Origin IGS: agtcctccttattgggtataattccttctttcattgaaataatatccccgaaaagggtataattgattttttattccttatatttgctaccgataaggtatataatgactttgaatggaagagtgtagtgtacatattctcagtcattattcataatcaactcaagagatgatatacaataatt .........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 aattattgtatatcatctcttgagttgattatgaataatgactgagaatatgtacactacactcttccattcaaagtcattatataccttatcggtagcaaatataaggaataaaaaatcaattatacccttttcggggatattatttcaatgaaagaaggaattatacccaataaggaggact Mask Tandem Repeat Region ================================================ agtcctccttattgggtataattccttctttcattgaaataatatccccgaaaagggtataattgattttttattccttatatttgctaccgataaggtatataatgactttgaatggaagagtgtagtgtacatattctcagtcattattcataatcaactcaagagatgatatacaataatt Find is-nt database================================================ Query_seq: PG0855:PG0856|PG0855:PG0856:hypothetical protein:hypothetical protein:<-->:916146..916329 184 agtcctccttattgggtataattccttctttcattgaaataatatccccgaaaagggtataattgattttttattccttatatttgctaccgataaggtatataatgactttgaatggaagagtgtagtgtacatattctcagtcattattcataatcaactcaagagatgatatacaataatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0855:PG0856|PG0855:PG0856:hypothetical protein:hypothetical protein:<-->:916146..916329 184 agtcctccttattgggtataattccttctttcattgaaataatatccccgaaaagggtataattgattttttattccttatatttgctaccgataaggtatataatgactttgaatggaagagtgtagtgtacatattctcagtcattattcataatcaactcaagagatgatatacaataatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0855:PG0856|PG0855:PG0856:hypothetical protein:hypothetical protein:<-->:916146..916329 184 agtcctccttattgggtataattccttctttcattgaaataatatccccgaaaagggtataattgattttttattccttatatttgctaccgataaggtatataatgactttgaatggaagagtgtagtgtacatattctcagtcattattcataatcaactcaagagatgatatacaataatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtcctccttattgggtataattccttctttcattgaaataatatccccgaaaagggtataattgattttttattccttatatttgctaccgataaggtatataatgactttgaatggaagagtgtagtgtacatattctcagtcattattcataatcaactcaagagatgatatacaataatt Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 44 End: 169 ........................................... M P E K G I I D F L F L I F A T D K V Y N D F E W K S V V Y I F S V I I H N Q L K R ............... Protein_Len: 39 Strand: - Start: 34 End: 150 ................................. Q F L I G S F P I I S K K N R I N A V S L T Y L S K S H F L T T Y M N E T M M .................................. agtcctccttattgggtataattccttctttcattgaaataatatccccgaaaagggtataattgattttttattccttatatttgctaccgataaggtatataatgactttgaatggaagagtgtagtgtacatattctcagtcattattcataatcaactcaagagatgatatacaataatt 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================================================ agtcctccttattgggtataattccttctttcattgaaataatatccccgaaaagggtataattgattttttattccttatatttgctaccgataaggtatataatgactttgaatggaagagtgtagtgtacatattctcagtcattattcataatcaactcaagagatgatatacaataatt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 44 HP_score: -3.1 Tail_Score: -3.00867 Start: 43 End: 61 Full_Region: CTTTCATTGAAATAA TATCCCC GAAAA GGGTATA ATTGATTTTTTATTC ..........................................TATCCCCGAAAAGGGTATA........................................................................................................................... TransTerm Strand: - Conf: 54 HP_score: -3.1 Tail_Score: -3.96216 Start: 43 End: 61 Full_Region: gaataaaaaatcaat tataccc ttttc ggggata ttatttcaatgaaag ..........................................tatacccttttcggggata........................................................................................................................... Find igs database================================================ Query_seq: PG0855:PG0856|PG0855:PG0856:hypothetical protein:hypothetical protein:<-->:916146..916329 184 agtcctccttattgggtataattccttctttcattgaaataatatccccgaaaagggtataattgattttttattccttatatttgctaccgataaggtatataatgactttgaatggaagagtgtagtgtacatattctcagtcattattcataatcaactcaagagatgatatacaataatt Intra-Species Hit: Count: 1 Min: 1 Max: 184 Len: 184 Subject: NC_002950_PG0855_PG0856|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[916146,916329]|184 HSP 1 e-value: 1.0E-100 bit: 365.0 Len: 184 Query Start:1 Query End:184 Subject Strand: POSITIVE Subject Start: 1 Subject End: 184 agtcctccttattgggtataattccttctttcattgaaataatatccccgaaaagggtataattgattttttattccttatatttgctaccgataaggtatataatgactttgaatggaagagtgtagtgtacatattctcagtcattattcataatcaactcaagagatgatatacaataatt agtcctccttattgggtataattccttctttcattgaaataatatccccgaaaagggtataattgattttttattccttatatttgctaccgataaggtatataatgactttgaatggaagagtgtagtgtacatattctcagtcattattcataatcaactcaagagatgatatacaataatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUCCUCCUUAUUGGGUAUAAUUCCUUCUUUCAUUGAAAUAAUAUCCCCGAAAAGGGUAUAAUUGAUUUUUUAUUCCUUAUAUUUGCUACCGAUAAGGUAUAUAAUGACUUUGAAUGGAAGAGUGUAGUGUACAUAUUCUCAGUCAUUAUUCAUAAUCAACUCAAGAGAUGAUAUACAAUAAUU .....