Origin IGS: taacaatttgttttgaagttcttcgcagacgcctttgggaatggaaacggtatagctttcggcaggcgtaacgagcgtacacgaaggcttcttggtatttagctaaaaatgattctccgcaattcttcctattgtaaatttttgatttgaagtttggcggataactcacagcgtcgatcaataatctgtaattgcactttttagctgtatgagcgggattctcttttcggttttatagaggaaagataactaaaagggctgaattccaagcgaggaatccagccttaatttttatccttcaaaaagttttagcgaacatccataatttcggatagatcagactacgtttaagcagatgtgttacagatgaatcacaaagagttaagcatccgtacctgaaacactttttta .........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 taaaaaagtgtttcaggtacggatgcttaactctttgtgattcatctgtaacacatctgcttaaacgtagtctgatctatccgaaattatggatgttcgctaaaactttttgaaggataaaaattaaggctggattcctcgcttggaattcagcccttttagttatctttcctctataaaaccgaaaagagaatcccgctcatacagctaaaaagtgcaattacagattattgatcgacgctgtgagttatccgccaaacttcaaatcaaaaatttacaataggaagaattgcggagaatcatttttagctaaataccaagaagccttcgtgtacgctcgttacgcctgccgaaagctataccgtttccattcccaaaggcgtctgcgaagaacttcaaaacaaattgtta Mask Tandem Repeat Region ================================================ taacaatttgttttgaagttcttcgcagacgcctttgggaatggaaacggtatagctttcggcaggcgtaacgagcgtacacgaaggcttcttggtatttagctaaaaatgattctccgcaattcttcctattgtaaatttttgatttgaagtttggcggataactcacagcgtcgatcaataatctgtaattgcactttttagctgtatgagcgggattctcttttcggttttatagaggaaagataactaaaagggctgaattccaagcgaggaatccagccttaatttttatccttcaaaaagttttagcgaacatccataatttcggatagatcagactacgtttaagcagatgtgttacagatgaatcacaaagagttaagcatccgtacctgaaacactttttta Find is-nt database================================================ Query_seq: TF1771:TF1773|TF1771:TF1773:prolipoprotein diacylglyceryl transferase:hypothetical protein:->->:1910668..1911078 411 taacaatttgttttgaagttcttcgcagacgcctttgggaatggaaacggtatagctttcggcaggcgtaacgagcgtacacgaaggcttcttggtatttagctaaaaatgattctccgcaattcttcctattgtaaatttttgatttgaagtttggcggataactcacagcgtcgatcaataatctgtaattgcactttttagctgtatgagcgggattctcttttcggttttatagaggaaagataactaaaagggctgaattccaagcgaggaatccagccttaatttttatccttcaaaaagttttagcgaacatccataatttcggatagatcagactacgtttaagcagatgtgttacagatgaatcacaaagagttaagcatccgtacctgaaacactttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1771:TF1773|TF1771:TF1773:prolipoprotein diacylglyceryl transferase:hypothetical protein:->->:1910668..1911078 411 taacaatttgttttgaagttcttcgcagacgcctttgggaatggaaacggtatagctttcggcaggcgtaacgagcgtacacgaaggcttcttggtatttagctaaaaatgattctccgcaattcttcctattgtaaatttttgatttgaagtttggcggataactcacagcgtcgatcaataatctgtaattgcactttttagctgtatgagcgggattctcttttcggttttatagaggaaagataactaaaagggctgaattccaagcgaggaatccagccttaatttttatccttcaaaaagttttagcgaacatccataatttcggatagatcagactacgtttaagcagatgtgttacagatgaatcacaaagagttaagcatccgtacctgaaacactttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1771:TF1773|TF1771:TF1773:prolipoprotein diacylglyceryl transferase:hypothetical protein:->->:1910668..1911078 411 taacaatttgttttgaagttcttcgcagacgcctttgggaatggaaacggtatagctttcggcaggcgtaacgagcgtacacgaaggcttcttggtatttagctaaaaatgattctccgcaattcttcctattgtaaatttttgatttgaagtttggcggataactcacagcgtcgatcaataatctgtaattgcactttttagctgtatgagcgggattctcttttcggttttatagaggaaagataactaaaagggctgaattccaagcgaggaatccagccttaatttttatccttcaaaaagttttagcgaacatccataatttcggatagatcagactacgtttaagcagatgtgttacagatgaatcacaaagagttaagcatccgtacctgaaacactttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacaatttgttttgaagttcttcgcagacgcctttgggaatggaaacggtatagctttcggcaggcgtaacgagcgtacacgaaggcttcttggtatttagctaaaaatgattctccgcaattcttcctattgtaaatttttgatttgaagtttggcggataactcacagcgtcgatcaataatctgtaattgcactttttagctgtatgagcgggattctcttttcggttttatagaggaaagataactaaaagggctgaattccaagcgaggaatccagccttaatttttatccttcaaaaagttttagcgaacatccataatttcggatagatcagactacgtttaagcagatgtgttacagatgaatcacaaagagttaagcatccgtacctgaaacactttttta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 3 End: 98 .. C N T K F N K A S A K P F P F P I A K P L R L S R V R L S R P M ......................................