Origin IGS: tgctcttgtgttacgttgccgacaaatttacatataatcgttgaatatttaagcatgtgttccatagtattagattcatgtggtaaagcagtatgataattaatatattgaaaaacagtacgaaatgcaaggtttatacgatcttgccacatggctttttttaattttaatgcatggttatttgtgatataaggggggcatagacgatgcttttctgctctttttagataattaacaga .........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 tctgttaattatctaaaaagagcagaaaagcatcgtctatgccccccttatatcacaaataaccatgcattaaaattaaaaaaagccatgtggcaagatcgtataaaccttgcatttcgtactgtttttcaatatattaattatcatactgctttaccacatgaatctaatactatggaacacatgcttaaatattcaacgattatatgtaaatttgtcggcaacgtaacacaagagca Mask Tandem Repeat Region ================================================ tgctcttgtgttacgttgccgacaaatttacatataatcgttgaatatttaagcatgtgttccatagtattagattcatgtggtaaagcagtatgataattaatatattgaaaaacagtacgaaatgcaaggtttatacgatcttgccacatggctttttttaattttaatgcatggttatttgtgatataaggggggcatagacgatgcttttctgctctttttagataattaacaga Find is-nt database================================================ Query_seq: TF2544:TF2545|TF2544:TF2545:cytidine deaminase:hypothetical protein:->->:2728954..2729192 239 tgctcttgtgttacgttgccgacaaatttacatataatcgttgaatatttaagcatgtgttccatagtattagattcatgtggtaaagcagtatgataattaatatattgaaaaacagtacgaaatgcaaggtttatacgatcttgccacatggctttttttaattttaatgcatggttatttgtgatataaggggggcatagacgatgcttttctgctctttttagataattaacaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2544:TF2545|TF2544:TF2545:cytidine deaminase:hypothetical protein:->->:2728954..2729192 239 tgctcttgtgttacgttgccgacaaatttacatataatcgttgaatatttaagcatgtgttccatagtattagattcatgtggtaaagcagtatgataattaatatattgaaaaacagtacgaaatgcaaggtttatacgatcttgccacatggctttttttaattttaatgcatggttatttgtgatataaggggggcatagacgatgcttttctgctctttttagataattaacaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2544:TF2545|TF2544:TF2545:cytidine deaminase:hypothetical protein:->->:2728954..2729192 239 tgctcttgtgttacgttgccgacaaatttacatataatcgttgaatatttaagcatgtgttccatagtattagattcatgtggtaaagcagtatgataattaatatattgaaaaacagtacgaaatgcaaggtttatacgatcttgccacatggctttttttaattttaatgcatggttatttgtgatataaggggggcatagacgatgcttttctgctctttttagataattaacaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgctcttgtgttacgttgccgacaaatttacatataatcgttgaatatttaagcatgtgttccatagtattagattcatgtggtaaagcagtatgataattaatatattgaaaaacagtacgaaatgcaaggtttatacgatcttgccacatggctttttttaattttaatgcatggttatttgtgatataaggggggcatagacgatgcttttctgctctttttagataattaacaga Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: - Start: 14 End: 130 ............. T A S L N V Y L R Q I N L C T N W L I L N M H Y L L I I I L I N F F L V F H M ............................................................................................................. Protein_Len: 60 Strand: - Start: 3 End: 188 .. T V N G V F K C I I T S Y K L M H E M T N S E H P L A T H Y N I Y Q F V T R F A L N I R D Q W M A K K L K L A H N N T M ................................................... tgctcttgtgttacgttgccgacaaatttacatataatcgttgaatatttaagcatgtgttccatagtattagattcatgtggtaaagcagtatgataattaatatattgaaaaacagtacgaaatgcaaggtttatacgatcttgccacatggctttttttaattttaatgcatggttatttgtgatataaggggggcatagacgatgcttttctgctctttttagataattaacaga 