Origin IGS: caaaaagacctagtagaacagaagtaataaatggtgatttcccggaggaaaacaataggccacaacacgagaatgaagagttcgtgagaagaaaaactgcaattcattgggtaaaaacgtaccgaacccgtatctttggacgctataagttcattgatacggtaaacttgtaattagtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aactaattacaagtttaccgtatcaatgaacttatagcgtccaaagatacgggttcggtacgtttttacccaatgaattgcagtttttcttctcacgaactcttcattctcgtgttgtggcctattgttttcctccgggaaatcaccatttattacttctgttctactaggtctttttg Mask Tandem Repeat Region ================================================ caaaaagacctagtagaacagaagtaataaatggtgatttcccggaggaaaacaataggccacaacacgagaatgaagagttcgtgagaagaaaaactgcaattcattgggtaaaaacgtaccgaacccgtatctttggacgctataagttcattgatacggtaaacttgtaattagtt Find is-nt database================================================ Query_seq: PG1470:PG1471|PG1470:PG1471:hypothetical protein:hypothetical protein:->->:1548492..1548670 179 caaaaagacctagtagaacagaagtaataaatggtgatttcccggaggaaaacaataggccacaacacgagaatgaagagttcgtgagaagaaaaactgcaattcattgggtaaaaacgtaccgaacccgtatctttggacgctataagttcattgatacggtaaacttgtaattagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1470:PG1471|PG1470:PG1471:hypothetical protein:hypothetical protein:->->:1548492..1548670 179 caaaaagacctagtagaacagaagtaataaatggtgatttcccggaggaaaacaataggccacaacacgagaatgaagagttcgtgagaagaaaaactgcaattcattgggtaaaaacgtaccgaacccgtatctttggacgctataagttcattgatacggtaaacttgtaattagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1470:PG1471|PG1470:PG1471:hypothetical protein:hypothetical protein:->->:1548492..1548670 179 caaaaagacctagtagaacagaagtaataaatggtgatttcccggaggaaaacaataggccacaacacgagaatgaagagttcgtgagaagaaaaactgcaattcattgggtaaaaacgtaccgaacccgtatctttggacgctataagttcattgatacggtaaacttgtaattagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 caaaaagacctagtagaacagaagtaataaatggtgatttcccggaggaaaacaataggccacaacacgagaatgaagagttcgtgagaagaaaaactgcaattcattgggtaaaaacgtaccgaacccgtatctttggacgctataagttcattgatacggtaaacttgtaattagtt Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 27 End: 170 .......................... M N G D F P E E N N R P Q H E N E E F V R R K T A I H W V K T Y R T R I F G R Y K F I D T V N L ......... Protein_Len: 30 Strand: - Start: 13 End: 102 ............ Y F L L L L H H N G P P F C Y A V V R S H L T R S F F F Q M ............................................................................. Protein_Len: 52 Strand: - Start: 3 End: 158 .. F S R T S C F Y Y I T I E R L F V I P W L V L I F L E H S S F S C N M P Y F R V S G T D K S A I L E N M ..................... Protein_Len: 34 Strand: - Start: 2 End: 103 . F L G L L V S T I F P S K G S S F L L G C C S F S S N T L L F V A M ............................................................................ caaaaagacctagtagaacagaagtaataaatggtgatttcccggaggaaaacaataggccacaacacgagaatgaagagttcgtgagaagaaaaactgcaattcattgggtaaaaacgtaccgaacccgtatctttggacgctataagttcattgatacggtaaacttgtaattagtt 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================================================ caaaaagacctagtagaacagaagtaataaatggtgatttcccggaggaaaacaataggccacaacacgagaatgaagagttcgtgagaagaaaaactgcaattcattgggtaaaaacgtaccgaacccgtatctttggacgctataagttcattgatacggtaaacttgtaattagtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1470:PG1471|PG1470:PG1471:hypothetical protein:hypothetical protein:->->:1548492..1548670 179 caaaaagacctagtagaacagaagtaataaatggtgatttcccggaggaaaacaataggccacaacacgagaatgaagagttcgtgagaagaaaaactgcaattcattgggtaaaaacgtaccgaacccgtatctttggacgctataagttcattgatacggtaaacttgtaattagtt Intra-Species Hit: Count: 1 Min: 1 Max: 179 Len: 179 Subject: NC_002950_PG1470_PG1471|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1548492,1548670]|179 HSP 1 e-value: 3.0E-97 bit: 355.0 Len: 179 Query Start:1 Query End:179 Subject Strand: POSITIVE Subject Start: 1 Subject End: 179 caaaaagacctagtagaacagaagtaataaatggtgatttcccggaggaaaacaataggccacaacacgagaatgaagagttcgtgagaagaaaaactgcaattcattgggtaaaaacgtaccgaacccgtatctttggacgctataagttcattgatacggtaaacttgtaattagtt caaaaagacctagtagaacagaagtaataaatggtgatttcccggaggaaaacaataggccacaacacgagaatgaagagttcgtgagaagaaaaactgcaattcattgggtaaaaacgtaccgaacccgtatctttggacgctataagttcattgatacggtaaacttgtaattagtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAAAAGACCUAGUAGAACAGAAGUAAUAAAUGGUGAUUUCCCGGAGGAAAACAAUAGGCCACAACACGAGAAUGAAGAGUUCGUGAGAAGAAAAACUGCAAUUCAUUGGGUAAAAACGUACCGAACCCGUAUCUUUGGACGCUAUAAGUUCAUUGAUACGGUAAACUUGUAAUUAGUU .......(((((((.(((....(((......(((((.(((((....))))).).....))))...((((((.........)))))).........)))....))))))))))...............(((((((..(((((.......)))))..)))))))................. (-38.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUAAUUACAAGUUUACCGUAUCAAUGAACUUAUAGCGUCCAAAGAUACGGGUUCGGUACGUUUUUACCCAAUGAAUUGCAGUUUUUCUUCUCACGAACUCUUCAUUCUCGUGUUGUGGCCUAUUGUUUUCCUCCGGGAAAUCACCAUUUAUUACUUCUGUUCUACUAGGUCUUUUUG .........((((...(((........((((..((((.(.(((..((((((((...((((......)))).((((((..(.(((((..........)))))))))))))))))))).))))))))((.(((((....))))).))...............)))).....)))...)))) (-29.72) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 76 33 51 12 NC_002950:PG0309|5end_thiamine_biosynthesis_lipoprotein_ApbE_345023..345253_NEGATIVE 304 80 31 113 64 NC_002950:PG0422|5end_hypothetical_protein_462302..462532_NEGATIVE 291 49 1 219 168 NC_002950:PG1864|5end_leucine-rich_protein_1964309..1964539_NEGATIVE 282 170 123 65 23 NC_002950:PG1269|5end_delta-1-pyrroline-5-carboxylate_dehydrogenase_1349201..1349431_NEGATIVE 279 75 31 62 17 NC_002950:PG1945|5end_hypothetical_protein_2031697..2031927_POSITIVE 279 87 42 188 152 NC_002950:PG0794|5end_penicillin-binding_protein_1A,_putative_846411..846641_POSITIVE 278 90 44 129 80 NC_002950:PG1969|5end_hypothetical_protein_2059515..2059745_NEGATIVE 278 103 61 141 103 NC_002950:PG0080|5end_hypothetical_protein_93832..94062_NEGATIVE 275 140 93 70 29 NC_002950:PG2212|5end_hypothetical_protein_2324767..2324997_NEGATIVE 275 139 97 227 184 NC_002950:PG0375|5end_50S_ribosomal_protein_L13_405934..406164_POSITIVE 275 78 31 230 176 NC_002950:PG0222|5end_DNA-binding_protein,_histone-like_family_256380..256610_NEGATIVE 274 88 41 63 14 NC_002950:PG1794|5end_DNA_polymerase_type_I_1885978..1886208_POSITIVE 271 89 41 202 157 NC_002950:PG1818|5end_hypothetical_protein_1913744..1913974_NEGATIVE 270 90 41 200 161 NC_002950:PG0638|5end_tetraacyldisaccharide_4'-kinase_691183..691413_NEGATIVE 267 150 106 148 96 NC_002950:PG0676|5end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_727275..727505_NEGATIVE 265 90 42 174 109 NC_002950:PG1100|5end_hypothetical_protein_1169012..1169242_NEGATIVE 262 86 43 88 47 NC_002950:PG2119|5end_oxidoreductase,_Gfo/Idh/MocA_family_2226547..2226777_POSITIVE 261 147 102 116 62 NC_002950:PG0489|5end_polysaccharide_biosynthesis-related_protein_529247..529477_POSITIVE 260 120 79 211 179 NC_002950:PG2052|5end_dihydrodipicolinate_synthase_2149636..2149866_POSITIVE 259 87 41 163 117 NC_002950:PG1481|5end_conjugative_transposon_protein_TraG_1558447..1558677_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 76 33 54 15 NC_002950:PG0310|3end_nitroreductase_family_protein_345020..345170_NEGATIVE 261 147 102 69 15 NC_002950:PG0488|3end_Holliday_junction_DNA_helicase_RuvB_529280..529430_POSITIVE 257 88 42 78 27 NC_002950:PG0272|3end_CBS_domain_protein_305738..305888_POSITIVE 256 143 109 64 15 NC_002950:PG0360|3end_lemA_protein_394152..394302_POSITIVE 254 124 84 90 55 NC_002950:PG2060|3end_thymidylate_synthase_2158456..2158606_POSITIVE 253 146 109 54 16 NC_002950:PG1649|3end_hypothetical_protein_1730030..1730180_NEGATIVE 253 165 127 42 14 NC_002950:PG0602|3end_hypothetical_protein_659620..659770_POSITIVE 252 48 1 114 54 NC_002950:PG1511|3end_hypothetical_protein_1587850..1588000_POSITIVE 251 79 38 150 114 NC_002950:PG1522|3end_mandelate_racemase/muconate_lactonizing_enzyme_family_protein_1599100..1599250_NEGATIVE 249 101 61 55 10 NC_002950:PG1472|3end_hypothetical_protein_1549760..1549910_POSITIVE 249 153 123 29 7 NC_002950:PG0872|3end_mobilizable_transposon,_xis_protein_934846..934996_NEGATIVE 247 88 44 149 111 NC_002950:PG1970|3end_hypothetical_protein_2059484..2059634_NEGATIVE 245 89 41 73 1 NC_002950:PG1496|3end_hypothetical_protein_1573697..1573847_POSITIVE 244 99 53 53 6 NC_002950:PG1335|3end_hypothetical_protein_1416430..1416580_NEGATIVE 243 86 41 109 63 NC_002950:PG1540|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_1620409..1620559_POSITIVE 242 165 121 122 79 NC_002950:PG1937|3end_50S_ribosomal_protein_L4_2023507..2023657_NEGATIVE 241 80 31 86 26 NC_002950:PG1334|3end_band_7/Mec-2_family_protein_1415422..1415572_NEGATIVE 240 139 95 108 54 NC_002950:PG0745|3end_lactoylglutathione_lyase,_putative_791982..792132_NEGATIVE 239 149 103 80 40 NC_002950:PG2003|3end_deoxyguanosinetriphosphate_triphosphohydrolase_2091648..2091798_NEGATIVE 239 89 43 76 35 NC_002950:PG1441|3end_lysozyme-related_protein_1527358..1527508_NEGATIVE