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 2 End: 181 . V I Q K S T R R L R R Q S H F R Y L K R C A Y R A Y V F A E Q Y K A L F S E G C N K R N Y I K S K F N P P Y S V A D I M ...................................................................................................................................................................................................................................... taacaatttgttttgaagttcttcgcagacgcctttgggaatggaaacggtatagctttcggcaggcgtaacgagcgtacacgaaggcttcttggtatttagctaaaaatgattctccgcaattcttcctattgtaaatttttgatttgaagtttggcggataactcacagcgtcgatcaataatctgtaattgcactttttagctgtatgagcgggattctcttttcggttttatagaggaaagataactaaaagggctgaattccaagcgaggaatccagccttaatttttatccttcaaaaagttttagcgaacatccataatttcggatagatcagactacgtttaagcagatgtgttacagatgaatcacaaagagttaagcatccgtacctgaaacactttttta 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================================================ taacaatttgttttgaagttcttcgcagacgcctttgggaatggaaacggtatagctttcggcaggcgtaacgagcgtacacgaaggcttcttggtatttagctaaaaatgattctccgcaattcttcctattgtaaatttttgatttgaagtttggcggataactcacagcgtcgatcaataatctgtaattgcactttttagctgtatgagcgggattctcttttcggttttatagaggaaagataactaaaagggctgaattccaagcgaggaatccagccttaatttttatccttcaaaaagttttagcgaacatccataatttcggatagatcagactacgtttaagcagatgtgttacagatgaatcacaaagagttaagcatccgtacctgaaacactttttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 67 HP_score: -2.5 Tail_Score: -4.98255 Start: 253 End: 288 Full_Region: GAGGAAAGATAACTA AAAGGGCTGAATTCC AAGCGA GGAATCCAGCCTTAA TTTTTATCCTTCAAA ............................................................................................................................................................................................................................................................AAAGGGCTGAATTCCAAGCGAGGAATCCAGCCTTAA........................................................................................................................... TransTerm Strand: - Conf: 86 HP_score: -8.6 Tail_Score: -4.58724 Start: 256 End: 285 Full_Region: gaaggataaaaatta aggctggattcc tcgctt ggaattcagccc ttttagttatctttc ...............................................................................................................................................................................................................................................................aggctggattcctcgcttggaattcagccc.............................................................................................................................. TransTerm Strand: + Conf: 83 HP_score: -9.9 Tail_Score: -3.90511 Start: 257 End: 284 Full_Region: AAAGATAACTAAAAG GGCTGAATTCC AAGCGA GGAATCCAGCC TTAATTTTTATCCTT ................................................................................................................................................................................................................................................................GGCTGAATTCCAAGCGAGGAATCCAGCC............................................................................................................................... TransTerm Strand: - Conf: 89 HP_score: -12.1 Tail_Score: -3.33608 Start: 257 End: 284 Full_Region: aaggataaaaattaa ggctggattcc tcgctt ggaattcagcc cttttagttatcttt ................................................................................................................................................................................................................................................................ggctggattcctcgcttggaattcagcc............................................................................................................................... Find