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================================================ tgctcttgtgttacgttgccgacaaatttacatataatcgttgaatatttaagcatgtgttccatagtattagattcatgtggtaaagcagtatgataattaatatattgaaaaacagtacgaaatgcaaggtttatacgatcttgccacatggctttttttaattttaatgcatggttatttgtgatataaggggggcatagacgatgcttttctgctctttttagataattaacaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2544:TF2545|TF2544:TF2545:cytidine deaminase:hypothetical protein:->->:2728954..2729192 239 tgctcttgtgttacgttgccgacaaatttacatataatcgttgaatatttaagcatgtgttccatagtattagattcatgtggtaaagcagtatgataattaatatattgaaaaacagtacgaaatgcaaggtttatacgatcttgccacatggctttttttaattttaatgcatggttatttgtgatataaggggggcatagacgatgcttttctgctctttttagataattaacaga Intra-Species Hit: Count: 1 Min: 1 Max: 239 Len: 239 Subject: tfor_TF2544_TF2545|cytidine deaminase:hypothetical protein|POSITIVE:POSITIVE|[2728954,2729192]|239 HSP 1 e-value: 1.0E-120 bit: 432.0 Len: 239 Query Start:1 Query End:239 Subject Strand: POSITIVE Subject Start: 1 Subject End: 239 tgctcttgtgttacgttgccgacaaatttacatataatcgttgaatatttaagcatgtgttccatagtattagattcatgtggtaaagcagtatgataattaatatattgaaaaacagtacgaaatgcaaggtttatacgatcttgccacatggcnnnnnnnaattttaatgcatggttatttgtgatataaggggggcatagacgatgcttttctgctctttttagataattaacaga tgctcttgtgttacgttgccgacaaatttacatataatcgttgaatatttaagcatgtgttccatagtattagattcatgtggtaaagcagtatgataattaatatattgaaaaacagtacgaaatgcaaggtttatacgatcttgccacatggctttttttaattttaatgcatggttatttgtgatataaggggggcatagacgatgcttttctgctctttttagataattaacaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUCUUGUGUUACGUUGCCGACAAAUUUACAUAUAAUCGUUGAAUAUUUAAGCAUGUGUUCCAUAGUAUUAGAUUCAUGUGGUAAAGCAGUAUGAUAAUUAAUAUAUUGAAAAACAGUACGAAAUGCAAGGUUUAUACGAUCUUGCCACAUGGCUUUUUUUAAUUUUAAUGCAUGGUUAUUUGUGAUAUAAGGGGGGCAUAGACGAUGCUUUUCUGCUCUUUUUAGAUAAUUAACAGA ......(((((....(((....)))....))))).....(((((.((((((((((.(((..((((.((((((((.(((((((((((..(((((((........))))))).......(((..((........))..)))....)))))))))))...........)))))))))))).))).)))......((..((((((.....))))))..)).......))))))).)))))... (-50.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUGUUAAUUAUCUAAAAAGAGCAGAAAAGCAUCGUCUAUGCCCCCCUUAUAUCACAAAUAACCAUGCAUUAAAAUUAAAAAAAGCCAUGUGGCAAGAUCGUAUAAACCUUGCAUUUCGUACUGUUUUUCAAUAUAUUAAUUAUCAUACUGCUUUACCACAUGAAUCUAAUACUAUGGAACACAUGCUUAAAUAUUCAACGAUUAUAUGUAAAUUUGUCGGCAACGUAACACAAGAGCA ...(((((((((..(((((.((..((((.(((..((.(((((.....((((.......))))......................(((....)))......))))).))..))).))))...)).)))))..))).)))))).........(((((......(((((.......((((.....)))).......))))).................(((((....))..)))..))))). (-32.74) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 411 160 117 217 174 tfor:TF1328|5end_possible_cytidylyltransferase_1407434..1407664_POSITIVE 322 215 171 198 146 tfor:TF3068|5end_flavodoxin_A_3292812..3293042_POSITIVE 317 220 175 168 121 tfor:TF1937|5end_conserved_hypothetical_protein_2084476..2084706_POSITIVE 315 224 181 211 169 tfor:TF0542|5end_hypothetical_protein_571918..572148_POSITIVE 312 226 181 227 172 tfor:TF2761|5end_thioredoxin_2945390..2945620_POSITIVE 312 218 171 161 111 tfor:TF1691|5end_integrase_1809422..1809652_POSITIVE 308 120 75 132 87 