Origin IGS: cttatttcgttctttagattcttccgatcatgttcttccaaaaacgatgccaacatgttaaacatccaaatacaagctaattatcaaaatcatttccgctttattgtgtctaaaaattagacattgctgtccatttttttgacactatagccttttgcataaatgtcgctaataccactgatttttttatttcaattaggtgcttcggtcgcaacaaacgtaaaaaattacgaaggatgctctccttcgctttcatccgtctcctccaaaaagttcatgcatgcttacacagtaaaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttaattttgttacgagatcgatta .........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 taatcgatctcgtaacaaaattaaaagagggtgtgtcaaaacgcaatgttttggtacacctttttttactgtgtaagcatgcatgaactttttggaggagacggatgaaagcgaaggagagcatccttcgtaattttttacgtttgttgcgaccgaagcacctaattgaaataaaaaaatcagtggtattagcgacatttatgcaaaaggctatagtgtcaaaaaaatggacagcaatgtctaatttttagacacaataaagcggaaatgattttgataattagcttgtatttggatgtttaacatgttggcatcgtttttggaagaacatgatcggaagaatctaaagaacgaaataag Mask Tandem Repeat Region ================================================ cttatttcgttctttagattcttccgatcatgttcttccaaaaacgatgccaacatgttaaacatccaaatacaagctaattatcaaaatcatttccgctttattgtgtctaaaaattagacattgctgtccatttttttgacactatagccttttgcataaatgtcgctaataccactgatttttttatttcaattaggtgcttcggtcgcaacaaacgtaaaaaattacgaaggatgctctccttcgctttcatccgtctcctccaaaaagttcatgcatgcttacacagtaaaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttaattttgttacgagatcgatta Find is-nt database================================================ Query_seq: TF1023:TF1024|TF1023:TF1024:ABC transporter, permease component:50S ribosomal protein L19:->->:1081728..1082087 360 cttatttcgttctttagattcttccgatcatgttcttccaaaaacgatgccaacatgttaaacatccaaatacaagctaattatcaaaatcatttccgctttattgtgtctaaaaattagacattgctgtccatttttttgacactatagccttttgcataaatgtcgctaataccactgatttttttatttcaattaggtgcttcggtcgcaacaaacgtaaaaaattacgaaggatgctctccttcgctttcatccgtctcctccaaaaagttcatgcatgcttacacagtaaaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttaattttgttacgagatcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1023:TF1024|TF1023:TF1024:ABC transporter, permease component:50S ribosomal protein L19:->->:1081728..1082087 360 cttatttcgttctttagattcttccgatcatgttcttccaaaaacgatgccaacatgttaaacatccaaatacaagctaattatcaaaatcatttccgctttattgtgtctaaaaattagacattgctgtccatttttttgacactatagccttttgcataaatgtcgctaataccactgatttttttatttcaattaggtgcttcggtcgcaacaaacgtaaaaaattacgaaggatgctctccttcgctttcatccgtctcctccaaaaagttcatgcatgcttacacagtaaaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttaattttgttacgagatcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1023:TF1024|TF1023:TF1024:ABC transporter, permease component:50S ribosomal protein L19:->->:1081728..1082087 360 cttatttcgttctttagattcttccgatcatgttcttccaaaaacgatgccaacatgttaaacatccaaatacaagctaattatcaaaatcatttccgctttattgtgtctaaaaattagacattgctgtccatttttttgacactatagccttttgcataaatgtcgctaataccactgatttttttatttcaattaggtgcttcggtcgcaacaaacgtaaaaaattacgaaggatgctctccttcgctttcatccgtctcctccaaaaagttcatgcatgcttacacagtaaaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttaattttgttacgagatcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttatttcgttctttagattcttccgatcatgttcttccaaaaacgatgccaacatgttaaacatccaaatacaagctaattatcaaaatcatttccgctttattgtgtctaaaaattagacattgctgtccatttttttgacactatagccttttgcataaatgtcgctaataccactgatttttttatttcaattaggtgcttcggtcgcaacaaacgtaaaaaattacgaaggatgctctccttcgctttcatccgtctcctccaaaaagttcatgcatgcttacacagtaaaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttaattttgttacgagatcgatta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 4 End: 117 ... M S F F R F F R S C S S K N D A N M L N I Q I Q A N Y Q N H F R F I V S K N ................