Origin IGS: ggtttcagacagaatagcgtatatttactatcaatatcgtgtaatgttataagcggataaggtatggcgagaatccttgccaccggcaggaaaaaagctgacggctatgcgtttatcacaggcctcgtcaaggaggtataaaataaaaggcaatggctcagagttagttaatagggcattacgacctgcttctctgaagacaaataaggaaacagactgatca .........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 tgatcagtctgtttccttatttgtcttcagagaagcaggtcgtaatgccctattaactaactctgagccattgccttttattttatacctccttgacgaggcctgtgataaacgcatagccgtcagcttttttcctgccggtggcaaggattctcgccataccttatccgcttataacattacacgatattgatagtaaatatacgctattctgtctgaaacc Mask Tandem Repeat Region ================================================ ggtttcagacagaatagcgtatatttactatcaatatcgtgtaatgttataagcggataaggtatggcgagaatccttgccaccggcaggaaaaaagctgacggctatgcgtttatcacaggcctcgtcaaggaggtataaaataaaaggcaatggctcagagttagttaatagggcattacgacctgcttctctgaagacaaataaggaaacagactgatca Find is-nt database================================================ Query_seq: PG1649:PG1651|PG1649:PG1651:hypothetical protein:TPR domain protein:<-->:1730243..1730465 223 ggtttcagacagaatagcgtatatttactatcaatatcgtgtaatgttataagcggataaggtatggcgagaatccttgccaccggcaggaaaaaagctgacggctatgcgtttatcacaggcctcgtcaaggaggtataaaataaaaggcaatggctcagagttagttaatagggcattacgacctgcttctctgaagacaaataaggaaacagactgatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1649:PG1651|PG1649:PG1651:hypothetical protein:TPR domain protein:<-->:1730243..1730465 223 ggtttcagacagaatagcgtatatttactatcaatatcgtgtaatgttataagcggataaggtatggcgagaatccttgccaccggcaggaaaaaagctgacggctatgcgtttatcacaggcctcgtcaaggaggtataaaataaaaggcaatggctcagagttagttaatagggcattacgacctgcttctctgaagacaaataaggaaacagactgatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1649:PG1651|PG1649:PG1651:hypothetical protein:TPR domain protein:<-->:1730243..1730465 223 ggtttcagacagaatagcgtatatttactatcaatatcgtgtaatgttataagcggataaggtatggcgagaatccttgccaccggcaggaaaaaagctgacggctatgcgtttatcacaggcctcgtcaaggaggtataaaataaaaggcaatggctcagagttagttaatagggcattacgacctgcttctctgaagacaaataaggaaacagactgatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggtttcagacagaatagcgtatatttactatcaatatcgtgtaatgttataagcggataaggtatggcgagaatccttgccaccggcaggaaaaaagctgacggctatgcgtttatcacaggcctcgtcaaggaggtataaaataaaaggcaatggctcagagttagttaatagggcattacgacctgcttctctgaagacaaataaggaaacagactgatca Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 77 End: 217 ............................................................................ M P P A G K K L T A M R L S Q A S S R R Y K I K G N G S E L V N R A L R P A S L K T N K E T D ...... Protein_Len: 40 Strand: - Start: 34 End: 153 ................................. Y R T I N Y A S L T H R S D K G G A P F F S V A I R K D C A E D L L Y L I F P M ...................................................................... ggtttcagacagaatagcgtatatttactatcaatatcgtgtaatgttataagcggataaggtatggcgagaatccttgccaccggcaggaaaaaagctgacggctatgcgtttatcacaggcctcgtcaaggaggtataaaataaaaggcaatggctcagagttagttaatagggcattacgacctgcttctctgaagacaaataaggaaacagactgatca 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================================================ ggtttcagacagaatagcgtatatttactatcaatatcgtgtaatgttataagcggataaggtatggcgagaatccttgccaccggcaggaaaaaagctgacggctatgcgtttatcacaggcctcgtcaaggaggtataaaataaaaggcaatggctcagagttagttaatagggcattacgacctgcttctctgaagacaaataaggaaacagactgatca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1649:PG1651|PG1649:PG1651:hypothetical protein:TPR domain protein:<-->:1730243..1730465 223 ggtttcagacagaatagcgtatatttactatcaatatcgtgtaatgttataagcggataaggtatggcgagaatccttgccaccggcaggaaaaaagctgacggctatgcgtttatcacaggcctcgtcaaggaggtataaaataaaaggcaatggctcagagttagttaatagggcattacgacctgcttctctgaagacaaataaggaaacagactgatca Intra-Species Hit: Count: 1 Min: 1 Max: 223 Len: 223 Subject: NC_002950_PG1649_PG1651|hypothetical protein:TPR domain protein|NEGATIVE:POSITIVE|[1730243,1730465]|223 HSP 1 e-value: 1.0E-123 bit: 442.0 Len: 223 Query Start:1 Query End:223 Subject Strand: POSITIVE Subject Start: 1 Subject End: 223 ggtttcagacagaatagcgtatatttactatcaatatcgtgtaatgttataagcggataaggtatggcgagaatccttgccaccggcaggaaaaaagctgacggctatgcgtttatcacaggcctcgtcaaggaggtataaaataaaaggcaatggctcagagttagttaatagggcattacgacctgcttctctgaagacaaataaggaaacagactgatca ggtttcagacagaatagcgtatatttactatcaatatcgtgtaatgttataagcggataaggtatggcgagaatccttgccaccggcaggaaaaaagctgacggctatgcgtttatcacaggcctcgtcaaggaggtataaaataaaaggcaatggctcagagttagttaatagggcattacgacctgcttctctgaagacaaataaggaaacagactgatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGUUUCAGACAGAAUAGCGUAUAUUUACUAUCAAUAUCGUGUAAUGUUAUAAGCGGAUAAGGUAUGGCGAGAAUCCUUGCCACCGGCAGGAAAAAAGCUGACGGCUAUGCGUUUAUCACAGGCCUCGUCAAGGAGGUAUAAAAUAAAAGGCAAUGGCUCAGAGUUAGUUAAUAGGGCAUUACGACCUGCUUCUCUGAAGACAAAUAAGGAAACAGACUGAUCA .(((((.((((.....(((.(((((.......))))))))....)))).....((((...(((..((((((....))))))))).(((((.....(((((((((((((((.(((((.....(((((......))))).....)))))..)).))))))....))))))).....(......)..)))))...))))............))))).......... (-56.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUCAGUCUGUUUCCUUAUUUGUCUUCAGAGAAGCAGGUCGUAAUGCCCUAUUAACUAACUCUGAGCCAUUGCCUUUUAUUUUAUACCUCCUUGACGAGGCCUGUGAUAAACGCAUAGCCGUCAGCUUUUUUCCUGCCGGUGGCAAGGAUUCUCGCCAUACCUUAUCCGCUUAUAACAUUACACGAUAUUGAUAGUAAAUAUACGCUAUUCUGUCUGAAACC .......((((((((....((((....))))))))))))..((((((...................(((..(((..((((((.((..((((......))))..)).)))))).)))..((((.(((........))).)))))))..((((..............))))........))))))..((((..((((((........)))))).))))....... (-44.24) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1056 110 61 201 152 NC_002950:PG1649|5end_hypothetical_protein_1730152..1730382_NEGATIVE 396 130 81 69 23 NC_002950:PG0593|5end_htrA_protein_650362..650592_POSITIVE 387 108 61 108 59 NC_002950:PG1594|5end_ComEC/Rec2-related_protein_1673587..1673817_NEGATIVE 380 129 83 47 4 NC_002950:PG1104|5end_hypothetical_protein_1174935..1175165_POSITIVE 379 110 61 58 11 NC_002950:PG1230|5end_hypothetical_protein_1308068..1308298_NEGATIVE 345 137 97 193 143 NC_002950:PG0400|5end_hypothetical_protein_437528..437758_NEGATIVE 339 110 75 66 31 NC_002950:PG2029|5end_hypothetical_protein_2126543..2126773_POSITIVE 338 91 51 54 9 NC_002950:PG1876|5end_hypothetical_protein_1971460..1971690_NEGATIVE 