Origin IGS: cttgtacgaagaaggaataggaaaacatccaaaacgcagagtcttttcggcaacttttcagcagaaaaatatgcagccatctttttggcaccaaaacaatacctttgtatcataatcattataagaacgagctcgt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 acgagctcgttcttataatgattatgatacaaaggtattgttttggtgccaaaaagatggctgcatatttttctgctgaaaagttgccgaaaagactctgcgttttggatgttttcctattccttcttcgtacaag Mask Tandem Repeat Region ================================================ cttgtacgaagaaggaataggaaaacatccaaaacgcagagtcttttcggcaacttttcagcagaaaaatatgcagccatctttttggcaccaaaacaatacctttgtatcataatcattataagaacgagctcgt Find is-nt database================================================ Query_seq: PG1346:PG1347|PG1346:PG1347:glycosyl transferase, group 1 family protein:hypothetical protein:->->:1428120..1428255 136 cttgtacgaagaaggaataggaaaacatccaaaacgcagagtcttttcggcaacttttcagcagaaaaatatgcagccatctttttggcaccaaaacaatacctttgtatcataatcattataagaacgagctcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1346:PG1347|PG1346:PG1347:glycosyl transferase, group 1 family protein:hypothetical protein:->->:1428120..1428255 136 cttgtacgaagaaggaataggaaaacatccaaaacgcagagtcttttcggcaacttttcagcagaaaaatatgcagccatctttttggcaccaaaacaatacctttgtatcataatcattataagaacgagctcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1346:PG1347|PG1346:PG1347:glycosyl transferase, group 1 family protein:hypothetical protein:->->:1428120..1428255 136 cttgtacgaagaaggaataggaaaacatccaaaacgcagagtcttttcggcaacttttcagcagaaaaatatgcagccatctttttggcaccaaaacaatacctttgtatcataatcattataagaacgagctcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttgtacgaagaaggaataggaaaacatccaaaacgcagagtcttttcggcaacttttcagcagaaaaatatgcagccatctttttggcaccaaaacaatacctttgtatcataatcattataagaacgagctcgt Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 2 End: 112 . M Y E E G I G K H P K R R V F S A T F Q Q K N M Q P S F W H Q N N T F V S ........................ Protein_Len: 36 Strand: + Start: 27 End: 134 .......................... M Q N A E S F R Q L F S R K I C S H L F G T K T I P L Y H N H Y K N E L .. Protein_Len: 40 Strand: - Start: 3 End: 122 .. T R L L F L F V D L V C L R K P L K E A S F Y A A M K K A G F C Y R Q I M I M M .............. Protein_Len: 33 Strand: - Start: 2 End: 100 . Q V F F S Y S F M W F A S D K R C S K L L F I H L W R K P V L V M .................................... cttgtacgaagaaggaataggaaaacatccaaaacgcagagtcttttcggcaacttttcagcagaaaaatatgcagccatctttttggcaccaaaacaatacctttgtatcataatcattataagaacgagctcgt 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: 85 Start: 84 End: 113 ...................................................................................TTTGGCACCAAAACAATACCTTTGTATCAT....................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ cttgtacgaagaaggaataggaaaacatccaaaacgcagagtcttttcggcaacttttcagcagaaaaatatgcagccatctttttggcaccaaaacaatacctttgtatcataatcattataagaacgagctcgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1346:PG1347|PG1346:PG1347:glycosyl transferase, group 1 family protein:hypothetical protein:->->:1428120..1428255 136 cttgtacgaagaaggaataggaaaacatccaaaacgcagagtcttttcggcaacttttcagcagaaaaatatgcagccatctttttggcaccaaaacaatacctttgtatcataatcattataagaacgagctcgt Intra-Species Hit: Count: 1 Min: 1 Max: 136 Len: 136 Subject: NC_002950_PG1346_PG1347|glycosyl transferase, group 1 family protein:hypothetical protein|POSITIVE:POSITIVE|[1428120,1428255]|136 HSP 1 e-value: 1.0E-71 bit: 270.0 Len: 136 Query Start:1 Query End:136 Subject Strand: POSITIVE Subject Start: 1 Subject End: 136 cttgtacgaagaaggaataggaaaacatccaaaacgcagagtcttttcggcaacttttcagcagaaaaatatgcagccatctttttggcaccaaaacaatacctttgtatcataatcattataagaacgagctcgt cttgtacgaagaaggaataggaaaacatccaaaacgcagagtcttttcggcaacttttcagcagaaaaatatgcagccatctttttggcaccaaaacaatacctttgtatcataatcattataagaacgagctcgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUGUACGAAGAAGGAAUAGGAAAACAUCCAAAACGCAGAGUCUUUUCGGCAACUUUUCAGCAGAAAAAUAUGCAGCCAUCUUUUUGGCACCAAAACAAUACCUUUGUAUCAUAAUCAUUAUAAGAACGAGCUCGU ...((((((((..((((..(((.....))).....((.(((....))).))....)))).(((........))).((((......)))).............))))))))................(((....))) (-23.