Origin IGS: aacagactcctcgtcaatacaacagttttgtttggcaagttggcgtaactttctatcagttacgccagccgcgcattttactttgaaccgctgaatttttcaaagtgcttttattatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taataataaaagcactttgaaaaattcagcggttcaaagtaaaatgcgcggctggcgtaactgatagaaagttacgccaacttgccaaacaaaactgttgtattgacgaggagtctgtt Mask Tandem Repeat Region ================================================ aacagactcctcgtcaatacaacagttttgtttggcaagttggcgtaactttctatcagttacgccagccgcgcattttactttgaaccgctgaatttttcaaagtgcttttattatta Find is-nt database================================================ Query_seq: AA00379:AA00380|AA00379:AA00380:possible membrane protein:carbamate kinase:->->:256549..256667 119 aacagactcctcgtcaatacaacagttttgtttggcaagttggcgtaactttctatcagttacgccagccgcgcattttactttgaaccgctgaatttttcaaagtgcttttattatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00379:AA00380|AA00379:AA00380:possible membrane protein:carbamate kinase:->->:256549..256667 119 aacagactcctcgtcaatacaacagttttgtttggcaagttggcgtaactttctatcagttacgccagccgcgcattttactttgaaccgctgaatttttcaaagtgcttttattatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00379:AA00380|AA00379:AA00380:possible membrane protein:carbamate kinase:->->:256549..256667 119 aacagactcctcgtcaatacaacagttttgtttggcaagttggcgtaactttctatcagttacgccagccgcgcattttactttgaaccgctgaatttttcaaagtgcttttattatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aacagactcctcgtcaatacaacagttttgtttggcaagttggcgtaactttctatcagttacgccagccgcgcattttactttgaaccgctgaatttttcaaagtgcttttattatta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 1 End: 96 V S E E D I C C N Q K A L Q R L K R D T V G A A C K V K F R Q M ....................... aacagactcctcgtcaatacaacagttttgtttggcaagttggcgtaactttctatcagttacgccagccgcgcattttactttgaaccgctgaatttttcaaagtgcttttattatta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 89 Start: 75 End: 104 ..........................................................................TTTGAAAAATTCAGCGGTTCAAAGTAAAAT............... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aacagactcctcgtcaatacaacagttttgtttggcaagttggcgtaactttctatcagttacgccagccgcgcattttactttgaaccgctgaatttttcaaagtgcttttattatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 69 HP_score: -4.3 Tail_Score: -4.54727 Start: 33 End: 75 Full_Region: TACAACAGTTTTGTT TGGCAAGTTGGCGTAACT TTCTATC AGTTACGCCAGCCGCGCA TTTTACTTTGAACCG ................................TGGCAAGTTGGCGTAACTTTCTATCAGTTACGCCAGCCGCGCA............................................ Find igs database================================================ Query_seq: AA00379:AA00380|AA00379:AA00380:possible membrane protein:carbamate kinase:->->:256549..256667 119 aacagactcctcgtcaatacaacagttttgtttggcaagttggcgtaactttctatcagttacgccagccgcgcattttactttgaaccgctgaatttttcaaagtgcttttattatta Intra-Species Hit: Count: 1 Min: 1 Max: 119 Len: 119 Subject: aact_AA00379_AA00380|possible membrane protein:carbamate kinase|POSITIVE:POSITIVE|[256549,256667]|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 aacagactcctcgtcaatacaacagttttgtttggcaagttggcgtaactttctatcagttacgccagccgcgcattttactttgaaccgctgaatttttcaaagtgcttttattatta aacagactcctcgtcaatacaacagttttgtttggcaagttggcgtaactttctatcagttacgccagccgcgcattttactttgaaccgctgaatttttcaaagtgcttttattatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACAGACUCCUCGUCAAUACAACAGUUUUGUUUGGCAAGUUGGCGUAACUUUCUAUCAGUUACGCCAGCCGCGCAUUUUACUUUGAACCGCUGAAUUUUUCAAAGUGCUUUUAUUAUUA ............(((((.((((.....)))))))))..((((((((((((.......)))))))))))).........(((((((((...........)))))))))............ (-30.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAUAAAAGCACUUUGAAAAAUUCAGCGGUUCAAAGUAAAAUGCGCGGCUGGCGUAACUGAUAGAAAGUUACGCCAACUUGCCAAACAAAACUGUUGUAUUGACGAGGAGUCUGUU ...........((.(((((...(((.((((((((....((.....))..(((((((((((((.......))))))))))....)))