Origin IGS: ttctacaatttcttttgctaaatcgggataaaattaattgtatttaataagtgtttctggatcaggaagaggtccagaatgaattctagttataccaattttagtaatcttattatttttataattatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgataattataaaaataataagattactaaaattggtataactagaattcattctggacctcttcctgatccagaaacacttattaaatacaattaattttatcccgatttagcaaaagaaattgtagaa Mask Tandem Repeat Region ================================================ ttctacaatttcttttgctaaatcgggataaaattaattgtatttaataagtgtttctggatcaggaagaggtccagaatgaattctagttataccaattttagtaatcttattatttttataattatca Find is-nt database================================================ Query_seq: FN0842:FN0843|FN0842:FN0843:hypothetical protein:hypothetical protein:<-<-:1503146..1503275 130 ttctacaatttcttttgctaaatcgggataaaattaattgtatttaataagtgtttctggatcaggaagaggtccagaatgaattctagttataccaattttagtaatcttattatttttataattatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0842:FN0843|FN0842:FN0843:hypothetical protein:hypothetical protein:<-<-:1503146..1503275 130 ttctacaatttcttttgctaaatcgggataaaattaattgtatttaataagtgtttctggatcaggaagaggtccagaatgaattctagttataccaattttagtaatcttattatttttataattatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0842:FN0843|FN0842:FN0843:hypothetical protein:hypothetical protein:<-<-:1503146..1503275 130 ttctacaatttcttttgctaaatcgggataaaattaattgtatttaataagtgtttctggatcaggaagaggtccagaatgaattctagttataccaattttagtaatcttattatttttataattatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttctacaatttcttttgctaaatcgggataaaattaattgtatttaataagtgtttctggatcaggaagaggtccagaatgaattctagttataccaattttagtaatcttattatttttataattatca Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 22 End: 129 ..................... M G I K L I V F N K C F W I R K R S R M N S S Y T N F S N L I I F I I I . ttctacaatttcttttgctaaatcgggataaaattaattgtatttaataagtgtttctggatcaggaagaggtccagaatgaattctagttataccaattttagtaatcttattatttttataattatca 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================================================ ttctacaatttcttttgctaaatcgggataaaattaattgtatttaataagtgtttctggatcaggaagaggtccagaatgaattctagttataccaattttagtaatcttattatttttataattatca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0842:FN0843|FN0842:FN0843:hypothetical protein:hypothetical protein:<-<-:1503146..1503275 130 ttctacaatttcttttgctaaatcgggataaaattaattgtatttaataagtgtttctggatcaggaagaggtccagaatgaattctagttataccaattttagtaatcttattatttttataattatca Intra-Species Hit: Count: 1 Min: 1 Max: 130 Len: 130 Subject: NC_003454_FN0842_FN0843|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1503146,1503275]|130 HSP 1 e-value: 4.0E-68 bit: 258.0 Len: 130 Query Start:1 Query End:130 Subject Strand: POSITIVE Subject Start: 1 Subject End: 130 ttctacaatttcttttgctaaatcgggataaaattaattgtatttaataagtgtttctggatcaggaagaggtccagaatgaattctagttataccaattttagtaatcttattatttttataattatca ttctacaatttcttttgctaaatcgggataaaattaattgtatttaataagtgtttctggatcaggaagaggtccagaatgaattctagttataccaattttagtaatcttattatttttataattatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUACAAUUUCUUUUGCUAAAUCGGGAUAAAAUUAAUUGUAUUUAAUAAGUGUUUCUGGAUCAGGAAGAGGUCCAGAAUGAAUUCUAGUUAUACCAAUUUUAGUAAUCUUAUUAUUUUUAUAAUUAUCA ...(((((((..(((((((......)).)))))..)))))))..(((((((...(((((((((.......))))))))).............(((........)))..)))))))............... (-22.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAAUUAUAAAAAUAAUAAGAUUACUAAAAUUGGUAUAACUAGAAUUCAUUCUGGACCUCUUCCUGAUCCAGAAACACUUAUUAAAUACAAUUAAUUUUAUCCCGAUUUAGCAAAAGAAAUUGUAGAA ...............(((((((..(((((....))))).............(((((((.(.......).)))))))...)))))))..(((((((..((((.............))))..)))))))