Origin IGS: actaaagtcttcggtttcgcttaacgaaaattagggtacaaaataacaaaatctacggcgataatgattagttttgtgagttaaatttgattttcaggccgttcatataaacagatcgcaatattaaagctttaaaatacatcgttatatcagcactcatcatcgggtggataggctatgcgtttcccgca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgcgggaaacgcatagcctatccacccgatgatgagtgctgatataacgatgtattttaaagctttaatattgcgatctgtttatatgaacggcctgaaaatcaaatttaactcacaaaactaatcattatcgccgtagattttgttattttgtaccctaattttcgttaagcgaaaccgaagactttagt Mask Tandem Repeat Region ================================================ actaaagtcttcggtttcgcttaacgaaaattagggtacaaaataacaaaatctacggcgataatgattagttttgtgagttaaatttgattttcaggccgttcatataaacagatcgcaatattaaagctttaaaatacatcgttatatcagcactcatcatcgggtggataggctatgcgtttcccgca Find is-nt database================================================ Query_seq: TF1855:TF1856|TF1855:TF1856:O-sialoglycoprotein endopeptidase:conserved hypothetical protein:->->:2009918..2010108 191 actaaagtcttcggtttcgcttaacgaaaattagggtacaaaataacaaaatctacggcgataatgattagttttgtgagttaaatttgattttcaggccgttcatataaacagatcgcaatattaaagctttaaaatacatcgttatatcagcactcatcatcgggtggataggctatgcgtttcccgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1855:TF1856|TF1855:TF1856:O-sialoglycoprotein endopeptidase:conserved hypothetical protein:->->:2009918..2010108 191 actaaagtcttcggtttcgcttaacgaaaattagggtacaaaataacaaaatctacggcgataatgattagttttgtgagttaaatttgattttcaggccgttcatataaacagatcgcaatattaaagctttaaaatacatcgttatatcagcactcatcatcgggtggataggctatgcgtttcccgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1855:TF1856|TF1855:TF1856:O-sialoglycoprotein endopeptidase:conserved hypothetical protein:->->:2009918..2010108 191 actaaagtcttcggtttcgcttaacgaaaattagggtacaaaataacaaaatctacggcgataatgattagttttgtgagttaaatttgattttcaggccgttcatataaacagatcgcaatattaaagctttaaaatacatcgttatatcagcactcatcatcgggtggataggctatgcgtttcccgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actaaagtcttcggtttcgcttaacgaaaattagggtacaaaataacaaaatctacggcgataatgattagttttgtgagttaaatttgattttcaggccgttcatataaacagatcgcaatattaaagctttaaaatacatcgttatatcagcactcatcatcgggtggataggctatgcgtttcccgca Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 71 End: 172 ...................................................................... N Q S N F K I K L G N M Y V S R L I L A K F Y M T I D A S M M P H M ................... actaaagtcttcggtttcgcttaacgaaaattagggtacaaaataacaaaatctacggcgataatgattagttttgtgagttaaatttgattttcaggccgttcatataaacagatcgcaatattaaagctttaaaatacatcgttatatcagcactcatcatcgggtggataggctatgcgtttcccgca 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================================================ actaaagtcttcggtttcgcttaacgaaaattagggtacaaaataacaaaatctacggcgataatgattagttttgtgagttaaatttgattttcaggccgttcatataaacagatcgcaatattaaagctttaaaatacatcgttatatcagcactcatcatcgggtggataggctatgcgtttcccgca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1855:TF1856|TF1855:TF1856:O-sialoglycoprotein endopeptidase:conserved