Origin IGS: taatcgcttaaaatatcgaaaaaattaaccgcactttagtaactttcataatgaaaactcaaagtgcggtttgtttttggagagtttttaacatcgctttaactcccgccgcactgtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacagtgcggcgggagttaaagcgatgttaaaaactctccaaaaacaaaccgcactttgagttttcattatgaaagttactaaagtgcggttaattttttcgatattttaagcgatta Mask Tandem Repeat Region ================================================ taatcgcttaaaatatcgaaaaaattaaccgcactttagtaactttcataatgaaaactcaaagtgcggtttgtttttggagagtttttaacatcgctttaactcccgccgcactgtta Find is-nt database================================================ Query_seq: AA01109:AA01111|AA01109:AA01111:oxidoreductase (possible short-chain alcohol dehydrogenase):conserved hypothetical protein:->->:764786..764904 119 taatcgcttaaaatatcgaaaaaattaaccgcactttagtaactttcataatgaaaactcaaagtgcggtttgtttttggagagtttttaacatcgctttaactcccgccgcactgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01109:AA01111|AA01109:AA01111:oxidoreductase (possible short-chain alcohol dehydrogenase):conserved hypothetical protein:->->:764786..764904 119 taatcgcttaaaatatcgaaaaaattaaccgcactttagtaactttcataatgaaaactcaaagtgcggtttgtttttggagagtttttaacatcgctttaactcccgccgcactgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01109:AA01111|AA01109:AA01111:oxidoreductase (possible short-chain alcohol dehydrogenase):conserved hypothetical protein:->->:764786..764904 119 taatcgcttaaaatatcgaaaaaattaaccgcactttagtaactttcataatgaaaactcaaagtgcggtttgtttttggagagtttttaacatcgctttaactcccgccgcactgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatcgcttaaaatatcgaaaaaattaaccgcactttagtaactttcataatgaaaactcaaagtgcggtttgtttttggagagtttttaacatcgctttaactcccgccgcactgtta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 15 End: 119 .............. M E K I N R T L V T F I M K T Q S A V C F W R V F N I A L T P A A L L taatcgcttaaaatatcgaaaaaattaaccgcactttagtaactttcataatgaaaactcaaagtgcggtttgtttttggagagtttttaacatcgctttaactcccgccgcactgtta 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================================================ taatcgcttaaaatatcgaaaaaattaaccgcactttagtaactttcataatgaaaactcaaagtgcggtttgtttttggagagtttttaacatcgctttaactcccgccgcactgtta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 72 HP_score: -3.4 Tail_Score: -5.19916 Start: 25 End: 73 Full_Region: aaaactctccaaaaa caaaccgcactttgagttttca tta tgaaagttactaaagtgcggttaa ttttttcgatatttt ........................caaaccgcactttgagttttcattatgaaagttactaaagtgcggttaa.............................................. TransTerm Strand: - Conf: 80 HP_score: -8.6 Tail_Score: -3.94773 Start: 29 End: 69 Full_Region: ctctccaaaaacaaa ccgcactttgagttttca tta tgaaagttactaaagtgcgg ttaattttttcgata ............................ccgcactttgagttttcattatgaaagttactaaagtgcgg.................................................. Find igs database================================================ Query_seq: AA01109:AA01111|AA01109:AA01111:oxidoreductase (possible short-chain alcohol dehydrogenase):conserved hypothetical protein:->->:764786..764904 119 taatcgcttaaaatatcgaaaaaattaaccgcactttagtaactttcataatgaaaactcaaagtgcggtttgtttttggagagtttttaacatcgctttaactcccgccgcactgtta Intra-Species Hit: Count: 1 Min: 1 Max: 119 Len: 119 Subject: aact_AA01109_AA01111|oxidoreductase (possible short-chain alcohol dehydrogenase):conserved hypothetical protein|POSITIVE:POSITIVE|[764786,764904]|119 HSP 1 e-value: 1.0E-61 bit: 236.0 Len: 119 Query Start:1 Query End:119 Subject Strand: POSITIVE Subject Start: 1 Subject End: 119 taatcgcttaaaatatcgaaaaaattaaccgcactttagtaactttcataatgaaaactcaaagtgcggtttgtttttggagagtttttaacatcgctttaactcccgccgcactgtta taatcgcttaaaatatcgaaaaaattaaccgcactttagtaactttcataatgaaaactcaaagtgcggtttgtttttggagagtttttaacatcgctttaactcccgccgcactgtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCGCUUAAAAUAUCGAAAAAAUUAACCGCACUUUAGUAACUUUCAUAAUGAAAACUCAAAGUGCGGUUUGUUUUUGGAGAGUUUUUAACAUCGCUUUAACUCCCGCCGCACUGUUA .....((............((((((.((((((((((((((...((((.....))))))).))))))))))).))))))((.(((((..............)))))))...))