Origin IGS: gaaactgctcatcgaacaattggtatatctttgttcgcggacattttccgtccatgcgaacccaataccctatgaatcgggaggagaatgtcacatgaagaaaagaacaagaacactcacaaaaaaacgaataacagctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aagctgttattcgtttttttgtgagtgttcttgttcttttcttcatgtgacattctcctcccgattcatagggtattgggttcgcatggacggaaaatgtccgcgaacaaagatataccaattgttcgatgagcagtttc Mask Tandem Repeat Region ================================================ gaaactgctcatcgaacaattggtatatctttgttcgcggacattttccgtccatgcgaacccaataccctatgaatcgggaggagaatgtcacatgaagaaaagaacaagaacactcacaaaaaaacgaataacagctt Find is-nt database================================================ Query_seq: PG1888:PG1889|PG1888:PG1889:hypothetical protein:hypothetical protein:->->:1986351..1986490 140 gaaactgctcatcgaacaattggtatatctttgttcgcggacattttccgtccatgcgaacccaataccctatgaatcgggaggagaatgtcacatgaagaaaagaacaagaacactcacaaaaaaacgaataacagctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1888:PG1889|PG1888:PG1889:hypothetical protein:hypothetical protein:->->:1986351..1986490 140 gaaactgctcatcgaacaattggtatatctttgttcgcggacattttccgtccatgcgaacccaataccctatgaatcgggaggagaatgtcacatgaagaaaagaacaagaacactcacaaaaaaacgaataacagctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1888:PG1889|PG1888:PG1889:hypothetical protein:hypothetical protein:->->:1986351..1986490 140 gaaactgctcatcgaacaattggtatatctttgttcgcggacattttccgtccatgcgaacccaataccctatgaatcgggaggagaatgtcacatgaagaaaagaacaagaacactcacaaaaaaacgaataacagctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaaactgctcatcgaacaattggtatatctttgttcgcggacattttccgtccatgcgaacccaataccctatgaatcgggaggagaatgtcacatgaagaaaagaacaagaacactcacaaaaaaacgaataacagctt Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 5 End: 139 .... M L I E Q L V Y L C S R T F S V H A N P I P Y E S G G E C H M K K R T R T L T K K R I T A . Protein_Len: 35 Strand: - Start: 12 End: 116 ........... R V I P I D K N A S M K R G H S G L V R H I P L L I D C S S F F L F M ........................ Protein_Len: 31 Strand: - Start: 2 End: 94 . F Q E D F L Q Y I K T R P C K G D M R V W Y G I F R S S F T M .............................................. gaaactgctcatcgaacaattggtatatctttgttcgcggacattttccgtccatgcgaacccaataccctatgaatcgggaggagaatgtcacatgaagaaaagaacaagaacactcacaaaaaaacgaataacagctt 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================================================ gaaactgctcatcgaacaattggtatatctttgttcgcggacattttccgtccatgcgaacccaataccctatgaatcgggaggagaatgtcacatgaagaaaagaacaagaacactcacaaaaaaacgaataacagctt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1888:PG1889|PG1888:PG1889:hypothetical protein:hypothetical protein:->->:1986351..1986490 140 gaaactgctcatcgaacaattggtatatctttgttcgcggacattttccgtccatgcgaacccaataccctatgaatcgggaggagaatgtcacatgaagaaaagaacaagaacactcacaaaaaaacgaataacagctt Intra-Species Hit: Count: 1 Min: 1 Max: 120 Len: 120 Subject: NC_002950_PG1888_PG1889|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1986351,1986490]|140 HSP 1 e-value: 4.0E-62 bit: 238.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 1 Subject End: 120 gaaactgctcatcgaacaattggtatatctttgttcgcggacattttccgtccatgcgaacccaataccctatgaatcgggaggagaatgtcacatgaagaaaagaacaagaacactcac.................... gaaactgctcatcgaacaattggtatatctttgttcgcggacattttccgtccatgcgaacccaataccctatgaatcgggaggagaatgtcacatgaagaaaagaacaagaacactcac.................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAACUGCUCAUCGAACAAUUGGUAUAUCUUUGUUCGCGGACAUUUUCCGUCCAUGCGAACCCAAUACCCUAUGAAUCGGGAGGAGAAUGUCACAUGAAGAAAAGAACAAGAACACUCAC ....((.(((.((((...((.(((((......((((((((((.......))))..))))))...)))))..))...))))))).)).................................. (-25.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUGAGUGUUCUUGUUCUUUUCUUCAUGUGACAUUCUCCUCCCGAUUCAUAGGGUAUUGGGUUCGCAUGGACGGAAAAUGUCCGCGAACAAAGAUAUACCAAUUGUUCGAUGAGCAGUUUC ....((((..((((((.....(((((((((.((((....(((........)))....)))))))))))))((((.....)))).))))))