Origin IGS: tgtccttagaggatatttctcgcgtttagtatctaaatccatcggattgcattcgggggtaattcatttcttttcgagtctgctctaccggtttggattgcaaacagtaatcattacaaagaacgtaaacgaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttcgtttacgttctttgtaatgattactgtttgcaatccaaaccggtagagcagactcgaaaagaaatgaattacccccgaatgcaatccgatggatttagatactaaacgcgagaaatatcctctaaggaca Mask Tandem Repeat Region ================================================ tgtccttagaggatatttctcgcgtttagtatctaaatccatcggattgcattcgggggtaattcatttcttttcgagtctgctctaccggtttggattgcaaacagtaatcattacaaagaacgtaaacgaaa Find is-nt database================================================ Query_seq: PG0376:PG0377|PG0376:PG0377:30S ribosomal protein S9:30S ribosomal protein S2:->->:406926..407059 134 tgtccttagaggatatttctcgcgtttagtatctaaatccatcggattgcattcgggggtaattcatttcttttcgagtctgctctaccggtttggattgcaaacagtaatcattacaaagaacgtaaacgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0376:PG0377|PG0376:PG0377:30S ribosomal protein S9:30S ribosomal protein S2:->->:406926..407059 134 tgtccttagaggatatttctcgcgtttagtatctaaatccatcggattgcattcgggggtaattcatttcttttcgagtctgctctaccggtttggattgcaaacagtaatcattacaaagaacgtaaacgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0376:PG0377|PG0376:PG0377:30S ribosomal protein S9:30S ribosomal protein S2:->->:406926..407059 134 tgtccttagaggatatttctcgcgtttagtatctaaatccatcggattgcattcgggggtaattcatttcttttcgagtctgctctaccggtttggattgcaaacagtaatcattacaaagaacgtaaacgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtccttagaggatatttctcgcgtttagtatctaaatccatcggattgcattcgggggtaattcatttcttttcgagtctgctctaccggtttggattgcaaacagtaatcattacaaagaacgtaaacgaaa Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 37 End: 132 .................................... M H R I A F G G N S F L F E S A L P V W I A N S N H Y K E R K R .. Protein_Len: 31 Strand: + Start: 41 End: 133 ........................................ M G L H S G V I H F F S S L L Y R F G L Q T V I I T K N V N E . tgtccttagaggatatttctcgcgtttagtatctaaatccatcggattgcattcgggggtaattcatttcttttcgagtctgctctaccggtttggattgcaaacagtaatcattacaaagaacgtaaacgaaa 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================================================ tgtccttagaggatatttctcgcgtttagtatctaaatccatcggattgcattcgggggtaattcatttcttttcgagtctgctctaccggtttggattgcaaacagtaatcattacaaagaacgtaaacgaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0376:PG0377|PG0376:PG0377:30S ribosomal protein S9:30S ribosomal protein S2:->->:406926..407059 134 tgtccttagaggatatttctcgcgtttagtatctaaatccatcggattgcattcgggggtaattcatttcttttcgagtctgctctaccggtttggattgcaaacagtaatcattacaaagaacgtaaacgaaa Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: NC_002950_PG0376_PG0377|30S ribosomal protein S9:30S ribosomal protein S2|POSITIVE:POSITIVE|[406926,407059]|134 HSP 1 e-value: 2.0E-70 bit: 266.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 tgtccttagaggatatttctcgcgtttagtatctaaatccatcggattgcattcgggggtaattcatttcttttcgagtctgctctaccggtttggattgcaaacagtaatcattacaaagaacgtaaacgaaa tgtccttagaggatatttctcgcgtttagtatctaaatccatcggattgcattcgggggtaattcatttcttttcgagtctgctctaccggtttggattgcaaacagtaatcattacaaagaacgtaaacgaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUCCUUAGAGGAUAUUUCUCGCGUUUAGUAUCUAAAUCCAUCGGAUUGCAUUCGGGGGUAAUUCAUUUCUUUUCGAGUCUGCUCUACCGGUUUGGAUUGCAAACAGUAAUCAUUACAAAGAACGUAAACGAAA (((((.....))))).......((((((((.(((......(((((...(((((((..((.((.....)).))..))))..)))....)))))...((((((.....)))))).......))))).))))))... (-29.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCGUUUACGUUCUUUGUAAUGAUUACUGUUUGCAAUCCAAACCGGUAGAGCAGACUCGAAAAGAAAUGAAUUACCCCCGAAUGCAAUCCGAUGGAUUUAGAUACUAAACGCGAGAAAUAUCCUCUAAGGACA (((((((((((.....)))))...(((.((((((.((((((...(((....(((...(((...................))).)))...))).)))))))))))).)))..))))))....