Origin IGS: tttgtctcattctgcccgactgcgccgtaaaaaacaatatgcaggcagcgattagcgttaattatctgcctttccacgcaaacccaacgattcaccattatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aataatggtgaatcgttgggtttgcgtggaaaggcagataattaacgctaatcgctgcctgcatattgttttttacggcgcagtcgggcagaatgagacaaa Mask Tandem Repeat Region ================================================ tttgtctcattctgcccgactgcgccgtaaaaaacaatatgcaggcagcgattagcgttaattatctgcctttccacgcaaacccaacgattcaccattatt Find is-nt database================================================ Query_seq: PG1834:PG1835|PG1834:PG1835:glycogen synthase-related protein:lipoprotein, putative:->->:1927111..1927212 102 tttgtctcattctgcccgactgcgccgtaaaaaacaatatgcaggcagcgattagcgttaattatctgcctttccacgcaaacccaacgattcaccattatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1834:PG1835|PG1834:PG1835:glycogen synthase-related protein:lipoprotein, putative:->->:1927111..1927212 102 tttgtctcattctgcccgactgcgccgtaaaaaacaatatgcaggcagcgattagcgttaattatctgcctttccacgcaaacccaacgattcaccattatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1834:PG1835|PG1834:PG1835:glycogen synthase-related protein:lipoprotein, putative:->->:1927111..1927212 102 tttgtctcattctgcccgactgcgccgtaaaaaacaatatgcaggcagcgattagcgttaattatctgcctttccacgcaaacccaacgattcaccattatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttgtctcattctgcccgactgcgccgtaaaaaacaatatgcaggcagcgattagcgttaattatctgcctttccacgcaaacccaacgattcaccattatt Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 9 End: 101 ........ M L P D C A V K N N M Q A A I S V N Y L P F H A N P T I H H Y . Protein_Len: 33 Strand: - Start: 3 End: 101 .. T E N Q G V A G Y F V I H L C R N A N I I Q R E V C V W R N V M M . tttgtctcattctgcccgactgcgccgtaaaaaacaatatgcaggcagcgattagcgttaattatctgcctttccacgcaaacccaacgattcaccattatt 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================================================ tttgtctcattctgcccgactgcgccgtaaaaaacaatatgcaggcagcgattagcgttaattatctgcctttccacgcaaacccaacgattcaccattatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1834:PG1835|PG1834:PG1835:glycogen synthase-related protein:lipoprotein, putative:->->:1927111..1927212 102 tttgtctcattctgcccgactgcgccgtaaaaaacaatatgcaggcagcgattagcgttaattatctgcctttccacgcaaacccaacgattcaccattatt Intra-Species Hit: Count: 1 Min: 1 Max: 102 Len: 102 Subject: NC_002950_PG1834_PG1835|glycogen synthase-related protein:lipoprotein, putative|POSITIVE:POSITIVE|[1927111,1927212]|102 HSP 1 e-value: 2.0E-51 bit: 202.0 Len: 102 Query Start:1 Query End:102 Subject Strand: POSITIVE Subject Start: 1 Subject End: 102 tttgtctcattctgcccgactgcgccgtaaaaaacaatatgcaggcagcgattagcgttaattatctgcctttccacgcaaacccaacgattcaccattatt tttgtctcattctgcccgactgcgccgtaaaaaacaatatgcaggcagcgattagcgttaattatctgcctttccacgcaaacccaacgattcaccattatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGUCUCAUUCUGCCCGACUGCGCCGUAAAAAACAAUAUGCAGGCAGCGAUUAGCGUUAAUUAUCUGCCUUUCCACGCAAACCCAACGAUUCACCAUUAUU ....................((((..((.....)).......((((((.(((((....)))))..)))))).....))))...................... (-12.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAAUGGUGAAUCGUUGGGUUUGCGUGGAAAGGCAGAUAAUUAACGCUAAUCGCUGCCUGCAUAUUGUUUUUUACGGCGCAGUCGGGCAGAAUGAGACAAA ......(((....(((((.((((((.(....).))))))...)))))...))).(((((((...(((((..........))))))))))))........... (-24.