..))))...((((((((...)))))))).. (-34.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 358 80 32 227 172 NC_002950:PG0071|5end_UDP-3-O-acyl-GlcNAc_deacetylase/beta-hydroxyacyl-[acyl_carrier_protein]_dehydratase_FabZ_86119..86349_NEGATIVE 350 58 11 196 144 NC_002950:PG1449|5end_hypothetical_protein_1534262..1534492_NEGATIVE 350 58 11 196 144 NC_002950:PG0824|5end_hypothetical_protein_881170..881400_POSITIVE 345 50 4 164 125 NC_002950:PG0092|5end_transporter,_putative_108598..108828_NEGATIVE 340 80 32 182 137 NC_002950:PG1381|5end_ABC_transporter,_permease_protein_1460622..1460852_POSITIVE 332 78 37 79 18 NC_002950:PG1365|5end_16S_rRNA-processing_protein_1446069..1446299_NEGATIVE 318 79 38 111 66 NC_002950:PG0438|5end_hypothetical_protein_476884..477114_POSITIVE 315 50 1 65 10 NC_002950:PG0028|5end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_33863..34093_POSITIVE 313 80 37 144 99 NC_002950:PG2087|5end_hypothetical_protein_2186990..2187220_POSITIVE 312 98 52 124 88 NC_002950:PG0447|5end_hypothetical_protein_487278..487508_POSITIVE 309 80 34 140 83 NC_002950:PG0657|5end_Maf-like_protein_707782..708012_NEGATIVE 301 90 48 160 113 NC_002950:PG1333|5end_hypothetical_protein_1415425..1415655_NEGATIVE 300 70 28 225 172 NC_002950:PG0923|5end_ribosome-binding_factor_A_982814..983044_NEGATIVE 298 59 19 91 48 NC_002950:PG1397|5end_bifunctional_phosphoribosylaminoimidazolecarboxamide_formyltransferase/IMP_cyclohydrolase_1480355..1480585_NEGATIVE 297 80 38 82 22 NC_002950:PG1593|5end_shikimate_kinase_1671503..1671733_POSITIVE 297 80 34 63 13 NC_002950:PG1289|5end_GDP-fucose_synthetase_1367041..1367271_POSITIVE 295 64 21 219 179 NC_002950:PG0703|5end_cobalamin_(5'-phosphate)_synthase,_putative_758144..758374_POSITIVE 294 90 48 54 13 NC_002950:PG0506|5end_arginine-specific_cysteine_proteinase_545335..545565_POSITIVE 294 90 41 74 22 NC_002950:PG0294|5end_glycosyl_transferase,_group_2_family_protein_330161..330391_NEGATIVE 293 59 11 47 2 NC_002950:PG1931|5end_50S_ribosomal_protein_L16_2020849..2021079_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 50 4 119 80 NC_002950:PG0093|3end_HlyD_family_secretion_protein_108643..108793_NEGATIVE 332 78 37 72 11 NC_002950:PG1366|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1446076..1446226_NEGATIVE 315 50 1 58 3 NC_002950:PG0027|3end_hypothetical_protein_33936..34086_POSITIVE 313 80 37 144 99 NC_002950:PG2086|3end_hypothetical_protein_2187070..2187220_POSITIVE 309 80 34 124 67 NC_002950:PG0658|3end_phosphatase,_YrbI_family_707798..707948_NEGATIVE 304 80 38 103 63 NC_002950:PG2214|3end_hypothetical_protein_2325301..2325451_NEGATIVE 302 63 21 115 62 NC_002950:PG1675|3end_hypothetical_protein_1760360..1760510_POSITIVE 301 53 11 151 106 NC_002950:PG1450|3end_hypothetical_protein_1534300..1534450_NEGATIVE 301 53 11 151 106 NC_002950:PG0823|3end_hypothetical_protein_881212..881362_POSITIVE 297 80 34 70 20 NC_002950:PG1288|3end_GDP-mannose_4,6-dehydratase_1367128..1367278_POSITIVE 296 97 52 151 116 NC_002950:PG0446|3end_thiF_protein_487386..487536_POSITIVE 294 53 20 145 115 NC_002950:PG2185|3end_transporter,_putative_2291933..2292083_NEGATIVE 294 90 41 59 7 NC_002950:PG0295|3end_DNA_processing_protein_DprA,_putative_330176..330326_NEGATIVE 292 58 11 147 103 NC_002950:PG1632|3end_aldose_1-epimerase_1713415..1713565_POSITIVE 287 80 31 131 70 NC_002950:PG0330|3end_DNA-binding_protein,_histone-like_family_364478..364628_NEGATIVE 285 59 13 146 104 NC_002950:PG1414|3end_hypothetical_protein_1499704..1499854_POSITIVE 284 53 12 145 107 NC_002950:PG1542|3end_collagenase_1622112..1622262_POSITIVE 283 58 20 123 68 NC_002950:PG1536|3end_cell_division_protein_FtsX,_putative_1617329..1617479_POSITIVE 278 40 1 66 25 NC_002950:PG1608|3end_methylmalonyl-CoA_decarboxylase,_beta_subunit_1688685..1688835_NEGATIVE 278 80 31 94 46 NC_002950:PG1433|3end_hydrolase_1519126..1519276_POSITIVE