Origin IGS: gtctatttcttatgattgtgcaaatatacttaaaatgtttgaaatgcgtgcaatgaaaatgtttctttatgctttacaatatgacttcaagaagtattgaaacactcaaaaaatagggaaaaacctatattaagttagggaaaatccgtatatttgcacaataagatgtagtatttttgcatcagatagaaaagaaaacagaaggaaaacagaataaaagaaagagatggaggtaataatatgaaaaagtttgttctactttcagttatggctcttgccttaccaacagctttgttggcgcaagacgatgtgtatttca .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaaatacacatcgtcttgcgccaacaaagctgttggtaaggcaagagccataactgaaagtagaacaaactttttcatattattacctccatctctttcttttattctgttttccttctgttttcttttctatctgatgcaaaaatactacatcttattgtgcaaatatacggattttccctaacttaatataggtttttccctattttttgagtgtttcaatacttcttgaagtcatattgtaaagcataaagaaacattttcattgcacgcatttcaaacattttaagtatatttgcacaatcataagaaatagac Mask Tandem Repeat Region ================================================ gtctatttcttatgattgtgcaaatatacttaaaatgtttgaaatgcgtgcaatgaaaatgtttctttatgctttacaatatgacttcaagaagtattgaaacactcaaaaaatagggaaaaacctatattaagttagggaaaatccgtatatttgcacaataagatgtagtatttttgcatcagatagaaaagaaaacagaaggaaaacagaataaaagaaagagatggaggtaataatatgaaaaagtttgttctactttcagttatggctcttgccttaccaacagctttgttggcgcaagacgatgtgtatttca Find is-nt database================================================ Query_seq: PI0930:PI0931|PI0930:PI0931:alpha-L-fucosidase precursor:hypothetical protein:->->:862473..862791 319 gtctatttcttatgattgtgcaaatatacttaaaatgtttgaaatgcgtgcaatgaaaatgtttctttatgctttacaatatgacttcaagaagtattgaaacactcaaaaaatagggaaaaacctatattaagttagggaaaatccgtatatttgcacaataagatgtagtatttttgcatcagatagaaaagaaaacagaaggaaaacagaataaaagaaagagatggaggtaataatatgaaaaagtttgttctactttcagttatggctcttgccttaccaacagctttgttggcgcaagacgatgtgtatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0930:PI0931|PI0930:PI0931:alpha-L-fucosidase precursor:hypothetical protein:->->:862473..862791 319 gtctatttcttatgattgtgcaaatatacttaaaatgtttgaaatgcgtgcaatgaaaatgtttctttatgctttacaatatgacttcaagaagtattgaaacactcaaaaaatagggaaaaacctatattaagttagggaaaatccgtatatttgcacaataagatgtagtatttttgcatcagatagaaaagaaaacagaaggaaaacagaataaaagaaagagatggaggtaataatatgaaaaagtttgttctactttcagttatggctcttgccttaccaacagctttgttggcgcaagacgatgtgtatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0930:PI0931|PI0930:PI0931:alpha-L-fucosidase precursor:hypothetical protein:->->:862473..862791 319 gtctatttcttatgattgtgcaaatatacttaaaatgtttgaaatgcgtgcaatgaaaatgtttctttatgctttacaatatgacttcaagaagtattgaaacactcaaaaaatagggaaaaacctatattaagttagggaaaatccgtatatttgcacaataagatgtagtatttttgcatcagatagaaaagaaaacagaaggaaaacagaataaaagaaagagatggaggtaataatatgaaaaagtttgttctactttcagttatggctcttgccttaccaacagctttgttggcgcaagacgatgtgtatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtctatttcttatgattgtgcaaatatacttaaaatgtttgaaatgcgtgcaatgaaaatgtttctttatgctttacaatatgacttcaagaagtattgaaacactcaaaaaatagggaaaaacctatattaagttagggaaaatccgtatatttgcacaataagatgtagtatttttgcatcagatagaaaagaaaacagaaggaaaacagaataaaagaaagagatggaggtaataatatgaaaaagtttgttctactttcagttatggctcttgccttaccaacagctttgttggcgcaagacgatgtgtatttca Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 5 End: 97 .... M S Y D C A N I L K M F E M R A M K M F L Y A L Q Y D F K K Y .............................................................................................................................................................................................................................. Protein_Len: 35 Strand: + Start: 214 End: 318 ..................................................................................................................................................................................................................... M K E R D G G N N M K K F V L L S V M A L A L P T A L L A Q D D V Y F . Protein_Len: 44 Strand: - Start: 138 End: 269 ......................................................................................................................................... P F D T Y K C L L I Y Y K Q M L Y F L F C F S F L I F S L S P P L L I F F N T R S E T M .................................................. Protein_Len: 36 Strand: - Start: 133 End: 240 .................................................................................................................................... T L S F G Y I Q V I L H L I K A D S L F S F L L F V S Y F F S I S T I M ............................................................................... gtctatttcttatgattgtgcaaatatacttaaaatgtttgaaatgcgtgcaatgaaaatgtttctttatgctttacaatatgacttcaagaagtattgaaacactcaaaaaatagggaaaaacctatattaagttagggaaaatccgtatatttgcacaataagatgtagtatttttgcatcagatagaaaagaaaacagaaggaaaacagaataaaagaaagagatggaggtaataatatgaaaaagtttgttctactttcagttatggctcttgccttaccaacagctttgttggcgcaagacgatgtgtatttca 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================================================ gtctatttcttatgattgtgcaaatatacttaaaatgtttgaaatgcgtgcaatgaaaatgtttctttatgctttacaatatgacttcaagaagtattgaaacactcaaaaaatagggaaaaacctatattaagttagggaaaatccgtatatttgcacaataagatgtagtatttttgcatcagatagaaaagaaaacagaaggaaaacagaataaaagaaagagatggaggtaataatatgaaaaagtttgttctactttcagttatggctcttgccttaccaacagctttgttggcgcaagacgatgtgtatttca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0930:PI0931|PI0930:PI0931:alpha-L-fucosidase precursor:hypothetical protein:->->:862473..862791 319 gtctatttcttatgattgtgcaaatatacttaaaatgtttgaaatgcgtgcaatgaaaatgtttctttatgctttacaatatgacttcaagaagtattgaaacactcaaaaaatagggaaaaacctatattaagttagggaaaatccgtatatttgcacaataagatgtagtatttttgcatcagatagaaaagaaaacagaaggaaaacagaataaaagaaagagatggaggtaataatatgaaaaagtttgttctactttcagttatggctcttgccttaccaacagctttgttggcgcaagacgatgtgtatttca Intra-Species Hit: Count: 1 Min: 1 Max: 319 Len: 319 Subject: pint_PI0930_PI0931|alpha-L-fucosidase precursor:hypothetical protein|POSITIVE:POSITIVE|[862473,862791]|319 HSP 1 e-value: 1.0E-101 bit: 371.0 Len: 187 Query Start:1 Query End:187 Subject Strand: POSITIVE Subject Start: 1 Subject End: 187 gtctatttcttatgattgtgcaaatatacttaaaatgtttgaaatgcgtgcaatgaaaatgtttctttatgctttacaatatgacttcaagaagtattgaaacactcaaaaaatagggaaaaacctatattaagttagggaaaatccgtatatttgcacaataagatgtagtatttttgcatcagat.................................................................................................................................... gtctatttcttatgattgtgcaaatatacttaaaatgtttgaaatgcgtgcaatgaaaatgtttctttatgctttacaatatgacttcaagaagtattgaaacactcaaaaaatagggaaaaacctatattaagttagggaaaatccgtatatttgcacaataagatgtagtatttttgcatcagat.................................................................................................................................... HSP 2 e-value: 7.0E-32 bit: 139.0 Len: 70 Query Start:250 Query End:319 Subject Strand: POSITIVE Subject Start: 250 Subject End: 319 .........................................................................................................................................................................................................................................................tttgttctactttcagttatggctcttgccttaccaacagctttgttggcgcaagacgatgtgtatttca .........................................................................................................................................................................................................................................................tttgttctactttcagttatggctcttgccttaccaacagctttgttggcgcaagacgatgtgtatttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUCUAUUUCUUAUGAUUGUGCAAAUAUACUUAAAAUGUUUGAAAUGCGUGCAAUGAAAAUGUUUCUUUAUGCUUUACAAUAUGACUUCAAGAAGUAUUGAAACACUCAAAAAAUAGGGAAAAACCUAUAUUAAGUUAGGGAAAAUCCGUAUAUUUGCACAAUAAGAUGUAGUAUUUUUGCAUCAGAUAGAAAAGAAAACAGAAGGAAAACAGAAUAAAAGAAAGAGAUGGAGGUAAUAAUAUGAAAAAGUUUGUUCUACUUUCAGUUAUGGCUCUUGCCUUACCAACAGCUUUGUUGGCGCAAGACGAUGUGUAUUUCA .(((.((((((...(((((((((((((((........(((((..((....)).......((((((...(((((((...............))))))).)))))).)))))..(((((......)))))...................)))))))))))))))..(((((((.....)))))))........))))))..))).((((.(((................((((((((..((((..........)))).))))))))..(((.(.((((((....(((((......))))).))))))).)))))).)))). (-71.56) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAUACACAUCGUCUUGCGCCAACAAAGCUGUUGGUAAGGCAAGAGCCAUAACUGAAAGUAGAACAAACUUUUUCAUAUUAUUACCUCCAUCUCUUUCUUUUAUUCUGUUUUCCUUCUGUUUUCUUUUCUAUCUGAUGCAAAAAUACUACAUCUUAUUGUGCAAAUAUACGGAUUUUCCCUAACUUAAUAUAGGUUUUUCCCUAUUUUUUGAGUGUUUCAAUACUUCUUGAAGUCAUAUUGUAAAGCAUAAAGAAACAUUUUCAUUGCACGCAUUUCAAACAUUUUAAGUAUAUUUGCACAAUCAUAAGAAAUAGAC .