(((((.(((((.(((.((..(((.......)))..))))).))))).)))))....((((.....((((..(((........((((.....)))).(((((((((..(((((.....(((.....))).)))))..))))))))).............)))..))))....)))).... (-32.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUAUUGUAUAUCAUCUCUUGAGUUGAUUAUGAAUAAUGACUGAGAAUAUGUACACUACACUCUUCCAUUCAAAGUCAUUAUAUACCUUAUCGGUAGCAAAUAUAAGGAAUAAAAAAUCAAUUAUACCCUUUUCGGGGAUAUUAUUUCAAUGAAAGAAGGAAUUAUACCCAAUAAGGAGGACU ......................((((((((....(((((((((..((((...................))))..)))))))))...((((((...........)))))).......))))))))...((((((...(((.(((.(((((..(....)..))))).))))))...)))).))... (-32.51) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 831 50 1 141 92 NC_002950:PG0855|5end_hypothetical_protein_916055..916285_NEGATIVE 258 91 63 218 192 NC_002950:PG0138|5end_malonyl_CoA-acyl_carrier_protein_transacylase_160673..160903_POSITIVE 257 107 62 97 54 NC_002950:PG0980|5end_hypothetical_protein_1040897..1041127_POSITIVE 249 59 14 186 143 NC_002950:PG1925|5end_ribosomal_protein_S14_2018675..2018905_NEGATIVE 242 98 55 41 5 NC_002950:PG1572|5end_hypothetical_protein_1651252..1651482_NEGATIVE 242 126 89 81 38 NC_002950:PG0352|5end_sialidase,_putative_387187..387417_POSITIVE 237 140 91 101 53 NC_002950:PG1982|5end_CRISPR-associated_protein_Cas1_2072620..2072850_NEGATIVE 237 58 25 134 103 NC_002950:PG0624|5end_hypothetical_protein_678078..678308_POSITIVE 235 130 81 167 122 NC_002950:PG0877|5end_hypothetical_protein_941545..941775_NEGATIVE 232 78 32 122 75 NC_002950:PG1249|5end_1-acyl-sn-glycerol-3-phosphate_acetyltransferase,_putative_1327161..1327391_NEGATIVE 232 142 105 198 157 NC_002950:PG0268|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_300898..301128_POSITIVE 231 155 113 92 52 NC_002950:PG2037|5end_hypothetical_protein_2137812..2138042_NEGATIVE 230 43 1 219 183 NC_002950:PG1184|5end_alginate_O-acetyltransferase,_putative_1266870..1267100_NEGATIVE 227 130 90 223 186 NC_002950:PG1861|5end_hypothetical_protein_1960057..1960287_NEGATIVE 225 159 112 202 162 NC_002950:PG0725|5end_hydrolase,_haloacid_dehalogenase-like_family_777260..777490_POSITIVE 225 131 100 51 16 NC_002950:PG0450|5end_hypothetical_protein_490812..491042_POSITIVE 223 50 1 147 93 NC_002950:PG0938|5end_calcium-transporting_ATPase_1000385..1000615_NEGATIVE 223 47 3 101 66 NC_002950:PG0620|5end_ATP-dependent_protease_La_672963..673193_POSITIVE 217 149 107 206 152 NC_002950:PG1362|5end_hypothetical_protein_1443594..1443824_NEGATIVE 217 50 3 64 27 NC_002950:PG0263|5end_tyrosyl-tRNA_synthetase_295663..295893_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 258 91 63 103 77 NC_002950:PG0137|3end_aminoacyl-histidine_dipeptidase_160638..160788_POSITIVE 257 107 62 110 67 NC_002950:PG0979|3end_hypothetical_protein_1040990..1041140_POSITIVE 243 36 2 87 55 NC_002950:PG1797|3end_DNA-binding_response_regulator/sensor_histidine_kinase_1892978..1893128_POSITIVE 239 50 1 122 68 NC_002950:PG1906|3end_ISPg1,_transposase_2006572..2006722_POSITIVE 239 50 1 122 68 NC_002950:PG1624|3end_ISPg1,_transposase_1706188..1706338_NEGATIVE 239 50 1 122 68 NC_002950:PG1448|3end_ISPg1,_transposase_1533449..1533599_POSITIVE 239 50 1 122 68 NC_002950:PG1197|3end_ISPg1,_transposase_1275475..1275625_NEGATIVE 239 50 1 122 68 NC_002950:PG1177|3end_ISPg1,_transposase_1257794..1257944_NEGATIVE 239 50 1 122 68 NC_002950:PG1031|3end_ISPg1,_transposase_1093081..1093231_NEGATIVE 239 50 1 122 68 NC_002950:PG0825|3end_ISPg1,_transposase_882063..882213_NEGATIVE 239 50 1 122 68 NC_002950:PG0184|3end_ISPg1,_transposase_217567..217717_POSITIVE 237 58 25 72 41 NC_002950:PG0623|3end_triosephosphate_isomerase_678096..678246_POSITIVE 237 98 55 143 106 NC_002950:PG0285|3end_hypothetical_protein_320044..320194_POSITIVE 232 78 32 99 52 NC_002950:PG1250|3end_hypothetical_protein_1327184..1327334_NEGATIVE 231 155 113 95 55 NC_002950:PG2038|3end_N-acetylmuramoyl-L-alanine_amidase,_putative_2137809..2137959_NEGATIVE 227 99 51 147 93 NC_002950:PG0374|3end_hypothetical_protein_405448..405598_NEGATIVE 225 159 112 117 77 NC_002950:PG0724|3end_prolyl_oligopeptidase_family_protein_777255..777405_POSITIVE 223 50 1 122 68 NC_002950:PG1320|3end_ISPg1,_transposase,_internal_deletion_1399467..1399617_POSITIVE 223 50 1 122 68 NC_002950:PG1244|3end_ISPg1,_transposase_1320699..1320849_POSITIVE 223 50 1 122 68 NC_002950:PG0549|3end_ISPg1,_transposase_605987..606137_NEGATIVE