Origin IGS: tattatatgcttgattcgtatcggggaatctccgaacgagagggtgcggagtagttgtttccctcctgattatatttttcgagtgacaaaattactgaaaataaagagactaacccccgtctcctgaaagtacggctgtaaagaataacgagcgcacggaagtttaggagcgatgttctattaaaaaacagaaagcgatgtgacgagatcgctactgagcaagcaatcttggcacaccgccttcgctgataatctcgggggagatggtgcagatg .........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 catctgcaccatctcccccgagattatcagcgaaggcggtgtgccaagattgcttgctcagtagcgatctcgtcacatcgctttctgttttttaatagaacatcgctcctaaacttccgtgcgctcgttattctttacagccgtactttcaggagacgggggttagtctctttattttcagtaattttgtcactcgaaaaatataatcaggagggaaacaactactccgcaccctctcgttcggagattccccgatacgaatcaagcatataata Mask Tandem Repeat Region ================================================ tattatatgcttgattcgtatcggggaatctccgaacgagagggtgcggagtagttgtttccctcctgattatatttttcgagtgacaaaattactgaaaataaagagactaacccccgtctcctgaaagtacggctgtaaagaataacgagcgcacggaagtttaggagcgatgttctattaaaaaacagaaagcgatgtgacgagatcgctactgagcaagcaatcttggcacaccgccttcgctgataatctcgggggagatggtgcagatg Find is-nt database================================================ Query_seq: PG2206:PG2207|PG2206:PG2207:ABC transporter, ATP-binding protein:hypothetical protein:<-<-:2318957..2319231 275 tattatatgcttgattcgtatcggggaatctccgaacgagagggtgcggagtagttgtttccctcctgattatatttttcgagtgacaaaattactgaaaataaagagactaacccccgtctcctgaaagtacggctgtaaagaataacgagcgcacggaagtttaggagcgatgttctattaaaaaacagaaagcgatgtgacgagatcgctactgagcaagcaatcttggcacaccgccttcgctgataatctcgggggagatggtgcagatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2206:PG2207|PG2206:PG2207:ABC transporter, ATP-binding protein:hypothetical protein:<-<-:2318957..2319231 275 tattatatgcttgattcgtatcggggaatctccgaacgagagggtgcggagtagttgtttccctcctgattatatttttcgagtgacaaaattactgaaaataaagagactaacccccgtctcctgaaagtacggctgtaaagaataacgagcgcacggaagtttaggagcgatgttctattaaaaaacagaaagcgatgtgacgagatcgctactgagcaagcaatcttggcacaccgccttcgctgataatctcgggggagatggtgcagatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2206:PG2207|PG2206:PG2207:ABC transporter, ATP-binding protein:hypothetical protein:<-<-:2318957..2319231 275 tattatatgcttgattcgtatcggggaatctccgaacgagagggtgcggagtagttgtttccctcctgattatatttttcgagtgacaaaattactgaaaataaagagactaacccccgtctcctgaaagtacggctgtaaagaataacgagcgcacggaagtttaggagcgatgttctattaaaaaacagaaagcgatgtgacgagatcgctactgagcaagcaatcttggcacaccgccttcgctgataatctcgggggagatggtgcagatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tattatatgcttgattcgtatcggggaatctccgaacgagagggtgcggagtagttgtttccctcctgattatatttttcgagtgacaaaattactgaaaataaagagactaacccccgtctcctgaaagtacggctgtaaagaataacgagcgcacggaagtttaggagcgatgttctattaaaaaacagaaagcgatgtgacgagatcgctactgagcaagcaatcttggcacaccgccttcgctgataatctcgggggagatggtgcagatg Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 2 End: 124 . M I C L I R I G E S P N E R V R S S C F P P D Y I F R V T K L L K I K R L T P V S ....................................................................................................................................................... Protein_Len: 34 Strand: + Start: 145 End: 246 ................................................................................................................................................ M T S A R K F R S D V L L K N R K R C D E I A T E Q A I L A H R L R ............................. Protein_Len: 34 Strand: - Start: 73 End: 174 ........................................................................ I K R T V F N S F I F L S V G T E Q F Y P Q L S Y R A C P L K P A M ..................................................................................................... Protein_Len: 60 Strand: - Start: 6 End: 272 ..... V S F L S V L G R R R F T R S Y L I V L A R F N L L S T R N F F L F R H S S I A V S C A I K A C R R R Q Y D R P L H H M ... tattatatgcttgattcgtatcggggaatctccgaacgagagggtgcggagtagttgtttccctcctgattatatttttcgagtgacaaaattactgaaaataaagagactaacccccgtctcctgaaagtacggctgtaaagaataacgagcgcacggaagtttaggagcgatgttctattaaaaaacagaaagcgatgtgacgagatcgctactgagcaagcaatcttggcacaccgccttcgctgataatctcgggggagatggtgcagatg 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================================================ tattatatgcttgattcgtatcggggaatctccgaacgagagggtgcggagtagttgtttccctcctgattatatttttcgagtgacaaaattactgaaaataaagagactaacccccgtctcctgaaagtacggctgtaaagaataacgagcgcacggaagtttaggagcgatgttctattaaaaaacagaaagcgatgtgacgagatcgctactgagcaagcaatcttggcacaccgccttcgctgataatctcgggggagatggtgcagatg Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 65 HP_score: -2.7 Tail_Score: -4.6951 Start: 106 End: 123 Full_Region: cagccgtactttcag gagac gggggtta gtctc tttattttcagtaat .........................................................................................................gagacgggggttagtctc........................................................................................................................................................ TransTerm Strand: - Conf: 93 HP_score: -9.6 Tail_Score: -5.14563 Start: 189 End: 245 Full_Region: ccccgagattatcag cgaaggcggtgtgccaagattgcttgc tca gtagcgatctcgtcacatcgctttctg ttttttaatagaaca ............................................................................................................................................................................................cgaaggcggtgtgccaagattgcttgctcagtagcgatctcgtcacatcgctttctg.............................. TransTerm Strand: - Conf: 100 HP_score: -13.3 Tail_Score: -4.20707 Start: 191 End: 244 Full_Region: cccgagattatcagc gaaggcggtgtgccaagattgcttgc tca gtagcgatctcgtcacatcgctttc tgttttttaatagaa ..............................................................................................................................................................................................gaaggcggtgtgccaagattgcttgctcagtagcgatctcgtcacatcgctttc............................... TransTerm Strand: - Conf: 91 HP_score: -10.5 Tail_Score: -4.66347 Start: 195 End: 240 Full_Region: agattatcagcgaag gcggtgtgccaagattgcttgc tca gtagcgatctcgtcacatcgc tttctgttttttaat ..................................................................................................................................................................................................gcggtgtgccaagattgcttgctcagtagcgatctcgtcacatcgc................................... Find igs database================================================ Query_seq: PG2206:PG2207|PG2206:PG2207:ABC transporter, ATP-binding protein:hypothetical protein:<-<-:2318957..2319231 