Origin IGS: taaaaattggttatgcgttcataaaaagcacagaatcctccgaatacaatttaagtcggagagaaatgaaaaaagaaaaagatacacagtataaacacaatctaaattgaaaaata .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tatttttcaatttagattgtgtttatactgtgtatctttttcttttttcatttctctccgacttaaattgtattcggaggattctgtgctttttatgaacgcataaccaattttta Mask Tandem Repeat Region ================================================ taaaaattggttatgcgttcataaaaagcacagaatcctccgaatacaatttaagtcggagagaaatgaaaaaagaaaaagatacacagtataaacacaatctaaattgaaaaata Find is-nt database================================================ Query_seq: TF0666:TF0667|TF0666:TF0667:conserved hypothetical protein:conserved hypothetical protein:->->:711006..711121 116 taaaaattggttatgcgttcataaaaagcacagaatcctccgaatacaatttaagtcggagagaaatgaaaaaagaaaaagatacacagtataaacacaatctaaattgaaaaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0666:TF0667|TF0666:TF0667:conserved hypothetical protein:conserved hypothetical protein:->->:711006..711121 116 taaaaattggttatgcgttcataaaaagcacagaatcctccgaatacaatttaagtcggagagaaatgaaaaaagaaaaagatacacagtataaacacaatctaaattgaaaaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0666:TF0667|TF0666:TF0667:conserved hypothetical protein:conserved hypothetical protein:->->:711006..711121 116 taaaaattggttatgcgttcataaaaagcacagaatcctccgaatacaatttaagtcggagagaaatgaaaaaagaaaaagatacacagtataaacacaatctaaattgaaaaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaattggttatgcgttcataaaaagcacagaatcctccgaatacaatttaagtcggagagaaatgaaaaaagaaaaagatacacagtataaacacaatctaaattgaaaaata Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 6 End: 107 ..... M G Y A F I K S T E S S E Y N L S R R E M K K E K D T Q Y K H N L N ......... Protein_Len: 34 Strand: - Start: 14 End: 115 ............. A N M F L V S D E S Y L K L R L S I F F S F S V C Y L C L R F Q F M . taaaaattggttatgcgttcataaaaagcacagaatcctccgaatacaatttaagtcggagagaaatgaaaaaagaaaaagatacacagtataaacacaatctaaattgaaaaata 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================================================ taaaaattggttatgcgttcataaaaagcacagaatcctccgaatacaatttaagtcggagagaaatgaaaaaagaaaaagatacacagtataaacacaatctaaattgaaaaata Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0666:TF0667|TF0666:TF0667:conserved hypothetical protein:conserved hypothetical protein:->->:711006..711121 116 taaaaattggttatgcgttcataaaaagcacagaatcctccgaatacaatttaagtcggagagaaatgaaaaaagaaaaagatacacagtataaacacaatctaaattgaaaaata Intra-Species Hit: Count: 1 Min: 1 Max: 116 Len: 116 Subject: tfor_TF0666_TF0667|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[711006,711121]|116 HSP 1 e-value: 2.0E-38 bit: 159.0 Len: 116 Query Start:1 Query End:116 Subject Strand: POSITIVE Subject Start: 1 Subject End: 116 taaaaattggttatgcgttcataaaaagcacagaatcctccgaatacaatttaagtcggagagaaatgnnnnnnnnnnnngatacacagtataaacacaatctaaattgaaaaata taaaaattggttatgcgttcataaaaagcacagaatcctccgaatacaatttaagtcggagagaaatgaaaaaagaaaaagatacacagtataaacacaatctaaattgaaaaata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAUUGGUUAUGCGUUCAUAAAAAGCACAGAAUCCUCCGAAUACAAUUUAAGUCGGAGAGAAAUGAAAAAAGAAAAAGAUACACAGUAUAAACACAAUCUAAAUUGAAAAAUA .....((((.((((((...................((((((((............)))))).))..(....)................))))))...))))............... (-13.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUUUUCAAUUUAGAUUGUGUUUAUACUGUGUAUCUUUUUCUUUUUUCAUUUCUCUCCGACUUAAAUUGUAUUCGGAGGAUUCUGUGCUUUUUAUGAACGCAUAACCAAUUUUUA .................((((((((((....((((.................((.((((((............))))))))....))))....))))))))))............. (-17.