Origin IGS: ttgtttttattctgatataatcggtcgatgaaagcagcaaagataaaaaaagatttttctgactaaacctaatatccgaagccttttctcgctccttctttattaagcccccgaattgattctacagccttttc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gaaaaggctgtagaatcaattcgggggcttaataaagaaggagcgagaaaaggcttcggatattaggtttagtcagaaaaatctttttttatctttgctgctttcatcgaccgattatatcagaataaaaacaa Mask Tandem Repeat Region ================================================ ttgtttttattctgatataatcggtcgatgaaagcagcaaagataaaaaaagatttttctgactaaacctaatatccgaagccttttctcgctccttctttattaagcccccgaattgattctacagccttttc Find is-nt database================================================ Query_seq: PG1123:PG1124|PG1123:PG1124:adenylosuccinate lyase:ATP:cob(I)alamin adenosyltransferase, putative:<-<-:1200441..1200574 134 ttgtttttattctgatataatcggtcgatgaaagcagcaaagataaaaaaagatttttctgactaaacctaatatccgaagccttttctcgctccttctttattaagcccccgaattgattctacagccttttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1123:PG1124|PG1123:PG1124:adenylosuccinate lyase:ATP:cob(I)alamin adenosyltransferase, putative:<-<-:1200441..1200574 134 ttgtttttattctgatataatcggtcgatgaaagcagcaaagataaaaaaagatttttctgactaaacctaatatccgaagccttttctcgctccttctttattaagcccccgaattgattctacagccttttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1123:PG1124|PG1123:PG1124:adenylosuccinate lyase:ATP:cob(I)alamin adenosyltransferase, putative:<-<-:1200441..1200574 134 ttgtttttattctgatataatcggtcgatgaaagcagcaaagataaaaaaagatttttctgactaaacctaatatccgaagccttttctcgctccttctttattaagcccccgaattgattctacagccttttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttgtttttattctgatataatcggtcgatgaaagcagcaaagataaaaaaagatttttctgactaaacctaatatccgaagccttttctcgctccttctttattaagcccccgaattgattctacagccttttc Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 2 End: 103 . T K I R I Y D T S S L L L S L F L N K Q S F R I D S A K E R E K K M ............................... ttgtttttattctgatataatcggtcgatgaaagcagcaaagataaaaaaagatttttctgactaaacctaatatccgaagccttttctcgctccttctttattaagcccccgaattgattctacagccttttc 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================================================ ttgtttttattctgatataatcggtcgatgaaagcagcaaagataaaaaaagatttttctgactaaacctaatatccgaagccttttctcgctccttctttattaagcccccgaattgattctacagccttttc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1123:PG1124|PG1123:PG1124:adenylosuccinate lyase:ATP:cob(I)alamin adenosyltransferase, putative:<-<-:1200441..1200574 134 ttgtttttattctgatataatcggtcgatgaaagcagcaaagataaaaaaagatttttctgactaaacctaatatccgaagccttttctcgctccttctttattaagcccccgaattgattctacagccttttc Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: NC_002950_PG1123_PG1124|adenylosuccinate lyase:ATP:cob(I)alamin adenosyltransferase, putative|NEGATIVE:NEGATIVE|[1200441,1200574]|134 HSP 1 e-value: 6.0E-58 bit: 224.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 ttgtttttattctgatataatcggtcgatgaaagcagcaaagatnnnnnnngatttttctgactaaacctaatatccgaagccttttctcgctccttctttattaagcccccgaattgattctacagccttttc ttgtttttattctgatataatcggtcgatgaaagcagcaaagataaaaaaagatttttctgactaaacctaatatccgaagccttttctcgctccttctttattaagcccccgaattgattctacagccttttc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUUUUUAUUCUGAUAUAAUCGGUCGAUGAAAGCAGCAAAGAUAAAAAAAGAUUUUUCUGACUAAACCUAAUAUCCGAAGCCUUUUCUCGCUCCUUCUUUAUUAAGCCCCCGAAUUGAUUCUACAGCCUUUUC ...........