Origin IGS: tagctttcgatacgatcccaaatggctgaaatcatctgcttttcgaaatagatgttcagtaaagtttttggcaatcaacaaagtatttctaactttgcgcaccgaatttcatggtcacgaacgaagaatgacaaaaacaaaataaaaaacagaagaagatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatcttcttctgttttttattttgtttttgtcattcttcgttcgtgaccatgaaattcggtgcgcaaagttagaaatactttgttgattgccaaaaactttactgaacatctatttcgaaaagcagatgatttcagccatttgggatcgtatcgaaagcta Mask Tandem Repeat Region ================================================ tagctttcgatacgatcccaaatggctgaaatcatctgcttttcgaaatagatgttcagtaaagtttttggcaatcaacaaagtatttctaactttgcgcaccgaatttcatggtcacgaacgaagaatgacaaaaacaaaataaaaaacagaagaagatt Find is-nt database================================================ Query_seq: PG0384:PG0385|PG0384:PG0385:MutS2 family protein:ribosomal protein S21:->->:418758..418918 161 tagctttcgatacgatcccaaatggctgaaatcatctgcttttcgaaatagatgttcagtaaagtttttggcaatcaacaaagtatttctaactttgcgcaccgaatttcatggtcacgaacgaagaatgacaaaaacaaaataaaaaacagaagaagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0384:PG0385|PG0384:PG0385:MutS2 family protein:ribosomal protein S21:->->:418758..418918 161 tagctttcgatacgatcccaaatggctgaaatcatctgcttttcgaaatagatgttcagtaaagtttttggcaatcaacaaagtatttctaactttgcgcaccgaatttcatggtcacgaacgaagaatgacaaaaacaaaataaaaaacagaagaagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0384:PG0385|PG0384:PG0385:MutS2 family protein:ribosomal protein S21:->->:418758..418918 161 tagctttcgatacgatcccaaatggctgaaatcatctgcttttcgaaatagatgttcagtaaagtttttggcaatcaacaaagtatttctaactttgcgcaccgaatttcatggtcacgaacgaagaatgacaaaaacaaaataaaaaacagaagaagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagctttcgatacgatcccaaatggctgaaatcatctgcttttcgaaatagatgttcagtaaagtttttggcaatcaacaaagtatttctaactttgcgcaccgaatttcatggtcacgaacgaagaatgacaaaaacaaaataaaaaacagaagaagatt Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 26 End: 142 ......................... M K S S A F R N R C S V K F L A I N K V F L T L R T E F H G H E R R M T K T K ................... Protein_Len: 36 Strand: + Start: 52 End: 159 ................................................... M F S K V F G N Q Q S I S N F A H R I S W S R T K N D K N K I K N R R R .. Protein_Len: 34 Strand: - Start: 1 End: 102 L K R Y S G L H S F D D A K R F L H E T F N K A I L L T N R V K R M ........................................................... tagctttcgatacgatcccaaatggctgaaatcatctgcttttcgaaatagatgttcagtaaagtttttggcaatcaacaaagtatttctaactttgcgcaccgaatttcatggtcacgaacgaagaatgacaaaaacaaaataaaaaacagaagaagatt 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================================================ tagctttcgatacgatcccaaatggctgaaatcatctgcttttcgaaatagatgttcagtaaagtttttggcaatcaacaaagtatttctaactttgcgcaccgaatttcatggtcacgaacgaagaatgacaaaaacaaaataaaaaacagaagaagatt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 48 HP_score: -3.2 Tail_Score: -3.33696 Start: 79 End: 97 Full_Region: atgaaattcggtgcg caaagt tagaaat actttg ttgattgccaaaaac ..............................................................................caaagttagaaatactttg................................................................ Find igs database================================================ Query_seq: PG0384:PG0385|PG0384:PG0385:MutS2 family protein:ribosomal protein S21:->->:418758..418918 161 tagctttcgatacgatcccaaatggctgaaatcatctgcttttcgaaatagatgttcagtaaagtttttggcaatcaacaaagtatttctaactttgcgcaccgaatttcatggtcacgaacgaagaatgacaaaaacaaaataaaaaacagaagaagatt Intra-Species Hit: Count: 1 Min: 1 Max: 132 Len: 132 Subject: NC_002950_PG0384_PG0385|MutS2 family protein:ribosomal protein S21|POSITIVE:POSITIVE|[418758,418918]|161 HSP 1 e-value: 3.0E-69 bit: 262.0 Len: 132 Query Start:1 Query End:132 Subject Strand: POSITIVE Subject Start: 1 Subject End: 132 tagctttcgatacgatcccaaatggctgaaatcatctgcttttcgaaatagatgttcagtaaagtttttggcaatcaacaaagtatttctaactttgcgcaccgaatttcatggtcacgaacgaagaatgac............................. tagctttcgatacgatcccaaatggctgaaatcatctgcttttcgaaatagatgttcagtaaagtttttggcaatcaacaaagtatttctaactttgcgcaccgaatttcatggtcacgaacgaagaatgac............................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCUUUCGAUACGAUCCCAAAUGGCUGAAAUCAUCUGCUUUUCGAAAUAGAUGUUCAGUAAAGUUUUUGGCAAUCAACAAAGUAUUUCUAACUUUGCGCACCGAAUUUCAUGGUCACGAACGAAGAAUGAC .....((((....