Origin IGS: taatttagagatattaacaaacataaaaggcattgattaaattataaggaaaatcgcaaagcaatgttgaacaaatataaggctgcactgcgtgttaccgattaatttgctaactatctgaaaaaaggaagtcatttttttgttctttccttgatttagtgtatctttgcaaaaagaaaatcttaacgttggagggcggttaatggcacttagcaacctccatatacaaatctatttacatacagagcaatatgattctatttttcttggcttctaatgacactgtcattgctactgaaatcgaccacaaccctacgcaggaagaggttgaaaagttgagttggctttatggcaacgcaaag .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctttgcgttgccataaagccaactcaacttttcaacctcttcctgcgtagggttgtggtcgatttcagtagcaatgacagtgtcattagaagccaagaaaaatagaatcatattgctctgtatgtaaatagatttgtatatggaggttgctaagtgccattaaccgccctccaacgttaagattttctttttgcaaagatacactaaatcaaggaaagaacaaaaaaatgacttccttttttcagatagttagcaaattaatcggtaacacgcagtgcagccttatatttgttcaacattgctttgcgattttccttataatttaatcaatgccttttatgtttgttaatatctctaaatta Mask Tandem Repeat Region ================================================ taatttagagatattaacaaacataaaaggcattgattaaattataaggaaaatcgcaaagcaatgttgaacaaatataaggctgcactgcgtgttaccgattaatttgctaactatctgaaaaaaggaagtcatttttttgttctttccttgatttagtgtatctttgcaaaaagaaaatcttaacgttggagggcggttaatggcacttagcaacctccatatacaaatctatttacatacagagcaatatgattctatttttcttggcttctaatgacactgtcattgctactgaaatcgaccacaaccctacgcaggaagaggttgaaaagttgagttggctttatggcaacgcaaag Find is-nt database================================================ Query_seq: PI1862:PI1863|PI1862:PI1863:hypothetical protein:phosphoribosylformylglycinamidine synthase:->->:1806452..1806813 362 taatttagagatattaacaaacataaaaggcattgattaaattataaggaaaatcgcaaagcaatgttgaacaaatataaggctgcactgcgtgttaccgattaatttgctaactatctgaaaaaaggaagtcatttttttgttctttccttgatttagtgtatctttgcaaaaagaaaatcttaacgttggagggcggttaatggcacttagcaacctccatatacaaatctatttacatacagagcaatatgattctatttttcttggcttctaatgacactgtcattgctactgaaatcgaccacaaccctacgcaggaagaggttgaaaagttgagttggctttatggcaacgcaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1862:PI1863|PI1862:PI1863:hypothetical protein:phosphoribosylformylglycinamidine synthase:->->:1806452..1806813 362 taatttagagatattaacaaacataaaaggcattgattaaattataaggaaaatcgcaaagcaatgttgaacaaatataaggctgcactgcgtgttaccgattaatttgctaactatctgaaaaaaggaagtcatttttttgttctttccttgatttagtgtatctttgcaaaaagaaaatcttaacgttggagggcggttaatggcacttagcaacctccatatacaaatctatttacatacagagcaatatgattctatttttcttggcttctaatgacactgtcattgctactgaaatcgaccacaaccctacgcaggaagaggttgaaaagttgagttggctttatggcaacgcaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1862:PI1863|PI1862:PI1863:hypothetical protein:phosphoribosylformylglycinamidine synthase:->->:1806452..1806813 362 taatttagagatattaacaaacataaaaggcattgattaaattataaggaaaatcgcaaagcaatgttgaacaaatataaggctgcactgcgtgttaccgattaatttgctaactatctgaaaaaaggaagtcatttttttgttctttccttgatttagtgtatctttgcaaaaagaaaatcttaacgttggagggcggttaatggcacttagcaacctccatatacaaatctatttacatacagagcaatatgattctatttttcttggcttctaatgacactgtcattgctactgaaatcgaccacaaccctacgcaggaagaggttgaaaagttgagttggctttatggcaacgcaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatttagagatattaacaaacataaaaggcattgattaaattataaggaaaatcgcaaagcaatgttgaacaaatataaggctgcactgcgtgttaccgattaatttgctaactatctgaaaaaaggaagtcatttttttgttctttccttgatttagtgtatctttgcaaaaagaaaatcttaacgttggagggcggttaatggcacttagcaacctccatatacaaatctatttacatacagagcaatatgattctatttttcttggcttctaatgacactgtcattgctactgaaatcgaccacaaccctacgcaggaagaggttgaaaagttgagttggctttatggcaacgcaaag Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 167 End: 274 ...................................................................................................................................................................... M Q K E N L N V G G R L M A L S N L H I Q I Y L H T E Q Y D S I F L G F ........................................................................................ Protein_Len: 47 Strand: + Start: 222 End: 362 ............................................................................................................................................................................................................................. M Y K S I Y I Q S N M I L F F L A S N D T V I A T E I D H N P T Q E E V E K L S W L Y G N A K Protein_Len: 30 Strand: - Start: 261 End: 350 .................................................................................................................................................................................................................................................................... K E Q S R I V S D N S S F D V V V R R L F L N F L Q T P K M ............ Protein_Len: 60 Strand: - Start: 40 End: 231 ....................................... I A F C H Q V F I L S C Q T N G I L K S V I Q F F S T M K K N K G Q N L T D K C F S F R L T P P R N I A S L L R W I C M ................................................................................................................................... taatttagagatattaacaaacataaaaggcattgattaaattataaggaaaatcgcaaagcaatgttgaacaaatataaggctgcactgcgtgttaccgattaatttgctaactatctgaaaaaaggaagtcatttttttgttctttccttgatttagtgtatctttgcaaaaagaaaatcttaacgttggagggcggttaatggcacttagcaacctccatatacaaatctatttacatacagagcaatatgattctatttttcttggcttctaatgacactgtcattgctactgaaatcgaccacaaccctacgcaggaagaggttgaaaagttgagttggctttatggcaacgcaaag 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================================================ PromScan Matrix: RpoN Strand: + Score: 81 Start: 277 End: 293 ....................................................................................................................................................................................................................................................................................ATGACACTGTCATTGCT..................................................................... taatttagagatattaacaaacataaaaggcattgattaaattataaggaaaatcgcaaagcaatgttgaacaaatataaggctgcactgcgtgttaccgattaatttgctaactatctgaaaaaaggaagtcatttttttgttctttccttgatttagtgtatctttgcaaaaagaaaatcttaacgttggagggcggttaatggcacttagcaacctccatatacaaatctatttacatacagagcaatatgattctatttttcttggcttctaatgacactgtcattgctactgaaatcgaccacaaccctacgcaggaagaggttgaaaagttgagttggctttatggcaacgcaaag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1862:PI1863|PI1862:PI1863:hypothetical protein:phosphoribosylformylglycinamidine synthase:->->:1806452..1806813 362 taatttagagatattaacaaacataaaaggcattgattaaattataaggaaaatcgcaaagcaatgttgaacaaatataaggctgcactgcgtgttaccgattaatttgctaactatctgaaaaaaggaagtcatttttttgttctttccttgatttagtgtatctttgcaaaaagaaaatcttaacgttggagggcggttaatggcacttagcaacctccatatacaaatctatttacatacagagcaatatgattctatttttcttggcttctaatgacactgtcattgctactgaaatcgaccacaaccctacgcaggaagaggttgaaaagttgagttggctttatggcaacgcaaag