Origin IGS: tagaagtaaaaagaatagctttttaattgatatatataattctaaacattaaaagaagcattttaccaaaacatttagtaagcttgccttaacttgttgaattcatcaaatcaaaaataaaagataaagtttttataatcttgaagagaatttggtttgacaacgtccctaccttattcagttttaaaataatattaaaaagtatctgtataaattctacctataacattggctatttgctccatactcatataaaattacaaaaaatcacagtctttactattatattattgagaactaaattaaaattattatgaga .........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 tctcataataattttaatttagttctcaataatataatagtaaagactgtgattttttgtaattttatatgagtatggagcaaatagccaatgttataggtagaatttatacagatactttttaatattattttaaaactgaataaggtagggacgttgtcaaaccaaattctcttcaagattataaaaactttatcttttatttttgatttgatgaattcaacaagttaaggcaagcttactaaatgttttggtaaaatgcttcttttaatgtttagaattatatatatcaattaaaaagctattctttttacttcta Mask Tandem Repeat Region ================================================ tagaagtaaaaagaatagctttttaattgatatatataattctaaacattaaaagaagcattttaccaaaacatttagtaagcttgccttaacttgttgaattcatcaaatcaaaaataaaagataaagtttttataatcttgaagagaatttggtttgacaacgtccctaccttattcagttttaaaataatattaaaaagtatctgtataaattctacctataacattggctatttgctccatactcatataaaattacaaaaaatcacagtctttactattatattattgagaactaaattaaaattattatgaga Find is-nt database================================================ Query_seq: PI1112:PI1113|PI1112:PI1113:glycosyltransferase:conserved hypothetical protein:->->:1037702..1038020 319 tagaagtaaaaagaatagctttttaattgatatatataattctaaacattaaaagaagcattttaccaaaacatttagtaagcttgccttaacttgttgaattcatcaaatcaaaaataaaagataaagtttttataatcttgaagagaatttggtttgacaacgtccctaccttattcagttttaaaataatattaaaaagtatctgtataaattctacctataacattggctatttgctccatactcatataaaattacaaaaaatcacagtctttactattatattattgagaactaaattaaaattattatgaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1112:PI1113|PI1112:PI1113:glycosyltransferase:conserved hypothetical protein:->->:1037702..1038020 319 tagaagtaaaaagaatagctttttaattgatatatataattctaaacattaaaagaagcattttaccaaaacatttagtaagcttgccttaacttgttgaattcatcaaatcaaaaataaaagataaagtttttataatcttgaagagaatttggtttgacaacgtccctaccttattcagttttaaaataatattaaaaagtatctgtataaattctacctataacattggctatttgctccatactcatataaaattacaaaaaatcacagtctttactattatattattgagaactaaattaaaattattatgaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1112:PI1113|PI1112:PI1113:glycosyltransferase:conserved hypothetical protein:->->:1037702..1038020 319 tagaagtaaaaagaatagctttttaattgatatatataattctaaacattaaaagaagcattttaccaaaacatttagtaagcttgccttaacttgttgaattcatcaaatcaaaaataaaagataaagtttttataatcttgaagagaatttggtttgacaacgtccctaccttattcagttttaaaataatattaaaaagtatctgtataaattctacctataacattggctatttgctccatactcatataaaattacaaaaaatcacagtctttactattatattattgagaactaaattaaaattattatgaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagaagtaaaaagaatagctttttaattgatatatataattctaaacattaaaagaagcattttaccaaaacatttagtaagcttgccttaacttgttgaattcatcaaatcaaaaataaaagataaagtttttataatcttgaagagaatttggtttgacaacgtccctaccttattcagttttaaaataatattaaaaagtatctgtataaattctacctataacattggctatttgctccatactcatataaaattacaaaaaatcacagtctttactattatattattgagaactaaattaaaattattatgaga Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 105 End: 314 ........................................................................................................ M K S K I K D K V F I I L K R I W F D N V P T L F S F K I I L K S I C I N S T Y N I G Y L L H T H I K L Q K I T V F T I ..... Protein_Len: 40 Strand: - Start: 92 End: 211 ........................................................................................... S T S N M L D F I F S L T K I I K F L I Q N S L T G V K N L K L I I N F L I Q M ............................................................................................................ tagaagtaaaaagaatagctttttaattgatatatataattctaaacattaaaagaagcattttaccaaaacatttagtaagcttgccttaacttgttgaattcatcaaatcaaaaataaaagataaagtttttataatcttgaagagaatttggtttgacaacgtccctaccttattcagttttaaaataatattaaaaagtatctgtataaattctacctataacattggctatttgctccatactcatataaaattacaaaaaatcacagtctttactattatattattgagaactaaattaaaattattatgaga Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 26 End: 55 .........................ATTGATATATATAATTCTAAACATTAAAAG........................................................................................................................................................................................................................................................................ PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 257 End: 286 ................................................................................................................................................................................................................................................................ATTACAAAAAATCACAGTCTTTACTATTAT................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tagaagtaaaaagaatagctttttaattgatatatataattctaaacattaaaagaagcattttaccaaaacatttagtaagcttgccttaacttgttgaattcatcaaatcaaaaataaaagataaagtttttataatcttgaagagaatttggtttgacaacgtccctaccttattcagttttaaaataatattaaaaagtatctgtataaattctacctataacattggctatttgctccatactcatataaaattacaaaaaatcacagtctttactattatattattgagaactaaattaaaattattatgaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1112:PI1113|PI1112:PI1113:glycosyltransferase:conserved hypothetical protein:->->:1037702..1038020 319 tagaagtaaaaagaatagctttttaattgatatatataattctaaacattaaaagaagcattttaccaaaacatttagtaagcttgccttaacttgttgaattcatcaaatcaaaaataaaagataaagtttttataatcttgaagagaatttggtttgacaacgtccctaccttattcagttttaaaataatattaaaaagtatctgtataaattctacctataacattggctatttgctccatactcatataaaattacaaaaaatcacagtctttactattatattattgagaactaaattaaaattattatgaga Intra-Species Hit: Count: 1 Min: 1 Max: 319 Len: 319 Subject: pint_PI1112_PI1113|glycosyltransferase:conserved hypothetical protein|POSITIVE:POSITIVE|[1037702,1038020]|319 HSP 1 e-value: 1.0E-180 bit: 632.0 Len: 319 Query Start:1 Query End:319 Subject Strand: POSITIVE Subject Start: 1 Subject End: 319 tagaagtaaaaagaatagctttttaattgatatatataattctaaacattaaaagaagcattttaccaaaacatttagtaagcttgccttaacttgttgaattcatcaaatcaaaaataaaagataaagtttttataatcttgaagagaatttggtttgacaacgtccctaccttattcagttttaaaataatattaaaaagtatctgtataaattctacctataacattggctatttgctccatactcatataaaattacaaaaaatcacagtctttactattatattattgagaactaaattaaaattattatgaga tagaagtaaaaagaatagctttttaattgatatatataattctaaacattaaaagaagcattttaccaaaacatttagtaagcttgccttaacttgttgaattcatcaaatcaaaaataaaagataaagtttttataatcttgaagagaatttggtttgacaacgtccctaccttattcagttttaaaataatattaaaaagtatctgtataaattctacctataacattggctatttgctccatactcatataaaattacaaaaaatcacagtctttactattatattattgagaactaaattaaaattattatgaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAGUAAAAAGAAUAGCUUUUUAAUUGAUAUAUAUAAUUCUAAACAUUAAAAGAAGCAUUUUACCAAAACAUUUAGUAAGCUUGCCUUAACUUGUUGAAUUCAUCAAAUCAAAAAUAAAAGAUAAAGUUUUUAUAAUCUUGAAGAGAAUUUGGUUUGACAACGUCCCUACCUUAUUCAGUUUUAAAAUAAUAUUAAAAAGUAUCUGUAUAAAUUCUACCUAUAACAUUGGCUAUUUGCUCCAUACUCAUAUAAAAUUACAAAAAAUCACAGUCUUUACUAUUAUAUUAUUGAGAACUAAAUUAAAAUUAUUAUGAGA ............((((((((......(((((......(((((..((((....(((..(((.(((((.((.....)).)))))..))))))....)))))))))......))))).......(((((...((..(((.((.((((((.((((..(((..(((...)))...)))..))))..)))))).)).)))..))....))))).......................))))))))........((((((....(((......)))...(((..(((.((......)).)))..))).............)))))). (-36.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUCAUAAUAAUUUUAAUUUAGUUCUCAAUAAUAUAAUAGUAAAGACUGUGAUUUUUUGUAAUUUUAUAUGAGUAUGGAGCAAAUAGCCAAUGUUAUAGGUAGAAUUUAUACAGAUACUUUUUAAUAUUAUUUUAAAACUGAAUAAGGUAGGGACGUUGUCAAACCAAAUUCUCUUCAAGAUUAUAAAAACUUUAUCUUUUAUUUUUGAUUUGAUGAAUUCAACAAGUUAAGGCAAGCUUACUAAAUGUUUUGGUAAAAUGCUUCUUUUAAUGUUUAGAAUUAUAUAUAUCAAUUAAAAAGCUAUUCUUUUUACUUCUA .......((((((((((...(((((((((......((((..(((((....((.(((((((((((((....((((.(((.((..(((((....)))))..))............(((((((((((...((((((.......))))))..)))))).).))))