Origin IGS: taattgtaaaccatattttaacgataaggcgacagtgcaagctgccgccttattttattttctaactttaaatgtgtttccactgcctataatatatggtggtaaattaccgttatatggcaaaggagtacctacttaaaagttgtgagcaaaattgaaaagcagcagaaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttttctgctgcttttcaattttgctcacaacttttaagtaggtactcctttgccatataacggtaatttaccaccatatattataggcagtggaaacacatttaaagttagaaaataaaataaggcggcagcttgcactgtcgccttatcgttaaaatatggtttacaatta Mask Tandem Repeat Region ================================================ taattgtaaaccatattttaacgataaggcgacagtgcaagctgccgccttattttattttctaactttaaatgtgtttccactgcctataatatatggtggtaaattaccgttatatggcaaaggagtacctacttaaaagttgtgagcaaaattgaaaagcagcagaaaa Find is-nt database================================================ Query_seq: PI1599:PI1600|PI1599:PI1600:predicted TPR-repeat-containing protein:conserved hypothetical protein:->->:1529237..1529408 172 taattgtaaaccatattttaacgataaggcgacagtgcaagctgccgccttattttattttctaactttaaatgtgtttccactgcctataatatatggtggtaaattaccgttatatggcaaaggagtacctacttaaaagttgtgagcaaaattgaaaagcagcagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1599:PI1600|PI1599:PI1600:predicted TPR-repeat-containing protein:conserved hypothetical protein:->->:1529237..1529408 172 taattgtaaaccatattttaacgataaggcgacagtgcaagctgccgccttattttattttctaactttaaatgtgtttccactgcctataatatatggtggtaaattaccgttatatggcaaaggagtacctacttaaaagttgtgagcaaaattgaaaagcagcagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1599:PI1600|PI1599:PI1600:predicted TPR-repeat-containing protein:conserved hypothetical protein:->->:1529237..1529408 172 taattgtaaaccatattttaacgataaggcgacagtgcaagctgccgccttattttattttctaactttaaatgtgtttccactgcctataatatatggtggtaaattaccgttatatggcaaaggagtacctacttaaaagttgtgagcaaaattgaaaagcagcagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattgtaaaccatattttaacgataaggcgacagtgcaagctgccgccttattttattttctaactttaaatgtgtttccactgcctataatatatggtggtaaattaccgttatatggcaaaggagtacctacttaaaagttgtgagcaaaattgaaaagcagcagaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 35 End: 136 .................................. M Q A A A L F Y F L T L N V F P L P I I Y G G K L P L Y G K G V P T .................................... taattgtaaaccatattttaacgataaggcgacagtgcaagctgccgccttattttattttctaactttaaatgtgtttccactgcctataatatatggtggtaaattaccgttatatggcaaaggagtacctacttaaaagttgtgagcaaaattgaaaagcagcagaaaa 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================================================ taattgtaaaccatattttaacgataaggcgacagtgcaagctgccgccttattttattttctaactttaaatgtgtttccactgcctataatatatggtggtaaattaccgttatatggcaaaggagtacctacttaaaagttgtgagcaaaattgaaaagcagcagaaaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 84 HP_score: -12.1 Tail_Score: -2.74741 Start: 25 End: 52 Full_Region: agttagaaaataaaa taaggcggcag cttgca ctgtcgcctta tcgttaaaatatggt ........................taaggcggcagcttgcactgtcgcctta........................................................................................................................ TransTerm Strand: - Conf: 79 HP_score: -9.4 Tail_Score: -3.52093 Start: 28 End: 49 Full_Region: tagaaaataaaataa ggcggcag cttgca ctgtcgcc ttatcgttaaaatat ...........................ggcggcagcttgcactgtcgcc........................................................................................................................... Find igs database================================================ Query_seq: PI1599:PI1600|PI1599:PI1600:predicted TPR-repeat-containing protein:conserved hypothetical protein:->->:1529237..1529408 172 taattgtaaaccatattttaacgataaggcgacagtgcaagctgccgccttattttattttctaactttaaatgtgtttccactgcctataatatatggtggtaaattaccgttatatggcaaaggagtacctacttaaaagttgtgagcaaaattgaaaagcagcagaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 172 Len: 172 Subject: pint_PI1599_PI1600|predicted TPR-repeat-containing protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1529237,1529408]|172 HSP 1 e-value: 5.0E-93 bit: 341.0 Len: 172 Query Start:1 Query End:172 Subject Strand: POSITIVE Subject Start: 1 Subject End: 172 taattgtaaaccatattttaacgataaggcgacagtgcaagctgccgccttattttattttctaactttaaatgtgtttccactgcctataatatatggtggtaaattaccgttatatggcaaaggagtacctacttaaaagttgtgagcaaaattgaaaagcagcagaaaa taattgtaaaccatattttaacgataaggcgacagtgcaagctgccgccttattttattttctaactttaaatgtgtttccactgcctataatatatggtggtaaattaccgttatatggcaaaggagtacctacttaaaagttgtgagcaaaattgaaaagcagcagaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUGUAAACCAUAUUUUAACGAUAAGGCGACAGUGCAAGCUGCCGCCUUAUUUUAUUUUCUAACUUUAAAUGUGUUUCCACUGCCUAUAAUAUAUGGUGGUAAAUUACCGUUAUAUGGCAAAGGAGUACCUACUUAAAAGUUGUGAGCAAAAUUGAAAAGCAGCAGAAAA ......................(((((((((.((((....)))).)))))))))...(((((....(((((.((.((((((..((((((((((....(((((....))))))))))).))))..)))).)).)).))))).(((((...((....))....))))).))))) (-41.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCUGCUGCUUUUCAAUUUUGCUCACAACUUUUAAGUAGGUACUCCUUUGCCAUAUAACGGUAAUUUACCACCAUAUAUUAUAGGCAGUGGAAACACAUUUAAAGUUAGAAAAUAAAAUAAGGCGGCAGCUUGCACUGUCGCCUUAUCGUUAAAAUAUGGUUUACAAUUA .......((((((...((..(((....)))..)).))))))........(((((.......)))))......(((((((.(((......(((....)))....................((((((((((((......))))))))))))...))).)))))))......... (-39.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 370 68 21 170 120 pint:PI0566|5end_enoyl-[acyl-carrier-protein]_reductase_511832..512062_POSITIVE 310 50 22 87 55 pint:PI0992|5end_RNA_polymerase_sigma-70_factor_916456..916686_POSITIVE 308 49 1 64 19 pint:PI0697|5end_5'-nucleotidase_family_protein_633560..633790_POSITIVE 303 56 19 65 22 pint:PI0403|5end_probable_integrase_370089..370319_POSITIVE 290 115 76 185 141 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 289 70 27 226 187 pint:PI1647|5end_hypothetical_protein_1561564..1561794_POSITIVE 288 55 22 103 67 pint:PI2166|5end_hypothetical_protein_2111394..2111624_POSITIVE 286 49 14 201 166 pint:PI1653|5end_hypothetical_protein_1565158..1565388_POSITIVE 286 57 11 115 58 pint:PI1530|5end_conserved_hypothetical_protein_1450439..1450669_POSITIVE 286 48 4 183 135 pint:PI0850|5end_conserved_hypothetical_protein_783231..783461_POSITIVE 286 48 4 145 97 pint:PI0849|5end_hypothetical_protein_783193..783423_POSITIVE 285 47 27 221 196 pint:PI1893|5end_phospho-N-acetylmuramoyl-pentapeptide-transferase__1835624..1835854_POSITIVE 277 129 84 92 40 pint:PI1944|5end_hypothetical_protein_1901011..1901241_POSITIVE 276 150 101 73 18 pint:PI0576|5end_helicase,_UvrD/Rep_520226..520456_POSITIVE 276 52 11 162 123 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 275 61 24 39 1 pint:PI0853|5end_glycosyl_transferase,_group_2_family_protein_785515..785745_POSITIVE 272 58 11 128 88 pint:PI2154|5end_leucyl-tRNA_synthetase_2099861..2100091_POSITIVE 262 49 21 44 16 pint:PI1701|5end_sensor_histidine_kinase_1619312..1619542_POSITIVE 262 70 21 77 18 pint:PI0769|5end_phosphomannomutase_704653..704883_POSITIVE 260 62 25 134 92 pint:PI0375|5end_hypothetical_protein_345634..345864_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 363 50 6 137 96 pint:PI1734|3end_possible_carboxyl-terminal_protease-related_protein_1653829..1653979_POSITIVE 303 58 24 44 10 pint:PI2046|3end_hypothetical_protein_1999205..1999355_POSITIVE 297 53 19 67 34 pint:PI1599|3end_predicted_TPR-repeat-containing_protein_1529176..1529326_POSITIVE 286 48 4 107 59 pint:PI0848|3end_glycosyl_transferase,_group_2_family_protein_783235..783385_POSITIVE 285 47 27 64 39 pint:PI1892|3end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_1835547..1835697_POSITIVE 278 128 84 67 25 pint:PI1487|3end_hypothetical_protein_1407940..1408090_POSITIVE 268 49 28 24 5 pint:PI0696|3end_NADH_pyrophosphatase,_MutT_family_hydrolase_(NAD+_diphosphatase)_633600..633750_POSITIVE 267 50 3 150 109 pint:PI0087|3end_conserved_hypothetical_protein_86733..86883_POSITIVE 260 62 25 147 105 pint:PI0374|3end_MbpB_protein_345727..345877_POSITIVE 256 162 125 98 63 pint:PI1952|3end_hypothetical_protein_1907039..1907189_POSITIVE 256 47 22 44 24 pint:PI0249|3end_conserved_hypothetical_protein_247026..247176_POSITIVE 254 47 2 64 21 pint:PI0535|3end_hypothetical_protein_489779..489929_POSITIVE 250 51 21 57 19 pint:PI1193|3end_conserved_hypothetical_protein_1111214..1111364_POSITIVE 248 80 31 117 61 pint:PI0452|3end_conserved_hypothetical_protein;_possible_surface_antigen_426791..426941_POSITIVE 247 43 10 103 65 pint:PI0202|3end_DNA_helicase_195189..195339_POSITIVE 246 59 26 46 3 pint:PI0138|3end_hypothetical_protein_131365..131515_POSITIVE 243 43 9 151 115 pint:PI1704|3end_50S_ribosomal_protein_L32_1621680..1621830_POSITIVE 241 49 13 50 20 pint:PI1719|3end_conserved_hypothetical_protein_1636207..1636357_POSITIVE 241 49 1 114 54 pint:PI0829|3end_nucleotidyl_transferase_family;_possible_mannose-1-phosphate_guanyltransferase_766539..766689_POSITIVE 240 47 11 144 110 pint:PI2103|3end_hypothetical_protein_2057934..2058084_POSITIVE