaggagctattcttgtctccccatatactgcatagcgagcaattaaccaactgtacatcaatattatatagagatttatgcgagatactaatcccttaacatcctgtaaacatcaaggagcttcatttacgcatttaacagaagaccccaataaaaggggtaacatacccacaaaccgtcaagaggtgaaaaggttatttatacaacctgctatcaataaaaatgcaactgtaaatgccgaaaatgcaactgtaagtccca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2964:TF2965|TF2964:TF2965:type I restriction enzyme:conserved hypothetical protein:->->:3176334..3176695 362 ttacacatttccaatggtatgcaataggagagaaaggtatgagcttgccaataaaaggttcttctgttaaatagatggatttatacgtttgttaacatttagaggagctattcttgtctccccatatactgcatagcgagcaattaaccaactgtacatcaatattatatagagatttatgcgagatactaatcccttaacatcctgtaaacatcaaggagcttcatttacgcatttaacagaagaccccaataaaaggggtaacatacccacaaaccgtcaagaggtgaaaaggttatttatacaacctgctatcaataaaaatgcaactgtaaatgccgaaaatgcaactgtaagtccca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2964:TF2965|TF2964:TF2965:type I restriction enzyme:conserved hypothetical protein:->->:3176334..3176695 362 ttacacatttccaatggtatgcaataggagagaaaggtatgagcttgccaataaaaggttcttctgttaaatagatggatttatacgtttgttaacatttagaggagctattcttgtctccccatatactgcatagcgagcaattaaccaactgtacatcaatattatatagagatttatgcgagatactaatcccttaacatcctgtaaacatcaaggagcttcatttacgcatttaacagaagaccccaataaaaggggtaacatacccacaaaccgtcaagaggtgaaaaggttatttatacaacctgctatcaataaaaatgcaactgtaaatgccgaaaatgcaactgtaagtccca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttacacatttccaatggtatgcaataggagagaaaggtatgagcttgccaataaaaggttcttctgttaaatagatggatttatacgtttgttaacatttagaggagctattcttgtctccccatatactgcatagcgagcaattaaccaactgtacatcaatattatatagagatttatgcgagatactaatcccttaacatcctgtaaacatcaaggagcttcatttacgcatttaacagaagaccccaataaaaggggtaacatacccacaaaccgtcaagaggtgaaaaggttatttatacaacctgctatcaataaaaatgcaactgtaaatgccgaaaatgcaactgtaagtccca Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 179 End: 361 .................................................................................................................................................................................. M R D T N P L T S C K H Q G A S F T H L T E D P N K R G N I P T N R Q E V K R L F I Q P A I N K N A T V N A E N A T V S . Protein_Len: 33 Strand: - Start: 95 End: 193 .............................................................................................. C K S S S N K D G W I S C L S C N V L Q V D I N Y L S K H S I S M ......................................................................................................................................................................... Protein_Len: 37 Strand: - Start: 70 End: 180 ..................................................................... I S P N I R K N V N L P A I R T E G Y V A Y R A I L W S Y M L I I Y L N M ...................................................................................................................................................................................... ttacacatttccaatggtatgcaataggagagaaaggtatgagcttgccaataaaaggttcttctgttaaatagatggatttatacgtttgttaacatttagaggagctattcttgtctccccatatactgcatagcgagcaattaaccaactgtacatcaatattatatagagatttatgcgagatactaatcccttaacatcctgtaaacatcaaggagcttcatttacgcatttaacagaagaccccaataaaaggggtaacatacccacaaaccgtcaagaggtgaaaaggttatttatacaacctgctatcaataaaaatgcaactgtaaatgccgaaaatgcaactgtaagtccca 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: 164 End: 193 ...................................................................................................................................................................ATTAGTATCTCGCATAAATCTCTATATAAT......................