....... (-29.84) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAGUGCGGCGGGAGUUAAAGCGAUGUUAAAAACUCUCCAAAAACAAACCGCACUUUGAGUUUUCAUUAUGAAAGUUACUAAAGUGCGGUUAAUUUUUUCGAUAUUUUAAGCGAUUA ......(((...(((((((..(((...)))...))))))).(((((..(((((((((((.(((((((.....))))...))))))))))))))..)))))............))).... (-27.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 389 110 61 163 116 aact:AA02171|5end_polysialic_acid_capsule_expression_protein_1485084..1485314_POSITIVE 386 110 61 182 120 aact:AA01981|5end_4-alpha-glucanotransferase_1337202..1337432_POSITIVE 381 110 61 89 39 aact:AA02143|5end_hypothetical_protein_1467433..1467663_POSITIVE 381 110 61 173 127 aact:AA01721|5end_hypothetical_protein_1163312..1163542_POSITIVE 381 110 61 139 93 aact:AA01720|5end_conserved_hypothetical_protein_1163278..1163508_POSITIVE 379 110 61 168 113 aact:AA02014|5end_probable_hemolysin_1370406..1370636_POSITIVE 365 50 2 142 94 aact:AA00454|5end_conserved_hypothetical_protein_318020..318250_POSITIVE 350 110 61 56 2 aact:AA01759|5end_hydrogenase_isoenzymes_formation_protein_1188675..1188905_POSITIVE 341 100 57 50 2 aact:AA02911|5end_hypothetical_protein_2039006..2039236_POSITIVE 340 109 61 195 145 aact:AA00569|5end_ketol-acid_reductoisomerase_391191..391421_POSITIVE 338 109 62 162 123 aact:AA00356|5end_DNA-directed_RNA_polymerase,_beta'_chain_238937..239167_POSITIVE 330 109 61 229 184 aact:AA02774|5end_collagenase_prtC_homolog,_possible_protease_1936870..1937100_POSITIVE 330 109 61 58 13 aact:AA02773|5end_hypothetical_protein_1936699..1936929_POSITIVE 330 110 61 198 144 aact:AA02509|5end_chorismate_synthase_1740952..1741182_POSITIVE 327 107 61 169 113 aact:AA02700|5end_succinyl-CoA_synthase,_alpha_subunit_1883256..1883486_POSITIVE 327 110 61 182 133 aact:AA01220|5end_competence_protein_F;_amidophosphoribosyltransferase_832775..833005_POSITIVE 327 110 61 63 14 aact:AA01217|5end_hypothetical_protein_832656..832886_POSITIVE 325 110 61 208 142 aact:AA02963|5end_opacity_associated_protein_B_2072302..2072532_POSITIVE 323 97 51 202 141 aact:AA01083|5end_preprotein_translocase_SecA_subunit_748131..748361_POSITIVE 319 70 27 146 113 aact:AA02252|5end_conserved_hypothetical_protein_1533840..1534070_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 70 27 63 20 aact:AA01109|3end_oxidoreductase_(possible_short-chain_alcohol_dehydrogenase)_764725..764875_POSITIVE 381 110 61 108 58 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 381 110 61 97 51 aact:AA01718|3end_DNA_polymerase_III,_chi_subunit_1163316..1163466_POSITIVE 379 110 61 56 1 aact:AA02013|3end_carbonic_anhydrase_1370374..1370524_POSITIVE 365 50 2 51 3 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 341 100 57 69 21 aact:AA02910|3end_ribonuclease_E_2039105..2039255_POSITIVE 338 109 62 56 17 aact:AA00355|3end_DNA-directed_RNA_polymerase_beta_chain_(transcriptase_beta_chain)_238911..239061_POSITIVE 336 109 61 109 59 aact:AA00716|3end_conserved_hypothetical_protein_491244..491394_POSITIVE 330 109 61 55 10 aact:AA02772|3end_hypothetical_protein_1936776..1936926_POSITIVE 326 109 61 87 30 aact:AA02562|3end_adenine_specific_methylase_1785146..1785296_POSITIVE 325 110 61 111 45 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE 319 70 27 69 36 aact:AA02251|3end_biotin_sulfoxide_reductase;_Trimethylamine-N-oxide_reductase_precursor_1533843..1533993_POSITIVE 318 89 43 145 103 aact:AA01297|3end_competence_protein_E_precursor_880611..880761_POSITIVE 316 70 25 57 23 aact:AA02380|3end_iron_chelatin_ABC_transporter,periplasmic-binding_protein_1629180..1629330_POSITIVE 316 109 61 66 14 aact:AA01057|3end_DnaJ-like_protein_djlA_735047..735197_POSITIVE 312 109 61 140 88 aact:AA01823|3end_hypothetical_protein_1227747..1227897_POSITIVE 312 109 61 64 12 aact:AA01822|3end_lysostaphin_precursor_1227671..1227821_POSITIVE 306 109 61 134 83 aact:AA01735|3end_hypothetical_protein_1172714..1172864_POSITIVE 306 42 6 39 3 aact:AA01640|3end_restriction_enzyme_type_I_helicase_subunit_1110839..1110989_POSITIVE 304 70 28 114 80 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE