Origin IGS: tagttctcagattactaagcgatcgatttcagaagggtgtgccgaaaaaacgtttcgggcacaccctttcgatatgtagaagaaatatagaaaaacaacgcgctaaagataaaagcgagagagcacaaaaaaacagtccttccgtatagcggcgtcgagcaaggagtcggatatacatacggatggatgcaacatcccgacgtcaccgacaattttccttatagaatcgaatgtatatacgataaagtacgatgttttttcttttttattaagagatttgccttatctttgcaacccataaacgttcaaaatgaataaagcacgtatttattgttgttgttgctgttgttgattcaatctttttctcaaaattgataacggtgctcttatgcacttttcacacaagcaataacaagtttctattcattcttcaatatctttttt .........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 aaaaaagatattgaagaatgaatagaaacttgttattgcttgtgtgaaaagtgcataagagcaccgttatcaattttgagaaaaagattgaatcaacaacagcaacaacaacaataaatacgtgctttattcattttgaacgtttatgggttgcaaagataaggcaaatctcttaataaaaaagaaaaaacatcgtactttatcgtatatacattcgattctataaggaaaattgtcggtgacgtcgggatgttgcatccatccgtatgtatatccgactccttgctcgacgccgctatacggaaggactgtttttttgtgctctctcgcttttatctttagcgcgttgtttttctatatttcttctacatatcgaaagggtgtgcccgaaacgttttttcggcacacccttctgaaatcgatcgcttagtaatctgagaacta Mask Tandem Repeat Region ================================================ tagttctcagattactaagcgatcgatttcagaagggtgtgccgaaaaaacgtttcgggcacaccctttcgatatgtagaagaaatatagaaaaacaacgcgctaaagataaaagcgagagagcacaaaaaaacagtccttccgtatagcggcgtcgagcaaggagtcggatatacatacggatggatgcaacatcccgacgtcaccgacaattttccttatagaatcgaatgtatatacgataaagtacgatgttttttcttttttattaagagatttgccttatctttgcaacccataaacgttcaaaatgaataaagcacgtatttattgttgttgttgctgttgttgattcaatctttttctcaaaattgataacggtgctcttatgcacttttcacacaagcaataacaagtttctattcattcttcaatatctttttt Find is-nt database================================================ Query_seq: TF1354:TF1355|TF1354:TF1355:TonB protein:serine O-acetyltransferase:->->:1435277..1435720 444 tagttctcagattactaagcgatcgatttcagaagggtgtgccgaaaaaacgtttcgggcacaccctttcgatatgtagaagaaatatagaaaaacaacgcgctaaagataaaagcgagagagcacaaaaaaacagtccttccgtatagcggcgtcgagcaaggagtcggatatacatacggatggatgcaacatcccgacgtcaccgacaattttccttatagaatcgaatgtatatacgataaagtacgatgttttttcttttttattaagagatttgccttatctttgcaacccataaacgttcaaaatgaataaagcacgtatttattgttgttgttgctgttgttgattcaatctttttctcaaaattgataacggtgctcttatgcacttttcacacaagcaataacaagtttctattcattcttcaatatctttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1354:TF1355|TF1354:TF1355:TonB protein:serine O-acetyltransferase:->->:1435277..1435720 444 tagttctcagattactaagcgatcgatttcagaagggtgtgccgaaaaaacgtttcgggcacaccctttcgatatgtagaagaaatatagaaaaacaacgcgctaaagataaaagcgagagagcacaaaaaaacagtccttccgtatagcggcgtcgagcaaggagtcggatatacatacggatggatgcaacatcccgacgtcaccgacaattttccttatagaatcgaatgtatatacgataaagtacgatgttttttcttttttattaagagatttgccttatctttgcaacccataaacgttcaaaatgaataaagcacgtatttattgttgttgttgctgttgttgattcaatctttttctcaaaattgataacggtgctcttatgcacttttcacacaagcaataacaagtttctattcattcttcaatatctttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1354:TF1355|TF1354:TF1355:TonB protein:serine O-acetyltransferase:->->:1435277..1435720 444 tagttctcagattactaagcgatcgatttcagaagggtgtgccgaaaaaacgtttcgggcacaccctttcgatatgtagaagaaatatagaaaaacaacgcgctaaagataaaagcgagagagcacaaaaaaacagtccttccgtatagcggcgtcgagcaaggagtcggatatacatacggatggatgcaacatcccgacgtcaccgacaattttccttatagaatcgaatgtatatacgataaagtacgatgttttttcttttttattaagagatttgccttatctttgcaacccataaacgttcaaaatgaataaagcacgtatttattgttgttgttgctgttgttgattcaatctttttctcaaaattgataacggtgctcttatgcacttttcacacaagcaataacaagtttctattcattcttcaatatctttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagttctcagattactaagcgatcgatttcagaagggtgtgccgaaaaaacgtttcgggcacaccctttcgatatgtagaagaaatatagaaaaacaacgcgctaaagataaaagcgagagagcacaaaaaaacagtccttccgtatagcggcgtcgagcaaggagtcggatatacatacggatggatgcaacatcccgacgtcaccgacaattttccttatagaatcgaatgtatatacgataaagtacgatgttttttcttttttattaagagatttgccttatctttgcaacccataaacgttcaaaatgaataaagcacgtatttattgttgttgttgctgttgttgattcaatctttttctcaaaattgataacggtgctcttatgcacttttcacacaagcaataacaagtttctattcattcttcaatatctttttt Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 