Origin IGS: ttggttgtagcgcaagatgtctgcgtggtcaatatacaccttggctccctgcttctgcttatctttttgtgcagaaacagagagcgacacgcttagtccaaacaggcatagaatcaagtaattgaagattctatgcccgtataagttcgttattcctttgttatttcgactca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgagtcgaaataacaaaggaataacgaacttatacgggcatagaatcttcaattacttgattctatgcctgtttggactaagcgtgtcgctctctgtttctgcacaaaaagataagcagaagcagggagccaaggtgtatattgaccacgcagacatcttgcgctacaaccaa Mask Tandem Repeat Region ================================================ ttggttgtagcgcaagatgtctgcgtggtcaatatacaccttggctccctgcttctgcttatctttttgtgcagaaacagagagcgacacgcttagtccaaacaggcatagaatcaagtaattgaagattctatgcccgtataagttcgttattcctttgttatttcgactca Find is-nt database================================================ Query_seq: PI1720:PI1721|PI1720:PI1721:conserved hypothetical protein:peptidyl-prolyl cis-trans isomerase, PPIC-type:->->:1638053..1638225 173 ttggttgtagcgcaagatgtctgcgtggtcaatatacaccttggctccctgcttctgcttatctttttgtgcagaaacagagagcgacacgcttagtccaaacaggcatagaatcaagtaattgaagattctatgcccgtataagttcgttattcctttgttatttcgactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1720:PI1721|PI1720:PI1721:conserved hypothetical protein:peptidyl-prolyl cis-trans isomerase, PPIC-type:->->:1638053..1638225 173 ttggttgtagcgcaagatgtctgcgtggtcaatatacaccttggctccctgcttctgcttatctttttgtgcagaaacagagagcgacacgcttagtccaaacaggcatagaatcaagtaattgaagattctatgcccgtataagttcgttattcctttgttatttcgactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1720:PI1721|PI1720:PI1721:conserved hypothetical protein:peptidyl-prolyl cis-trans isomerase, PPIC-type:->->:1638053..1638225 173 ttggttgtagcgcaagatgtctgcgtggtcaatatacaccttggctccctgcttctgcttatctttttgtgcagaaacagagagcgacacgcttagtccaaacaggcatagaatcaagtaattgaagattctatgcccgtataagttcgttattcctttgttatttcgactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttggttgtagcgcaagatgtctgcgtggtcaatatacaccttggctccctgcttctgcttatctttttgtgcagaaacagagagcgacacgcttagtccaaacaggcatagaatcaagtaattgaagattctatgcccgtataagttcgttattcctttgttatttcgactca Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 1 End: 93 M V V A Q D V C V V N I H L G S L L L L I F L C R N R E R H A ................................................................................ Protein_Len: 34 Strand: + Start: 17 End: 118 ................ M S A W S I Y T L A P C F C L S F C A E T E S D T L S P N R H R I K ....................................................... Protein_Len: 34 Strand: + Start: 21 End: 122 .................... M R G Q Y T P W L P A S A Y L F V Q K Q R A T R L V Q T G I E S S N ................................................... Protein_Len: 51 Strand: - Start: 1 End: 153 Q N Y R L I D A H D I Y V K A G Q K Q K D K Q A S V S L S V S L G F L C L I L Y N F I R H G Y L N T M .................... ttggttgtagcgcaagatgtctgcgtggtcaatatacaccttggctccctgcttctgcttatctttttgtgcagaaacagagagcgacacgcttagtccaaacaggcatagaatcaagtaattgaagattctatgcccgtataagttcgttattcctttgttatttcgactca 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================================================ ttggttgtagcgcaagatgtctgcgtggtcaatatacaccttggctccctgcttctgcttatctttttgtgcagaaacagagagcgacacgcttagtccaaacaggcatagaatcaagtaattgaagattctatgcccgtataagttcgttattcctttgttatttcgactca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 44 HP_score: -4.1 Tail_Score: -2.63501 Start: 101 End: 141 Full_Region: GACACGCTTAGTCCA AACAGGCATAGAATC AAGTAATTGAA GATTCTATGCCCGTA TAAGTTCGTTATTCC ....................................................................................................AACAGGCATAGAATCAAGTAATTGAAGATTCTATGCCCGTA................................ TransTerm Strand: - Conf: 75 HP_score: -8.9 Tail_Score: -3.60296 Start: 103 End: 139 Full_Region: aataacgaacttata cgggcatagaatc ttcaattactt gattctatgcctg tttggactaagcgtg ......................................................................................................cgggcatagaatcttcaattacttgattctatgcctg.................................. Find igs database================================================ Query_seq: PI1720:PI1721|PI1720:PI1721:conserved hypothetical protein:peptidyl-prolyl cis-trans isomerase, PPIC-type:->->:1638053..1638225 173 ttggttgtagcgcaagatgtctgcgtggtcaatatacaccttggctccctgcttctgcttatctttttgtgcagaaacagagagcgacacgcttagtccaaacaggcatagaatcaagtaattgaagattctatgcccgtataagttcgttattcctttgttatttcgactca Intra-Species Hit: Count: 1 Min: 1 Max: 173 Len: 173 Subject: pint_PI1720_PI1721|conserved hypothetical protein:peptidyl-prolyl cis-trans isomerase, PPIC-type|POSITIVE:POSITIVE|[1638053,1638225]|173 HSP 1 e-value: 1.0E-93 bit: 343.0 Len: 173 Query Start:1 Query End:173 Subject Strand: POSITIVE Subject Start: 1 Subject End: 173 ttggttgtagcgcaagatgtctgcgtggtcaatatacaccttggctccctgcttctgcttatctttttgtgcagaaacagagagcgacacgcttagtccaaacaggcatagaatcaagtaattgaagattctatgcccgtataagttcgttattcctttgttatttcgactca ttggttgtagcgcaagatgtctgcgtggtcaatatacaccttggctccctgcttctgcttatctttttgtgcagaaacagagagcgacacgcttagtccaaacaggcatagaatcaagtaattgaagattctatgcccgtataagttcgttattcctttgttatttcgactca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGGUUGUAGCGCAAGAUGUCUGCGUGGUCAAUAUACACCUUGGCUCCCUGCUUCUGCUUAUCUUUUUGUGCAGAAACAGAGAGCGACACGCUUAGUCCAAACAGGCAUAGAAUCAAGUAAUUGAAGAUUCUAUGCCCGUAUAAGUUCGUUAUUCCUUUGUUAUUUCGACUCA ..((..((((((...(((....(((((..(((........)))((((.(((.((((((.((......)).)))))).))).))))..)))))...)))...((.(((((((((((...........))))))))))).)).......)))))).))................. (-51.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGUCGAAAUAACAAAGGAAUAACGAACUUAUACGGGCAUAGAAUCUUCAAUUACUUGAUUCUAUGCCUGUUUGGACUAAGCGUGUCGCUCUCUGUUUCUGCACAAAAAGAUAAGCAGAAGCAGGGAGCCAAGGUGUAUAUUGACCACGCAGACAUCUUGCGCUACAACCAA ..((((.((......(((..........)))..((((((((((((((...........)))))))))))))))).)))).(((((...(((((((((((((((............))))))))))))))).(((((((...(((......)))))))))))))))........ (-61.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 373 99 51 73 18 pint:PI1767|5end_fructokinase,_pfkB_family_1694285..1694515_POSITIVE 339 110 68 180 147 pint:PI1068|5end_nucleolar_protein,_Sun_(Fmu)_family_protein;_tRNA/rRNA_cytosine-C5-methylase_984743..984973_POSITIVE 338 87 46 87 40 pint:PI0584|5end_hypothetical_protein_527352..527582_POSITIVE 325 49 1 226 182 pint:PI0617|5end_electron_transfer_flavoprotein,_alpha_subunit_566367..566597_POSITIVE 323 60 18 209 160 pint:PI0288|5end_hypothetical_protein_(possible_ISPg3-related_transposase)_272272..272502_POSITIVE 