((((.(((.....(((((((((((((....)))))))...))))))...((((..(((((.(((...........................))))))))..))))..)))))))..(((((((.(((........((((...........))))..(((((((((((((((............((((((.(((((......)))))...))))))(((((...((((....)))).....((.....))....)))))...............................)))))))))))))))...)))))))))). (-61.83) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 352 310 271 184 143 pint:PI1726|5end_ATP-dependent_DNA_helicase_1643402..1643632_POSITIVE 352 310 263 229 179 pint:PI0751|5end_conserved_hypothetical_protein_680623..680853_POSITIVE 329 307 263 53 1 pint:PI0241|5end_possible_tetracycline_resistance_element_/mobilization_regulatory_protein_239627..239857_POSITIVE 323 310 263 219 177 pint:PI0684|5end_coproporphyrinogen_III_oxidase_619357..619587_POSITIVE 323 310 263 154 112 pint:PI0683|5end_hypothetical_protein_619292..619522_POSITIVE 313 302 269 194 153 pint:PI1000|5end_conserved_hypothetical_protein_923332..923562_POSITIVE 304 308 268 85 48 pint:PI0676|5end_hypothetical_protein_614576..614806_POSITIVE 300 270 225 204 168 pint:PI2054|5end_hypothetical_protein_2012883..2013113_POSITIVE 294 310 270 61 19 pint:PI1636|5end_hypothetical_protein_1554246..1554476_POSITIVE 293 309 268 178 124 pint:PI0008|5end_exoribonuclease_II_(ribonuclease_II)_7238..7468_POSITIVE 293 309 268 139 85 pint:PI0006|5end_hypothetical_protein_7199..7429_POSITIVE 292 306 269 171 143 pint:PI1822|5end_ABC_transporter,_ATP-binding_/_permease_1761452..1761682_POSITIVE 292 299 253 89 29 pint:PI0342|5end_hypothetical_protein_317556..317786_POSITIVE 291 307 263 81 28 pint:PI0703|5end_hypothetical_protein_639655..639885_POSITIVE 290 310 263 66 5 pint:PI1451|5end_outer_membrane_receptor_proteins,_tonB_dependent_(possibly_iron_transport_related)_1372931..1373161_POSITIVE 290 308 264 71 22 pint:PI0177|5end_2-oxoglutarate_synthase,_subunit_korB_168499..168729_POSITIVE 288 307 269 194 162 pint:PI0431|5end_Xaa-Pro_aminopeptidase_403064..403294_POSITIVE 287 304 267 90 39 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 283 298 251 205 150 pint:PI1024|5end_conserved_hypothetical_protein;_possible_nitroreductase_family_protein_940167..940397_POSITIVE 281 310 270 93 50 pint:PI0068|5end_arginine_repressor_66586..66816_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 313 302 269 118 77 pint:PI0998|3end_possible_flavin_reductase_domain_protein_923336..923486_POSITIVE 304 308 268 140 84 pint:PI1547|3end_hypothetical_protein_1466226..1466376_POSITIVE 302 310 269 38 2 pint:PI0681|3end_hypothetical_protein_619256..619406_POSITIVE 300 270 225 117 81 pint:PI2053|3end_conserved_hypothetical_protein;_possible_outer_membrane_receptor_protein_2012876..2013026_POSITIVE 294 310 269 137 102 pint:PI1512|3end_hypothetical_protein_1429893..1430043_POSITIVE 293 309 263 134 66 pint:PI1141|3end_hypothetical_protein_1069713..1069863_POSITIVE 292 299 253 68 8 pint:PI0341|3end_conserved_hypothetical_protein_317615..317765_POSITIVE 289 299 254 141 85 pint:PI0036|3end_glutathione_peroxidase_39289..39439_POSITIVE 288 307 269 151 119 pint:PI0430|3end_periplasmic_protease;_MdsD_protein_403101..403251_POSITIVE 287 304 267 142 91 pint:PI1768|3end_conserved_hypothetical_protein_1696639..1696789_POSITIVE 283 298 251 109 54 pint:PI1022|3end_hypothetical_protein_940151..940301_POSITIVE 277 180 134 54 12 pint:PI0964|3end_conserved_hypothetical_protein_894187..894337_POSITIVE 272 304 265 122 87 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 269 305 266 134 88 pint:PI1338|3end_phosphoserine_phosphatase_1256594..1256744_POSITIVE 269 304 268 151 106 pint:PI0007|3end_hypothetical_protein_7300..7450_POSITIVE 267 295 251 146 98 pint:PI1023|3end_hypothetical_protein_940195..940345_POSITIVE 267 307 263 151 112 pint:PI0682|3end_hypothetical_protein_619372..619522_POSITIVE 265 310 261 151 108 pint:PI1336|3end_dTDP-4-dehydrorhamnose_3,5-epimerase_1254467..1254617_POSITIVE 262 290 241 149 97 pint:PI1074|3end_hypothetical_protein_995447..995597_POSITIVE 260 310 264 69 23 pint:PI2148|3end_ribonuclease_III_2095541..2095691_POSITIVE