275 tattatatgcttgattcgtatcggggaatctccgaacgagagggtgcggagtagttgtttccctcctgattatatttttcgagtgacaaaattactgaaaataaagagactaacccccgtctcctgaaagtacggctgtaaagaataacgagcgcacggaagtttaggagcgatgttctattaaaaaacagaaagcgatgtgacgagatcgctactgagcaagcaatcttggcacaccgccttcgctgataatctcgggggagatggtgcagatg Intra-Species Hit: Count: 1 Min: 1 Max: 275 Len: 275 Subject: NC_002950_PG2206_PG2207|ABC transporter, ATP-binding protein:hypothetical protein|NEGATIVE:NEGATIVE|[2318957,2319231]|275 HSP 1 e-value: 1.0E-154 bit: 545.0 Len: 275 Query Start:1 Query End:275 Subject Strand: POSITIVE Subject Start: 1 Subject End: 275 tattatatgcttgattcgtatcggggaatctccgaacgagagggtgcggagtagttgtttccctcctgattatatttttcgagtgacaaaattactgaaaataaagagactaacccccgtctcctgaaagtacggctgtaaagaataacgagcgcacggaagtttaggagcgatgttctattaaaaaacagaaagcgatgtgacgagatcgctactgagcaagcaatcttggcacaccgccttcgctgataatctcgggggagatggtgcagatg tattatatgcttgattcgtatcggggaatctccgaacgagagggtgcggagtagttgtttccctcctgattatatttttcgagtgacaaaattactgaaaataaagagactaacccccgtctcctgaaagtacggctgtaaagaataacgagcgcacggaagtttaggagcgatgttctattaaaaaacagaaagcgatgtgacgagatcgctactgagcaagcaatcttggcacaccgccttcgctgataatctcgggggagatggtgcagatg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUAUAUGCUUGAUUCGUAUCGGGGAAUCUCCGAACGAGAGGGUGCGGAGUAGUUGUUUCCCUCCUGAUUAUAUUUUUCGAGUGACAAAAUUACUGAAAAUAAAGAGACUAACCCCCGUCUCCUGAAAGUACGGCUGUAAAGAAUAACGAGCGCACGGAAGUUUAGGAGCGAUGUUCUAUUAAAAAACAGAAAGCGAUGUGACGAGAUCGCUACUGAGCAAGCAAUCUUGGCACACCGCCUUCGCUGAUAAUCUCGGGGGAGAUGGUGCAGAUG ........((((..(((((.((((((...))))))))))).)))).....(((.(..((((((((..((((((..(((((.(((((.....))))))))))....(((((........))))).........((((.....((((((.((..(..((....))....)..)).))))))...........(((.(((.((((.((((((.(((........))).)))))).)))).))).)))))))))))))..))))))))..))))..... (-79.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUCUGCACCAUCUCCCCCGAGAUUAUCAGCGAAGGCGGUGUGCCAAGAUUGCUUGCUCAGUAGCGAUCUCGUCACAUCGCUUUCUGUUUUUUAAUAGAACAUCGCUCCUAAACUUCCGUGCGCUCGUUAUUCUUUACAGCCGUACUUUCAGGAGACGGGGGUUAGUCUCUUUAUUUUCAGUAAUUUUGUCACUCGAAAAAUAUAAUCAGGAGGGAAACAACUACUCCGCACCCUCUCGUUCGGAGAUUCCCCGAUACGAAUCAAGCAUAUAAUA ....(((....(((((...(((.(((..(((((.(((((((((.(.((((((((........)))))))).).)))))))))(((((((....)))))))..)))))..))).)))..(((((((.((........)))).))))).....)))))((((((...((((((...((((((((.........))).))))).........((((((................)))))).....))))))))))))...........)))....... (-78.49) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1060 70 21 161 112 NC_002950:PG2206|5end_ABC_transporter,_ATP-binding_protein_2318866..2319096_NEGATIVE 394 67 33 204 166 NC_002950:PG1739|5end_hypothetical_protein_1825709..1825939_NEGATIVE 380 60 14 63 9 NC_002950:PG0630|5end_pyridoxal_phosphate_biosynthetic_protein_683392..683622_POSITIVE 379 50 1 79 7 NC_002950:PG0311|5end_glycosyl_transferase,_group_2_family_protein_346512..346742_NEGATIVE 377 269 229 160 114 NC_002950:PG0221|5end_hypothetical_protein_255834..256064_NEGATIVE 377 54 12 58 16 NC_002950:PG0099|5end_phenylalanyl-tRNA_synthetase_beta_subunit_118286..118516_NEGATIVE 373 61 21 71 35 NC_002950:PG1476|5end_conjugative_transposon_protein_TraM_1553219..1553449_NEGATIVE 371 270 223 218 155 