Origin IGS: aagtctttttatttctaatctataactctttagtatcgtgggcaaaagtacacaaaagggatgataaaacgcagaataataaaataactccactccatccctttcagagaaaaaccgtggaggtagctgctaagatacagtggccggaagc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gcttccggccactgtatcttagcagctacctccacggtttttctctgaaagggatggagtggagttattttattattctgcgttttatcatcccttttgtgtacttttgcccacgatactaaagagttatagattagaaataaaaagactt Mask Tandem Repeat Region ================================================ aagtctttttatttctaatctataactctttagtatcgtgggcaaaagtacacaaaagggatgataaaacgcagaataataaaataactccactccatccctttcagagaaaaaccgtggaggtagctgctaagatacagtggccggaagc Find is-nt database================================================ Query_seq: PG0766:PG0767|PG0766:PG0767:polyribonucleotide nucleotidyltransferase:4-alpha-glucanotransferase:<-<-:818496..818646 151 aagtctttttatttctaatctataactctttagtatcgtgggcaaaagtacacaaaagggatgataaaacgcagaataataaaataactccactccatccctttcagagaaaaaccgtggaggtagctgctaagatacagtggccggaagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0766:PG0767|PG0766:PG0767:polyribonucleotide nucleotidyltransferase:4-alpha-glucanotransferase:<-<-:818496..818646 151 aagtctttttatttctaatctataactctttagtatcgtgggcaaaagtacacaaaagggatgataaaacgcagaataataaaataactccactccatccctttcagagaaaaaccgtggaggtagctgctaagatacagtggccggaagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0766:PG0767|PG0766:PG0767:polyribonucleotide nucleotidyltransferase:4-alpha-glucanotransferase:<-<-:818496..818646 151 aagtctttttatttctaatctataactctttagtatcgtgggcaaaagtacacaaaagggatgataaaacgcagaataataaaataactccactccatccctttcagagaaaaaccgtggaggtagctgctaagatacagtggccggaagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagtctttttatttctaatctataactctttagtatcgtgggcaaaagtacacaaaagggatgataaaacgcagaataataaaataactccactccatccctttcagagaaaaaccgtggaggtagctgctaagatacagtggccggaagc Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 18 End: 149 ................. M Y N S L V S W A K V H K R D D K T Q N N K I T P L H P F Q R K T V E V A A K I Q W P E .. Protein_Len: 36 Strand: - Start: 33 End: 140 ................................ Y R P C F Y V F P I I F R L I I F Y S W E M G K L S F G H L Y S S L Y M ........... Protein_Len: 31 Strand: - Start: 1 End: 93 L R K I E L R Y S K L I T P L L V C F P H Y F A S Y Y F L E M .......................................................... aagtctttttatttctaatctataactctttagtatcgtgggcaaaagtacacaaaagggatgataaaacgcagaataataaaataactccactccatccctttcagagaaaaaccgtggaggtagctgctaagatacagtggccggaagc 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================================================ aagtctttttatttctaatctataactctttagtatcgtgggcaaaagtacacaaaagggatgataaaacgcagaataataaaataactccactccatccctttcagagaaaaaccgtggaggtagctgctaagatacagtggccggaagc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0766:PG0767|PG0766:PG0767:polyribonucleotide nucleotidyltransferase:4-alpha-glucanotransferase:<-<-:818496..818646 151 aagtctttttatttctaatctataactctttagtatcgtgggcaaaagtacacaaaagggatgataaaacgcagaataataaaataactccactccatccctttcagagaaaaaccgtggaggtagctgctaagatacagtggccggaagc Intra-Species Hit: Count: 1 Min: 1 Max: 151 Len: 151 Subject: NC_002950_PG0766_PG0767|polyribonucleotide nucleotidyltransferase:4-alpha- glucanotransferase|NEGATIVE:NEGATIVE|[818496,818646]|151 HSP 1 e-value: 1.0E-80 bit: 299.0 Len: 151 Query Start:1 Query End:151 Subject Strand: POSITIVE Subject Start: 1 Subject End: 151 aagtctttttatttctaatctataactctttagtatcgtgggcaaaagtacacaaaagggatgataaaacgcagaataataaaataactccactccatccctttcagagaaaaaccgtggaggtagctgctaagatacagtggccggaagc aagtctttttatttctaatctataactctttagtatcgtgggcaaaagtacacaaaagggatgataaaacgcagaataataaaataactccactccatccctttcagagaaaaaccgtggaggtagctgctaagatacagtggccggaagc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUCUUUUUAUUUCUAAUCUAUAACUCUUUAGUAUCGUGGGCAAAAGUACACAAAAGGGAUGAUAAAACGCAGAAUAAUAAAAUAACUCCACUCCAUCCCUUUCAGAGAAAAACCGUGGAGGUAGCUGCUAAGAUACAGUGGCCGGAAGC ....((((.((((((((........((((........(((..(....)..))).(((((((((................................))))))))).))))........))))))))((..((.......))..))