igs database================================================ Query_seq: TF1771:TF1773|TF1771:TF1773:prolipoprotein diacylglyceryl transferase:hypothetical protein:->->:1910668..1911078 411 taacaatttgttttgaagttcttcgcagacgcctttgggaatggaaacggtatagctttcggcaggcgtaacgagcgtacacgaaggcttcttggtatttagctaaaaatgattctccgcaattcttcctattgtaaatttttgatttgaagtttggcggataactcacagcgtcgatcaataatctgtaattgcactttttagctgtatgagcgggattctcttttcggttttatagaggaaagataactaaaagggctgaattccaagcgaggaatccagccttaatttttatccttcaaaaagttttagcgaacatccataatttcggatagatcagactacgtttaagcagatgtgttacagatgaatcacaaagagttaagcatccgtacctgaaacactttttta Intra-Species Hit: Count: 1 Min: 1 Max: 411 Len: 411 Subject: tfor_TF1771_TF1773|prolipoprotein diacylglyceryl transferase:hypothetical protein|POSITIVE:POSITIVE|[1910668,1911078]|411 HSP 1 e-value: 0.0 bit: 815.0 Len: 411 Query Start:1 Query End:411 Subject Strand: POSITIVE Subject Start: 1 Subject End: 411 taacaatttgttttgaagttcttcgcagacgcctttgggaatggaaacggtatagctttcggcaggcgtaacgagcgtacacgaaggcttcttggtatttagctaaaaatgattctccgcaattcttcctattgtaaatttttgatttgaagtttggcggataactcacagcgtcgatcaataatctgtaattgcactttttagctgtatgagcgggattctcttttcggttttatagaggaaagataactaaaagggctgaattccaagcgaggaatccagccttaatttttatccttcaaaaagttttagcgaacatccataatttcggatagatcagactacgtttaagcagatgtgttacagatgaatcacaaagagttaagcatccgtacctgaaacactttttta taacaatttgttttgaagttcttcgcagacgcctttgggaatggaaacggtatagctttcggcaggcgtaacgagcgtacacgaaggcttcttggtatttagctaaaaatgattctccgcaattcttcctattgtaaatttttgatttgaagtttggcggataactcacagcgtcgatcaataatctgtaattgcactttttagctgtatgagcgggattctcttttcggttttatagaggaaagataactaaaagggctgaattccaagcgaggaatccagccttaatttttatccttcaaaaagttttagcgaacatccataatttcggatagatcagactacgtttaagcagatgtgttacagatgaatcacaaagagttaagcatccgtacctgaaacactttttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAAUUUGUUUUGAAGUUCUUCGCAGACGCCUUUGGGAAUGGAAACGGUAUAGCUUUCGGCAGGCGUAACGAGCGUACACGAAGGCUUCUUGGUAUUUAGCUAAAAAUGAUUCUCCGCAAUUCUUCCUAUUGUAAAUUUUUGAUUUGAAGUUUGGCGGAUAACUCACAGCGUCGAUCAAUAAUCUGUAAUUGCACUUUUUAGCUGUAUGAGCGGGAUUCUCUUUUCGGUUUUAUAGAGGAAAGAUAACUAAAAGGGCUGAAUUCCAAGCGAGGAAUCCAGCCUUAAUUUUUAUCCUUCAAAAAGUUUUAGCGAACAUCCAUAAUUUCGGAUAGAUCAGACUACGUUUAAGCAGAUGUGUUACAGAUGAAUCACAAAGAGUUAAGCAUCCGUACCUGAAACACUUUUUUA .........((((((((....)))).))))...((..((.(((((.((.(...((((((((....((((.....))))...))))))))...).)).(((((((.....(((((((((((....((((..((((........))))..))))....)))))......................(((((((...((((.......((((.((((((......(((.(((((..((((.((.(((.(((((.....(((((((.(((((......))))).))))))).....))))).))).....((((....)))).)).))))..))))).)))........)))))).))))..))))))))))))))))).....)))))))..))))).))..))........... (-105.94) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAAGUGUUUCAGGUACGGAUGCUUAACUCUUUGUGAUUCAUCUGUAACACAUCUGCUUAAACGUAGUCUGAUCUAUCCGAAAUUAUGGAUGUUCGCUAAAACUUUUUGAAGGAUAAAAAUUAAGGCUGGAUUCCUCGCUUGGAAUUCAGCCCUUUUAGUUAUCUUUCCUCUAUAAAACCGAAAAGAGAAUCCCGCUCAUACAGCUAAAAAGUGCAAUUACAGAUUAUUGAUCGACGCUGUGAGUUAUCCGCCAAACUUCAAAUCAAAAAUUUACAAUAGGAAGAAUUGCGGAGAAUCAUUUUUAGCUAAAUACCAAGAAGCCUUCGUGUACGCUCGUUACGCCUGCCGAAAGCUAUACCGUUUCCAUUCCCAAAGGCGUCUGCGAAGAACUUCAAAACAAAUUGUUA ........(((((..((((.((((......((((((((((..(((((((((..((.((((......))))..)).((.....))..))))))))).))))...........(((((((((.......(((((((((((......))))))))))).......)))))))))..............)))))).)))).........(((((((((......((((((..............))))))....(((((....((((....................))))....)))))......)))))))))...))))..((((.((((((..(((((.(..(((...(.(....)).....)))..)..........)))))..))))))..)))).)))))........ (-94.63) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 589 290 242 219 171 tfor:TF2303|5end_conserved_hypothetical_protein_2458252..2458482_POSITIVE 399 69 24 230 193 tfor:TF2280|5end_hypothetical_protein_2439140..2439370_POSITIVE 396 300 252 112 65 tfor:TF1726|5end_hypothetical_protein_1852049..1852279_POSITIVE 394 70 22 160 111 tfor:TF1687|5end_conserved_hypothetical_protein;_possible_periplasmic_protein_1801988..1802218_POSITIVE 386 68 23 75 32 tfor:TF2013|5end_polysaccharide_deacetylase_2168650..2168880_POSITIVE 384 69 25 198 146 tfor:TF2160|5end_magnesium_chelatase,_subunit_I_2335974..2336204_POSITIVE 384 69 22 195 139 tfor:TF1194|5end_glycogen_debranching_enzyme_1276627..1276857_POSITIVE 376 68 21 223 158 tfor:TF2330|5end_conserved_hypothetical_protein_2489920..2490150_POSITIVE 369 90 42 199 143 tfor:TF2207|5end_exo-alpha-sialidase_(neuraminidase)_2380907..2381137_POSITIVE 367 79 31 226 172 tfor:TF1441|5end_conserved_hypothetical_protein_1525567..1525797_POSITIVE 365 68 25 85 55 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 363 52 12 158 118 tfor:TF0072|5end_hypothetical_protein_80769..80999_POSITIVE 360 88 42 188 140 tfor:TF1624|5end_carboxyl-terminal_protease_1737252..1737482_POSITIVE 359 89 41 184 125 tfor:TF2737|5end_conserved_hypothetical_protein;_TPR-repeat-containing_protein_2918397..2918627_POSITIVE 358 67 21 230 173 tfor:TF1323|5end_metallo-beta-lactamase_superfamily_protein_1402650..1402880_POSITIVE 353 67 24 165 114 tfor:TF0992|5end_hypothetical_protein_1048251..1048481_POSITIVE 350 78 38 131 73 tfor:TF2346|5end_hypothetical_protein_2509669..2509899_POSITIVE 349 69 22 181 131 tfor:TF2220|5end_CTn_integrase-recombinase_protein_2392424..2392654_POSITIVE 348 68 21 222 177 tfor:TF2557|5end_30S_ribosomal_protein_S19_2737170..2737400_POSITIVE 348 69 21 194 127 tfor:TF0233|5end_DNA_polymerase_III_gamma/tau_subunit_259355..259585_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 434 286 242 51 8 tfor:TF2385|3end_conserved_hypothetical_protein;_possible_MazG_family_protein_2551544..2551694_POSITIVE 398 89 42 108 42 tfor:TF1322|3end_conserved_hypothetical_protein;_possible_surface_protein_1402567..1402717_POSITIVE 396 300 252 77 30 tfor:TF1725|3end_hypothetical_protein_1852094..1852244_POSITIVE 386 68 23 65 22 tfor:TF2012|3end_conserved_hypothetical_protein_2168720..2168870_POSITIVE 364 70 21 132 68 tfor:TF1730|3end_diaminopimelate_decarboxylase_1855907..1856057_POSITIVE 360 78 31 78 40 tfor:TF0959|3end_periplasmic_protease_1008540..1008690_POSITIVE 356 67 27 107 62 tfor:TF1848|3end_conserved_hypothetical_protein_1997944..1998094_POSITIVE 355 57 11 149 98 tfor:TF1686|3end_alginate_O-acetylation_protein_1802068..1802218_POSITIVE 349 90 41 133 82 tfor:TF0311|3end_conserved_hypothetical_protein_336383..336533_POSITIVE 348 68 21 67 22 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE 347 69 22 98 59 tfor:TF2694|3end_hypothetical_protein_2870863..2871013_POSITIVE 342 69 25 143 100 tfor:TF1266|3end_conserved_hypothetical_protein_1354165..1354315_POSITIVE 341 90 42 139 89 tfor:TF2336|3end_conserved_hypothetical_protein_2498159..2498309_POSITIVE 339 70 22 67 1 tfor:TF0616|3end_conserved_hypothetical_protein_650658..650808_POSITIVE 337 77 31 137 96 tfor:TF0708|3end_possible_alkaline_phosphatase_753836..753986_POSITIVE 337 120 71 107 30 tfor:TF0466|3end_amidophosphoribosyltransferase_485972..486122_POSITIVE 332 88 41 143 91 tfor:TF0471|3end_conserved_hypothetical_protein_487886..488036_POSITIVE 331 88 42 143 92 tfor:TF0004|3end_conserved_hypothetical_protein_2571..2721_POSITIVE 330 84 41 149 91 tfor:TF2379|3end_phosphoribosylformylglycinamidine_cyclo-ligase_(AIR_synthase)_2545092..2545242_POSITIVE 330 50 9 45 9 tfor:TF0752|3end_nucleotide-binding_protein;_MAF-like_protein_801713..801863_POSITIVE