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 292 59 13 62 28 tfor:TF1418|5end_cell_division_protein_1500027..1500257_POSITIVE 277 60 15 48 2 tfor:TF2902|5end_holliday_junction_DNA_helicase_3097813..3098043_POSITIVE 257 40 6 180 141 tfor:TF0064|5end_conserved_hypothetical_protein_68419..68649_POSITIVE 255 62 28 54 24 tfor:TF2986|5end_conserved_hypothetical_protein;_possible_glycosyltransferase_3201818..3202048_POSITIVE 254 59 11 70 24 tfor:TF2791|5end_GTP-binding_protein_TypA_2975298..2975528_POSITIVE 254 70 27 102 48 tfor:TF1215|5end_haloacid_dehalogenase-like_hydrolase_1302510..1302740_POSITIVE 251 64 28 112 74 tfor:TF1450|5end_periplasmic_serine_protease_1534102..1534332_POSITIVE 247 90 55 92 53 tfor:TF0522|5end_hypothetical_protein_547638..547868_POSITIVE 247 90 55 84 45 tfor:TF0521|5end_hypothetical_protein_547630..547860_POSITIVE 246 58 27 47 9 tfor:TF0426|5end_conserved_hypothetical_protein_444728..444958_POSITIVE 236 64 28 214 184 tfor:TF0309|5end_conserved_hypothetical_protein_334174..334404_POSITIVE 225 80 33 66 12 tfor:TF2463|5end_anti-sigma_factor_2641977..2642207_POSITIVE 224 80 38 143 101 tfor:TF0631|5end_hypothetical_protein_666812..667042_POSITIVE 222 58 13 137 95 tfor:TF2205|5end_conserved_hypothetical_protein;_possible_transcriptional_regulator_2379055..2379285_POSITIVE 222 60 13 135 80 tfor:TF0177|5end_hypothetical_protein_186925..187155_POSITIVE 221 70 29 210 175 tfor:TF2009|5end_octaprenyl-diphosphate_synthase_ispB_2162131..2162361_POSITIVE 220 95 56 87 47 tfor:TF1581|5end_hypothetical_protein_1689199..1689429_POSITIVE 218 41 9 42 13 tfor:TF3045|5end_two-component_system_response_regulator_3273807..3274037_POSITIVE 218 59 11 126 78 tfor:TF2620|5end_conserved_hypothetical_protein_2796121..2796351_POSITIVE 218 60 19 35 1 tfor:TF0954|5end_2-hydroxyhepta-2,4-diene-1,7-dioate_isomerase,_fumarylacetoacetate_hydrolase_family_998584..998814_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 276 89 41 74 27 tfor:TF1798|3end_aldose_1-epimerase_1940022..1940172_POSITIVE 247 90 55 100 61 tfor:TF0523|3end_protein_protease_IV/endopeptidase_547726..547876_POSITIVE 236 64 28 42 12 tfor:TF0308|3end_hypothetical_protein_334082..334232_POSITIVE 227 59 24 25 3 tfor:TF1417|3end_conserved_hypothetical_protein_1500070..1500220_POSITIVE 225 80 33 85 31 tfor:TF2462|3end_hypothetical_protein_2642076..2642226_POSITIVE 224 80 38 103 61 tfor:TF0630|3end_hypothetical_protein_666852..667002_POSITIVE 222 58 13 124 82 tfor:TF2204|3end_conserved_hypothetical_protein_2379122..2379272_POSITIVE 220 95 56 66 26 tfor:TF1580|3end_conserved_hypothetical_protein;_possible_fibronectin_domain_containing_protein_1689258..1689408_POSITIVE 218 50 4 129 81 tfor:TF1093|3end_hypothetical_protein_1162919..1163069_POSITIVE 217 60 19 45 5 tfor:TF2901|3end_conserved_hypothetical_protein_3097890..3098040_POSITIVE 216 59 35 74 54 tfor:TF0144|3end_hypothetical_protein_151483..151633_POSITIVE 215 60 15 104 63 tfor:TF2704|3end_ribonuclease_HII_2876921..2877071_POSITIVE 215 69 38 131 101 tfor:TF1697|3end_mobilizable_transposon,_excision_protein_1819293..1819443_POSITIVE 210 61 37 124 98 tfor:TF2953|3end_possible_TonB-dependent_outer_membrane_receptor_3161501..3161651_POSITIVE 209 76 31 57 19 tfor:TF1711|3end_beta-D-glucoside_glucohydrolase,_periplasmic_1832472..1832622_POSITIVE 209 68 28 40 5 tfor:TF1649|3end_hypothetical_protein_1760119..1760269_POSITIVE 208 59 14 54 5 tfor:TF1220|3end_conserved_hypothetical_protein_1307797..1307947_POSITIVE 205 49 9 69 31 tfor:TF2925|3end_beta-N-acetylglucosaminidase_3128110..3128260_POSITIVE 203 76 37 59 14 tfor:TF1001|3end_penicillin-binding_protein_1A_1056600..1056750_POSITIVE 201 42 5 70 32 tfor:TF0884|3end_hypothetical_protein_937850..938000_POSITIVE