hypothetical protein:->->:2009918..2010108 191 actaaagtcttcggtttcgcttaacgaaaattagggtacaaaataacaaaatctacggcgataatgattagttttgtgagttaaatttgattttcaggccgttcatataaacagatcgcaatattaaagctttaaaatacatcgttatatcagcactcatcatcgggtggataggctatgcgtttcccgca Intra-Species Hit: Count: 1 Min: 1 Max: 191 Len: 191 Subject: tfor_TF1855_TF1856|O-sialoglycoprotein endopeptidase:conserved hypothetical protein|POSITIVE:POSITIVE|[2009918,2010108]|191 HSP 1 e-value: 1.0E-104 bit: 379.0 Len: 191 Query Start:1 Query End:191 Subject Strand: POSITIVE Subject Start: 1 Subject End: 191 actaaagtcttcggtttcgcttaacgaaaattagggtacaaaataacaaaatctacggcgataatgattagttttgtgagttaaatttgattttcaggccgttcatataaacagatcgcaatattaaagctttaaaatacatcgttatatcagcactcatcatcgggtggataggctatgcgtttcccgca actaaagtcttcggtttcgcttaacgaaaattagggtacaaaataacaaaatctacggcgataatgattagttttgtgagttaaatttgattttcaggccgttcatataaacagatcgcaatattaaagctttaaaatacatcgttatatcagcactcatcatcgggtggataggctatgcgtttcccgca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUAAAGUCUUCGGUUUCGCUUAACGAAAAUUAGGGUACAAAAUAACAAAAUCUACGGCGAUAAUGAUUAGUUUUGUGAGUUAAAUUUGAUUUUCAGGCCGUUCAUAUAAACAGAUCGCAAUAUUAAAGCUUUAAAAUACAUCGUUAUAUCAGCACUCAUCAUCGGGUGGAUAGGCUAUGCGUUUCCCGCA ...........(((...(((.....((((((((((.((((((((((((..(((......)))..)).)).)))))))).......)))))))))).((((....((((((...(((....((.((((....)))).))..))).))))))...(((((......)))))....))))..)))....))).. (-30.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCGGGAAACGCAUAGCCUAUCCACCCGAUGAUGAGUGCUGAUAUAACGAUGUAUUUUAAAGCUUUAAUAUUGCGAUCUGUUUAUAUGAACGGCCUGAAAAUCAAAUUUAACUCACAAAACUAAUCAUUAUCGCCGUAGAUUUUGUUAUUUUGUACCCUAAUUUUCGUUAAGCGAAACCGAAGACUUUAGU ..(((....(((.((((..........(((..(.((.(((((((((((((((((..((((....))))...))).))).).))))))...)))))).)..)))...........((((((.(((.((..(((......)))..)))))))))))............)))).)))...)))........... (-30.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 376 190 150 186 146 tfor:TF1921|5end_hypothetical_protein_2070322..2070552_POSITIVE 341 190 142 158 102 tfor:TF1551|5end_hypothetical_protein_1656864..1657094_POSITIVE 338 190 142 231 172 tfor:TF0292|5end_conserved_hypothetical_protein_320087..320317_POSITIVE 334 184 149 219 178 tfor:TF2583|5end_possible_ABC_transporter,__permease_component_2750206..2750436_POSITIVE 333 190 145 220 176 tfor:TF2620|5end_conserved_hypothetical_protein_2796121..2796351_POSITIVE 333 189 147 213 166 tfor:TF1874|5end_conserved_hypothetical_protein_2028060..2028290_POSITIVE 333 189 147 213 166 tfor:TF1132|5end_conserved_hypothetical_protein_1208926..1209156_POSITIVE 326 189 149 49 5 tfor:TF1951|5end_xanthosine_triphosphate_pyrophosphatase,_Ham1-like_protein_2100792..2101022_POSITIVE 320 189 142 166 106 tfor:TF2187|5end_conserved_hypothetical_protein_2361693..2361923_POSITIVE 319 189 141 218 150 tfor:TF1502|5end_exo-poly-alpha-D-galacturonosidase_precursor_1602796..1603026_POSITIVE 317 190 141 208 165 