Origin IGS: cattttttctataggaacctttctacctgctgcaaatgataagactgacatcaataaaaatactcctaataataattttttcatctcttttcctccttattta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaataaggaggaaaagagatgaaaaaattattattaggagtatttttattgatgtcagtcttatcatttgcagcaggtagaaaggttcctatagaaaaaatg Mask Tandem Repeat Region ================================================ cattttttctataggaacctttctacctgctgcaaatgataagactgacatcaataaaaatactcctaataataattttttcatctcttttcctccttattta Find is-nt database================================================ Query_seq: FN2110:FN2111|FN2110:FN2111:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:622421..622523 103 cattttttctataggaacctttctacctgctgcaaatgataagactgacatcaataaaaatactcctaataataattttttcatctcttttcctccttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN2110:FN2111|FN2110:FN2111:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:622421..622523 103 cattttttctataggaacctttctacctgctgcaaatgataagactgacatcaataaaaatactcctaataataattttttcatctcttttcctccttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN2110:FN2111|FN2110:FN2111:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:622421..622523 103 cattttttctataggaacctttctacctgctgcaaatgataagactgacatcaataaaaatactcctaataataattttttcatctcttttcctccttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cattttttctataggaacctttctacctgctgcaaatgataagactgacatcaataaaaatactcctaataataattttttcatctcttttcctccttattta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 2 End: 103 . M F S I G T F L P A A N D K T D I N K N T P N N N F F I S F P P Y L cattttttctataggaacctttctacctgctgcaaatgataagactgacatcaataaaaatactcctaataataattttttcatctcttttcctccttattta 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: 81 Start: 44 End: 73 ...........................................ACTGACATCAATAAAAATACTCCTAATAAT.............................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ cattttttctataggaacctttctacctgctgcaaatgataagactgacatcaataaaaatactcctaataataattttttcatctcttttcctccttattta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN2110:FN2111|FN2110:FN2111:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:622421..622523 103 cattttttctataggaacctttctacctgctgcaaatgataagactgacatcaataaaaatactcctaataataattttttcatctcttttcctccttattta Intra-Species Hit: Count: 1 Min: 1 Max: 103 Len: 103 Subject: NC_003454_FN2110_FN2111|Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein|NEGATIVE:NEGATIVE|[622421,622523]|103 HSP 1 e-value: 4.0E-52 bit: 204.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 cattttttctataggaacctttctacctgctgcaaatgataagactgacatcaataaaaatactcctaataataattttttcatctcttttcctccttattta cattttttctataggaacctttctacctgctgcaaatgataagactgacatcaataaaaatactcctaataataattttttcatctcttttcctccttattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUUUUUUCUAUAGGAACCUUUCUACCUGCUGCAAAUGAUAAGACUGACAUCAAUAAAAAUACUCCUAAUAAUAAUUUUUUCAUCUCUUUUCCUCCUUAUUUA ...........(((((..(((((..............)).)))..((....))..........)))))................................... ( -3.54) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUAAGGAGGAAAAGAGAUGAAAAAAUUAUUAUUAGGAGUAUUUUUAUUGAUGUCAGUCUUAUCAUUUGCAGCAGGUAGAAAGGUUCCUAUAGAAAAAAUG ...................................((((((..((((((((..(((.(((......))).)))...))))))))..))))))