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttacacatttccaatggtatgcaataggagagaaaggtatgagcttgccaataaaaggttcttctgttaaatagatggatttatacgtttgttaacatttagaggagctattcttgtctccccatatactgcatagcgagcaattaaccaactgtacatcaatattatatagagatttatgcgagatactaatcccttaacatcctgtaaacatcaaggagcttcatttacgcatttaacagaagaccccaataaaaggggtaacatacccacaaaccgtcaagaggtgaaaaggttatttatacaacctgctatcaataaaaatgcaactgtaaatgccgaaaatgcaactgtaagtccca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2964:TF2965|TF2964:TF2965:type I restriction enzyme:conserved hypothetical protein:->->:3176334..3176695 362 ttacacatttccaatggtatgcaataggagagaaaggtatgagcttgccaataaaaggttcttctgttaaatagatggatttatacgtttgttaacatttagaggagctattcttgtctccccatatactgcatagcgagcaattaaccaactgtacatcaatattatatagagatttatgcgagatactaatcccttaacatcctgtaaacatcaaggagcttcatttacgcatttaacagaagaccccaataaaaggggtaacatacccacaaaccgtcaagaggtgaaaaggttatttatacaacctgctatcaataaaaatgcaactgtaaatgccgaaaatgcaactgtaagtccca Intra-Species Hit: Count: 1 Min: 1 Max: 362 Len: 362 Subject: tfor_TF2964_TF2965|type I restriction enzyme:conserved hypothetical protein|POSITIVE:POSITIVE|[3176334,3176695]|362 HSP 1 e-value: 0.0 bit: 718.0 Len: 362 Query Start:1 Query End:362 Subject Strand: POSITIVE Subject Start: 1 Subject End: 362 ttacacatttccaatggtatgcaataggagagaaaggtatgagcttgccaataaaaggttcttctgttaaatagatggatttatacgtttgttaacatttagaggagctattcttgtctccccatatactgcatagcgagcaattaaccaactgtacatcaatattatatagagatttatgcgagatactaatcccttaacatcctgtaaacatcaaggagcttcatttacgcatttaacagaagaccccaataaaaggggtaacatacccacaaaccgtcaagaggtgaaaaggttatttatacaacctgctatcaataaaaatgcaactgtaaatgccgaaaatgcaactgtaagtccca ttacacatttccaatggtatgcaataggagagaaaggtatgagcttgccaataaaaggttcttctgttaaatagatggatttatacgtttgttaacatttagaggagctattcttgtctccccatatactgcatagcgagcaattaaccaactgtacatcaatattatatagagatttatgcgagatactaatcccttaacatcctgtaaacatcaaggagcttcatttacgcatttaacagaagaccccaataaaaggggtaacatacccacaaaccgtcaagaggtgaaaaggttatttatacaacctgctatcaataaaaatgcaactgtaaatgccgaaaatgcaactgtaagtccca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUACACAUUUCCAAUGGUAUGCAAUAGGAGAGAAAGGUAUGAGCUUGCCAAUAAAAGGUUCUUCUGUUAAAUAGAUGGAUUUAUACGUUUGUUAACAUUUAGAGGAGCUAUUCUUGUCUCCCCAUAUACUGCAUAGCGAGCAAUUAACCAACUGUACAUCAAUAUUAUAUAGAGAUUUAUGCGAGAUACUAAUCCCUUAACAUCCUGUAAACAUCAAGGAGCUUCAUUUACGCAUUUAACAGAAGACCCCAAUAAAAGGGGUAACAUACCCACAAACCGUCAAGAGGUGAAAAGGUUAUUUAUACAACCUGCUAUCAAUAAAAAUGCAACUGUAAAUGCCGAAAAUGCAACUGUAAGUCCCA (((((...((((..((.(((((((((((.((((..((((......)))).......((((((((((((((.((((((........)))))))))))....))))))))).......)))).)).)))..)))))).)).............................(((((.((((((.(.(.(((....))))).))).))))))))........))))...(((((.((((((((.(((...(((((.......))))).......................((((...(((((........)))))..)))).............))))))))).)).)))))....)))))...... (-74.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGGGACUUACAGUUGCAUUUUCGGCAUUUACAGUUGCAUUUUUAUUGAUAGCAGGUUGUAUAAAUAACCUUUUCACCUCUUGACGGUUUGUGGGUAUGUUACCCCUUUUAUUGGGGUCUUCUGUUAAAUGCGUAAAUGAAGCUCCUUGAUGUUUACAGGAUGUUAAGGGAUUAGUAUCUCGCAUAAAUCUCUAUAUAAUAUUGAUGUACAGUUGGUUAAUUGCUCGCUAUGCAGUAUAUGGGGAGACAAGAAUAGCUCCUCUAAAUGUUAACAAACGUAUAAAUCCAUCUAUUUAACAGAAGAACCUUUUAUUGGCAAGCUCAUACCUUUCUCUCCUAUUGCAUACCAUUGGAAAUGUGUAA ((.(((.....))).))......((((((.((((((((.......(((....(((((((....)))))))..))).........(((..((((((.(((((((((.......))))(((((((((((((((.........))...((((((((((.((((.((((.(((((....))))).......((((((((((.......((((.(((.(((.....))).))).)))).))))))))))........)))))))).))))))))))...................))))))))))))).........))))).)))))))))............))))....)))).)))))).... (-87.