...))).)))).....))))))))))))).))..)))))))))......)))).)))))......(((((((.(((((((((((.....)))))))...)))).)))))))..))))))))))..........(((((((.....)))))))...... (-48.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 250 250 206 90 50 pint:PI1348|5end_glycosyltransferase_1262389..1262619_POSITIVE 241 88 58 198 160 pint:PI1653|5end_hypothetical_protein_1565158..1565388_POSITIVE 235 87 57 180 146 pint:PI0817|5end_glycosyl_transferase,_group_1_family_protein_756861..757091_POSITIVE 228 100 55 116 77 pint:PI2178|5end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase,_GcpE_2117677..2117907_POSITIVE 224 182 142 150 108 pint:PI0066|5end_ABC_transport_system,_ATP-binding_component_65248..65478_POSITIVE 220 99 55 74 29 pint:PI1992|5end_hypothetical_protein_1946427..1946657_POSITIVE 215 100 57 194 161 pint:PI1263|5end_probable_integrase_1184502..1184732_POSITIVE 213 178 138 122 73 pint:PI1428|5end_quinolinate_synthetase_A_1346626..1346856_POSITIVE 210 250 205 179 131 pint:PI0493|5end_surface_antigen_BspA_452844..453074_POSITIVE 210 105 65 31 2 pint:PI0314|5end_conserved_hypothetical_protein_295552..295782_POSITIVE 206 100 51 51 7 pint:PI0543|5end_adenylate_kinase_495073..495303_POSITIVE 205 114 81 128 88 pint:PI1727|5end__ATP-dependent_Clp_protease,_ATP-binding_subunit_1645680..1645910_POSITIVE 203 280 240 47 7 pint:PI1025|5end_tRNA_modification_GTPase_940752..940982_POSITIVE 202 105 72 41 3 pint:PI1353|5end_conserved_hypothetical_protein_1269710..1269940_POSITIVE 202 180 138 111 65 pint:PI1230|5end_probable_metallo-beta-lactamase_family_protein_1151840..1152070_POSITIVE 202 174 134 168 136 pint:PI0576|5end_helicase,_UvrD/Rep_520226..520456_POSITIVE 201 250 201 211 165 pint:PI2126|5end_conserved_hypothetical_protein_2074907..2075137_POSITIVE 200 175 135 45 9 pint:PI1539|5end_3-phosphoshikimate_1-carboxyvinyltransferase_1459804..1460034_POSITIVE 199 244 205 113 69 pint:PI1225|5end_hypothetical_protein_1147758..1147988_POSITIVE 198 101 74 224 196 pint:PI1454|5end_chromosomal_replication_initiator_protein,_DnaA_1376658..1376888_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 228 100 55 69 30 pint:PI2177|3end_phosphoribosylaminoimidazole_carboxylase_2117710..2117860_POSITIVE 224 182 142 134 92 pint:PI0065|3end_conserved_hypothetical_protein_65312..65462_POSITIVE 213 178 138 76 27 pint:PI1427|3end_nicotinate-nucleotide_pyrophosphorylase_1346660..1346810_POSITIVE 206 83 57 151 125 pint:PI0816|3end_glycogen_debranching_enzyme_756920..757070_POSITIVE 202 174 134 90 58 pint:PI0575|3end_hypothetical_protein_520228..520378_POSITIVE 201 244 217 147 125 pint:PI1496|3end_nucleoside_phosphorylase_1417816..1417966_POSITIVE 200 113 78 70 26 pint:PI1378|3end_GTP-binding_protein_lepA_1301651..1301801_POSITIVE 198 170 123 60 19 pint:PI1911|3end_ribosomal_protein_S20_1856235..1856385_POSITIVE 198 245 206 117 74 pint:PI1065|3end_hypothetical_protein_983650..983800_POSITIVE 195 249 208 93 56 pint:PI0962|3end_phosphoglycerate_mutase_892702..892852_POSITIVE 195 243 202 134 104 pint:PI0356|3end_hypothetical_protein_327288..327438_POSITIVE 191 194 153 139 99 pint:PI0286|3end_ISPg3-related_transposase_272065..272215_POSITIVE 190 130 83 121 82 pint:PI0817|3end_glycosyl_transferase,_group_1_family_protein_758209..758359_POSITIVE 188 248 227 143 119 pint:PI0952|3end_conserved_hypothetical_protein_884775..884925_POSITIVE 187 170 131 121 78 pint:PI0622|3end_hypothetical_protein_572087..572237_POSITIVE 187 244 201 76 29 pint:PI0242|3end_hypothetical_protein_240227..240377_POSITIVE 184 89 47 137 86 pint:PI0362|3end_hypothetical_protein_333938..334088_POSITIVE 184 90 53 140 103 pint:PI0114|3end_hypothetical_protein_108527..108677_POSITIVE 182 107 63 61 15 pint:PI0450|3end_hypothetical_protein_424046..424196_POSITIVE 181 233 202 150 122 pint:PI0333|3end_hypothetical_protein_313788..313938_POSITIVE