Origin IGS: accataatattataataatgcgaggacaaaattagagaaattttccgaaatggagctcttcggaaagattaacacaacgaaaaaaagaacatctcgccaccaaaaaacttcgagggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgacatactgccgagtctgtataatgttctgcggctggcta .........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 tagccagccgcagaacattatacagactcggcagtatgtcataacgagcgaactgcttcgttgtttgcggaatgcgagctcggccacatacgttagtatgctccctcgctctcatccttagcgcctcccaatttcacccattcttacatacctaaagagggtgtgtccaaacattgcgttttgacacaccctcgaagttttttggtggcgagatgttctttttttcgttgtgttaatctttccgaagagctccatttcggaaaatttctctaattttgtcctcgcattattataatattatggt Mask Tandem Repeat Region ================================================ accataatattataataatgcgaggacaaaattagagaaattttccgaaatggagctcttcggaaagattaacacaacgaaaaaaagaacatctcgccaccaaaaaacttcgagggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgacatactgccgagtctgtataatgttctgcggctggcta Find is-nt database================================================ Query_seq: TF0983:TF0984|TF0983:TF0984:nitroreductase family protein, possible NADH dehydrogenase/NAD(P)H nitroreductase:possible mucin-desulfating sulfatase (MdsC protein):->->:1040095..1040398 304 accataatattataataatgcgaggacaaaattagagaaattttccgaaatggagctcttcggaaagattaacacaacgaaaaaaagaacatctcgccaccaaaaaacttcgagggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgacatactgccgagtctgtataatgttctgcggctggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0983:TF0984|TF0983:TF0984:nitroreductase family protein, possible NADH dehydrogenase/NAD(P)H nitroreductase:possible mucin-desulfating sulfatase (MdsC protein):->->:1040095..1040398 304 accataatattataataatgcgaggacaaaattagagaaattttccgaaatggagctcttcggaaagattaacacaacgaaaaaaagaacatctcgccaccaaaaaacttcgagggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgacatactgccgagtctgtataatgttctgcggctggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0983:TF0984|TF0983:TF0984:nitroreductase family protein, possible NADH dehydrogenase/NAD(P)H nitroreductase:possible mucin-desulfating sulfatase (MdsC protein):->->:1040095..1040398 304 accataatattataataatgcgaggacaaaattagagaaattttccgaaatggagctcttcggaaagattaacacaacgaaaaaaagaacatctcgccaccaaaaaacttcgagggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgacatactgccgagtctgtataatgttctgcggctggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 accataatattataataatgcgaggacaaaattagagaaattttccgaaatggagctcttcggaaagattaacacaacgaaaaaaagaacatctcgccaccaaaaaacttcgagggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgacatactgccgagtctgtataatgttctgcggctggcta Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 50 End: 184 ................................................. M E L F G K I N T T K K R T S R H Q K T S R V C Q N A M F G H T L F R Y V R M G E I G R R ........................................................................................................................ Protein_Len: 38 Strand: + Start: 190 End: 303 ............................................................................................................................................................................................. M R A R E H T N V C G R A R I P Q T T K Q F A R Y D I L P S L Y N V L R L A . Protein_Len: 33 Strand: + Start: 206 End: 304 ............................................................................................................................................................................................................. M L T Y V A E L A F R K Q R S S S L V M T Y C R V C I M F C G W L Protein_Len: 34 Strand: - Start: 187 End: 288 .......................................................................................................................................................................................... P H S R P L M S V Y T A S S A N R L C R L L E S T I V Y Q R T Q I M ................ Protein_Len: 41 Strand: - Start: 35 End: 157 .................................. L F K G F H L E E S L N V C R F F S C R A V L F S R P H T L V C H K S V G E K P M ................................................................................................................................................... accataatattataataatgcgaggacaaaattagagaaattttccgaaatggagctcttcggaaagattaacacaacgaaaaaaagaacatctcgccaccaaaaaacttcgagggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgacatactgccgagtctgtataatgttctgcggctggcta 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================================================ accataatattataataatgcgaggacaaaattagagaaattttccgaaatggagctcttcggaaagattaacacaacgaaaaaaagaacatctcgccaccaaaaaacttcgagggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgacatactgccgagtctgtataatgttctgcggctggcta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 91 HP_score: -8.4 Tail_Score: -5.14563 Start: 108 End: 153 Full_Region: cccattcttacatac ctaaagagggtgtgtccaaac attgc gttttgacacaccctcgaag ttttttggtggcgag ...........................................................................................................ctaaagagggtgtgtccaaacattgcgttttgacacaccctcgaag....................................................................................................................................................... TransTerm Strand: - Conf: 77 HP_score: -11.2 Tail_Score: -2.80472 Start: 110 End: 150 Full_Region: attcttacataccta aagagggtgtgtccaaac attgc gttttgacacaccctcga agttttttggtggcg .............................................................................................................aagagggtgtgtccaaacattgcgttttgacacaccctcga.......................................................................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -18.9 Tail_Score: -3.74077 Start: 112 End: 148 Full_Region: CCACCAAAAAACTTC GAGGGTGTGTCAAAACG CAA TGTTTGGACACACCCTC TTTAGGTATGTAAGA ...............................................................................................................GAGGGTGTGTCAAAACGCAATGTTTGGACACACCCTC............................................................................................................................................................ Find igs database================================================ Query_seq: TF0983:TF0984|TF0983:TF0984:nitroreductase family protein, possible NADH dehydrogenase/NAD(P)H nitroreductase:possible mucin-desulfating sulfatase (MdsC protein):->->:1040095..1040398 304 accataatattataataatgcgaggacaaaattagagaaattttccgaaatggagctcttcggaaagattaacacaacgaaaaaaagaacatctcgccaccaaaaaacttcgagggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgacatactgccgagtctgtataatgttctgcggctggcta Intra-Species Hit: Count: 4 Min: 1 Max: 304 Len: 304 Subject: tfor_TF0983_TF0984|nitroreductase family protein, possible NADH dehydrogenase/NAD(P)H nitroreductase:possible mucin-desulfating sulfatase (MdsC protein)|POSITIVE:POSITIVE|[1040095,1040398]|304 HSP 1 e-value: 1.0E-159 bit: 561.0 Len: 304 Query Start:1 Query End:304 Subject Strand: POSITIVE Subject Start: 1 Subject End: 304 accataatattataataatgcgaggacaaaattagagaaattttccgaaatggagctcttcggaaagattaacacaacgnnnnnnngaacatctcgccaccaaaaaacttcgagggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgacatactgccgagtctgtataatgttctgcggctggcta accataatattataataatgcgaggacaaaattagagaaattttccgaaatggagctcttcggaaagattaacacaacgaaaaaaagaacatctcgccaccaaaaaacttcgagggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgacatactgccgagtctgtataatgttctgcggctggcta Subject: tfor_TF0145_TF0146|glutamine synthetase:glutamine-dependent NAD(+) synthetase|POSITIVE:POSITIVE|[154779,154994]|216 