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 346 150 104 120 73 tfor:TF0864|5end_O-succinylbenzoate--CoA_ligase_914570..914800_POSITIVE 304 160 114 53 3 tfor:TF2014|5end_dipeptidyl_aminopeptidase_IV_2169398..2169628_POSITIVE 298 140 94 74 36 tfor:TF0406|5end_monofunctional_biosynthetic_peptidoglycan_transglycosylase_424245..424475_POSITIVE 295 149 107 174 129 tfor:TF2504|5end_peptidyl-prolyl_cis-trans_isomerase_2680031..2680261_POSITIVE 295 156 111 70 14 tfor:TF0078|5end_aminopeptidase_C,_peptidase_C1-like_family_84529..84759_POSITIVE 290 158 118 49 3 tfor:TF0778|5end_outer_membrane_protein,_TonB_dependent_receptor_827284..827514_POSITIVE 289 125 101 91 63 tfor:TF2671|5end_dipeptidyl_peptidase_IV_(DPP_IV)_N-terminal_region_2843918..2844148_POSITIVE 282 139 103 97 59 tfor:TF2317|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_II_2474418..2474648_POSITIVE 282 138 94 149 99 tfor:TF1433|5end_ribose_5-phosphate_isomerase_1517031..1517261_POSITIVE 279 49 1 63 19 tfor:TF0193|5end_conserved_hypothetical_protein;_possible_internalin-like_protein_(LPXTG_motif)_207955..208185_POSITIVE 278 255 217 40 1 tfor:TF1026|5end_beta-N-acetylglucosaminidase;_beta_lactamase_1082560..1082790_POSITIVE 277 149 102 131 83 tfor:TF3122|5end_ABC_transporter,_ATP-binding_protein_3356047..3356277_POSITIVE 277 50 16 108 62 tfor:TF2695|5end_prephenate_dehydratase_2869618..2869848_POSITIVE 272 64 27 89 47 tfor:TF1468|5end_beta-galactosidase_1557785..1558015_POSITIVE 269 50 11 205 160 tfor:TF2473|5end_poly(A)_polymerase/tRNA_nucleotidyltransferase_2650470..2650700_POSITIVE 268 122 82 199 158 tfor:TF0685|5end_hypothetical_protein_730852..731082_POSITIVE 266 80 32 171 119 tfor:TF0513|5end_ferredoxin_538192..538422_POSITIVE 265 49 6 75 38 tfor:TF2519|5end_membrane_protein,_metallopeptidase_M23/M37_family_2697676..2697906_POSITIVE 265 297 259 190 145 tfor:TF0029|5end_hypothetical_protein_24824..25054_POSITIVE 261 49 4 231 175 tfor:TF0444|5end_Na+-translocating_NADH-quinone_oxidoreductase,_subunit_5_465869..466099_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 141 102 115 59 tfor:TF3165|3end_thiol:disulfide_interchange_protein,_thioredoxin_family_protein_3405343..3405493_POSITIVE 298 140 94 57 19 tfor:TF0405|3end_conserved_hypothetical_protein_424308..424458_POSITIVE 289 125 101 37 9 tfor:TF2669|3end_possible_Fe-S_oxidoreductase_2843944..2844094_POSITIVE 283 138 101 38 1 tfor:TF0301|3end_outer_membrane_protein,_TonB_dependent_receptor_328176..328326_POSITIVE 282 139 103 97 59 tfor:TF2315|3end_thioesterase_2474498..2474648_POSITIVE 281 59 20 135 97 tfor:TF0718|3end_methylenetetrahydrofolate_dehydrogenase;_methenyltetrahydrofolate_cyclohydrolase_769980..770130_POSITIVE 279 134 100 39 1 tfor:TF2722|3end_conserved_hypothetical_protein_2897498..2897648_POSITIVE 277 149 102 128 80 tfor:TF3121|3end_nicotinate_phosphoribosyltransferase_3356124..3356274_POSITIVE 277 50 16 130 84 tfor:TF2693|3end_possible_aminotransferase_2869720..2869870_POSITIVE 272 64 27 61 19 tfor:TF1467|3end_conserved_hypothetical_protein_1557837..1557987_POSITIVE 270 156 111 65 4 tfor:TF3163|3end_conserved_hypothetical_protein_3403717..3403867_POSITIVE 269 50 11 123 78 tfor:TF2472|3end_GAF_domain-containing_protein_2650468..2650618_POSITIVE 265 297 259 49 4 tfor:TF0028|3end_hypothetical_protein_24763..24913_POSITIVE 264 270 221 47 13 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 264 270 221 66 32 tfor:TF0370|3end_hypothetical_protein_386317..386467_POSITIVE 257 149 102 84 29 tfor:TF1732|3end_conserved_hypothetical_protein_1855979..1856129_POSITIVE 256 79 33 70 33 tfor:TF0921|3end_transcriptional_regulator,_AraC_family_959637..959787_POSITIVE 255 50 16 107 59 tfor:TF0991|3end_probable_NAD(FAD)-dependent_dehydrogenase_1048334..1048484_POSITIVE 249 155 111 112 72 tfor:TF3126|3end_glycosyltransferase,_group_2_family_3361685..3361835_POSITIVE 249 141 102 141 100 tfor:TF0131|3end_hypothetical_protein_143038..143188_POSITIVE