........... (-14.10) 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_003454:FN2110|5end_Hypothetical_exported_24-amino_acid_repeat_protein_622330..622560_NEGATIVE 498 97 55 104 62 NC_003454:FN2118|5end_Hypothetical_exported_24-amino_acid_repeat_protein_627024..627254_NEGATIVE 418 50 2 90 45 NC_003454:FN2121|5end_Hypothetical_exported_24-amino_acid_repeat_protein_629728..629958_NEGATIVE 405 99 53 105 60 NC_003454:FN2120|5end_Hypothetical_exported_24-amino_acid_repeat_protein_628930..629160_NEGATIVE 368 97 51 131 88 NC_003454:FN0026|5end_Hypothetical_exported_24-amino_acid_repeat_protein_664285..664515_POSITIVE 354 97 55 101 62 NC_003454:FN0025|5end_Hypothetical_exported_24-amino_acid_repeat_protein_663746..663976_POSITIVE 302 97 64 135 95 NC_003454:FN2081|5end_ABC_transporter_substrate-binding_protein_592974..593204_NEGATIVE 298 98 55 144 101 NC_003454:FN0846|5end_hypothetical_protein_1504242..1504472_POSITIVE 298 97 55 103 62 NC_003454:FN2119|5end_Hypothetical_exported_24-amino_acid_repeat_protein_628052..628282_NEGATIVE 277 41 1 191 141 NC_003454:FN0552|5end_Serine_racemase_1204715..1204945_NEGATIVE 274 100 68 131 102 NC_003454:FN1719|5end_hypothetical_protein_217948..218178_POSITIVE 263 100 61 110 68 NC_003454:FN1610|5end_33_kDa_chaperonin_120597..120827_NEGATIVE 262 98 66 106 75 NC_003454:FN1597|5end_peptidyl-tRNA_hydrolase_107810..108040_NEGATIVE 257 96 53 105 57 NC_003454:FN1910|5end_hypothetical_protein_403208..403438_NEGATIVE 256 35 5 193 157 NC_003454:FN0109|5end_hypothetical_protein_744809..745039_NEGATIVE 255 96 63 104 58 NC_003454:FN1432|5end_Leucine-,_isoleucine-,_valine-,_threonine-,_and_alanine-binding_protein_2101580..2101810_NEGATIVE 252 98 66 107 70 NC_003454:FN0152|5end_Ribonuclease_III_780028..780258_POSITIVE 248 97 56 48 8 NC_003454:FN1111|5end_Dipeptide-binding_protein_1756181..1756411_NEGATIVE 248 48 4 94 50 NC_003454:FN0024|5end_Hypothetical_exported_24-amino_acid_repeat_protein_663051..663281_POSITIVE 243 98 62 107 69 NC_003454:FN0711|5end_Phosphopantothenate--cysteine_ligase_1369569..1369799_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 498 97 55 92 50 NC_003454:FN2119|3end_Hypothetical_exported_24-amino_acid_repeat_protein_627036..627186_NEGATIVE 368 97 51 92 49 NC_003454:FN0025|3end_Hypothetical_exported_24-amino_acid_repeat_protein_664326..664476_POSITIVE 354 97 55 92 53 NC_003454:FN0024|3end_Hypothetical_exported_24-amino_acid_repeat_protein_663817..663967_POSITIVE 307 97 55 72 31 NC_003454:FN2122|3end_Phenylalanyl-tRNA_synthetase_beta_chain_629798..629948_NEGATIVE 298 98 55 46 3 NC_003454:FN0845|3end_hypothetical_protein_1504224..1504374_POSITIVE 274 100 68 91 62 NC_003454:FN1718|3end_translocase_217988..218138_POSITIVE 263 100 61 110 68 NC_003454:FN1611|3end_Competence_protein_120597..120747_NEGATIVE 257 96 53 64 16 NC_003454:FN1911|3end_Outer_membrane_protein_403249..403399_NEGATIVE 252 98 66 91 54 NC_003454:FN0151|3end_3-oxoacyl-[acyl-carrier-protein]_synthase_780092..780242_POSITIVE 248 97 56 64 24 NC_003454:FN1112|3end_Dipeptide_transport_system_permease_protein_dppC_1756165..1756315_NEGATIVE 243 98 62 90 52 NC_003454:FN0710|3end_hypothetical_protein_1369632..1369782_POSITIVE 238 98 61 89 42 NC_003454:FN0251|3end_Hypothetical_membrane-spanning_Protein_874256..874406_POSITIVE 238 98 61 89 42 NC_003454:FN2061|3end_Hypothetical_membrane-spanning_protein_573666..573816_NEGATIVE 238 98 61 89 42 NC_003454:FN2050|3end_Hypothetical_membrane-spanning_protein_559590..559740_NEGATIVE 232 70 21 56 7 NC_003454:FN2117|3end_Hypothetical_exported_24-amino_acid_repeat_protein_625525..625675_NEGATIVE 231 96 55 80 40 NC_003454:FN1785|3end_hypothetical_protein_266212..266362_NEGATIVE 227 99 76 93 71 NC_003454:FN0292|3end_Hemolysin_activator_protein_precursor_925011..925161_NEGATIVE 227 57 21 54 14 NC_003454:FN0183|3end_Glycerol-3-phosphate_dehydrogenase_807078..807228_NEGATIVE 226 97 53 89 33 NC_003454:FN0659|3end_ABC_transporter_permease_protein_1315690..1315840_NEGATIVE 222 99 61 86 51 NC_003454:FN0985|3end_Phosphoribosylglycinamide_formyltransferase_1637315..1637465_NEGATIVE