Intra-Species Hit: Count: 1 Min: 1 Max: 362 Len: 362 Subject: pint_PI1862_PI1863|hypothetical protein:phosphoribosylformylglycinamidine synthase|POSITIVE:POSITIVE|[1806452,1806813]|362 HSP 1 e-value: 0.0 bit: 676.0 Len: 362 Query Start:1 Query End:362 Subject Strand: POSITIVE Subject Start: 1 Subject End: 362 taatttagagatattaacaaacataaaaggcattgattaaattataaggaaaatcgcaaagcaatgttgaacaaatataaggctgcactgcgtgttaccgattaatttgctaactatctgaaaaaaggaagtcannnnnnngttctttccttgatttagtgtatctttgcaaaaagaaaatcttaacgttggagggcggttaatggcacttagcaacctccatatacaaatctatttacatacagagcaatatgattctatttttcttggcttctaatgacactgtcattgctactgaaatcgaccacaaccctacgcaggaagaggttgaaaagttgagttggctttatggcaacgcaaag taatttagagatattaacaaacataaaaggcattgattaaattataaggaaaatcgcaaagcaatgttgaacaaatataaggctgcactgcgtgttaccgattaatttgctaactatctgaaaaaaggaagtcatttttttgttctttccttgatttagtgtatctttgcaaaaagaaaatcttaacgttggagggcggttaatggcacttagcaacctccatatacaaatctatttacatacagagcaatatgattctatttttcttggcttctaatgacactgtcattgctactgaaatcgaccacaaccctacgcaggaagaggttgaaaagttgagttggctttatggcaacgcaaag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUAGAGAUAUUAACAAACAUAAAAGGCAUUGAUUAAAUUAUAAGGAAAAUCGCAAAGCAAUGUUGAACAAAUAUAAGGCUGCACUGCGUGUUACCGAUUAAUUUGCUAACUAUCUGAAAAAAGGAAGUCAUUUUUUUGUUCUUUCCUUGAUUUAGUGUAUCUUUGCAAAAAGAAAAUCUUAACGUUGGAGGGCGGUUAAUGGCACUUAGCAACCUCCAUAUACAAAUCUAUUUACAUACAGAGCAAUAUGAUUCUAUUUUUCUUGGCUUCUAAUGACACUGUCAUUGCUACUGAAAUCGACCACAACCCUACGCAGGAAGAGGUUGAAAAGUUGAGUUGGCUUUAUGGCAACGCAAAG ...(((((...................((((......(((((((...((((...((((.(((.(((((.....)))))...)))....))))..)).))...)))))))..........((((((.((((.((((....(((((((......(((((.((((((((((....)))))............((((((...(((((......)))))..))))))))))))))))...........))))))).)))))))).))))))...)))).(((((((...)))))))...))))).((((((.(..((.......))..).))))))....(((.((((.(.....).)))).))).. (-75.73) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUGCGUUGCCAUAAAGCCAACUCAACUUUUCAACCUCUUCCUGCGUAGGGUUGUGGUCGAUUUCAGUAGCAAUGACAGUGUCAUUAGAAGCCAAGAAAAAUAGAAUCAUAUUGCUCUGUAUGUAAAUAGAUUUGUAUAUGGAGGUUGCUAAGUGCCAUUAACCGCCCUCCAACGUUAAGAUUUUCUUUUUGCAAAGAUACACUAAAUCAAGGAAAGAACAAAAAAAUGACUUCCUUUUUUCAGAUAGUUAGCAAAUUAAUCGGUAACACGCAGUGCAGCCUUAUAUUUGUUCAACAUUGCUUUGCGAUUUUCCUUAUAAUUUAAUCAAUGCCUUUUAUGUUUGUUAAUAUCUCUAAAUUA ((((((((((.(.....).))))..............((((...((((.(((..(((((..((..((.(((((((..((((((.(((..................))).))))))(((((((((((((....))))))))))))))))))))..))..))..)))))..))).)))).))))..........))))))............((((((................)))))).....(((((.((((((((((((..((((...(((((.((((..................)))).))))).......(((.....)))....))))..))).))))))))))))))........ (-67.23) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 449 339 291 138 81 pint:PI0198|5end_hypothetical_protein_190719..190949_POSITIVE 347 227 187 207 167 pint:PI0323|5end_hypothetical_protein_305349..305579_POSITIVE 342 129 81 203 142 pint:PI2171|5end_conserved_hypothetical_protein_2112735..2112965_POSITIVE 326 329 281 222 172 pint:PI0953|5end_hypothetical_protein_885119..885349_POSITIVE 321 360 312 64 17 pint:PI1736|5end_topoisomerase_IV,_subunit_A_1654254..1654484_POSITIVE 317 349 303 113 53 pint:PI1908|5end_transcriptional_regulator,_AraC_family_1852261..1852491_POSITIVE 317 320 272 225 172 pint:PI0109|5end_hypothetical_protein_106717..106947_POSITIVE 314 318 271 69 22 pint:PI1586|5end_possible_HesA/MoeB/ThiF_family_protein_1514372..1514602_POSITIVE 313 330 288 197 149 pint:PI1525|5end_CDP-diacylglycerol--serine_O-phosphatidyltransferase_1446758..1446988_POSITIVE 310 358 312 78 31 pint:PI1028|5end_glutamate_synthase,_small_subunit_943420..943650_POSITIVE 308 358 311 219 165 pint:PI2094|5end_hypothetical_protein_2049540..2049770_POSITIVE 308 330 287 179 126 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 306 360 313 68 13 pint:PI0145|5end_secDF_export_membrane_protein_136627..136857_POSITIVE 305 330 281 58 1 pint:PI1025|5end_tRNA_modification_GTPase_940752..940982_POSITIVE 300 116 79 90 54 pint:PI1720|5end_conserved_hypothetical_protein_1636146..1636376_POSITIVE 298 220 172 161 112 pint:PI0996|5end_hypothetical_protein_920458..920688_POSITIVE 297 345 302 140 96 pint:PI0062|5end_endopeptidase_60963..61193_POSITIVE 293 117 81 198 154 pint:PI0006|5end_hypothetical_protein_7199..7429_POSITIVE 292 97 55 208 159 pint:PI0554|5end_hypothetical_protein_504415..504645_POSITIVE 291 327 282 48 6 pint:PI1171|5end_hypothetical_protein_1091328..1091558_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 343 209 161 88 27 pint:PI2037|3end_TIM-barrel_protein,_NifR3_family_1990369..1990519_POSITIVE 333 119 77 118 70 pint:PI0492|3end_hypothetical_protein_452458..452608_POSITIVE 321 360 312 53 6 pint:PI1735|3end_conserved_hypothetical_protein_1654323..1654473_POSITIVE 310 327 281 142 102 pint:PI0203|3end_conserved_hypothetical_protein_196064..196214_POSITIVE 301 355 312 71 20 pint:PI0576|3end_helicase,_UvrD/Rep_521724..521874_POSITIVE 300 116 79 71 35 pint:PI1719|3end_conserved_hypothetical_protein_1636207..1636357_POSITIVE 295 101 67 136 107 pint:PI2170|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_2112788..2112938_POSITIVE 294 358 316 113 63 pint:PI0047|3end_phosphomethylpyrimidine_kinase_46781..46931_POSITIVE 292 97 55 96 47 pint:PI0553|3end_recombination_protein_504383..504533_POSITIVE 288 359 316 106 56 pint:PI0944|3end_hypothetical_protein_875249..875399_POSITIVE 287 357 325 27 1 pint:PI1671|3end_hypothetical_protein_1586653..1586803_POSITIVE 279 329 281 125 78 pint:PI0928|3end_hypothetical_protein_860272..860422_POSITIVE 279 218 181 150 101 pint:PI0068|3end_arginine_repressor_67019..67169_POSITIVE 275 217 180 110 65 pint:PI0202|3end_DNA_helicase_195189..195339_POSITIVE 268 345 302 87 49 pint:PI1488|3end_hypothetical_protein_1407829..1407979_POSITIVE 265 338 314 150 124 pint:PI1407|3end_conserved_hypothetical_protein_1329116..1329266_POSITIVE 261 200 159 59 15 pint:PI1649|3end_hypothetical_protein_1563441..1563591_POSITIVE 259 127 81 141 97 pint:PI0838|3end_DNA_replication_and_repair_protein_773927..774077_POSITIVE 258 320 278 37 1 pint:PI0355|3end_probable__N-acetylmuramoyl-L-alanine_amidase_326698..326848_POSITIVE 257 220 183 105 50 pint:PI1790|3end_hypothetical_protein_1722762..1722912_POSITIVE