Origin IGS: tgaacgattacttaagattctactgatactcagaaatgggagtaagcaagtaactttatctttctgattagattaatcttttaagtttacccaccatttatcctgcacacgtcttattatatataggttaaaagaagactgtaaagctgtaaatatttttcgcaaccgaagctattacataactgcctatacatcaatacattacaaaaccta .........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 taggttttgtaatgtattgatgtataggcagttatgtaatagcttcggttgcgaaaaatatttacagctttacagtcttcttttaacctatatataataagacgtgtgcaggataaatggtgggtaaacttaaaagattaatctaatcagaaagataaagttacttgcttactcccatttctgagtatcagtagaatcttaagtaatcgttca Mask Tandem Repeat Region ================================================ tgaacgattacttaagattctactgatactcagaaatgggagtaagcaagtaactttatctttctgattagattaatcttttaagtttacccaccatttatcctgcacacgtcttattatatataggttaaaagaagactgtaaagctgtaaatatttttcgcaaccgaagctattacataactgcctatacatcaatacattacaaaaccta Find is-nt database================================================ Query_seq: PI1345:PI1346|PI1345:PI1346:conserved hypothetical protein; possible TPR-repeat-containing protein:hypothetical protein:->->:1260741..1260953 213 tgaacgattacttaagattctactgatactcagaaatgggagtaagcaagtaactttatctttctgattagattaatcttttaagtttacccaccatttatcctgcacacgtcttattatatataggttaaaagaagactgtaaagctgtaaatatttttcgcaaccgaagctattacataactgcctatacatcaatacattacaaaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1345:PI1346|PI1345:PI1346:conserved hypothetical protein; possible TPR-repeat-containing protein:hypothetical protein:->->:1260741..1260953 213 tgaacgattacttaagattctactgatactcagaaatgggagtaagcaagtaactttatctttctgattagattaatcttttaagtttacccaccatttatcctgcacacgtcttattatatataggttaaaagaagactgtaaagctgtaaatatttttcgcaaccgaagctattacataactgcctatacatcaatacattacaaaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1345:PI1346|PI1345:PI1346:conserved hypothetical protein; possible TPR-repeat-containing protein:hypothetical protein:->->:1260741..1260953 213 tgaacgattacttaagattctactgatactcagaaatgggagtaagcaagtaactttatctttctgattagattaatcttttaagtttacccaccatttatcctgcacacgtcttattatatataggttaaaagaagactgtaaagctgtaaatatttttcgcaaccgaagctattacataactgcctatacatcaatacattacaaaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaacgattacttaagattctactgatactcagaaatgggagtaagcaagtaactttatctttctgattagattaatcttttaagtttacccaccatttatcctgcacacgtcttattatatataggttaaaagaagactgtaaagctgtaaatatttttcgcaaccgaagctattacataactgcctatacatcaatacattacaaaaccta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 116 End: 211 ................................................................................................................... M I Y R L K E D C K A V N I F R N R S Y Y I T A Y T S I H Y K T .. Protein_Len: 30 Strand: - Start: 76 End: 165 ........................................................................... D K L N V W W K D Q V R R I I Y L N F S S Q L A T F I K R M ................................................ tgaacgattacttaagattctactgatactcagaaatgggagtaagcaagtaactttatctttctgattagattaatcttttaagtttacccaccatttatcctgcacacgtcttattatatataggttaaaagaagactgtaaagctgtaaatatttttcgcaaccgaagctattacataactgcctatacatcaatacattacaaaaccta 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================================================ tgaacgattacttaagattctactgatactcagaaatgggagtaagcaagtaactttatctttctgattagattaatcttttaagtttacccaccatttatcctgcacacgtcttattatatataggttaaaagaagactgtaaagctgtaaatatttttcgcaaccgaagctattacataactgcctatacatcaatacattacaaaaccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1345:PI1346|PI1345:PI1346:conserved hypothetical protein; possible TPR-repeat-containing protein:hypothetical protein:->->:1260741..1260953 213 tgaacgattacttaagattctactgatactcagaaatgggagtaagcaagtaactttatctttctgattagattaatcttttaagtttacccaccatttatcctgcacacgtcttattatatataggttaaaagaagactgtaaagctgtaaatatttttcgcaaccgaagctattacataactgcctatacatcaatacattacaaaaccta Intra-Species Hit: Count: 1 Min: 1 Max: 213 Len: 213 Subject: pint_PI1345_PI1346|conserved hypothetical protein; possible TPR-repeat-containing protein:hypothetical protein|POSITIVE:POSITIVE|[1260741,1260953]|213 HSP 1 e-value: 1.0E-117 bit: 422.0 Len: 213 Query Start:1 Query End:213 Subject Strand: POSITIVE Subject Start: 1 Subject End: 213 tgaacgattacttaagattctactgatactcagaaatgggagtaagcaagtaactttatctttctgattagattaatcttttaagtttacccaccatttatcctgcacacgtcttattatatataggttaaaagaagactgtaaagctgtaaatatttttcgcaaccgaagctattacataactgcctatacatcaatacattacaaaaccta tgaacgattacttaagattctactgatactcagaaatgggagtaagcaagtaactttatctttctgattagattaatcttttaagtttacccaccatttatcctgcacacgtcttattatatataggttaaaagaagactgtaaagctgtaaatatttttcgcaaccgaagctattacataactgcctatacatcaatacattacaaaaccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAACGAUUACUUAAGAUUCUACUGAUACUCAGAAAUGGGAGUAAGCAAGUAACUUUAUCUUUCUGAUUAGAUUAAUCUUUUAAGUUUACCCACCAUUUAUCCUGCACACGUCUUAUUAUAUAUAGGUUAAAAGAAGACUGUAAAGCUGUAAAUAUUUUUCGCAACCGAAGCUAUUACAUAACUGCCUAUACAUCAAUACAUUACAAAACCUA (((.........((((((....(((.....)))(((((((.((((((..........((((........))))...........)))))).).))))))...........)))))).....(((((((.......((..(((((((((.....................)))).)))))...)))))))))..)))................. (-28.61) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUUUUGUAAUGUAUUGAUGUAUAGGCAGUUAUGUAAUAGCUUCGGUUGCGAAAAAUAUUUACAGCUUUACAGUCUUCUUUUAACCUAUAUAUAAUAAGACGUGUGCAGGAUAAAUGGUGGGUAAACUUAAAAGAUUAAUCUAAUCAGAAAGAUAAAGUUACUUGCUUACUCCCAUUUCUGAGUAUCAGUAGAAUCUUAAGUAAUCGUUCA ...((((((((((((....(((((((((.((...(((((.(((((((....)))...........))))))))).....)).....)))))))))......)))).)))))))).((((((......(((((..(((((...((..(((((((((..((((.....))))..))...))))))).....))...)))))))))).)))))).. (-37.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 405 165 130 87 52 pint:PI1437|5end_hypothetical_protein_1356088..1356318_POSITIVE 357 180 131 177 128 pint:PI1272|5end_possible_transcriptional_regulator_1191702..1191932_POSITIVE 352 165 126 187 148 pint:PI0324|5end_conserved_hypothetical_protein_303735..303965_POSITIVE 344 178 133 211 162 pint:PI1253|5end_hypothetical_protein_1175516..1175746_POSITIVE 335 180 131 165 109 pint:PI0949|5end_endonuclease_882264..882494_POSITIVE 314 165 126 225 185 pint:PI0682|5end_hypothetical_protein_618972..619202_POSITIVE 310 188 143 53 10 pint:PI1045|5end_cytidine/deoxycytidylate_deaminase_family_protein_965104..965334_POSITIVE 306 184 144 41 1 pint:PI1371|5end_hypothetical_protein_1292359..1292589_POSITIVE 303 168 121 219 176 pint:PI1456|5end_conserved_hypothetical_protein_1378864..1379094_POSITIVE 289 169 140 140 110 pint:PI0127|5end_conserved_hypothetical_protein_118683..118913_POSITIVE 288 149 102 144 72 pint:PI0770|5end_hypothetical_protein_706170..706400_POSITIVE 287 188 143 180 136 pint:PI0096|5end_glycerol-3-phosphate_cytidylyltransferase_91885..92115_POSITIVE 283 178 136 128 81 pint:PI0561|5end_hypothetical_protein_508952..509182_POSITIVE 281 180 132 208 160 pint:PI0828|5end_GMP_synthase_(glutamine_amidotransferase)_764077..764307_POSITIVE 281 180 132 122 74 pint:PI0827|5end_hypothetical_protein_763991..764221_POSITIVE 275 168 130 215 171 pint:PI2030|5end_hypothetical_protein_1985601..1985831_POSITIVE 275 200 160 217 169 pint:PI1095|5end_conserved_hypothetical_protein_1019759..1019989_POSITIVE 275 166 121 108 63 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 270 188 148 111 71 pint:PI0196|5end_hypothetical_protein_188435..188665_POSITIVE 268 165 121 93 50 pint:PI0024|5end_hypothetical_protein_28378..28608_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 418 180 134 69 19 pint:PI1041|3end_hypothetical_protein_960675..960825_POSITIVE 405 165 130 151 116 pint:PI1436|3end_hypothetical_protein_1356232..1356382_POSITIVE 371 188 143 77 30 pint:PI0866|3end_hypothetical_protein_803993..804143_POSITIVE 344 178 133 55 6 pint:PI1252|3end_hypothetical_protein_1175440..1175590_POSITIVE 321 178 134 67 24 pint:PI1797|3end_hypothetical_protein_1731559..1731709_POSITIVE 309 168 122 132 86 pint:PI1371|3end_hypothetical_protein_1292546..1292696_POSITIVE 305 210 161 126 77 pint:PI0069|3end_hypothetical_protein_67379..67529_POSITIVE 287 175 134 75 19 pint:PI1005|3end_hypothetical_protein_926481..926631_POSITIVE 287 188 143 65 21 pint:PI0095|3end_hypothetical_protein_91850..92000_POSITIVE 286 149 103 66 6 pint:PI0769|3end_phosphomannomutase_706172..706322_POSITIVE 281 180 132 96 48 pint:PI0826|3end_hypothetical_protein_764045..764195_POSITIVE 278 180 136 135 86 pint:PI1786|3end_hypothetical_protein_1718380..1718530_POSITIVE 277 200 151 105 56 pint:PI0902|3end_hypothetical_protein_832580..832730_POSITIVE 263 170 136 63 36 pint:PI0430|3end_periplasmic_protease;_MdsD_protein_403101..403251_POSITIVE 260 188 143 128 82 pint:PI0926|3end_hypothetical_protein_857047..857197_POSITIVE 256 165 130 81 46 pint:PI1204|3end_hypothetical_protein_1124635..1124785_POSITIVE 249 184 143 86 46 pint:PI1072|3end_hypothetical_protein_990503..990653_POSITIVE 247 197 151 47 1 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE 242 168 122 62 16 pint:PI1294|3end_hypothetical_protein_1208716..1208866_POSITIVE 240 186 141 64 14 pint:PI1155|3end_hypothetical_protein_1080352..1080502_POSITIVE