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 123 End: 359 .......................................................................................................................... M A V H F F D T I A F C I N V A N T T D F F I S I R C F G R N K R K K L R R M L S F A F I R L L Q K V H A C L H S K K R . Protein_Len: 60 Strand: + Start: 163 End: 360 .................................................................................................................................................................. M S L I P L I F L F Q L G A S V A T N V K N Y E G C S P S L S S V S S K K F M H A Y T V K K G V P K H C V L T H P L L I Protein_Len: 48 Strand: - Start: 113 End: 256 ................................................................................................................ F N S M A T W K K S V I A K Q M F T A L V V S K K I E I L H K P R L L R L F N R L I S E K A K M ........................................................................................................ cttatttcgttctttagattcttccgatcatgttcttccaaaaacgatgccaacatgttaaacatccaaatacaagctaattatcaaaatcatttccgctttattgtgtctaaaaattagacattgctgtccatttttttgacactatagccttttgcataaatgtcgctaataccactgatttttttatttcaattaggtgcttcggtcgcaacaaacgtaaaaaattacgaaggatgctctccttcgctttcatccgtctcctccaaaaagttcatgcatgcttacacagtaaaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttaattttgttacgagatcgatta 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================================================ cttatttcgttctttagattcttccgatcatgttcttccaaaaacgatgccaacatgttaaacatccaaatacaagctaattatcaaaatcatttccgctttattgtgtctaaaaattagacattgctgtccatttttttgacactatagccttttgcataaatgtcgctaataccactgatttttttatttcaattaggtgcttcggtcgcaacaaacgtaaaaaattacgaaggatgctctccttcgctttcatccgtctcctccaaaaagttcatgcatgcttacacagtaaaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttaattttgttacgagatcgatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 70 HP_score: -8.1 Tail_Score: -3.3287 Start: 107 End: 123 Full_Region: ATTTCCGCTTTATTG TGTCTAA AAA TTAGACA TTGCTGTCCATTTTT ..........................................................................................................TGTCTAAAAATTAGACA............................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 54 HP_score: -4.1 Tail_Score: -3.73043 Start: 229 End: 251 Full_Region: gaggagacggatgaa agcgaagga gagca tccttcgta attttttacgtttgt ....................................................................................................................................................................................................................................agcgaaggagagcatccttcgta............................................................................................................. TransTerm Strand: + Conf: 60 HP_score: -5.4 Tail_Score: -3.7829 Start: 230 End: 250 Full_Region: CAAACGTAAAAAATT ACGAAGGA TGCTC TCCTTCGC TTTCATCCGTCTCCT .....................................................................................................................................................................................................................................ACGAAGGATGCTCTCCTTCGC.............................................................................................................. TransTerm Strand: + Conf: 69 HP_score: -8.9 Tail_Score: -2.86492 Start: 231 End: 249 Full_Region: AAACGTAAAAAATTA CGAAGGA TGCTC TCCTTCG CTTTCATCCGTCTCC ......................................................................................................................................................................................................................................CGAAGGATGCTCTCCTTCG............................................................................................................... TransTerm Strand: - Conf: 73 HP_score: -8.9 Tail_Score: -3.42352 Start: 231 End: 249 Full_Region: ggagacggatgaaag cgaagga gagca tccttcg taattttttacgttt ......................................................................................................................................................................................................................................cgaaggagagcatccttcg............................................................................................................... TransTerm Strand: + Conf: 57 HP_score: -5.3 Tail_Score: -3.37877 Start: 293 End: 339 Full_Region: TGCATGCTTACACAG TAAAAAAAGGTGTACCAAAAC ATTGC GTTTTGACACACCCTCTTTTA ATTTTGTTACGAGAT ....................................................................................................................................................................................................................................................................................................TAAAAAAAGGTGTACCAAAACATTGCGTTTTGACACACCCTCTTTTA..................... TransTerm Strand: + Conf: 55 HP_score: -3.4 Tail_Score: -3.98231 Start: 300 End: 332 Full_Region: TTACACAGTAAAAAA AGGTGTACCAAAAC ATTGC GTTTTGACACACCC TCTTTTAATTTTGTT ...........................................................................................................................................................................................................................................................................................................AGGTGTACCAAAACATTGCGTTTTGACACACCC............................ TransTerm Strand: - Conf: 100 HP_score: -12.0 Tail_Score: -5.60864 Start: 301 End: 331 Full_Region: acaaaattaaaagag ggtgtgtcaaaacg caa tgttttggtacacc tttttttactgtgta ............................................................................................................................................................................................................................................................................................................ggtgtgtcaaaacgcaatgttttggtacacc............................. Find igs database================================================ Query_seq: TF1023:TF1024|TF1023:TF1024:ABC transporter, permease component:50S ribosomal protein L19:->->:1081728..1082087 360 cttatttcgttctttagattcttccgatcatgttcttccaaaaacgatgccaacatgttaaacatccaaatacaagctaattatcaaaatcatttccgctttattgtgtctaaaaattagacattgctgtccatttttttgacactatagccttttgcataaatgtcgctaataccactgatttttttatttcaattaggtgcttcggtcgcaacaaacgtaaaaaattacgaaggatgctctccttcgctttcatccgtctcctccaaaaagttcatgcatgcttacacagtaaaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttaattttgttacgagatcgatta Intra-Species Hit: Count: 1 Min: 1 Max: 360 Len: 360 Subject: tfor_TF1023_TF1024|ABC transporter, permease component:50S ribosomal protein L19|POSITIVE:POSITIVE|[1081728,1082087]|360 HSP 1 e-value: 1.0E-167 bit: 589.0 Len: 360 Query Start:1 Query End:360 Subject Strand: POSITIVE Subject Start: 1 Subject End: 360 cttatttcgttctttagattcttccgatcatgttcttccaaaaacgatgccaacatgttaaacatccaaatacaagctaattatcaaaatcatttccgctttattgtgtctaaaaattagacattgctgtccannnnnnngacactatagccttttgcataaatgtcgctaataccactgannnnnnnatttcaattaggtgcttcggtcgcaacaaacgtaaaaaattacgaaggatgctctccttcgctttcatccgtctcctccaaaaagttcatgcatgcttacacagtnnnnnnnggtgtaccaaaacattgcgttttgacacaccctcttttaattttgttacgagatcgatta cttatttcgttctttagattcttccgatcatgttcttccaaaaacgatgccaacatgttaaacatccaaatacaagctaattatcaaaatcatttccgctttattgtgtctaaaaattagacattgctgtccatttttttgacactatagccttttgcataaatgtcgctaataccactgatttttttatttcaattaggtgcttcggtcgcaacaaacgtaaaaaattacgaaggatgctctccttcgctttcatccgtctcctccaaaaagttcatgcatgcttacacagtaaaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttaattttgttacgagatcgatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUAUUUCGUUCUUUAGAUUCUUCCGAUCAUGUUCUUCCAAAAACGAUGCCAACAUGUUAAACAUCCAAAUACAAGCUAAUUAUCAAAAUCAUUUCCGCUUUAUUGUGUCUAAAAAUUAGACAUUGCUGUCCAUUUUUUUGACACUAUAGCCUUUUGCAUAAAUGUCGCUAAUACCACUGAUUUUUUUAUUUCAAUUAGGUGCUUCGGUCGCAACAAACGUAAAAAAUUACGAAGGAUGCUCUCCUUCGCUUUCAUCCGUCUCCUCCAAAAAGUUCAUGCAUGCUUACACAGUAAAAAAAGGUGUACCAAAACAUUGCGUUUUGACACACCCUCUUUUAAUUUUGUUACGAGAUCGAUUA ........................(((((.(((.....(((((..((((.............)))).......((((....................(((.....(((((.(((((...((((....))))...))))).)))))...)))....(((((.(((............((.(((((((((((.........((((....).))).......))))))))...(((((((.....))))))).....))).))............))).))))).))))......(((((...(((((..((((((.....))))))..)))))...))))).)))))..))).))))).... (-62.46) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCGAUCUCGUAACAAAAUUAAAAGAGGGUGUGUCAAAACGCAAUGUUUUGGUACACCUUUUUUUACUGUGUAAGCAUGCAUGAACUUUUUGGAGGAGACGGAUGAAAGCGAAGGAGAGCAUCCUUCGUAAUUUUUUACGUUUGUUGCGACCGAAGCACCUAAUUGAAAUAAAAAAAUCAGUGGUAUUAGCGACAUUUAUGCAAAAGGCUAUAGUGUCAAAAAAAUGGACAGCAAUGUCUAAUUUUUAGACACAAUAAAGCGGAAAUGAUUUUGAUAAUUAGCUUGUAUUUGGAUGUUUAACAUGUUGGCAUCGUUUUUGGAAGAACAUGAUCGGAAGAAUCUAAAGAACGAAAUAAG ..