......)))))))).)))..))))).))..... (-32.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 402 103 62 64 33 aact:AA01715|5end_conserved_hypothetical_protein_1160480..1160710_POSITIVE 356 90 43 176 131 aact:AA01184|5end_hypothetical_protein_810838..811068_POSITIVE 344 74 32 53 6 aact:AA00870|5end_rough_colony_protein_C_601735..601965_POSITIVE 342 90 42 53 9 aact:AA02663|5end_DNA_ligase_1853564..1853794_POSITIVE 340 90 42 79 29 aact:AA01704|5end_tyrosine-specific_transport_protein_1156170..1156400_POSITIVE 337 80 40 41 3 aact:AA00107|5end_histidyl-tRNA_synthetase_76699..76929_POSITIVE 336 80 31 67 17 aact:AA01270|5end_hydrolase_(possible_2-haloalkanoic_acid_dehalogenase_I)_863317..863547_POSITIVE 336 73 34 48 17 aact:AA00132|5end_conserved_hypothetical_protein_(possible_regulator_protein,_VirR_family)_94938..95168_POSITIVE 334 80 35 61 10 aact:AA02939|5end_phosphoserine_phosphatase_2056881..2057111_POSITIVE 327 90 41 204 149 aact:AA00416|5end_D-methionine_transport_system_permease_protein_(ABC_transport_system)_282677..282907_POSITIVE 320 110 63 56 9 aact:AA02233|5end_asparaginyl-tRNA_synthetase_1519877..1520107_POSITIVE 315 45 3 120 95 aact:AA01724|5end_valyl-tRNA_synthetase_1164446..1164676_POSITIVE 314 75 35 216 174 aact:AA01146|5end_conserved_hypothetical_protein_784433..784663_POSITIVE 310 85 41 167 109 aact:AA00235|5end_hypothetical_protein_168596..168826_POSITIVE 308 76 32 51 12 aact:AA01547|5end_deoxyribose-phosphate_aldolase_1036271..1036501_POSITIVE 306 94 59 166 127 aact:AA01957|5end_conserved_hypothetical_protein_1323211..1323441_POSITIVE 306 73 32 229 185 aact:AA01522|5end_conserved_hypothetical_protein_1022840..1023070_POSITIVE 305 74 34 34 1 aact:AA01755|5end_cobalt_membrane_transport_protein_1185825..1186055_POSITIVE 305 71 36 141 104 aact:AA00129|5end_hypothetical_protein_94122..94352_POSITIVE 301 81 41 165 120 aact:AA02427|5end_hypothetical_protein_1674185..1674415_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 343 75 33 58 16 aact:AA00379|3end_possible_membrane_protein_256488..256638_POSITIVE 336 80 31 83 33 aact:AA01269|3end_hypothetical_protein_863413..863563_POSITIVE 334 76 33 151 101 aact:AA01183|3end_conserved_hypothetical_protein_810902..811052_POSITIVE 310 85 41 132 74 aact:AA00234|3end_collagen_adhesin_168641..168791_POSITIVE 307 80 38 47 1 aact:AA02937|3end_conserved_hypothetical_protein_2056947..2057097_POSITIVE 305 71 36 146 109 aact:AA00128|3end_cation-transporting_ATPase_(probable_potassium/copper_transporter)_94207..94357_POSITIVE 301 81 41 126 81 aact:AA02426|3end_uridylyltransferase_1674226..1674376_POSITIVE 298 90 48 56 8 aact:AA01519|3end_conserved_hypothetical_protein_1022539..1022689_POSITIVE 295 73 34 78 51 aact:AA02468|3end_conserved_hypothetical_protein_1706797..1706947_POSITIVE 295 71 33 106 68 aact:AA01859|3end_hypothetical_protein_1251890..1252040_POSITIVE 293 66 25 150 116 aact:AA01145|3end_glycyl-tRNA_synthetase_alpha_subunit_784460..784610_POSITIVE 290 90 42 57 1 aact:AA01753|3end_conserved_hypothetical_protein_1185902..1186052_POSITIVE 287 108 62 55 3 aact:AA02205|3end_short_chain_dehydrogenase/reductase_1501984..1502134_POSITIVE 287 90 43 116 61 aact:AA01826|3end_iron(III)_ABC_transporter,_permease_protein_1230448..1230598_POSITIVE 286 107 61 113 62 aact:AA02697|3end_hydrogenase_3_maturation_protease_1880408..1880558_POSITIVE 285 69 23 61 6 aact:AA01816|3end_hypothetical_protein_1224134..1224284_POSITIVE 285 77 31 147 112 aact:AA01245|3end_tyrosine-specific_transport_protein_2_849681..849831_POSITIVE 285 90 41 142 89 aact:AA00316|3end_conserved_hypothetical_protein_215340..215490_POSITIVE 284 94 53 115 72 aact:AA01472|3end_hypothetical_protein_989158..989308_POSITIVE 282 73 33 64 22 aact:AA01888|3end_hypothetical_protein_1273286..1273436_POSITIVE