NC_002950:PG0497|5end_5'-methylthioadenosine/S-adenosylhomocysteine_nucleosidase_537257..537487_POSITIVE 371 270 223 129 66 NC_002950:PG0496|5end_hypothetical_protein_537168..537398_POSITIVE 367 260 211 192 134 NC_002950:PG2147|5end_xanthine_phosphoribosyltransferase_2255400..2255630_NEGATIVE 365 50 7 228 171 NC_002950:PG0071|5end_UDP-3-O-acyl-GlcNAc_deacetylase/beta-hydroxyacyl-[acyl_carrier_protein]_dehydratase_FabZ_86119..86349_NEGATIVE 360 57 18 181 136 NC_002950:PG1500|5end_hypothetical_protein_1576099..1576329_POSITIVE 360 71 34 230 187 NC_002950:PG0804|5end_flavodoxin_861765..861995_NEGATIVE 359 68 23 202 149 NC_002950:PG2201|5end_peptide_deformylase_2309412..2309642_NEGATIVE 358 57 14 62 16 NC_002950:PG1887|5end_rhodanese-like_domain_protein_1984565..1984795_POSITIVE 350 270 221 47 1 NC_002950:PG1778|5end_hypothetical_protein_1867054..1867284_POSITIVE 348 260 211 231 175 NC_002950:PG1693|5end_HesA/MoeB/ThiF_family_protein_1777919..1778149_NEGATIVE 345 269 222 65 8 NC_002950:PG1340|5end_L-lactate_permease_1421848..1422078_NEGATIVE 345 70 33 47 7 NC_002950:PG0633|5end_hypothetical_protein_685301..685531_POSITIVE 344 67 23 199 146 NC_002950:PG1176|5end_ABC_transporter,_ATP-binding_protein,_putative_1257644..1257874_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 402 270 223 140 85 NC_002950:PG1690|3end_Sua5/YciO/YrdC/YwlC_family_protein_1775171..1775321_NEGATIVE 394 67 33 57 19 NC_002950:PG1741|3end_aspartate_ammonia-lyase_1825856..1826006_NEGATIVE 394 239 192 63 15 NC_002950:PG0138|3end_malonyl_CoA-acyl_carrier_protein_transacylase_161634..161784_POSITIVE 379 50 1 82 10 NC_002950:PG0312|3end_hypothetical_protein_346509..346659_NEGATIVE 377 269 229 81 35 NC_002950:PG0222|3end_DNA-binding_protein,_histone-like_family_255913..256063_NEGATIVE 376 68 21 103 60 NC_002950:PG0139|3end_membrane-bound_lytic_murein_transglycosylase_D,_putative_161786..161936_NEGATIVE 373 70 22 138 96 NC_002950:PG1608|3end_methylmalonyl-CoA_decarboxylase,_beta_subunit_1688685..1688835_NEGATIVE 373 61 21 81 45 NC_002950:PG1477|3end_hypothetical_protein_1553209..1553359_NEGATIVE 366 240 193 102 55 NC_002950:PG2140|3end_ribosomal_protein_L32_2246399..2246549_POSITIVE 366 269 223 143 82 NC_002950:PG1497|3end_DNA-binding_protein,_histone-like_family_1574635..1574785_POSITIVE 360 57 18 103 58 NC_002950:PG1499|3end_hypothetical_protein_1576101..1576251_POSITIVE 359 68 23 97 44 NC_002950:PG2202|3end_Holliday_junction_resolvase-like_protein_2309517..2309667_NEGATIVE 356 59 20 92 54 NC_002950:PG0508|3end_HAD-superfamily_subfamily_IB_hydrolase,_TIGR01490_548136..548286_NEGATIVE 354 55 13 78 17 NC_002950:PG1186|3end_hypothetical_protein_1267703..1267853_NEGATIVE 354 67 31 40 5 NC_002950:PG0172|3end_exonuclease_194355..194505_POSITIVE 352 69 22 139 85 NC_002950:PG1286|3end_ferritin_1365019..1365169_NEGATIVE 349 270 236 81 44 NC_002950:PG0334|3end_glycosyl_transferase,_group_2_family_protein_368792..368942_NEGATIVE 345 70 33 42 2 NC_002950:PG0632|3end_biopolymer_transport_protein_ExbD,_putative_685376..685526_POSITIVE 344 245 205 133 94 NC_002950:PG2040|3end_DNA-binding_protein,_histone-like_family_2138398..2138548_NEGATIVE 344 270 223 91 44 NC_002950:PG0320|3end_hypothetical_protein_354577..354727_POSITIVE