Origin IGS: tcgcatcttcccgattattggcagggggagatgtttccgaacaaaagaatcaatgagtaaaaagaaagataaaagcaagactaaagcccgcaagggagacgctcctcgcatcaaccgtgccggccgtaggaacaagcgc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gcgcttgttcctacggccggcacggttgatgcgaggagcgtctcccttgcgggctttagtcttgcttttatctttctttttactcattgattcttttgttcggaaacatctccccctgccaataatcgggaagatgcga Mask Tandem Repeat Region ================================================ tcgcatcttcccgattattggcagggggagatgtttccgaacaaaagaatcaatgagtaaaaagaaagataaaagcaagactaaagcccgcaagggagacgctcctcgcatcaaccgtgccggccgtaggaacaagcgc Find is-nt database================================================ Query_seq: PG1720:PG1721|PG1720:PG1721:hypothetical protein:ribonuclease R:->->:1810285..1810423 139 tcgcatcttcccgattattggcagggggagatgtttccgaacaaaagaatcaatgagtaaaaagaaagataaaagcaagactaaagcccgcaagggagacgctcctcgcatcaaccgtgccggccgtaggaacaagcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1720:PG1721|PG1720:PG1721:hypothetical protein:ribonuclease R:->->:1810285..1810423 139 tcgcatcttcccgattattggcagggggagatgtttccgaacaaaagaatcaatgagtaaaaagaaagataaaagcaagactaaagcccgcaagggagacgctcctcgcatcaaccgtgccggccgtaggaacaagcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1720:PG1721|PG1720:PG1721:hypothetical protein:ribonuclease R:->->:1810285..1810423 139 tcgcatcttcccgattattggcagggggagatgtttccgaacaaaagaatcaatgagtaaaaagaaagataaaagcaagactaaagcccgcaagggagacgctcctcgcatcaaccgtgccggccgtaggaacaagcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcgcatcttcccgattattggcagggggagatgtttccgaacaaaagaatcaatgagtaaaaagaaagataaaagcaagactaaagcccgcaagggagacgctcctcgcatcaaccgtgccggccgtaggaacaagcgc Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 5 End: 139 .... M F P I I G R G R C F R T K E S M S K K K D K S K T K A R K G D A P R I N R A G R R N K R Protein_Len: 45 Strand: - Start: 1 End: 135 R M K G I I P L P L H K R V F S D I L L F F S L L L V L A R L P S A G R M L R A P R L F M .... tcgcatcttcccgattattggcagggggagatgtttccgaacaaaagaatcaatgagtaaaaagaaagataaaagcaagactaaagcccgcaagggagacgctcctcgcatcaaccgtgccggccgtaggaacaagcgc 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================================================ tcgcatcttcccgattattggcagggggagatgtttccgaacaaaagaatcaatgagtaaaaagaaagataaaagcaagactaaagcccgcaagggagacgctcctcgcatcaaccgtgccggccgtaggaacaagcgc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1720:PG1721|PG1720:PG1721:hypothetical protein:ribonuclease R:->->:1810285..1810423 139 tcgcatcttcccgattattggcagggggagatgtttccgaacaaaagaatcaatgagtaaaaagaaagataaaagcaagactaaagcccgcaagggagacgctcctcgcatcaaccgtgccggccgtaggaacaagcgc Intra-Species Hit: Count: 1 Min: 1 Max: 139 Len: 139 Subject: NC_002950_PG1720_PG1721|hypothetical protein:ribonuclease R|POSITIVE:POSITIVE|[1810285,1810423]|139 HSP 1 e-value: 2.0E-73 bit: 276.0 Len: 139 Query Start:1 Query End:139 Subject Strand: POSITIVE Subject Start: 1 Subject End: 139 tcgcatcttcccgattattggcagggggagatgtttccgaacaaaagaatcaatgagtaaaaagaaagataaaagcaagactaaagcccgcaagggagacgctcctcgcatcaaccgtgccggccgtaggaacaagcgc tcgcatcttcccgattattggcagggggagatgtttccgaacaaaagaatcaatgagtaaaaagaaagataaaagcaagactaaagcccgcaagggagacgctcctcgcatcaaccgtgccggccgtaggaacaagcgc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGCAUCUUCCCGAUUAUUGGCAGGGGGAGAUGUUUCCGAACAAAAGAAUCAAUGAGUAAAAAGAAAGAUAAAAGCAAGACUAAAGCCCGCAAGGGAGACGCUCCUCGCAUCAACCGUGCCGGCCGUAGGAACAAGCGC ..((((((((((............))))))))))........................................((....(((..(((.(((.((..((.((.....)).))..)).))).)))..)))......)).. (-34.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCGCUUGUUCCUACGGCCGGCACGGUUGAUGCGAGGAGCGUCUCCCUUGCGGGCUUUAGUCUUGCUUUUAUCUUUCUUUUUACUCAUUGAUUCUUUUGUUCGGAAACAUCUCCCCCUGCCAAUAAUCGGGAAGAUGCGA ..((..(...(((.((((.(((.((..(((((.....)))))..)).))).)))).))).)..))...(((((((((...........((((..((.((..(((......)))....)).)).)))))))))))))... (-36.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 442 130 89 204 141 NC_002950:PG2073|5end_hypothetical_protein_2174374..2174604_NEGATIVE 442 130 89 204 141 NC_002950:PG1669|5end_hypothetical_protein_1755566..1755796_NEGATIVE 442 130 89 204 141 NC_002950:PG1264|5end_hypothetical_protein_1344895..1345125_NEGATIVE 442 130 89 204 141 NC_002950:PG0103|5end_hypothetical_protein_121290..121520_POSITIVE 410 126 81 222 167 NC_002950:PG0356|5end_hypothetical_protein_390611..390841_POSITIVE 400 126 90 223 185 NC_002950:PG1475|5end_conjugative_transposon_protein_TraN_1551835..1552065_NEGATIVE 392 128 86 113 77 NC_002950:PG0438|5end_hypothetical_protein_476884..477114_POSITIVE 387 127 89 52 10 NC_002950:PG1936|5end_ribosomal_protein_L23_2023492..2023722_NEGATIVE 387 128 86 213 171 NC_002950:PG1481|5end_conjugative_transposon_protein_TraG_1558447..1558677_NEGATIVE 374 128 86 65 23 NC_002950:PG0679|5end_outer_membrane_efflux_protein_729594..729824_POSITIVE 370 129 81 121 72 NC_002950:PG1388|5end_hypothetical_protein_1470889..1471119_NEGATIVE 364 130 81 199 140 NC_002950:PG1499|5end_hypothetical_protein_1575524..1575754_POSITIVE 357 130 89 216 172 NC_002950:PG0098|5end_hypothetical_protein_115843..116073_NEGATIVE 356 126 86 191 161 NC_002950:PG0468|5end_mannose-6-phosphate_isomerase,_class_I_511384..511614_NEGATIVE 355 128 85 68 7 NC_002950:PG1289|5end_GDP-fucose_synthetase_1367041..1367271_POSITIVE 354 130 86 216 170 NC_002950:PG0222|5end_DNA-binding_protein,_histone-like_family_256380..256610_NEGATIVE 352 130 85 186 134 NC_002950:PG1769|5end_hypothetical_protein_1856607..1856837_POSITIVE 352 127 90 158 113 NC_002950:PG1173|5end_YkgG_family_protein_1252435..1252665_POSITIVE 351 123 86 44 2 NC_002950:PG2135|5end_lipoprotein,_putative_2241321..2241551_POSITIVE 351 124 86 69 23 NC_002950:PG1863|5end_hypothetical_protein_1960516..1960746_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 442 130 89 75 12 NC_002950:PG2074|3end_hypothetical_protein_2174503..2174653_NEGATIVE 442 130 89 75 12 NC_002950:PG1670|3end_hypothetical_protein_1755695..1755845_NEGATIVE 442 130 89 75 12 NC_002950:PG1265|3end_hypothetical_protein_1345024..1345174_NEGATIVE 442 130 89 75 12 NC_002950:PG0102|3end_hypothetical_protein_121241..121391_POSITIVE 377 130 88 75 6 NC_002950:PG0172|3end_exonuclease_194355..194505_POSITIVE 370 129 81 140 91 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE 369 130 81 151 91 NC_002950:PG1859|3end_glycerate_kinase_family_protein_1957174..1957324_NEGATIVE 355 128 85 75 14 NC_002950:PG1288|3end_GDP-mannose_4,6-dehydratase_1367128..1367278_POSITIVE 351 124 86 76 30 NC_002950:PG1864|3end_leucine-rich_protein_1960509..1960659_NEGATIVE 351 127 89 108 53 NC_002950:PG0520|3end_chaperonin_GroEL_563618..563768_NEGATIVE 351 127 86 57 19 NC_002950:PG0224|3end_hypothetical_protein_257614..257764_NEGATIVE 348 130 86 136 59 NC_002950:PG0334|3end_glycosyl_transferase,_group_2_family_protein_368792..368942_NEGATIVE 348 130 85 151 93 NC_002950:PG0143|3end_hydrolase,_carbon-nitrogen_family_165747..165897_NEGATIVE 345 126 87 49 5 NC_002950:PG1476|3end_conjugative_transposon_protein_TraM_1551858..1552008_NEGATIVE 344 130 88 144 98 NC_002950:PG0555|3end_DNA-binding_protein,_histone-like_family_611716..611866_NEGATIVE 339 117 74 84 37 NC_002950:PG0148|3end_sigma-54-dependent_transcriptional_regulator_169654..169804_NEGATIVE 338 126 85 143 96 NC_002950:PG0603|3end_cytidylate_kinase_660345..660495_POSITIVE 336 130 85 73 4 NC_002950:PG1112|3end_hypothetical_protein_1185571..1185721_POSITIVE 335 128 85 107 51 NC_002950:PG1738|3end_hypothetical_protein_1824097..1824247_NEGATIVE 335 48 2 146 96 NC_002950:PG0857|3end_transcriptional_regulator,_putative_917623..917773_POSITIVE