Origin IGS: tgatcaatattgtttttgtaactttgagaaaggagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattgggggggctaaggatgagagcgagggagcatactaacgtag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctacgttagtatgctccctcgctctcatccttagcccccccaatttccccctttcttatacacctaaggagggtgtgcccaaaacattgcgttttgacacaccctcctttctcaaagttacaaaaacaatattgatca Mask Tandem Repeat Region ================================================ tgatcaatattgtttttgtaactttgagaaaggagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattgggggggctaaggatgagagcgagggagcatactaacgtag Find is-nt database================================================ Query_seq: TF0661:TF0662|TF0661:TF0662:hypothetical protein:hypothetical protein:->->:708318..708455 138 tgatcaatattgtttttgtaactttgagaaaggagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattgggggggctaaggatgagagcgagggagcatactaacgtag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0661:TF0662|TF0661:TF0662:hypothetical protein:hypothetical protein:->->:708318..708455 138 tgatcaatattgtttttgtaactttgagaaaggagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattgggggggctaaggatgagagcgagggagcatactaacgtag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0661:TF0662|TF0661:TF0662:hypothetical protein:hypothetical protein:->->:708318..708455 138 tgatcaatattgtttttgtaactttgagaaaggagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattgggggggctaaggatgagagcgagggagcatactaacgtag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgatcaatattgtttttgtaactttgagaaaggagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattgggggggctaaggatgagagcgagggagcatactaacgtag Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 7 End: 96 ...... Y Q K Q L K S F P P H T L V C H K P C V R R L H I L F P S M .......................................... Protein_Len: 37 Strand: - Start: 2 End: 112 . I L I T K T V K L F S P T D F R L T K P V G E K P T Y S L P F N P P S L M .......................... tgatcaatattgtttttgtaactttgagaaaggagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattgggggggctaaggatgagagcgagggagcatactaacgtag 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================================================ tgatcaatattgtttttgtaactttgagaaaggagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattgggggggctaaggatgagagcgagggagcatactaacgtag Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -17.4 Tail_Score: -3.15999 Start: 32 End: 71 Full_Region: TGTAACTTTGAGAAA GGAGGGTGTGTCAAAACG CAA TGTTTTGGGCACACCCTCC TTAGGTGTATAAGAA ...............................GGAGGGTGTGTCAAAACGCAATGTTTTGGGCACACCCTCC................................................................... TransTerm Strand: - Conf: 100 HP_score: -14.5 Tail_Score: -3.89614 Start: 32 End: 71 Full_Region: ttcttatacacctaa ggagggtgtgcccaaaac attgc gttttgacacaccctcc tttctcaaagttaca ...............................ggagggtgtgcccaaaacattgcgttttgacacaccctcc................................................................... Find igs database================================================ Query_seq: TF0661:TF0662|TF0661:TF0662:hypothetical protein:hypothetical protein:->->:708318..708455 138 tgatcaatattgtttttgtaactttgagaaaggagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattgggggggctaaggatgagagcgagggagcatactaacgtag Intra-Species Hit: Count: 3 Min: 1 Max: 138 Len: 138 Subject: tfor_TF0661_TF0662|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[708318,708455]|138 HSP 1 e-value: 2.0E-60 bit: 232.0 Len: 138 Query Start:1 Query End:138 Subject Strand: POSITIVE Subject Start: 1 Subject End: 138 tgatcaatattgtttttgtaactttgagaaaggagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattnnnnnnnctaaggatgagagcgagggagcatactaacgtag tgatcaatattgtttttgtaactttgagaaaggagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattgggggggctaaggatgagagcgagggagcatactaacgtag Subject: tfor_TF0983_TF0984|nitroreductase family protein, possible NADH dehydrogenase/NAD(P)H nitroreductase:possible mucin-desulfating sulfatase (MdsC protein)|POSITIVE:POSITIVE|[1040095,1040398]|304 HSP 1 e-value: 2.0E-17 bit: 89.7 Len: 105 Query Start:33 Query End:137 Subject Strand: POSITIVE Subject Start: 112 Subject End: 216 ................................gagggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaatt-nnnnnnnctaaggatgagagcgagggagcatactaacgta. ................................gagggtgtgtcaaaacgcaatg-tttggacacaccctctttaggtatgtaagaatgggtgaaattgggaggcgctaaggatgagagcgagggagcatactaacgta. Subject: tfor_TF0475_TF0476|possible transcriptional regulator, AraC family:conserved hypothetical protein|POSITIVE:POSITIVE|[494886,495083]|198 HSP 1 e-value: 1.0E-15 bit: 83.8 Len: 103 Query Start:35 Query End:137 Subject Strand: NEGATIVE Subject Start: 63 Subject End: 164 ..................................gggtgtgtcaaaacgcaatgttttgggcacaccctccttaggtgtataagaaagggggaaattnnnnnnnctaaggatgagagcgagggagcatactaacgta. ..................................gggtgtgtcaaaacgcaatg-tttgggcacaccctctttaggtgtgtaagcatgggtgaaatgcaagacgctaaggatgagagcgagggagtatacaaacgta. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUCAAUAUUGUUUUUGUAACUUUGAGAAAGGAGGGUGUGUCAAAACGCAAUGUUUUGGGCACACCCUCCUUAGGUGUAUAAGAAAGGGGGAAAUUGGGGGGGCUAAGGAUGAGAGCGAGGGAGCAUACUAACGUAG .........(..(((((((..(((..(..(((((((((((((((((((.....))))).))))))))))))))......................)..)))..)).)))))..)..((......)).(((....))). (-39.25) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUACGUUAGUAUGCUCCCUCGCUCUCAUCCUUAGCCCCCCCAAUUUCCCCCUUUCUUAUACACCUAAGGAGGGUGUGCCCAAAACAUUGCGUUUUGACACACCCUCCUUUCUCAAAGUUACAAAAACAAUAUUGAUCA ....((((((((........(((.........)))..............................((((((((((((..((((((.....)))))).))))))))))))...................)))))))).. (-31.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 790 79 31 169 122 tfor:TF0476|5end_conserved_hypothetical_protein_494944..495174_POSITIVE 711 79 33 178 132 tfor:TF2536|5end_subtilisin-like_serine_protease_2719286..2719516_POSITIVE 658 70 21 225 180 tfor:TF0184|5end_dihydroneopterin_aldolase_195629..195859_POSITIVE 597 79 31 172 119 tfor:TF0792|5end_pyruvate_ferredoxin;_flavodoxin_oxidoreductase_846454..846684_POSITIVE 586 80 31 172 124 tfor:TF0702|5end_possible_peptidyl-prolyl_isomerase_744977..745207_POSITIVE 571 60 14 145 99 tfor:TF1024|5end_50S_ribosomal_protein_L19_1081948..1082178_POSITIVE 547 80 31 164 116 tfor:TF1284|5end_glyceraldehyde_3-phosphate_dehydrogenase_1367939..1368169_POSITIVE 525 130 83 231 184 tfor:TF0146|5end_glutamine-dependent_NAD(+)_synthetase_154855..155085_POSITIVE 507 78 33 200 155 tfor:TF3007|5end_conserved_hypothetical_protein_3227256..3227486_POSITIVE 478 75 31 204 161 tfor:TF2320|5end_hypothetical_protein_2476654..2476884_POSITIVE 464 70 30 201 161 tfor:TF2593|5end_amino_acid_transport_protein_2762882..2763112_POSITIVE 462 70 26 226 184 tfor:TF1999|5end_ArgK_protein_with_ATPase_and_kinase_domains_2152769..2152999_POSITIVE 460 130 89 187 145 tfor:TF0797|5end_conserved_hypothetical_protein_853296..853526_POSITIVE 456 69 25 167 126 tfor:TF0216|5end_50S_ribosomal_protein_L20_242476..242706_POSITIVE 435 78 31 163 122 tfor:TF2357|5end_collagenase_2522561..2522791_POSITIVE 419 78 31 173 122 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 397 71 32 153 115 tfor:TF1898|5end_RNA_polymerase_ECF-type_sigma_factor_2052115..2052345_POSITIVE 393 80 31 226 173 tfor:TF1505|5end_conserved_hypothetical_protein_1610773..1611003_POSITIVE 391 78 31 166 108 tfor:TF0107|5end_ion_channel_protein_113913..114143_POSITIVE 389 69 27 229 181 tfor:TF1454|5end_sugar_phosphate_epimerase/isomerase_1539696..1539926_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 652 70 27 44 2 tfor:TF0182|3end_DNA-binding_protein,_HU-related_195528..195678_POSITIVE 537 73 31 61 19 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 484 70 33 110 74 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 478 75 31 58 15 tfor:TF2319|3end_acyl_carrier_protein_2476588..2476738_POSITIVE 464 70 30 46 6 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 462 70 26 63 21 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE 456 70 29 49 9 tfor:TF2765|3end_subtilisin-like_serine_protease_2951460..2951610_POSITIVE 449 70 21 54 4 tfor:TF1416|3end_outer_membrane_protein_1499413..1499563_POSITIVE 404 69 24 57 19 tfor:TF1354|3end_TonB_protein_1435216..1435366_POSITIVE 400 72 31 114 67 tfor:TF1452|3end_conserved_hypothetical_protein;_possible_transglutaminase-like_enzyme_1539657..1539807_POSITIVE 397 71 32 65 27 tfor:TF1897|3end_conserved_hypothetical_protein;_possible_aminopeptidase_2052107..2052257_POSITIVE 391 78 31 80 22 tfor:TF0105|3end_DNA-binding_stress_protein,_Dps_family_113907..114057_POSITIVE 363 130 85 43 1 tfor:TF1014|3end_glucose-6-phosphate_isomerase_1072474..1072624_POSITIVE 361 78 31 71 23 tfor:TF1045|3end_conserved_hypothetical_protein_1108245..1108395_POSITIVE 355 104 61 111 78 tfor:TF0370|3end_hypothetical_protein_386317..386467_POSITIVE 345 126 84 140 92 tfor:TF1204|3end_possible_metal-dependent_membrane_protease_1287461..1287611_POSITIVE 343 127 85 98 40 tfor:TF1563|3end_glycerophosphoryl_diester_phosphodiesterase_1671291..1671441_POSITIVE 342 69 21 63 19 tfor:TF1532|3end_potassium_uptake_system_protein_1639415..1639565_POSITIVE 341 86 43 41 1 tfor:TF0701|3end_Fe-S-cluster_redox_enzyme_744922..745072_POSITIVE 335 106 65 57 9 tfor:TF3056|3end_conserved_hypothetical_protein_3280417..3280567_POSITIVE