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 350 48 4 87 37 NC_002950:PG0665|5end_beta-galactosidase_711827..712057_POSITIVE 344 50 3 210 168 NC_002950:PG2199|5end_ABC_transporter,_ATP-binding_protein,_putative_2306723..2306953_NEGATIVE 338 59 12 75 21 NC_002950:PG1091|5end_DHH_subfamily_1_protein_1157017..1157247_POSITIVE 335 49 1 83 36 NC_002950:PG0278|5end_hypothetical_protein_310047..310277_POSITIVE 332 49 4 58 24 NC_002950:PG0714|5end_copper_homeostasis_protein_CutC_768671..768901_NEGATIVE 315 50 7 66 3 NC_002950:PG2030|5end_hypothetical_protein_2129747..2129977_POSITIVE 309 81 41 205 173 NC_002950:PG2155|5end_lipoprotein,_putative_2261862..2262092_NEGATIVE 309 70 23 185 127 NC_002950:PG0739|5end_ribonuclease_Z_786947..787177_POSITIVE 307 49 2 53 2 NC_002950:PG1333|5end_hypothetical_protein_1415425..1415655_NEGATIVE 301 80 38 57 21 NC_002950:PG1625|5end_hypothetical_protein_1707436..1707666_POSITIVE 300 49 5 48 8 NC_002950:PG1426|5end_hypothetical_protein_1511310..1511540_NEGATIVE 293 58 11 73 27 NC_002950:PG0088|5end_peptidase,_M16_family_103275..103505_POSITIVE 292 50 1 122 63 NC_002950:PG1006|5end_hypothetical_protein_1066478..1066708_NEGATIVE 291 59 11 42 9 NC_002950:PG1856|5end_cytidine/deoxycytidylate_deaminase_family_protein_1955939..1956169_NEGATIVE 289 79 40 94 54 NC_002950:PG0059|5end_hypothetical_protein_71526..71756_POSITIVE 287 50 1 221 166 NC_002950:PG1580|5end_hypothetical_protein_1657499..1657729_POSITIVE 286 90 43 110 53 NC_002950:PG1735|5end_MutT/nudix_family_protein_1823082..1823312_NEGATIVE 286 57 14 79 26 NC_002950:PG0736|5end_ribonuclease_HII_785608..785838_POSITIVE 286 60 14 62 12 NC_002950:PG0548|5end_pyruvate_ferredoxin/flavodoxin_oxidoreductase_family_protein_602098..602328_POSITIVE 285 89 43 77 25 NC_002950:PG1166|5end_hypothetical_protein_1248443..1248673_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 49 4 53 19 NC_002950:PG0715|3end_transporter_768676..768826_NEGATIVE 316 57 14 82 32 NC_002950:PG0333|3end_hypothetical_protein_368811..368961_POSITIVE 311 57 13 52 9 NC_002950:PG0664|3end_oxidoreductase,_Gfo/Idh/MocA_family_711860..712010_POSITIVE 307 49 2 56 5 NC_002950:PG1334|3end_band_7/Mec-2_family_protein_1415422..1415572_NEGATIVE 303 69 22 107 63 NC_002950:PG0628|3end_ABC_transporter,_ATP-binding_protein_681684..681834_NEGATIVE 300 57 11 143 90 NC_002950:PG0322|3end_serine/threonine_transporter_356966..357116_POSITIVE 292 50 1 82 23 NC_002950:PG1007|3end_transcriptional_regulator,_GntR_family_1066518..1066668_NEGATIVE 291 59 16 61 24 NC_002950:PG1174|3end_thioesterase_family_protein_1253210..1253360_NEGATIVE 289 79 40 80 40 NC_002950:PG0058|3end_nicotinic_acid_mononucleotide_adenyltransferase_71592..71742_POSITIVE 286 57 14 68 15 NC_002950:PG0735|3end_aminotransferase,_class_V_785677..785827_POSITIVE 285 57 16 131 96 NC_002950:PG0162|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_184505..184655_NEGATIVE 284 80 40 51 11 NC_002950:PG1834|3end_glycogen_synthase-related_protein_1927050..1927200_POSITIVE 277 49 9 69 20 NC_002950:PG2216|3end_hypothetical_protein_2329530..2329680_POSITIVE 277 58 14 150 110 NC_002950:PG1943|3end_hypothetical_protein_2028974..2029124_NEGATIVE 273 58 11 97 27 NC_002950:PG1817|3end_hypothetical_protein_1912220..1912370_NEGATIVE 273 48 2 127 65 NC_002950:PG0669|3end_heme-binding_protein_FetB_720714..720864_POSITIVE 271 59 14 65 15 NC_002950:PG1945|3end_hypothetical_protein_2032220..2032370_POSITIVE 271 58 13 137 84 NC_002950:PG0738|3end_cytidine/deoxycytidylate_deaminase_family_protein_786995..787145_POSITIVE 269 60 11 66 15 NC_002950:PG1711|3end_alpha-1,2-mannosidase_family_protein_1796652..1796802_NEGATIVE 267 49 14 141 109 NC_002950:PG0308|3end_electron_transport_complex,_RnfABCDGE_type,_A_subunit_343827..343977_POSITIVE