HSP 1 e-value: 2.0E-32 bit: 141.0 Len: 127 Query Start:142 Query End:268 Subject Strand: NEGATIVE Subject Start: 18 Subject End: 143 .............................................................................................................................................caccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatgaca.................................... .............................................................................................................................................caccctttttaggtgtgtcagaataggtgaaat-gcaaggcgctaaggatgcgaacgagggagcatactaacgtatgtgaccgagcttgcattccgcaagcaacgaagcagttcgcccgttatgaca.................................... Subject: tfor_TF0475_TF0476|possible transcriptional regulator, AraC family:conserved hypothetical protein|POSITIVE:POSITIVE|[494886,495083]|198 HSP 1 e-value: 1.0E-30 bit: 135.0 Len: 152 Query Start:114 Query End:265 Subject Strand: NEGATIVE Subject Start: 14 Subject End: 164 .................................................................................................................gggtgtgtcaaaacgcaatgtttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgtatgtggccgagctcgcattccgcaaacaacgaagcagttcgctcgttatg....................................... .................................................................................................................gggtgtgtcaaaacgcaatgtttgggcacaccctctttaggtgtgtaagcatgggtgaaa-tgcaagacgctaaggatgagagcgagggagtatacaaacgtatatgaccgagtttacattcagcaggaaacgaagcagttctcccgttatg....................................... Subject: tfor_TF0661_TF0662|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[708318,708455]|138 HSP 1 e-value: 4.0E-27 bit: 123.0 Len: 105 Query Start:112 Query End:216 Subject Strand: POSITIVE Subject Start: 33 Subject End: 137 ...............................................................................................................gagggtgtgtcaaaacgcaatgttt-ggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgta........................................................................................ ...............................................................................................................gagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattgggggg-gctaaggatgagagcgagggagcatactaacgta........................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCAUAAUAUUAUAAUAAUGCGAGGACAAAAUUAGAGAAAUUUUCCGAAAUGGAGCUCUUCGGAAAGAUUAACACAACGAAAAAAAGAACAUCUCGCCACCAAAAAACUUCGAGGGUGUGUCAAAACGCAAUGUUUGGACACACCCUCUUUAGGUAUGUAAGAAUGGGUGAAAUUGGGAGGCGCUAAGGAUGAGAGCGAGGGAGCAUACUAACGUAUGUGGCCGAGCUCGCAUUCCGCAAACAACGAAGCAGUUCGCUCGUUAUGACAUACUGCCGAGUCUGUAUAAUGUUCUGCGGCUGGCUA ...................((((((...............(((((((((.........)))))))))..........(........)....))))))..............(((((((((((.((((.....)))).)))))))))))....(((((((...((((((((((.((.(...(((....(((((.((((..((..((((((....))))))..))..)))).))))))))......).))....))))))))))...)))))))(((.((.(((((........)))))))))).. (-97.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCCAGCCGCAGAACAUUAUACAGACUCGGCAGUAUGUCAUAACGAGCGAACUGCUUCGUUGUUUGCGGAAUGCGAGCUCGGCCACAUACGUUAGUAUGCUCCCUCGCUCUCAUCCUUAGCGCCUCCCAAUUUCACCCAUUCUUACAUACCUAAAGAGGGUGUGUCCAAACAUUGCGUUUUGACACACCCUCGAAGUUUUUUGGUGGCGAGAUGUUCUUUUUUUCGUUGUGUUAAUCUUUCCGAAGAGCUCCAUUUCGGAAAAUUUCUCUAAUUUUGUCCUCGCAUUAUUAUAAUAUUAUGGU ..((((.....((((((((...(((((.(((((((.(((........))).)))))..))..))))).(((.((.((((..((...(((((....)))))...))..)))).)))))....((((.((.((((((........(((......))).(((((((((((.((((.....)))).)))))))))))))))))....)).)))).)))))))).(((((((..(((....((((....))))....)))..)))))))......((((..(((....)))..))))........)))) (-85.