39 End: 146 ...................................... M P K K R F G H T L S I C R R N I E K Q R A K D K S E R A Q K N S P S V .......................................................................................................................................................................................................................................................................................................... Protein_Len: 51 Strand: + Start: 146 End: 298 ................................................................................................................................................. M A A S S K E S D I H T D G C N I P T S P T I F L I E S N V Y T I K Y D V F S F L L R D L P Y L C N P .................................................................................................................................................. Protein_Len: 60 Strand: + Start: 109 End: 315 ............................................................................................................ M K A R E H K K T V L P Y S G V E Q G V G Y T Y G W M Q H P D V T D N F P Y R I E C I Y D K V R C F F F F I K R F A L S ................................................................................................................................. Protein_Len: 43 Strand: + Start: 315 End: 443 .......................................................................................................................................................................................................................................................................................................................... M K H V F I V V V A V V D S I F F S K L I T V L L C T F H T S N N K F L F I L Q Y L F . Protein_Len: 31 Strand: - Start: 331 End: 423 .......................................................................................................................................................................................................................................................................................................................................... Q Q Q Q Q Q Q N L R K R L I S L P A R I C K E C L C Y C T E M ..................... Protein_Len: 41 Strand: - Start: 272 End: 394 ............................................................................................................................................................................................................................................................................... S I Q R I K A V W L R E F H I F C T N I T T T A T T S E I K K E F N I V T S K H M .................................................. Protein_Len: 46 Strand: - Start: 106 End: 243 ......................................................................................................... L Y F R S L V F F C D K R I A A D L L S D S I C V S P H L M G V D G V I K R I S D F T Y V M ......................................................................................................................................................................................................... Protein_Len: 51 Strand: - Start: 32 End: 184 ............................... F P T G F F R K P C V R E I H L L F I S F C R A L S L L S L A C F F L G E T Y R R R A L L R I Y M R M .................