..)))). (-26.94) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUUCCGGCCACUGUAUCUUAGCAGCUACCUCCACGGUUUUUCUCUGAAAGGGAUGGAGUGGAGUUAUUUUAUUAUUCUGCGUUUUAUCAUCCCUUUUGUGUACUUUUGCCCACGAUACUAAAGAGUUAUAGAUUAGAAAUAAAAAGACUU ......((...((((......))))...)).....((((((((((((((((((((((.(..((((.........))))..)......)))))))))))(((..(....)..)))........)))).......(((....)))))))))). (-29.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 964 140 91 231 182 NC_002950:PG0766|5end_polyribonucleotide_nucleotidyltransferase_818405..818635_NEGATIVE 417 140 93 226 168 NC_002950:PG1947|5end_TPR_domain_protein_2032932..2033162_POSITIVE 384 148 105 48 4 NC_002950:PG0462|5end_transporter,_putative_506279..506509_NEGATIVE 344 148 114 50 5 NC_002950:PG0753|5end_protease_798301..798531_POSITIVE 341 132 100 69 39 NC_002950:PG0072|5end_UDP-3-O-[3-hydroxymyristoyl]_glucosamine_N-acyltransferase_87147..87377_NEGATIVE 338 148 105 165 118 NC_002950:PG2190|5end_cell-division_ATP-binding_protein_2297909..2298139_NEGATIVE 309 150 117 135 106 NC_002950:PG1815|5end_3-deoxy-manno-octulosonate_cytidylyltransferase_1911433..1911663_NEGATIVE 309 130 88 222 178 NC_002950:PG0677|5end_saccharopine_dehydrogenase_727653..727883_POSITIVE 305 149 107 203 159 NC_002950:PG0607|5end_hypothetical_protein_662552..662782_POSITIVE 303 149 104 48 10 NC_002950:PG0674|5end_indolepyruvate_ferredoxin_oxidoreductase,_beta_subunit_724802..725032_NEGATIVE 302 150 101 179 135 NC_002950:PG0498|5end_S-ribosylhomocysteinase_537968..538198_POSITIVE 288 148 118 57 16 NC_002950:PG2126|5end_conserved_hypothetical_protein_TIGR00044_2233112..2233342_NEGATIVE 284 150 101 201 142 NC_002950:PG0447|5end_hypothetical_protein_487278..487508_POSITIVE 282 145 101 167 129 NC_002950:PG0762|5end_trigger_factor,_putative_812759..812989_POSITIVE 281 130 90 74 24 NC_002950:PG1755|5end_fructose-bisphosphate_aldolase_1843278..1843508_NEGATIVE 281 139 93 203 156 NC_002950:PG0531|5end_NAD(+)_synthetase_581139..581369_NEGATIVE 281 147 109 221 188 NC_002950:PG0196|5end_peptidase,_M16_family_232903..233133_POSITIVE 280 136 95 45 2 NC_002950:PG1734|5end_transporter,_putative_1822561..1822791_NEGATIVE 280 138 93 54 2 NC_002950:PG0398|5end_recF_protein_435710..435940_NEGATIVE 279 147 105 71 31 NC_002950:PG1009|5end_hypothetical_protein_1068495..1068725_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 148 114 66 21 NC_002950:PG0752|3end_uracil_phosphoribosyltransferase_798397..798547_POSITIVE 318 150 106 143 105 NC_002950:PG0560|3end_hypothetical_protein_617748..617898_POSITIVE 317 148 101 60 1 NC_002950:PG2127|3end_hypothetical_protein_2233109..2233259_NEGATIVE 310 131 93 87 42 NC_002950:PG1690|3end_Sua5/YciO/YrdC/YwlC_family_protein_1775171..1775321_NEGATIVE 309 150 117 138 109 NC_002950:PG1816|3end_NAD(P)H_dehydrogenase,_quinone_family,_putative_1911430..1911580_NEGATIVE 283 130 89 74 31 NC_002950:PG2154|3end_hypothetical_protein_2260760..2260910_NEGATIVE 282 147 106 123 68 NC_002950:PG0085|3end_alpha-galactosidase_100556..100706_POSITIVE 281 139 93 93 46 NC_002950:PG0532|3end_hypothetical_protein_581249..581399_NEGATIVE 281 130 87 98 64 NC_002950:PG0143|3end_hydrolase,_carbon-nitrogen_family_165747..165897_NEGATIVE 280 136 95 78 35 NC_002950:PG1735|3end_MutT/nudix_family_protein_1822528..1822678_NEGATIVE 280 138 93 57 5 NC_002950:PG0399|3end_lipoprotein,_putative_435707..435857_NEGATIVE 279 147 105 57 17 NC_002950:PG1010|3end_ABC_transporter,_ATP-binding_protein_1068509..1068659_NEGATIVE 278 148 116 139 107 NC_002950:PG0757|3end_hypothetical_protein_805723..805873_NEGATIVE 275 126 88 38 4 NC_002950:PG2072|3end_UvrD/REP_helicase_domain_protein_2170757..2170907_POSITIVE 274 143 106 87 52 NC_002950:PG1020|3end_hypothetical_protein_1083458..1083608_POSITIVE 269 131 93 89 51 NC_002950:PG1949|3end_malate_dehydrogenase_2038184..2038334_NEGATIVE 268 150 117 135 96 NC_002950:PG0897|3end_alpha-amylase_family_protein_960868..961018_NEGATIVE 266 148 104 131 91 NC_002950:PG2155|3end_lipoprotein,_putative_2260972..2261122_NEGATIVE 266 150 101 104 57 NC_002950:PG2046|3end_hypothetical_protein_2145793..2145943_POSITIVE 266 131 98 130 98 NC_002950:PG2033|3end_glutamate_synthase,_small_subunit_2133415..2133565_NEGATIVE