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 750 237 191 215 169 tfor:TF0797|5end_conserved_hypothetical_protein_853296..853526_POSITIVE 745 160 114 172 126 tfor:TF0476|5end_conserved_hypothetical_protein_494944..495174_POSITIVE 733 209 161 231 184 tfor:TF0146|5end_glutamine-dependent_NAD(+)_synthetase_154855..155085_POSITIVE 679 160 112 175 123 tfor:TF0792|5end_pyruvate_ferredoxin;_flavodoxin_oxidoreductase_846454..846684_POSITIVE 677 160 112 181 132 tfor:TF2536|5end_subtilisin-like_serine_protease_2719286..2719516_POSITIVE 556 151 112 228 189 tfor:TF0184|5end_dihydroneopterin_aldolase_195629..195859_POSITIVE 516 160 112 174 118 tfor:TF1024|5end_50S_ribosomal_protein_L19_1081948..1082178_POSITIVE 514 158 112 174 126 tfor:TF0702|5end_possible_peptidyl-prolyl_isomerase_744977..745207_POSITIVE 509 153 112 204 163 tfor:TF2320|5end_hypothetical_protein_2476654..2476884_POSITIVE 500 157 112 163 118 tfor:TF1284|5end_glyceraldehyde_3-phosphate_dehydrogenase_1367939..1368169_POSITIVE 455 151 112 193 155 tfor:TF3007|5end_conserved_hypothetical_protein_3227256..3227486_POSITIVE 454 151 112 200 160 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 449 159 112 187 132 tfor:TF0216|5end_50S_ribosomal_protein_L20_242476..242706_POSITIVE 434 230 181 211 152 tfor:TF3064|5end_oxidoreductase,_aldo/keto_reductase_family_3289765..3289995_POSITIVE 412 257 213 67 10 tfor:TF2884|5end_conserved_hypothetical_protein_3075057..3075287_POSITIVE 403 158 112 171 125 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 398 152 112 150 110 tfor:TF0107|5end_ion_channel_protein_113913..114143_POSITIVE 393 157 112 208 164 tfor:TF2593|5end_amino_acid_transport_protein_2762882..2763112_POSITIVE 393 260 213 197 147 tfor:TF0140|5end_exodeoxyribonuclease_VII,_small_subunit_148203..148433_POSITIVE 387 205 162 146 107 tfor:TF1425|5end_phospho-N-acetylmuramoyl_pentapeptide_transferase_1508600..1508830_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 890 260 211 65 16 tfor:TF0145|3end_glutamine_synthetase_154718..154868_POSITIVE 768 270 221 71 19 tfor:TF0795|3end_hypothetical_protein_853199..853349_POSITIVE 629 239 191 51 3 tfor:TF0475|3end_possible_transcriptional_regulator,_AraC_family_494825..494975_POSITIVE 574 159 112 54 8 tfor:TF0182|3end_DNA-binding_protein,_HU-related_195528..195678_POSITIVE 513 160 112 126 74 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 509 153 112 58 17 tfor:TF2319|3end_acyl_carrier_protein_2476588..2476738_POSITIVE 454 151 112 61 21 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 413 148 112 49 13 tfor:TF2765|3end_subtilisin-like_serine_protease_2951460..2951610_POSITIVE 412 257 213 59 2 tfor:TF2883|3end_peptidyl-prolyl_cis-trans_isomerase_3075129..3075279_POSITIVE 398 152 112 64 24 tfor:TF0105|3end_DNA-binding_stress_protein,_Dps_family_113907..114057_POSITIVE 393 157 112 53 9 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 387 205 162 140 101 tfor:TF1424|3end_N-acetylymuramoyl-L-alanine-D-glutamate_ligase_1508674..1508824_POSITIVE 384 149 110 60 19 tfor:TF1354|3end_TonB_protein_1435216..1435366_POSITIVE 381 276 232 48 2 tfor:TF1249|3end_phosphoglycerate_kinase_(cytosolic_phosphoglycerate_kinase)_1332356..1332506_POSITIVE 378 240 193 70 7 tfor:TF2336|3end_conserved_hypothetical_protein_2498159..2498309_POSITIVE 352 230 182 54 7 tfor:TF0408|3end_possible_gliding_motility-related_lipoprotein_426324..426474_POSITIVE 350 154 112 68 28 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE 350 150 112 63 25 tfor:TF1045|3end_conserved_hypothetical_protein_1108245..1108395_POSITIVE 350 208 161 149 105 tfor:TF0619|3end_ubiquinone_biosynthesis_methyltransferase_654781..654931_POSITIVE 349 250 213 41 4 tfor:TF2210|3end_hypothetical_protein_2384439..2384589_POSITIVE