(((.(((((..((((((..((((((.((....)).))))))))))))......)))))..)))..((((((.......)))))).....))))..((((..((......))...)))). (-24.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUCAUUCUUCGUUCGUGACCAUGAAAUUCGGUGCGCAAAGUUAGAAAUACUUUGUUGAUUGCCAAAAACUUUACUGAACAUCUAUUUCGAAAAGCAGAUGAUUUCAGCCAUUUGGGAUCGUAUCGAAAGCUA (((((.........))))).......((((((((.((((((.(....)))))))..((((.(((((.......((((((((((.(((....))).)))))..)))))...)))))))))))))))))..... (-27.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 309 43 1 177 132 NC_002950:PG0503|5end_dipeptidyl_aminopeptidase_IV_541960..542190_POSITIVE 285 70 24 218 170 NC_002950:PG1106|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,_6-diaminopimelate--D-alanyl-D-alanyl_ligase_1178429..1178659_NEGATIVE 276 50 3 68 25 NC_002950:PG1936|5end_ribosomal_protein_L23_2023492..2023722_NEGATIVE 274 45 2 87 49 NC_002950:PG2124|5end_glyceraldehyde_3-phosphate_dehydrogenase,_type_I_2230174..2230404_POSITIVE 261 100 53 129 72 NC_002950:PG0286|5end_hypothetical_protein_320117..320347_POSITIVE 260 55 11 171 129 NC_002950:PG1338|5end_umuC_protein_1418246..1418476_POSITIVE 260 77 32 197 146 NC_002950:PG1315|5end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_1396190..1396420_NEGATIVE 258 72 33 198 166 NC_002950:PG0831|5end_hypothetical_protein_887403..887633_POSITIVE 258 49 3 110 74 NC_002950:PG0133|5end_hypothetical_protein_155764..155994_NEGATIVE 256 119 88 47 21 NC_002950:PG2200|5end_TPR_domain_protein_2308807..2309037_NEGATIVE 256 130 95 227 186 NC_002950:PG2068|5end_glycerol-3-phosphate_cytidylyltransferase_2164334..2164564_POSITIVE 256 70 22 113 65 NC_002950:PG0727|5end_hypothetical_protein_778595..778825_NEGATIVE 255 130 93 50 9 NC_002950:PG1712|5end_alpha-1,2-mannosidase_family_protein_1801325..1801555_NEGATIVE 255 60 16 61 8 NC_002950:PG1154|5end_hypothetical_protein_1235825..1236055_NEGATIVE 255 60 16 197 144 NC_002950:PG1153|5end_hypothetical_protein_1235689..1235919_NEGATIVE 253 100 53 191 153 NC_002950:PG1682|5end_glycosyl_transferase,_group_1_family_protein_1768385..1768615_POSITIVE 252 45 2 56 10 NC_002950:PG1678|5end_hypothetical_protein_1763862..1764092_NEGATIVE 248 59 18 35 6 NC_002950:PG2185|5end_transporter,_putative_2293249..2293479_NEGATIVE 245 47 8 97 46 NC_002950:PG2142|5end_GTP-binding_protein_Era_2247585..2247815_POSITIVE 245 59 13 40 6 NC_002950:PG1703|5end_MazG_family_protein_1790753..1790983_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 309 43 1 137 92 NC_002950:PG0502|3end_SsrA-binding_protein_542000..542150_POSITIVE 276 50 3 53 10 NC_002950:PG1937|3end_50S_ribosomal_protein_L4_2023507..2023657_NEGATIVE 274 45 2 76 38 NC_002950:PG2123|3end_hypothetical_protein_2230243..2230393_POSITIVE 271 127 81 145 93 NC_002950:PG1807|3end_v-type_ATPase,_subunit_K_1902625..1902775_POSITIVE 268 47 2 146 88 NC_002950:PG1218|3end_hypothetical_protein_1296475..1296625_POSITIVE 266 60 16 69 26 NC_002950:PG1338|3end_umuC_protein_1419624..1419774_POSITIVE 264 42 1 141 97 NC_002950:PG0585|3end_YqeY_family_protein_643801..643951_POSITIVE 263 49 4 140 100 NC_002950:PG2034|3end_oxidoreductase,_FAD-binding,_putative_2134910..2135060_NEGATIVE 260 77 32 146 95 NC_002950:PG1316|3end_hypothetical_protein_1396241..1396391_NEGATIVE 258 49 3 91 55 NC_002950:PG0134|3end_magnesium_transporter_155783..155933_NEGATIVE 256 70 22 67 19 NC_002950:PG0728|3end_hypothetical_protein_778641..778791_NEGATIVE 251 59 12 46 6 NC_002950:PG1966|3end_hypothetical_protein_2056118..2056268_NEGATIVE 251 58 13 133 96 NC_002950:PG1387|3end_hypothetical_protein_1469132..1469282_NEGATIVE 239 109 69 60 30 NC_002950:PG1697|3end_type_II_restriction_endonuclease,_putative_1785074..1785224_POSITIVE 239 60 23 48 8 NC_002950:PG1145|3end_long-chain-fatty-acid--CoA_ligase,_putative_1228482..1228632_NEGATIVE 238 116 86 61 33 NC_002950:PG1114|3end_aspartate_1-decarboxylase_precursor_1187473..1187623_POSITIVE 237 38 3 72 33 NC_002950:PG0737|3end_hypothetical_protein_786546..786696_POSITIVE 236 76 38 118 78 NC_002950:PG2206|3end_ABC_transporter,_ATP-binding_protein_2317250..2317400_NEGATIVE 236 41 5 92 57 NC_002950:PG0484|3end_hypothetical_protein_523851..524001_NEGATIVE 236 41 4 92 59 NC_002950:PG0267|3end_arginyl-tRNA_synthetase_300973..301123_POSITIVE