... (-19.42) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 851 100 51 191 142 NC_003454:FN0842|5end_hypothetical_protein_1503055..1503285_NEGATIVE 241 98 51 72 21 NC_003454:FN1754|5end_thiazole_synthase_251117..251347_NEGATIVE 233 130 87 41 4 NC_003454:FN0765|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)_-methyltransferase_1420792..1421022_POSITIVE 226 86 49 81 44 NC_003454:FN0503|5end_Transcriptional_regulatory_protein,_LYSR_family_1153572..1153802_NEGATIVE 221 96 57 191 148 NC_003454:FN0911|5end_Alpha-ribazole-5'-phosphate_phosphatase_1569318..1569548_NEGATIVE 221 54 11 98 57 NC_003454:FN0534|5end_hypothetical_protein_1188858..1189088_POSITIVE 221 107 61 51 5 NC_003454:FN1735|5end_V-type_ATP_synthase_subunit_A_235399..235629_NEGATIVE 220 89 52 225 191 NC_003454:FN0860|5end_hypothetical_protein_1521563..1521793_NEGATIVE 214 92 59 210 171 NC_003454:FN1281|5end_Cysteine_protease_1940200..1940430_POSITIVE 213 103 67 44 5 NC_003454:FN0006|5end_tRNA_modification_GTPase_644505..644735_POSITIVE 213 99 58 65 17 NC_003454:FN1620|5end_30S_ribosomal_protein_S2_127896..128126_POSITIVE 211 88 46 168 123 NC_003454:FN0364|5end_ATP_synthase_A_chain,_sodium_ion_specific_994413..994643_NEGATIVE 210 67 39 197 161 NC_003454:FN1180|5end_hypothetical_protein_1842588..1842818_NEGATIVE 207 77 48 63 36 NC_003454:FN1070|5end_glucose-inhibited_division_protein_A_1717121..1717351_POSITIVE 205 110 61 54 8 NC_003454:FN1235|5end_Ankyrin_repeat_proteins_1890915..1891145_POSITIVE 205 78 37 73 27 NC_003454:FN0129|5end_Urease_accessory_protein_ureG_757595..757825_POSITIVE 205 79 44 84 42 NC_003454:FN1999|5end_HIPA_protein_500262..500492_POSITIVE 203 80 33 214 162 NC_003454:FN1531|5end_Negative_regulator_of_murein_hydrolase_44970..45200_NEGATIVE 202 120 76 179 121 NC_003454:FN0557|5end_hypothetical_protein_1210334..1210564_NEGATIVE 200 75 36 230 191 NC_003454:FN0859|5end_hypothetical_protein_1521229..1521459_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 220 89 52 50 16 NC_003454:FN0861|3end_hypothetical_protein_1521738..1521888_NEGATIVE 207 88 56 39 3 NC_003454:FN0365|3end_ATP_synthase_protein_I,_sodium_ion_specific_994542..994692_NEGATIVE 205 78 37 73 27 NC_003454:FN0128|3end_Spermidine/putrescine-binding_protein_757675..757825_POSITIVE 205 79 44 133 91 NC_003454:FN1998|3end_HIPA_protein_500391..500541_POSITIVE 203 120 72 49 10 NC_003454:FN0005|3end_Jag_protein_644579..644729_POSITIVE 187 75 40 130 100 NC_003454:FN1398|3end_Amino_acid_carrier_protein_alsT_2054300..2054450_POSITIVE 181 113 76 51 25 NC_003454:FN1022|3end_Calcium-transporting_ATPase_1677501..1677651_POSITIVE 180 67 26 130 78 NC_003454:FN1442|3end_Transposase_2110155..2110305_NEGATIVE 180 67 26 130 78 NC_003454:FN0787|3end_Transposase_1443908..1444058_POSITIVE 180 99 51 56 10 NC_003454:FN0491|3end_Alanine_racemase_1136239..1136389_NEGATIVE 178 30 1 148 127 NC_003454:FN0602|3end_hypothetical_protein_1257439..1257589_POSITIVE 177 88 41 79 26 NC_003454:FN1409|3end_Transporter_2069832..2069982_POSITIVE 176 88 50 93 51 NC_003454:FN1595|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_B_104883..105033_NEGATIVE 175 90 58 52 15 NC_003454:FN0817|3end_ABC_transporter_ATP-binding_protein_1476749..1476899_POSITIVE 174 93 51 147 102 NC_003454:FN0507|3end_hypothetical_protein_1157710..1157860_POSITIVE 174 120 73 82 38 NC_003454:FN1579|3end_Cysteinyl-tRNA_synthetase_88784..88934_NEGATIVE 173 80 39 83 44 NC_003454:FN0798|3end_Fructose-1,6-bisphosphatase_1457852..1458002_POSITIVE 171 77 36 42 3 NC_003454:FN1019|3end_3-hydroxybutyryl-CoA_dehydrogenase_1672945..1673095_NEGATIVE 170 110 64 43 7 NC_003454:FN1219|3end_hypothetical_protein_1879101..1879251_POSITIVE 169 130 84 133 85 NC_003454:FN1454|3end_D-alanine--D-alanine_ligase_2134796..2134946_NEGATIVE