Origin IGS: tgttgcttggtttgttattgttagttgattgtttgcctgtacaaatgggaagcctcttatgtagctccgcaatttttatgtcaatagctataccaatgccgatttcctgactgattcctgtcggaatgtgcttattcgctgtcagaatggcaggattgtacgtgtagtcatctgctcgttggcagaaaaaaggaggattcggtcaggaaaaagtt .........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 aactttttcctgaccgaatcctccttttttctgccaacgagcagatgactacacgtacaatcctgccattctgacagcgaataagcacattccgacaggaatcagtcaggaaatcggcattggtatagctattgacataaaaattgcggagctacataagaggcttcccatttgtacaggcaaacaatcaactaacaataacaaaccaagcaaca Mask Tandem Repeat Region ================================================ tgttgcttggtttgttattgttagttgattgtttgcctgtacaaatgggaagcctcttatgtagctccgcaatttttatgtcaatagctataccaatgccgatttcctgactgattcctgtcggaatgtgcttattcgctgtcagaatggcaggattgtacgtgtagtcatctgctcgttggcagaaaaaaggaggattcggtcaggaaaaagtt Find is-nt database================================================ Query_seq: PG0521:PG0522|PG0521:PG0522:co-chaperonin GroES:tRNA delta(2)-isopentenylpyrophosphate transferase:<-<-:565868..566082 215 tgttgcttggtttgttattgttagttgattgtttgcctgtacaaatgggaagcctcttatgtagctccgcaatttttatgtcaatagctataccaatgccgatttcctgactgattcctgtcggaatgtgcttattcgctgtcagaatggcaggattgtacgtgtagtcatctgctcgttggcagaaaaaaggaggattcggtcaggaaaaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0521:PG0522|PG0521:PG0522:co-chaperonin GroES:tRNA delta(2)-isopentenylpyrophosphate transferase:<-<-:565868..566082 215 tgttgcttggtttgttattgttagttgattgtttgcctgtacaaatgggaagcctcttatgtagctccgcaatttttatgtcaatagctataccaatgccgatttcctgactgattcctgtcggaatgtgcttattcgctgtcagaatggcaggattgtacgtgtagtcatctgctcgttggcagaaaaaaggaggattcggtcaggaaaaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0521:PG0522|PG0521:PG0522:co-chaperonin GroES:tRNA delta(2)-isopentenylpyrophosphate transferase:<-<-:565868..566082 215 tgttgcttggtttgttattgttagttgattgtttgcctgtacaaatgggaagcctcttatgtagctccgcaatttttatgtcaatagctataccaatgccgatttcctgactgattcctgtcggaatgtgcttattcgctgtcagaatggcaggattgtacgtgtagtcatctgctcgttggcagaaaaaaggaggattcggtcaggaaaaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgttgcttggtttgttattgttagttgattgtttgcctgtacaaatgggaagcctcttatgtagctccgcaatttttatgtcaatagctataccaatgccgatttcctgactgattcctgtcggaatgtgcttattcgctgtcagaatggcaggattgtacgtgtagtcatctgctcgttggcagaaaaaaggaggattcggtcaggaaaaagtt Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 3 End: 107 .. M L G L L L L V D C L P V Q M G S L L C S S A I F M S I A I P M P I S ............................................................................................................ Protein_Len: 32 Strand: + Start: 118 End: 213 ..................................................................................................................... M S E C A Y S L S E W Q D C T C S H L L V G R K K E D S V R K K .. Protein_Len: 36 Strand: + Start: 107 End: 214 .......................................................................................................... M T D S C R N V L I R C Q N G R I V R V V I C S L A E K R R I R S G K S . Protein_Len: 49 Strand: - Start: 2 End: 148 . N S P K N N N T S Q K G T C I P L R K H L E A I K I D I A I G I G I E Q S I G T P I H K N A T L M ................................................................... tgttgcttggtttgttattgttagttgattgtttgcctgtacaaatgggaagcctcttatgtagctccgcaatttttatgtcaatagctataccaatgccgatttcctgactgattcctgtcggaatgtgcttattcgctgtcagaatggcaggattgtacgtgtagtcatctgctcgttggcagaaaaaaggaggattcggtcaggaaaaagtt 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================================================ tgttgcttggtttgttattgttagttgattgtttgcctgtacaaatgggaagcctcttatgtagctccgcaatttttatgtcaatagctataccaatgccgatttcctgactgattcctgtcggaatgtgcttattcgctgtcagaatggcaggattgtacgtgtagtcatctgctcgttggcagaaaaaaggaggattcggtcaggaaaaagtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0521:PG0522|PG0521:PG0522:co-chaperonin GroES:tRNA delta(2)-isopentenylpyrophosphate transferase:<-<-:565868..566082 215 tgttgcttggtttgttattgttagttgattgtttgcctgtacaaatgggaagcctcttatgtagctccgcaatttttatgtcaatagctataccaatgccgatttcctgactgattcctgtcggaatgtgcttattcgctgtcagaatggcaggattgtacgtgtagtcatctgctcgttggcagaaaaaaggaggattcggtcaggaaaaagtt Intra-Species Hit: Count: 1 Min: 1 Max: 215 Len: 215 Subject: NC_002950_PG0521_PG0522|co-chaperonin GroES:tRNA delta(2)-isopentenylpyrophosphate transferase|NEGATIVE:NEGATIVE|[565868,566082]|215 HSP 1 e-value: 1.0E-118 bit: 426.0 Len: 215 Query Start:1 Query End:215 Subject Strand: POSITIVE Subject Start: 1 Subject End: 215 tgttgcttggtttgttattgttagttgattgtttgcctgtacaaatgggaagcctcttatgtagctccgcaatttttatgtcaatagctataccaatgccgatttcctgactgattcctgtcggaatgtgcttattcgctgtcagaatggcaggattgtacgtgtagtcatctgctcgttggcagaaaaaaggaggattcggtcaggaaaaagtt tgttgcttggtttgttattgttagttgattgtttgcctgtacaaatgggaagcctcttatgtagctccgcaatttttatgtcaatagctataccaatgccgatttcctgactgattcctgtcggaatgtgcttattcgctgtcagaatggcaggattgtacgtgtagtcatctgctcgttggcagaaaaaaggaggattcggtcaggaaaaagtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUGCUUGGUUUGUUAUUGUUAGUUGAUUGUUUGCCUGUACAAAUGGGAAGCCUCUUAUGUAGCUCCGCAAUUUUUAUGUCAAUAGCUAUACCAAUGCCGAUUUCCUGACUGAUUCCUGUCGGAAUGUGCUUAUUCGCUGUCAGAAUGGCAGGAUUGUACGUGUAGUCAUCUGCUCGUUGGCAGAAAAAAGGAGGAUUCGGUCAGGAAAAAGUU ....(((((((..(((((((.((...((((((..((...((((...(((....)))...))))))...))))))....)).)))))))...))))).))...((((((((((((.(((((.(...((((((....((.(((((.....)))))))..))))))...).).((((((....)))))).......)))).))))))))))))..... (-69.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUUUUUCCUGACCGAAUCCUCCUUUUUUCUGCCAACGAGCAGAUGACUACACGUACAAUCCUGCCAUUCUGACAGCGAAUAAGCACAUUCCGACAGGAAUCAGUCAGGAAAUCGGCAUUGGUAUAGCUAUUGACAUAAAAAUUGCGGAGCUACAUAAGAGGCUUCCCAUUUGUACAGGCAAACAAUCAACUAACAAUAACAAACCAAGCAACA .....(((((((((.((.((((.......(((((......))))).........((....(((((.(.....).))).))....))..........)))).)).)))))))))...((.(((((...(.(((((.............((((((........))))))...(((((....)))))...........))))).)..))))))).... (-46.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 953 140 91 231 182 NC_002950:PG0521|5end_co-chaperonin_GroES_565777..566007_NEGATIVE 396 186 141 139 95 NC_002950:PG0877|5end_hypothetical_protein_941545..941775_NEGATIVE 367 128 83 221 158 NC_002950:PG0384|5end_MutS2_family_protein_416095..416325_POSITIVE 363 207 161 56 14 NC_002950:PG0062|5end_TPR_domain_protein_73688..73918_POSITIVE 357 160 111 226 170 NC_002950:PG1130|5end_TPR_domain_protein_1208053..1208283_POSITIVE 347 160 112 194 149 NC_002950:PG1362|5end_hypothetical_protein_1443594..1443824_NEGATIVE 337 159 111 154 101 NC_002950:PG1388|5end_hypothetical_protein_1470889..1471119_NEGATIVE 334 150 101 192 139 NC_002950:PG0172|5end_exonuclease_193493..193723_POSITIVE 331 179 138 75 27 NC_002950:PG0607|5end_hypothetical_protein_662552..662782_POSITIVE 331 129 81 70 7 NC_002950:PG0010|5end_ATP-dependent_Clp_protease,_ATP-binding_subunit_ClpC_8775..9005_POSITIVE 330 206 162 49 3 NC_002950:PG1538|5end_undecaprenol_kinase,_putative_1617631..1617861_POSITIVE 329 128 92 176 132 NC_002950:PG1087|5end_radical_SAM_protein,_TIGR01212_family_1153805..1154035_POSITIVE 328 140 93 217 161 NC_002950:PG0387|5end_elongation_factor_Tu_420643..420873_POSITIVE 327 69 30 203 155 NC_002950:PG2109|5end_thiamine-phosphate_pyrophosphorylase_2219452..2219682_NEGATIVE 324 150 104 231 178 NC_002950:PG1043|5end_ferrous_iron_transport_protein_B_1112852..1113082_NEGATIVE 323 178 135 56 8 NC_002950:PG1753|5end_selenide,_water_dikinase_1838615..1838845_POSITIVE 321 132 97 71 32 NC_002950:PG1854|5end_5-formyltetrahydrofolate_cyclo-ligase_family_protein_1953882..1954112_NEGATIVE 321 185 141 118 66 NC_002950:PG1101|5end_sodium:solute_symporter_family_protein_1170469..1170699_NEGATIVE 321 185 141 73 23 NC_002950:PG0144|5end_hypothetical_protein_167668..167898_NEGATIVE 320 209 161 221 171 NC_002950:PG1641|5end_phosphotyrosine_protein_phosphatase_1721763..1721993_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 363 207 161 51 9 NC_002950:PG0061|3end_yngK_protein_73763..73913_POSITIVE 357 160 111 123 67 NC_002950:PG1129|3end_ribonucleotide_reductase_1208030..1208180_POSITIVE 357 159 116 146 98 NC_002950:PG1078|3end_electron_transfer_flavoprotein,_alpha_subunit_1146525..1146675_POSITIVE 341 126 82 127 80 NC_002950:PG1030|3end_hypothetical_protein_1092820..1092970_POSITIVE 336 186 143 105 59 NC_002950:PG0199|3end_TatD_family_protein_237424..237574_NEGATIVE 323 178 135 59 11 NC_002950:PG1752|3end_hypothetical_protein_1838698..1838848_POSITIVE 323 167 123 118 79 NC_002950:PG0814|3end_hypothetical_protein_875904..876054_NEGATIVE 321 132 97 111 72 NC_002950:PG1855|3end_carboxyl-terminal_protease_1953842..1953992_NEGATIVE 318 186 141 130 89 NC_002950:PG0226|3end_transglutaminase-related_protein_259838..259988_NEGATIVE 317 180 137 104 64 NC_002950:PG0628|3end_ABC_transporter,_ATP-binding_protein_681684..681834_NEGATIVE 316 139 98 123 85 NC_002950:PG1996|3end_deoxyribose-phosphate_aldolase_2086870..2087020_POSITIVE 316 170 122 67 23 NC_002950:PG1581|3end_hypothetical_protein_1659404..1659554_POSITIVE 312 155 111 65 12 NC_002950:PG2036|3end_ion_transporter_2137552..2137702_POSITIVE 312 181 141 151 107 NC_002950:PG1977|3end_hypothetical_protein_2064687..2064837_NEGATIVE 311 186 141 111 68 NC_002950:PG1972|3end_hemagglutinin_protein_HagB_2061203..2061353_POSITIVE 309 49 1 112 47 NC_002950:PG0979|3end_hypothetical_protein_1040990..1041140_POSITIVE 308 210 161 86 42 NC_002950:PG0332|3end_transcription_termination_factor_Rho_367675..367825_POSITIVE 307 160 117 57 17 NC_002950:PG1964|3end_bacterial_sugar_transferase_2054396..2054546_POSITIVE 305 70 28 138 93 NC_002950:PG2127|3end_hypothetical_protein_2233109..2233259_NEGATIVE 305 151 111 150 108 NC_002950:PG1218|3end_hypothetical_protein_1296475..1296625_POSITIVE