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 18 End: 212 ................. L T H R F F T E P V G K R Y T S S I Y F F L A S F I F A L S C L F V T R G Y L P T S C P T P Y V Y P H I C C G S T V S M ........................................................................................................................................................................................................................................ tagttctcagattactaagcgatcgatttcagaagggtgtgccgaaaaaacgtttcgggcacaccctttcgatatgtagaagaaatatagaaaaacaacgcgctaaagataaaagcgagagagcacaaaaaaacagtccttccgtatagcggcgtcgagcaaggagtcggatatacatacggatggatgcaacatcccgacgtcaccgacaattttccttatagaatcgaatgtatatacgataaagtacgatgttttttcttttttattaagagatttgccttatctttgcaacccataaacgttcaaaatgaataaagcacgtatttattgttgttgttgctgttgttgattcaatctttttctcaaaattgataacggtgctcttatgcacttttcacacaagcaataacaagtttctattcattcttcaatatctttttt 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================================================ tagttctcagattactaagcgatcgatttcagaagggtgtgccgaaaaaacgtttcgggcacaccctttcgatatgtagaagaaatatagaaaaacaacgcgctaaagataaaagcgagagagcacaaaaaaacagtccttccgtatagcggcgtcgagcaaggagtcggatatacatacggatggatgcaacatcccgacgtcaccgacaattttccttatagaatcgaatgtatatacgataaagtacgatgttttttcttttttattaagagatttgccttatctttgcaacccataaacgttcaaaatgaataaagcacgtatttattgttgttgttgctgttgttgattcaatctttttctcaaaattgataacggtgctcttatgcacttttcacacaagcaataacaagtttctattcattcttcaatatctttttt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 93 HP_score: -14.1 Tail_Score: -2.87344 Start: 29 End: 72 Full_Region: ACTAAGCGATCGATT TCAGAAGGGTGTGCCGAAA AAACG TTTCGGGCACACCCTTTCGA TATGTAGAAGAAATA ............................TCAGAAGGGTGTGCCGAAAAAACGTTTCGGGCACACCCTTTCGA.................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -13.9 Tail_Score: -3.74077 Start: 35 End: 66 Full_Region: CGATCGATTTCAGAA GGGTGTGCCGAAA AAACG TTTCGGGCACACCC TTTCGATATGTAGAA ..................................GGGTGTGCCGAAAAAACGTTTCGGGCACACCC.......................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -13.9 Tail_Score: -3.33492 Start: 35 End: 66 Full_Region: ttctacatatcgaaa gggtgtgcccgaaa cgttt tttcggcacaccc ttctgaaatcgatcg ..................................gggtgtgcccgaaacgttttttcggcacaccc.......................................................................................................................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: TF1354:TF1355|TF1354:TF1355:TonB protein:serine O-acetyltransferase:->->:1435277..1435720 444 tagttctcagattactaagcgatcgatttcagaagggtgtgccgaaaaaacgtttcgggcacaccctttcgatatgtagaagaaatatagaaaaacaacgcgctaaagataaaagcgagagagcacaaaaaaacagtccttccgtatagcggcgtcgagcaaggagtcggatatacatacggatggatgcaacatcccgacgtcaccgacaattttccttatagaatcgaatgtatatacgataaagtacgatgttttttcttttttattaagagatttgccttatctttgcaacccataaacgttcaaaatgaataaagcacgtatttattgttgttgttgctgttgttgattcaatctttttctcaaaattgataacggtgctcttatgcacttttcacacaagcaataacaagtttctattcattcttcaatatctttttt Intra-Species Hit: Count: 1 Min: 1 Max: 444 Len: 444 Subject: tfor_TF1354_TF1355|TonB protein:serine O-acetyltransferase|POSITIVE:POSITIVE|[1435277, 1435720]|444 HSP 1 e-value: 1.0E-129 bit: 462.0 Len: 254 Query Start:1 Query End:254 Subject Strand: POSITIVE Subject Start: 1 Subject End: 254 