Origin IGS: ctacttaaatatttcttacgcgtttattttcgtcatttttccaacaaaagtagtgaaaaaatctatcgtgtaaaatgaaacatgtatatttgcgcatgaatcaaaaataaaaacatc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gatgtttttatttttgattcatgcgcaaatatacatgtttcattttacacgatagattttttcactacttttgttggaaaaatgacgaaaataaacgcgtaagaaatatttaagtag Mask Tandem Repeat Region ================================================ ctacttaaatatttcttacgcgtttattttcgtcatttttccaacaaaagtagtgaaaaaatctatcgtgtaaaatgaaacatgtatatttgcgcatgaatcaaaaataaaaacatc Find is-nt database================================================ Query_seq: TF0077:TF0078|TF0077:TF0078:hypothetical protein:aminopeptidase C, peptidase C1-like family:->->:84552..84668 117 ctacttaaatatttcttacgcgtttattttcgtcatttttccaacaaaagtagtgaaaaaatctatcgtgtaaaatgaaacatgtatatttgcgcatgaatcaaaaataaaaacatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0077:TF0078|TF0077:TF0078:hypothetical protein:aminopeptidase C, peptidase C1-like family:->->:84552..84668 117 ctacttaaatatttcttacgcgtttattttcgtcatttttccaacaaaagtagtgaaaaaatctatcgtgtaaaatgaaacatgtatatttgcgcatgaatcaaaaataaaaacatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0077:TF0078|TF0077:TF0078:hypothetical protein:aminopeptidase C, peptidase C1-like family:->->:84552..84668 117 ctacttaaatatttcttacgcgtttattttcgtcatttttccaacaaaagtagtgaaaaaatctatcgtgtaaaatgaaacatgtatatttgcgcatgaatcaaaaataaaaacatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctacttaaatatttcttacgcgtttattttcgtcatttttccaacaaaagtagtgaaaaaatctatcgtgtaaaatgaaacatgtatatttgcgcatgaatcaaaaataaaaacatc Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 19 End: 108 .................. A N I K T M K G V F T T F F D I T Y F S V H I N A C S D F M ......... Protein_Len: 30 Strand: - Start: 8 End: 97 ....... I N R V R K N E D N K W C F Y H F F R D H L I F C T Y K R M .................... ctacttaaatatttcttacgcgtttattttcgtcatttttccaacaaaagtagtgaaaaaatctatcgtgtaaaatgaaacatgtatatttgcgcatgaatcaaaaataaaaacatc 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================================================ ctacttaaatatttcttacgcgtttattttcgtcatttttccaacaaaagtagtgaaaaaatctatcgtgtaaaatgaaacatgtatatttgcgcatgaatcaaaaataaaaacatc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0077:TF0078|TF0077:TF0078:hypothetical protein:aminopeptidase C, peptidase C1-like family:->->:84552..84668 117 ctacttaaatatttcttacgcgtttattttcgtcatttttccaacaaaagtagtgaaaaaatctatcgtgtaaaatgaaacatgtatatttgcgcatgaatcaaaaataaaaacatc Intra-Species Hit: Count: 1 Min: 1 Max: 117 Len: 117 Subject: tfor_TF0077_TF0078|hypothetical protein:aminopeptidase C, peptidase C1-like family|POSITIVE:POSITIVE|[84552,84668]|117 HSP 1 e-value: 2.0E-60 bit: 232.0 Len: 117 Query Start:1 Query End:117 Subject Strand: POSITIVE Subject Start: 1 Subject End: 117 ctacttaaatatttcttacgcgtttattttcgtcatttttccaacaaaagtagtgaaaaaatctatcgtgtaaaatgaaacatgtatatttgcgcatgaatcaaaaataaaaacatc ctacttaaatatttcttacgcgtttattttcgtcatttttccaacaaaagtagtgaaaaaatctatcgtgtaaaatgaaacatgtatatttgcgcatgaatcaaaaataaaaacatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUACUUAAAUAUUUCUUACGCGUUUAUUUUCGUCAUUUUUCCAACAAAAGUAGUGAAAAAAUCUAUCGUGUAAAAUGAAACAUGUAUAUUUGCGCAUGAAUCAAAAAUAAAAACAUC ...............(((((((....((((((..((((((.....))))))..)))))).......)))))))..(((..(((((........)))))..))).............. (-17.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUGUUUUUAUUUUUGAUUCAUGCGCAAAUAUACAUGUUUCAUUUUACACGAUAGAUUUUUUCACUACUUUUGUUGGAAAAAUGACGAAAAUAAACGCGUAAGAAAUAUUUAAGUAG .((((.((((((((((...((((..........))))..(((((((.(.(((((((.............)))))))).))))))))))))))))).))))