338 199 151 150 91 NC_002950:PG1024|5end_hypothetical_protein_1086698..1086928_POSITIVE 337 137 102 73 37 NC_002950:PG1094|5end_phosphomannomutase_1158753..1158983_POSITIVE 337 127 82 231 179 NC_002950:PG1042|5end_glycogen_synthase,_putative_1110638..1110868_NEGATIVE 335 138 91 187 135 NC_002950:PG1639|5end_hypothetical_protein_1719919..1720149_NEGATIVE 332 110 61 57 9 NC_002950:PG0476|5end_yngK_protein_518762..518992_NEGATIVE 331 110 61 71 11 NC_002950:PG1632|5end_aldose_1-epimerase_1712268..1712498_POSITIVE 326 110 65 228 172 NC_002950:PG2107|5end_thiamine_biosynthesis_protein_ThiH_2216658..2216888_NEGATIVE 326 130 83 66 3 NC_002950:PG0332|5end_transcription_termination_factor_Rho_365619..365849_POSITIVE 325 128 83 193 133 NC_002950:PG1898|5end_transporter,_putative_1997335..1997565_NEGATIVE 323 138 98 47 1 NC_002950:PG1038|5end_ATP-dependent_DNA_helicase_UvrD/PcrA/Rep_Family_1102744..1102974_POSITIVE 322 89 45 98 61 NC_002950:PG0447|5end_hypothetical_protein_487278..487508_POSITIVE 317 100 52 155 108 NC_002950:PG1560|5end_dTDP-glucose_4,6-dehydratase_1640131..1640361_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 387 108 61 101 52 NC_002950:PG1595|3end_ribulose-phosphate_3-epimerase_1673594..1673744_NEGATIVE 359 107 66 149 94 NC_002950:PG1608|3end_methylmalonyl-CoA_decarboxylase,_beta_subunit_1688685..1688835_NEGATIVE 340 135 94 85 32 NC_002950:PG0428|3end_hypothetical_protein_465753..465903_NEGATIVE 339 110 75 59 24 NC_002950:PG2028|3end_ebsC_protein_2126616..2126766_POSITIVE 332 110 61 67 19 NC_002950:PG0477|3end_pantoate--beta-alanine_ligase_518752..518902_NEGATIVE 330 99 51 144 94 NC_002950:PG0814|3end_hypothetical_protein_875904..876054_NEGATIVE 323 138 98 47 1 NC_002950:PG1037|3end_hypothetical_protein_1102824..1102974_POSITIVE 322 89 45 126 89 NC_002950:PG0446|3end_thiF_protein_487386..487536_POSITIVE 318 111 85 87 61 NC_002950:PG0210|3end_precorrin-6x_reductase/cobalamin_biosynthetic_protein_CbiD_244161..244311_NEGATIVE 317 100 52 148 101 NC_002950:PG1561|3end_dTDP-4-dehydrorhamnose_reductase_1640138..1640288_NEGATIVE 316 110 62 51 3 NC_002950:PG1442|3end_hypothetical_protein_1527602..1527752_NEGATIVE 313 100 54 79 17 NC_002950:PG1782|3end_hypothetical_protein_1871961..1872111_POSITIVE 313 92 52 61 8 NC_002950:PG0948|3end_AMP_nucleosidase_1008747..1008897_POSITIVE 313 90 53 84 46 NC_002950:PG0188|3end_lipoprotein,_putative_225384..225534_POSITIVE 309 118 72 122 70 NC_002950:PG0762|3end_trigger_factor,_putative_814215..814365_POSITIVE 309 106 68 133 96 NC_002950:PG0369|3end_phosphopantetheine_adenylyltransferase_403751..403901_POSITIVE 308 89 45 67 23 NC_002950:PG2141|3end_3-oxoacyl-(acyl_carrier_protein)_synthase_2247586..2247736_POSITIVE 308 189 148 123 81 NC_002950:PG0752|3end_uracil_phosphoribosyltransferase_798397..798547_POSITIVE 306 87 41 100 58 NC_002950:PG0672|3end_iron_compound_ABC_transporter,_ATP-binding_protein_723840..723990_POSITIVE 305 90 51 151 107 NC_002950:PG1816|3end_NAD(P)H_dehydrogenase,_quinone_family,_putative_1911430..1911580_NEGATIVE