tagttctcagattactaagcgatcgatttcagaagggtgtgccgaaaaaacgtttcgggcacaccctttcgatatgtagaagaaatatagaaaaacaacgcgctaaagataaaagcgagagagcacnnnnnnncagtccttccgtatagcggcgtcgagcaaggagtcggatatacatacggatggatgcaacatcccgacgtcaccgacaattttccttatagaatcgaatgtatatacgataaagtacgatg.............................................................................................................................................................................................. tagttctcagattactaagcgatcgatttcagaagggtgtgccgaaaaaacgtttcgggcacaccctttcgatatgtagaagaaatatagaaaaacaacgcgctaaagataaaagcgagagagcacaaaaaaacagtccttccgtatagcggcgtcgagcaaggagtcggatatacatacggatggatgcaacatcccgacgtcaccgacaattttccttatagaatcgaatgtatatacgataaagtacgatg.............................................................................................................................................................................................. HSP 2 e-value: 1.0E-95 bit: 351.0 Len: 177 Query Start:268 Query End:444 Subject Strand: POSITIVE Subject Start: 268 Subject End: 444 ...........................................................................................................................................................................................................................................................................attaagagatttgccttatctttgcaacccataaacgttcaaaatgaataaagcacgtatttattgttgttgttgctgttgttgattcaatctttttctcaaaattgataacggtgctcttatgcacttttcacacaagcaataacaagtttctattcattcttcaatatctttttt ...........................................................................................................................................................................................................................................................................attaagagatttgccttatctttgcaacccataaacgttcaaaatgaataaagcacgtatttattgttgttgttgctgttgttgattcaatctttttctcaaaattgataacggtgctcttatgcacttttcacacaagcaataacaagtttctattcattcttcaatatctttttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUCUCAGAUUACUAAGCGAUCGAUUUCAGAAGGGUGUGCCGAAAAAACGUUUCGGGCACACCCUUUCGAUAUGUAGAAGAAAUAUAGAAAAACAACGCGCUAAAGAUAAAAGCGAGAGAGCACAAAAAAACAGUCCUUCCGUAUAGCGGCGUCGAGCAAGGAGUCGGAUAUACAUACGGAUGGAUGCAACAUCCCGACGUCACCGACAAUUUUCCUUAUAGAAUCGAAUGUAUAUACGAUAAAGUACGAUGUUUUUUCUUUUUUAUUAAGAGAUUUGCCUUAUCUUUGCAACCCAUAAACGUUCAAAAUGAAUAAAGCACGUAUUUAUUGUUGUUGUUGCUGUUGUUGAUUCAAUCUUUUUCUCAAAAUUGAUAACGGUGCUCUUAUGCACUUUUCACACAAGCAAUAACAAGUUUCUAUUCAUUCUUCAAUAUCUUUUUU .........((((.......)))).......((((((((((((((((.....)))).)))))))))))).(((((...((((((..(((((((....(((.(((((((((((..(((((........((((((((((.(((.((((((...(((((((..((((((((((....((....(((((.......)))))....))..))))).....)))))......))).)))).))))))...))).))..))))))))(((((.....))))).))))).)))))))).............((((.....))))..))).)))........((((((((((((((((..(((...............)))..))))).((((......))))..........))))))))))).)))))))...)))))).)))))...... (-113.86) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAAGAUAUUGAAGAAUGAAUAGAAACUUGUUAUUGCUUGUGUGAAAAGUGCAUAAGAGCACCGUUAUCAAUUUUGAGAAAAAGAUUGAAUCAACAACAGCAACAACAACAAUAAAUACGUGCUUUAUUCAUUUUGAACGUUUAUGGGUUGCAAAGAUAAGGCAAAUCUCUUAAUAAAAAAGAAAAAACAUCGUACUUUAUCGUAUAUACAUUCGAUUCUAUAAGGAAAAUUGUCGGUGACGUCGGGAUGUUGCAUCCAUCCGUAUGUAUAUCCGACUCCUUGCUCGACGCCGCUAUACGGAAGGACUGUUUUUUUGUGCUCUCUCGCUUUUAUCUUUAGCGCGUUGUUUUUCUAUAUUUCUUCUACAUAUCGAAAGGGUGUGCCCGAAACGUUUUUUCGGCACACCCUUCUGAAAUCGAUCGCUUAGUAAUCUGAGAACUA ......(((...((((((...(((((((.(((((.(((((.((.(((...((((......)))).....((((((((......)))))))).)))...))))))).)))))........((((((...((((((...........))))))...(((((((((....................(((((((((..((.((((.(((((((.....((((.....((((((.....(((((..((((..(((((.......)))))..))))....))))))))))).))))......))))))))))))))))))))))..((......)).))))))))).))))))....)))))))..))))))......(((.(((((((((((.((((.....))))))))))))))).))).....))).(((((....)))))..... (-116.