(((.....))).. (-23.81) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 349 60 11 64 5 NC_002950:PG0150|5end_conserved_hypothetical_protein_TIGR01125_173544..173774_NEGATIVE 334 58 11 56 3 NC_002950:PG1324|5end_Holliday_junction_resolvase_1403431..1403661_NEGATIVE 329 98 54 62 12 NC_002950:PG2205|5end_2-dehydropantoate_2-reductase_2316121..2316351_POSITIVE 327 80 31 213 150 NC_002950:PG1925|5end_ribosomal_protein_S14_2018675..2018905_NEGATIVE 318 89 42 92 47 NC_002950:PG1459|5end_hypothetical_protein_1539769..1539999_NEGATIVE 318 100 53 154 91 NC_002950:PG0713|5end_anthranilate_synthase_component_II_767749..767979_NEGATIVE 317 96 58 228 195 NC_002950:PG1678|5end_hypothetical_protein_1763862..1764092_NEGATIVE 317 95 53 45 2 NC_002950:PG0143|5end_hydrolase,_carbon-nitrogen_family_166625..166855_NEGATIVE 315 100 54 143 97 NC_002950:PG0984|5end_hypothetical_protein_1046919..1047149_NEGATIVE 313 90 41 170 112 NC_002950:PG0431|5end_hypothetical_protein_468978..469208_POSITIVE 309 58 15 148 102 NC_002950:PG0068|5end_hypothetical_protein_81748..81978_POSITIVE 306 59 11 63 15 NC_002950:PG1703|5end_MazG_family_protein_1790753..1790983_NEGATIVE 306 89 44 197 161 NC_002950:PG1478|5end_conjugative_transposon_protein_TraK_1554116..1554346_NEGATIVE 304 90 44 215 170 NC_002950:PG0387|5end_elongation_factor_Tu_420643..420873_POSITIVE 302 97 54 66 16 NC_002950:PG2046|5end_hypothetical_protein_2144349..2144579_POSITIVE 302 70 26 108 64 NC_002950:PG0256|5end_CvpA_family_protein_289509..289739_POSITIVE 299 90 47 213 160 NC_002950:PG2016|5end_CRISPR-associated_helicase_Cas3_2108370..2108600_NEGATIVE 299 85 43 206 170 NC_002950:PG0548|5end_pyruvate_ferredoxin/flavodoxin_oxidoreductase_family_protein_602098..602328_POSITIVE 297 86 41 82 45 NC_002950:PG1915|5end_ribosomal_protein_L36_2013467..2013697_NEGATIVE 297 86 41 231 194 NC_002950:PG1914|5end_30S_ribosomal_protein_S13_2013318..2013548_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 349 60 11 67 8 NC_002950:PG0151|3end_signal_recognition_particle-docking_protein_FtsY_173541..173691_NEGATIVE 348 90 42 61 17 NC_002950:PG1634|3end_hypothetical_protein_1714723..1714873_NEGATIVE 321 76 39 45 1 NC_002950:PG0844|3end_hypothetical_protein_905461..905611_POSITIVE 316 86 42 54 1 NC_002950:PG0053|3end_hypothetical_protein_64967..65117_NEGATIVE 302 70 26 80 36 NC_002950:PG0255|3end_translation_initiation_factor_IF-2_289561..289711_POSITIVE 298 128 82 69 15 NC_002950:PG0800|3end_hypothetical_protein_854719..854869_NEGATIVE 297 86 41 65 28 NC_002950:PG1916|3end_translation_initiation_factor_IF-1_2013484..2013634_NEGATIVE 293 90 41 134 85 NC_002950:PG1458|3end_hypothetical_protein_1539682..1539832_POSITIVE 292 90 44 133 88 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE 290 90 41 127 63 NC_002950:PG2140|3end_ribosomal_protein_L32_2246399..2246549_POSITIVE 290 77 40 70 23 NC_002950:PG1150|3end_hypothetical_protein_1233249..1233399_POSITIVE 290 97 51 146 93 NC_002950:PG0683|3end_ABC_transporter,_permease_protein,_putative_737701..737851_POSITIVE 288 90 44 127 75 NC_002950:PG1972|3end_hemagglutinin_protein_HagB_2061203..2061353_POSITIVE 287 105 70 128 89 NC_002950:PG1388|3end_hypothetical_protein_1470095..1470245_NEGATIVE 287 90 49 48 1 NC_002950:PG0669|3end_heme-binding_protein_FetB_720714..720864_POSITIVE 284 96 55 42 2 NC_002950:PG1172|3end_iron-sulfur_cluster_binding_protein,_putative_1252539..1252689_POSITIVE 284 100 55 86 48 NC_002950:PG0799|3end_hypothetical_protein_854599..854749_POSITIVE 280 114 75 57 28 NC_002950:PG1855|3end_carboxyl-terminal_protease_1953842..1953992_NEGATIVE 280 90 45 43 1 NC_002950:PG0958|3end_ribonuclease_BN,_putative_1018135..1018285_NEGATIVE 279 100 51 142 84 NC_002950:PG1276|3end_DNA-binding_protein,_histone-like_family_1353531..1353681_POSITIVE