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGAGCUCGUUCUUAUAAUGAUUAUGAUACAAAGGUAUUGUUUUGGUGCCAAAAAGAUGGCUGCAUAUUUUUCUGCUGAAAAGUUGCCGAAAAGACUCUGCGUUUUGGAUGUUUUCCUAUUCCUUCUUCGUACAAG (((((.(((((.....))))).........(((.(((..(((((...((((......)))).(((.(((((((....))))))))))....)))))..))).))).(((.....))).........)))))..... (-23.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 348 89 41 140 96 NC_002950:PG1594|5end_ComEC/Rec2-related_protein_1673587..1673817_NEGATIVE 298 49 7 211 169 NC_002950:PG2156|5end_conserved_hypothetical_protein_TIGR00046_2262645..2262875_NEGATIVE 293 89 42 167 127 NC_002950:PG2121|5end_L-asparaginase_2229624..2229854_NEGATIVE 290 88 44 182 129 NC_002950:PG0032|5end_beta-mannosidase,_putative_40212..40442_NEGATIVE 287 65 35 181 138 NC_002950:PG2096|5end_hypothetical_protein_2205415..2205645_NEGATIVE 281 111 75 61 29 NC_002950:PG0677|5end_saccharopine_dehydrogenase_727653..727883_POSITIVE 278 80 37 91 44 NC_002950:PG1318|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1397768..1397998_NEGATIVE 275 89 44 151 100 NC_002950:PG1617|5end_hypothetical_protein_1697755..1697985_NEGATIVE 273 79 31 45 5 NC_002950:PG1052|5end_transcriptional_regulator,_putative_1119690..1119920_POSITIVE 270 60 20 182 141 NC_002950:PG0811|5end_Holliday_junction_DNA_helicase_motor_protein_873209..873439_NEGATIVE 265 64 28 215 181 NC_002950:PG2091|5end_dihydroneopterin_aldolase_2191177..2191407_POSITIVE 263 89 46 194 157 NC_002950:PG2109|5end_thiamine-phosphate_pyrophosphorylase_2219452..2219682_NEGATIVE 262 62 29 31 1 NC_002950:PG2032|5end_primosomal_protein_N'_2133381..2133611_NEGATIVE 262 64 40 43 16 NC_002950:PG1599|5end_hypothetical_protein_1679087..1679317_POSITIVE 261 79 35 90 42 NC_002950:PG1799|5end_hypothetical_protein_1894499..1894729_POSITIVE 261 77 35 173 138 NC_002950:PG0849|5end_hypothetical_protein_911242..911472_NEGATIVE 259 69 24 73 27 NC_002950:PG1394|5end_hypothetical_protein_1476782..1477012_NEGATIVE 259 51 27 230 204 NC_002950:PG0783|5end_hydrolase,_putative_835705..835935_NEGATIVE 259 77 34 153 104 NC_002950:PG0660|5end_nitroreductase_family_protein_709695..709925_NEGATIVE 258 118 72 183 125 NC_002950:PG0283|5end_efflux_transporter,_MFP_component,_RND_family_318245..318475_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 348 89 41 133 89 NC_002950:PG1595|3end_ribulose-phosphate_3-epimerase_1673594..1673744_NEGATIVE 292 118 77 72 18 NC_002950:PG1711|3end_alpha-1,2-mannosidase_family_protein_1796652..1796802_NEGATIVE 287 65 35 75 32 NC_002950:PG2097|3end_ribose-phosphate_pyrophosphokinase_2205521..2205671_NEGATIVE 262 64 40 46 19 NC_002950:PG1598|3end_lipoprotein_signal_peptidase,_putative_1679170..1679320_POSITIVE 261 77 35 145 110 NC_002950:PG0850|3end_DNA_binding_protein,_excisionase_family,_putative_911270..911420_NEGATIVE 260 108 61 67 17 NC_002950:PG1786|3end_hypothetical_protein_1875322..1875472_POSITIVE 259 69 24 73 27 NC_002950:PG1395|3end_cell_shape-determining_protein_MreC,_putative_1476782..1476932_NEGATIVE 257 111 76 56 11 NC_002950:PG1771|3end_phenylalanyl-tRNA_synthetase_alpha_subunit_1859140..1859290_POSITIVE 257 87 44 151 99 NC_002950:PG0033|3end_RmuC_domain_protein_40242..40392_NEGATIVE 256 70 25 83 31 NC_002950:PG0335|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_369804..369954_NEGATIVE 254 74 35 98 58 NC_002950:PG0801|3end_polyA_polymerase_family_protein_856263..856413_NEGATIVE 253 62 25 68 22 NC_002950:PG0545|3end_hypothetical_protein_600228..600378_POSITIVE 251 50 2 62 8 NC_002950:PG2147|3end_xanthine_phosphoribosyltransferase_2254819..2254969_NEGATIVE 250 90 43 151 112 NC_002950:PG0933|3end_translation_elongation_factor_G,_putative_992236..992386_POSITIVE 249 114 71 47 8 NC_002950:PG2144|3end_hypothetical_protein_2253290..2253440_POSITIVE 249 78 33 48 6 NC_002950:PG1751|3end_aminotransferase,_class_V_1838490..1838640_POSITIVE 249 90 45 151 105 NC_002950:PG1353|3end_orotate_phosphoribosyltransferase_1433201..1433351_NEGATIVE 246 89 47 43 6 NC_002950:PG1482|3end_conjugative_transposon_protein_TraF_1558444..1558594_NEGATIVE 244 64 36 149 123 NC_002950:PG1578|3end_quinolinate_synthetase_1656472..1656622_POSITIVE 234 89 41 71 4 NC_002950:PG1940|3end_elongation_factor_EF-2_2025097..2025247_NEGATIVE