320 89 42 110 55 pint:PI1961|5end_hypothetical_protein_1918947..1919177_POSITIVE 319 60 11 212 164 pint:PI2134|5end_hypothetical_protein_2082269..2082499_POSITIVE 316 60 17 59 3 pint:PI0613|5end_glycerol-3-phosphate_dehydrogenase_(NAD(P)+)_562167..562397_POSITIVE 306 58 12 73 25 pint:PI0545|5end_sugar_kinase_496411..496641_POSITIVE 304 72 33 171 122 pint:PI0026|5end_two-component_system_response_regulator_29756..29986_POSITIVE 303 108 66 112 64 pint:PI1468|5end_conserved_hypothetical_protein;_probable_TPR_domain_protein_1393900..1394130_POSITIVE 302 127 81 74 28 pint:PI0830|5end_conserved_hypothetical_protein_766576..766806_POSITIVE 302 58 14 215 158 pint:PI0477|5end_30S_ribosomal_protein_S5_440392..440622_POSITIVE 302 75 42 87 52 pint:PI0342|5end_hypothetical_protein_317556..317786_POSITIVE 302 75 42 36 1 pint:PI0343|5end_hypothetical_protein_317505..317735_POSITIVE 302 89 49 145 98 pint:PI0120|5end_glutamate_racemase_111778..112008_POSITIVE 301 100 51 51 3 pint:PI1845|5end_hypothetical_protein_1791457..1791687_POSITIVE 300 118 71 83 29 pint:PI0929|5end_copper_homeostasis_protein_860294..860524_POSITIVE 300 48 1 210 164 pint:PI0034|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_37151..37381_POSITIVE 299 60 11 153 98 pint:PI1619|5end_two-component_system_response_regulator_1543210..1543440_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 373 99 51 58 3 pint:PI1766|3end_sugar_transporter,_possible_glucose/galactose_transporter_1694350..1694500_POSITIVE 320 89 42 66 11 pint:PI1960|3end_hypothetical_protein_1918983..1919133_POSITIVE 315 89 41 139 102 pint:PI1527|3end_immunoreactive_46_kDa_antigen_PG99_1449520..1449670_POSITIVE 312 50 1 149 95 pint:PI0330|3end_hypothetical_protein_312545..312695_POSITIVE 306 98 51 135 87 pint:PI0238|3end_two-component_system_response_regulator_237826..237976_POSITIVE 302 75 42 66 31 pint:PI0341|3end_conserved_hypothetical_protein_317615..317765_POSITIVE 300 48 1 80 34 pint:PI0033|3end_peptidylprolyl_isomerase_37101..37251_POSITIVE 296 94 52 137 97 pint:PI1873|3end_hypothetical_protein_1818419..1818569_POSITIVE 295 99 51 114 63 pint:PI0674|3end_conserved_hypothetical_protein_616154..616304_POSITIVE 293 59 11 102 57 pint:PI0624|3end_hypothetical_protein_574471..574621_POSITIVE 288 58 11 80 18 pint:PI1631|3end_hypothetical_protein_1552797..1552947_POSITIVE 287 80 32 124 68 pint:PI2132|3end_hypothetical_protein_2081139..2081289_POSITIVE 285 66 22 113 63 pint:PI1622|3end_hypothetical_protein_1547230..1547380_POSITIVE 285 98 67 33 1 pint:PI0675|3end_hypothetical_protein_613957..614107_POSITIVE 285 50 1 137 92 pint:PI0475|3end_50S_ribosomal_protein_L6_440096..440246_POSITIVE 283 58 11 138 82 pint:PI0025|3end_two_component_system_sensor_histidine_kinase_29823..29973_POSITIVE 282 89 44 145 93 pint:PI0378|3end_conserved_hypothetical_protein;_possible_helicase_349539..349689_POSITIVE 279 77 38 44 4 pint:PI1617|3end_hypothetical_protein_1543164..1543314_POSITIVE 278 112 71 149 117 pint:PI0918|3end_Fe-S_oxidoreductase,_family_2_849236..849386_POSITIVE 275 60 15 67 22 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE