Origin IGS: cgactttaactcttcgatacatccatgaaaatccttgaaccatccgtagtcaaacagttttatatacgatctttttcagcaaaggtgaagaattttatcttca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaagataaaattcttcacctttgctgaaaaagatcgtatataaaactgtttgactacggatggttcaaggattttcatggatgtatcgaagagttaaagtcg Mask Tandem Repeat Region ================================================ cgactttaactcttcgatacatccatgaaaatccttgaaccatccgtagtcaaacagttttatatacgatctttttcagcaaaggtgaagaattttatcttca Find is-nt database================================================ Query_seq: TF2675:TF2676|TF2675:TF2676:conserved hypothetical protein:conserved hypothetical protein:->->:2849682..2849784 103 cgactttaactcttcgatacatccatgaaaatccttgaaccatccgtagtcaaacagttttatatacgatctttttcagcaaaggtgaagaattttatcttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2675:TF2676|TF2675:TF2676:conserved hypothetical protein:conserved hypothetical protein:->->:2849682..2849784 103 cgactttaactcttcgatacatccatgaaaatccttgaaccatccgtagtcaaacagttttatatacgatctttttcagcaaaggtgaagaattttatcttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2675:TF2676|TF2675:TF2676:conserved hypothetical protein:conserved hypothetical protein:->->:2849682..2849784 103 cgactttaactcttcgatacatccatgaaaatccttgaaccatccgtagtcaaacagttttatatacgatctttttcagcaaaggtgaagaattttatcttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgactttaactcttcgatacatccatgaaaatccttgaaccatccgtagtcaaacagttttatatacgatctttttcagcaaaggtgaagaattttatcttca Predict ORF larger than 30AA ================================================ cgactttaactcttcgatacatccatgaaaatccttgaaccatccgtagtcaaacagttttatatacgatctttttcagcaaaggtgaagaattttatcttca 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================================================ cgactttaactcttcgatacatccatgaaaatccttgaaccatccgtagtcaaacagttttatatacgatctttttcagcaaaggtgaagaattttatcttca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2675:TF2676|TF2675:TF2676:conserved hypothetical protein:conserved hypothetical protein:->->:2849682..2849784 103 cgactttaactcttcgatacatccatgaaaatccttgaaccatccgtagtcaaacagttttatatacgatctttttcagcaaaggtgaagaattttatcttca Intra-Species Hit: Count: 1 Min: 1 Max: 103 Len: 103 Subject: tfor_TF2675_TF2676|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[2849682,2849784]|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 cgactttaactcttcgatacatccatgaaaatccttgaaccatccgtagtcaaacagttttatatacgatctttttcagcaaaggtgaagaattttatcttca cgactttaactcttcgatacatccatgaaaatccttgaaccatccgtagtcaaacagttttatatacgatctttttcagcaaaggtgaagaattttatcttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGACUUUAACUCUUCGAUACAUCCAUGAAAAUCCUUGAACCAUCCGUAGUCAAACAGUUUUAUAUACGAUCUUUUUCAGCAAAGGUGAAGAAUUUUAUCUUCA .((((.......(((((.................)))))........)))).................((((((......))))))(((((......))))). ( -9.59) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAGAUAAAAUUCUUCACCUUUGCUGAAAAAGAUCGUAUAUAAAACUGUUUGACUACGGAUGGUUCAAGGAUUUUCAUGGAUGUAUCGAAGAGUUAAAGUCG ((((((......)))))).((((......))))...........((((.(((((.((((.((((...........))))...))))))))).))))....... (-17.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 325 87 43 41 3 tfor:TF2496|5end_butyryl-CoA_dehydrogenase,_short_chain_acyl-CoA_dehydrogenase_2670840..2671070_POSITIVE 281 45 1 75 26 tfor:TF3026|5end_conserved_hypothetical_protein_3249137..3249367_POSITIVE 280 46 5 59 15 tfor:TF2752|5end_endonuclease_III_2936781..2937011_POSITIVE 271 90 44 194 152 tfor:TF0088|5end_ABC_transporter,_permease_component_94299..94529_POSITIVE 259 52 15 72 42 tfor:TF0257|5end_hypothetical_protein_287610..287840_POSITIVE 256 48 10 62 26 tfor:TF2133|5end_aspartate-semialdehyde_dehydrogenase_2310275..2310505_POSITIVE 256 77 32 106 58 tfor:TF1329|5end_glucose-1-phosphate_thymidyltransferase_1408578..1408808_POSITIVE 246 89 42 78 27 tfor:TF3099|5end_conserved_hypothetical_protein_3330461..3330691_POSITIVE 244 51 11 214 165 tfor:TF3065|5end_enolase_3291055..3291285_POSITIVE 239 80 32 222 185 tfor:TF3154|5end_conserved_hypothetical_protein_3389219..3389449_POSITIVE 238 71 32 202 161 tfor:TF2151|5end_uridine_kinase_2323033..2323263_POSITIVE 232 45 4 72 31 tfor:TF1516|5end_transposase_fragment_1626407..1626637_POSITIVE 231 89 46 231 181 tfor:TF0532|5end_hypothetical_protein_557509..557739_POSITIVE 227 47 1 206 159 tfor:TF0036|5end_beta-hexosaminidase_precursor_35821..36051_POSITIVE 223 51 11 140 104 tfor:TF2120|5end_holliday_junction_endonuclease_2292108..2292338_POSITIVE 222 51 12 219 173 tfor:TF0910|5end_Tn5520-like_integrase_(transfer_factor)_952499..952729_POSITIVE 222 57 16 43 9 tfor:TF0763|5end_chromate_transport_protein_809675..809905_POSITIVE 217 50 1 104 52 tfor:TF2793|5end_possible_L-lysine_2,3-aminomutase_2977661..2977891_POSITIVE 216 50 9 64 20 tfor:TF1429|5end_S-adenosyl-methyltransferase_1513927..1514157_POSITIVE 215 48 11 228 194 tfor:TF2616|5end_outer_membrane_protein,_TonB_dependent_receptor_2791470..2791700_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 301 48 19 49 20 tfor:TF0501|3end_conserved_hypothetical_protein,_HicB-related_527361..527511_POSITIVE 278 86 50 151 110 tfor:TF0423|3end_G:T/U_mismatch-specific_DNA_glycosylase_439281..439431_POSITIVE 256 77 32 98 50 tfor:TF1328|3end_possible_cytidylyltransferase_1408650..1408800_POSITIVE 246 89 42 72 21 tfor:TF3098|3end_conserved_hypothetical_protein_3330535..3330685_POSITIVE 244 51 11 63 14 tfor:TF3064|3end_oxidoreductase,_aldo/keto_reductase_family_3290984..3291134_POSITIVE 231 89 46 111 61 tfor:TF0531|3end_hypothetical_protein_557469..557619_POSITIVE 230 60 15 108 64 tfor:TF2152|3end_uronate_isomerase_2328061..2328211_POSITIVE 223 51 11 140 104 tfor:TF2119|3end_conserved_hypothetical_protein_2292188..2292338_POSITIVE 222 57 16 43 9 tfor:TF0762|3end_chromate_transport_protein_809755..809905_POSITIVE 216 50 9 53 9 tfor:TF1428|3end_conserved_hypothetical_protein_1513996..1514146_POSITIVE 214 52 12 143 96 tfor:TF3004|3end_phosphoribosylformylglycinamidine_(FGAM)_synthase_3224576..3224726_POSITIVE 211 80 34 94 44 tfor:TF1061|3end_glycosyltransferase_1131807..1131957_POSITIVE 210 49 9 109 68 tfor:TF2650|3end_succinate_dehydrogenase,_iron-sulfur_subunit_2821806..2821956_POSITIVE 210 60 14 144 83 tfor:TF1744|3end_phenylacetate-CoA_ligase_1879218..1879368_POSITIVE 208 68 32 85 51 tfor:TF1301|3end_hypothetical_protein_1383487..1383637_POSITIVE 206 45 4 135 93 tfor:TF1274|3end_hypothetical_protein_1357895..1358045_POSITIVE 206 95 55 148 108 tfor:TF0575|3end_conserved_hypothetical_protein_606146..606296_POSITIVE 205 90 42 130 76 tfor:TF2181|3end_conserved_hypothetical_protein_2354963..2355113_POSITIVE 205 48 18 124 94 tfor:TF1924|3end_prenyltransferase,_UbiA_family_2073827..2073977_POSITIVE 203 68 21 88 30 tfor:TF3069|3end_hypothetical_protein_3294413..3294563_POSITIVE