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 493 70 31 163 122 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 411 80 34 183 133 tfor:TF2536|5end_subtilisin-like_serine_protease_2719286..2719516_POSITIVE 407 72 31 206 158 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 396 190 142 79 33 tfor:TF2700|5end_possible_nifS-like_aminotransferase_2872855..2873085_POSITIVE 393 80 34 224 170 tfor:TF0418|5end_possible_methyl-accepting_chemotaxis_protein_434836..435066_POSITIVE 390 70 23 156 102 tfor:TF1284|5end_glyceraldehyde_3-phosphate_dehydrogenase_1367939..1368169_POSITIVE 389 80 36 53 3 tfor:TF1454|5end_sugar_phosphate_epimerase/isomerase_1539696..1539926_POSITIVE 387 58 15 69 35 tfor:TF0467|5end_acetyltransferase-related_protein_485936..486166_POSITIVE 385 60 12 181 126 tfor:TF2533|5end_adenylosuccinate_synthetase_2715666..2715896_POSITIVE 381 186 143 231 185 tfor:TF2775|5end_conserved_hypothetical_protein;_possible_mucoidy_inhibitor-related_protein_2959668..2959898_POSITIVE 378 190 148 87 50 tfor:TF1580|5end_conserved_hypothetical_protein;_possible_fibronectin_domain_containing_protein_1687187..1687417_POSITIVE 376 189 142 137 72 tfor:TF2296|5end_hypothetical_protein_2448892..2449122_POSITIVE 376 190 142 99 51 tfor:TF2008|5end_DNA_polymerase_I_2159302..2159532_POSITIVE 371 187 141 84 42 tfor:TF0094|5end_alpha-glucosidase_103561..103791_POSITIVE 370 69 22 202 157 tfor:TF2593|5end_amino_acid_transport_protein_2762882..2763112_POSITIVE 369 69 23 161 115 tfor:TF0476|5end_conserved_hypothetical_protein_494944..495174_POSITIVE 368 80 31 75 25 tfor:TF0614|5end_UDP-glucose_6-dehydrogenase/UDP-N-acetyl-D-mannosaminuronate_dehydrogenase_647521..647751_POSITIVE 362 185 143 226 188 tfor:TF1664|5end_conserved_hypothetical_protein_1778761..1778991_POSITIVE 360 60 21 157 111 tfor:TF1739|5end_possible_sulfatase_1866983..1867213_POSITIVE 359 190 149 85 48 tfor:TF2333|5end_signal_peptidase_I_2492560..2492790_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 481 68 22 58 18 tfor:TF1354|3end_TonB_protein_1435216..1435366_POSITIVE 436 75 34 117 75 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 407 72 31 67 19 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 385 60 12 143 88 tfor:TF2532|3end_ferric-uptake_regulator_2715708..2715858_POSITIVE 378 190 148 94 57 tfor:TF1579|3end_hypothetical_protein_1687274..1687424_POSITIVE 377 79 31 68 12 tfor:TF2765|3end_subtilisin-like_serine_protease_2951460..2951610_POSITIVE 371 187 141 61 19 tfor:TF0093|3end_outer_membrane_protein,_TonB_dependent_receptor_103618..103768_POSITIVE 370 69 22 47 2 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 367 77 31 70 16 tfor:TF1416|3end_outer_membrane_protein_1499413..1499563_POSITIVE 362 185 143 140 102 tfor:TF1663|3end_ABC_transporter,_permease_component_1778755..1778905_POSITIVE 359 190 149 58 21 tfor:TF2332|3end_signal_peptidase_I_2492613..2492763_POSITIVE 353 190 141 65 13 tfor:TF0478|3end_conserved_hypothetical_protein_498627..498777_POSITIVE 352 189 142 87 23 tfor:TF0326|3end_hypothetical_protein_354317..354467_POSITIVE 349 208 164 103 65 tfor:TF1774|3end_arylsulfatase_precursor_1912939..1913089_POSITIVE 346 80 31 80 26 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE 346 200 152 39 1 tfor:TF0743|3end_conserved_hypothetical_protein_790730..790880_POSITIVE 345 172 134 148 107 tfor:TF0235|3end_hypothetical_protein_261849..261999_POSITIVE 344 169 138 62 24 tfor:TF0593|3end_membrane-associated_phospholipid_phosphatase_627051..627201_POSITIVE 340 166 138 65 30 tfor:TF1599|3end_ribonuclease_P_protein_component_1714054..1714204_POSITIVE 338 190 149 44 2 tfor:TF2007|3end_uracil_phosphoribosyltransferase_2159327..2159477_POSITIVE