................. (-18.62) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 244 69 21 160 118 tfor:TF0927|5end_conserved_hypothetical_protein;_possible_ATPase_of_the_AAA_superfamily_963456..963686_POSITIVE 241 60 16 178 121 tfor:TF1634|5end_hypothetical_protein_1746831..1747061_POSITIVE 237 68 21 135 89 tfor:TF1802|5end_conserved_hypothetical_protein_1945656..1945886_POSITIVE 234 42 11 32 3 tfor:TF3144|5end_phosphomannomutase/phosphoglucomutase_3379356..3379586_POSITIVE 217 56 15 94 64 tfor:TF2981|5end_conserved_hypothetical_protein_3195969..3196199_POSITIVE 217 60 12 69 14 tfor:TF1341|5end_glycogen_synthase_1422251..1422481_POSITIVE 211 70 21 154 110 tfor:TF1579|5end_hypothetical_protein_1686889..1687119_POSITIVE 211 108 73 222 182 tfor:TF0603|5end_glycosyltransferase_633811..634041_POSITIVE 207 54 17 67 24 tfor:TF0422|5end_proline_dehydrogenase_437449..437679_POSITIVE 206 31 1 177 153 tfor:TF0326|5end_hypothetical_protein_353854..354084_POSITIVE 206 31 1 41 17 tfor:TF0327|5end_hypothetical_protein_353718..353948_POSITIVE 203 33 9 60 35 tfor:TF1544|5end_possible_transcriptional_regulator_1650910..1651140_POSITIVE 201 98 59 51 13 tfor:TF1407|5end_hypothetical_protein_1482185..1482415_POSITIVE 199 46 17 36 2 tfor:TF2450|5end_outer_membrane_protein_2626471..2626701_POSITIVE 199 95 52 128 90 tfor:TF0458|5end_hypothetical_protein_474902..475132_POSITIVE 199 103 65 193 157 tfor:TF0456|5end_conserved_hypothetical_protein_473403..473633_POSITIVE 198 59 15 220 173 tfor:TF2315|5end_thioesterase_2473996..2474226_POSITIVE 198 70 27 209 172 tfor:TF1593|5end_hypothetical_protein_1708859..1709089_POSITIVE 198 70 27 224 187 tfor:TF1591|5end_surface_antigen_BspA_1706387..1706617_POSITIVE 197 38 19 39 20 tfor:TF2652|5end_hypothetical_protein_2821803..2822033_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 241 60 16 98 41 tfor:TF1635|3end_conserved_hypothetical_protein;_possible_helicase_1746831..1746981_POSITIVE 239 69 21 73 36 tfor:TF2607|3end_conserved_hypothetical_protein_2784645..2784795_POSITIVE 237 68 21 68 22 tfor:TF1801|3end_conserved_hypothetical_protein;_possible_TPR-repeat-containing_protein_1945669..1945819_POSITIVE 211 52 12 59 21 tfor:TF2659|3end_conserved_hypothetical_protein_2833055..2833205_POSITIVE 206 31 1 27 3 tfor:TF0325|3end_LysM_domain_protein_353784..353934_POSITIVE 203 105 61 99 53 tfor:TF2583|3end_possible_ABC_transporter,__permease_component_2751026..2751176_POSITIVE 201 98 59 67 29 tfor:TF1406|3end_transposase_1482281..1482431_POSITIVE 199 95 52 113 75 tfor:TF0457|3end_beta-glucanase_precursor_474967..475117_POSITIVE 198 60 11 119 72 tfor:TF2881|3end_conserved_hypothetical_protein_3072380..3072530_POSITIVE 197 94 53 121 68 tfor:TF0240|3end_conserved_hypothetical_protein;_possible_gycosyltransferase_I_family_protein_271407..271557_POSITIVE 195 61 27 37 3 tfor:TF3116|3end_conserved_hypothetical_protein_3352413..3352563_POSITIVE 194 98 64 141 112 tfor:TF1881|3end_hypothetical_protein_2034052..2034202_POSITIVE 191 57 19 95 64 tfor:TF2215|3end_conserved_hypothetical_protein_2388249..2388399_POSITIVE 186 35 9 41 11 tfor:TF2384|3end_thiol:disulfide_interchange_protein_2550756..2550906_POSITIVE 183 70 27 93 41 tfor:TF1184|3end_hypothetical_protein_1269311..1269461_POSITIVE 183 55 14 130 86 tfor:TF0414|3end_N-ethylammeline_chlorohydrolase_433128..433278_POSITIVE 182 33 15 132 113 tfor:TF2008|3end_DNA_polymerase_I_2162183..2162333_POSITIVE 181 99 51 140 98 tfor:TF0775|3end_ABC_transporter,_permease_component_824919..825069_POSITIVE 180 70 21 114 68 tfor:TF1244|3end_hypothetical_protein_1328813..1328963_POSITIVE 180 52 12 45 1 tfor:TF0598|3end_hypothetical_protein_629500..629650_POSITIVE