tfor:TF0096|5end_tRNA-guanine_transglycosylase_(queuine_tRNA-ribosyltransferase)_106971..107201_POSITIVE 307 224 191 206 177 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 307 224 191 199 170 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 306 218 171 115 66 tfor:TF3122|5end_ABC_transporter,_ATP-binding_protein_3356047..3356277_POSITIVE 298 184 141 149 98 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 295 227 183 148 111 tfor:TF3027|5end_zinc_metalloprotease_3250223..3250453_POSITIVE 293 161 121 74 37 tfor:TF2229|5end_CTn_excision_protein;_DNA_topoisomerase_IA_2397536..2397766_POSITIVE 293 99 54 87 35 tfor:TF1966|5end_conserved_hypothetical_protein_2114989..2115219_POSITIVE 291 206 172 84 32 tfor:TF2894|5end_conserved_hypothetical_protein;_possible_Fic_family_protein_3082326..3082556_POSITIVE 287 223 181 208 159 tfor:TF0179|5end_pyrophosphate-energized_proton_pump_188413..188643_POSITIVE 282 218 173 55 7 tfor:TF2946|5end_conserved_hypothetical_protein;_possible_ATPase_3151750..3151980_POSITIVE 281 221 184 183 149 tfor:TF1653|5end_hypothetical_protein_1766201..1766431_POSITIVE 281 221 184 183 149 tfor:TF0979|5end_hypothetical_protein_1032838..1033068_POSITIVE 278 220 172 215 174 tfor:TF0866|5end_naphthoate_synthase_916725..916955_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 224 181 71 29 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 307 224 191 71 42 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE 306 218 171 112 63 tfor:TF3121|3end_nicotinate_phosphoribosyltransferase_3356124..3356274_POSITIVE 295 227 183 99 62 tfor:TF3026|3end_conserved_hypothetical_protein_3250254..3250404_POSITIVE 290 228 191 124 75 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 285 222 191 48 23 tfor:TF1350|3end_possible_transcriptional_regulator_1430636..1430786_POSITIVE 279 50 1 151 92 tfor:TF2154|3end_conserved_hypothetical_protein_2329529..2329679_POSITIVE 278 225 186 86 45 tfor:TF1917|3end_hypothetical_protein_2070244..2070394_POSITIVE 266 179 139 135 85 tfor:TF2042|3end_sugar_phosphate_isomerase,_polysialic_acid_capsule_expression_protein_2202356..2202506_POSITIVE 266 220 172 99 45 tfor:TF0008|3end_hypothetical_protein_4336..4486_POSITIVE 258 215 175 50 6 tfor:TF2737|3end_conserved_hypothetical_protein;_TPR-repeat-containing_protein_2919304..2919454_POSITIVE 254 219 174 44 1 tfor:TF2019|3end_dipeptidyl_peptidase_VI_2176401..2176551_POSITIVE 254 223 187 106 63 tfor:TF1755|3end_periplasmic_protease_1892867..1893017_POSITIVE 253 218 191 148 116 tfor:TF1815|3end_conserved_hypothetical_protein_1957442..1957592_POSITIVE 252 209 164 72 17 tfor:TF0703|3end_conserved_hypothetical_protein_747955..748105_POSITIVE 252 219 174 143 91 tfor:TF0403|3end_TPR_repeat_protein_423483..423633_POSITIVE 249 228 193 145 97 tfor:TF0370|3end_hypothetical_protein_386317..386467_POSITIVE 248 211 174 95 49 tfor:TF0892|3end_conserved_hypothetical_protein_941359..941509_POSITIVE 247 70 21 75 23 tfor:TF0442|3end_Na+-transporting_NADH:ubiquinone_oxidoreductase,_subunit_4_465928..466078_POSITIVE 245 159 120 89 47 tfor:TF3022|3end_chorismate_synthase_3247301..3247451_POSITIVE