tfor:TF1070|5end_hydrolase_1139704..1139934_POSITIVE 311 187 141 91 45 tfor:TF2849|5end_histidinol-phosphate_transaminase_3037288..3037518_POSITIVE 310 190 151 46 3 tfor:TF2165|5end_hypothetical_protein_2341654..2341884_POSITIVE 310 176 131 223 174 tfor:TF1395|5end_signal_peptidase_I_1468266..1468496_POSITIVE 309 190 150 170 124 tfor:TF1699|5end_mobilization_protein,_BmgA_1819695..1819925_POSITIVE 309 189 147 196 141 tfor:TF0414|5end_N-ethylammeline_chlorohydrolase_431789..432019_POSITIVE 305 187 141 114 74 tfor:TF2785|5end_RNA_polymerase_sigma_factor,_ECF_subfamily_(sigma-70)_2969277..2969507_POSITIVE 304 190 153 188 142 tfor:TF2259|5end_transfer_region-related_protein,_TraK_2429577..2429807_POSITIVE 302 189 143 229 159 tfor:TF1460|5end_6-phosphogluconate_dehydrogenase_1549262..1549492_POSITIVE 297 189 141 214 157 tfor:TF1043|5end_conserved_hypothetical_protein;_possible_hydrolase_1105282..1105512_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 378 187 141 131 67 tfor:TF0531|3end_hypothetical_protein_557469..557619_POSITIVE 333 190 145 132 88 tfor:TF2618|3end_integral_membrane_protein,_possible_zinc_transporter_2796113..2796263_POSITIVE 311 187 141 112 66 tfor:TF2848|3end_cobalamin_biosynthesis_protein_3037389..3037539_POSITIVE 305 187 141 54 14 tfor:TF2783|3end_aminotransferase,_PatB_family_2969297..2969447_POSITIVE 297 189 141 147 90 tfor:TF1042|3end_possible_surface_antigen_with_leucine-rich_repeat_1105295..1105445_POSITIVE 292 189 142 69 31 tfor:TF1069|3end_glucokinase_regulatory_protein,_sugar_phosphate_isomerase_domain_1139794..1139944_POSITIVE 291 189 151 58 8 tfor:TF2829|3end_conserved_hypothetical_protein_3020661..3020811_POSITIVE 291 190 141 111 46 tfor:TF1575|3end_DNA-binding_response_regulator_1685895..1686045_POSITIVE 291 189 142 114 70 tfor:TF0279|3end_conserved_hypothetical_protein_308679..308829_POSITIVE 287 190 141 148 98 tfor:TF1784|3end_conserved_hypothetical_protein;_possible_formiminotransferase-cyclodeaminase_1924556..1924706_POSITIVE 287 190 141 102 48 tfor:TF0308|3end_hypothetical_protein_334082..334232_POSITIVE 284 190 143 71 17 tfor:TF2793|3end_possible_L-lysine_2,3-aminomutase_2979888..2980038_POSITIVE 283 186 143 144 98 tfor:TF2009|3end_octaprenyl-diphosphate_synthase_ispB_2163245..2163395_POSITIVE 282 190 143 126 86 tfor:TF2876|3end_cytosine_deaminase_3065664..3065814_POSITIVE 280 189 143 49 6 tfor:TF1241|3end_prolyl-tRNA_synthetase_1326272..1326422_POSITIVE 279 184 143 144 105 tfor:TF1358|3end_hypothetical_protein_1438879..1439029_POSITIVE 278 183 142 151 100 tfor:TF2899|3end_conserved_hypothetical_protein_3088345..3088495_POSITIVE 276 189 152 53 16 tfor:TF1245|3end_LemA_protein_1329462..1329612_POSITIVE 275 190 159 131 106 tfor:TF2819|3end_N-acetyl-gamma-glutamylphosphate_reductase_3009956..3010106_POSITIVE 275 167 128 42 4 tfor:TF2317|3end_3-oxoacyl-[acyl-carrier-protein]_synthase_II_2475667..2475817_POSITIVE