(((((..((((........(((((((((((((..((((((.....))))))..)))))))))))))((((...(((.((((((((....(((.((.(((((...((((((((((((.....))))))))..))))...))))).)).)))..(..(((((..(((((..........))))))))....))..).))))))))....)))...(((((.(((((.((((((....)))))).))))).)))))......))))..))))..)))))..(((..((((.(((((((......((((((....(((....)))...)))))).((....)))))))))..))))..))). (-99.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 592 349 301 212 163 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 531 347 301 171 124 tfor:TF0187|5end_ferredoxin_202151..202381_POSITIVE 477 341 301 81 41 tfor:TF1046|5end_hypothetical_protein_1108178..1108408_POSITIVE 468 344 301 211 167 tfor:TF2593|5end_amino_acid_transport_protein_2762882..2763112_POSITIVE 448 337 301 229 194 tfor:TF1999|5end_ArgK_protein_with_ATPase_and_kinase_domains_2152769..2152999_POSITIVE 426 346 301 220 178 tfor:TF1505|5end_conserved_hypothetical_protein_1610773..1611003_POSITIVE 415 338 301 194 158 tfor:TF3007|5end_conserved_hypothetical_protein_3227256..3227486_POSITIVE 410 269 229 222 180 tfor:TF0984|5end_possible_mucin-desulfating_sulfatase_(MdsC_protein)_1040259..1040489_POSITIVE 387 339 301 152 114 tfor:TF2947|5end_isochorismate_synthase_3153633..3153863_POSITIVE 354 330 301 231 202 tfor:TF2414|5end_hypothetical_protein_2590725..2590955_POSITIVE 349 264 232 164 137 tfor:TF2655|5end_DNA_topoisomerase_I_2824543..2824773_POSITIVE 341 267 227 56 15 tfor:TF2159|5end_conserved_hypothetical_protein_2334446..2334676_POSITIVE 339 280 232 173 120 tfor:TF2758|5end_hypothetical_protein_2942392..2942622_POSITIVE 337 250 203 63 19 tfor:TF0859|5end_conserved_hypothetical_protein_911753..911983_POSITIVE 330 267 232 227 187 tfor:TF0830|5end_hypothetical_protein_887610..887840_POSITIVE 316 337 300 158 125 tfor:TF2357|5end_collagenase_2522561..2522791_POSITIVE 314 350 301 151 105 tfor:TF2893|5end_conserved_hypothetical_protein;_possible_phosphoesterase_3080766..3080996_POSITIVE 313 279 231 228 173 tfor:TF0136|5end_transposase_element_145627..145857_POSITIVE 313 279 231 143 88 tfor:TF0134|5end_transposase_element_145542..145772_POSITIVE 311 350 301 173 128 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 592 349 301 73 24 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 503 346 301 125 77 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 477 341 301 68 28 tfor:TF1045|3end_conserved_hypothetical_protein_1108245..1108395_POSITIVE 468 344 301 56 12 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 448 337 301 66 31 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE 438 334 293 49 8 tfor:TF2765|3end_subtilisin-like_serine_protease_2951460..2951610_POSITIVE 410 357 316 42 1 tfor:TF0178|3end_ferritin_188223..188373_POSITIVE 379 338 295 58 15 tfor:TF1416|3end_outer_membrane_protein_1499413..1499563_POSITIVE 355 356 312 43 1 tfor:TF1504|3end_conserved_hypothetical_protein_1610665..1610815_POSITIVE 349 264 232 100 73 tfor:TF2654|3end_arginyl-tRNA_synthetase_2824559..2824709_POSITIVE 341 267 227 114 73 tfor:TF2158|3end_conserved_hypothetical_protein_2334584..2334734_POSITIVE 337 250 203 63 19 tfor:TF0858|3end_conserved_hypothetical_protein_911833..911983_POSITIVE 330 267 232 45 5 tfor:TF0828|3end_hypothetical_protein_887508..887658_POSITIVE 313 279 231 77 22 tfor:TF0133|3end_transposase_element_145556..145706_POSITIVE 308 250 202 111 68 tfor:TF2043|3end_fructokinase_2203270..2203420_POSITIVE 299 356 313 92 40 tfor:TF0789|3end_preprotein_translocase,_secDF_family_843670..843820_POSITIVE 297 280 231 55 4 tfor:TF0463|3end_precorrin-6Y_C5,15-methyltransferase_480291..480441_POSITIVE 296 267 231 149 102 tfor:TF3106|3end_hypothetical_protein_3338608..3338758_POSITIVE 296 337 301 47 11 tfor:TF0182|3end_DNA-binding_protein,_HU-related_195528..195678_POSITIVE 291 267 231 63 21 tfor:TF2651|3end_hypothetical_protein_2822014..2822164_POSITIVE