(((.((.(((((((((.....(((((.((((((........))))))))).)).....(((((...((((.............))))..)))))......)).))))))).)))))....... (-15.02) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAAAGGCUGUAGAAUCAAUUCGGGGGCUUAAUAAAGAAGGAGCGAGAAAAGGCUUCGGAUAUUAGGUUUAGUCAGAAAAAUCUUUUUUUAUCUUUGCUGCUUUCAUCGACCGAUUAUAUCAGAAUAAAAACAA ((..(((((.(.(((....))).).))))).........((..(((((((.(((...(((((..((((((........)))))).....)))))..)))..)))).))).)).......))............. (-23.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 947 130 81 221 172 NC_002950:PG1123|5end_adenylosuccinate_lyase_1200350..1200580_NEGATIVE 308 119 81 224 187 NC_002950:PG0214|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_250963..251193_POSITIVE 301 105 77 127 99 NC_002950:PG2075|5end_hypothetical_protein_2176466..2176696_NEGATIVE 301 105 77 127 99 NC_002950:PG1671|5end_hypothetical_protein_1757658..1757888_NEGATIVE 301 105 77 127 99 NC_002950:PG1266|5end_hypothetical_protein_1346987..1347217_NEGATIVE 301 105 77 127 99 NC_002950:PG0101|5end_hypothetical_protein_119198..119428_POSITIVE 292 119 72 216 157 NC_002950:PG0356|5end_hypothetical_protein_390611..390841_POSITIVE 288 118 75 227 169 NC_002950:PG1478|5end_conjugative_transposon_protein_TraK_1554116..1554346_NEGATIVE 287 119 73 225 174 NC_002950:PG0987|5end_hypothetical_protein_1048002..1048232_POSITIVE 277 113 75 230 188 NC_002950:PG2035|5end_tRNA_(guanine-N(1)-)-methyltransferase_2135852..2136082_POSITIVE 268 128 83 152 97 NC_002950:PG1665|5end_ABC_transporter,_permease_protein,_putative_1747110..1747340_POSITIVE 265 120 78 52 6 NC_002950:PG1416|5end_enoyl-(acyl-carrier-protein)_reductase_II_1500057..1500287_POSITIVE 263 120 75 181 125 NC_002950:PG0414|5end_hypothetical_protein_453652..453882_NEGATIVE 259 46 10 201 161 NC_002950:PG1751|5end_aminotransferase,_class_V_1837280..1837510_POSITIVE 258 114 76 196 153 NC_002950:PG1252|5end_hypothetical_protein_1329584..1329814_NEGATIVE 257 116 83 96 55 NC_002950:PG1302|5end_hypothetical_protein_1380637..1380867_NEGATIVE 256 104 72 92 50 NC_002950:PG0672|5end_iron_compound_ABC_transporter,_ATP-binding_protein_723002..723232_POSITIVE 255 114 77 59 16 NC_002950:PG0898|5end_hypothetical_protein_963350..963580_NEGATIVE 254 120 75 79 19 NC_002950:PG1614|5end_succinate_dehydrogenase_1694555..1694785_NEGATIVE 252 129 81 213 156 NC_002950:PG1392|5end_rod_shape-determining_protein_RodA,_putative_1474416..1474646_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 109 68 74 30 NC_002950:PG0507|3end_hypothetical_protein_548190..548340_POSITIVE 272 130 82 58 8 NC_002950:PG1449|3end_hypothetical_protein_1533582..1533732_NEGATIVE 272 130 82 75 25 NC_002950:PG1196|3end_hypothetical_protein_1275359..1275509_POSITIVE 272 130 82 58 8 NC_002950:PG0824|3end_hypothetical_protein_881930..882080_POSITIVE 268 128 83 129 74 NC_002950:PG1664|3end_ABC_transporter,_permease_protein,_putative_1747167..1747317_POSITIVE 263 130 81 151 96 NC_002950:PG1276|3end_DNA-binding_protein,_histone-like_family_1353531..1353681_POSITIVE 263 130 81 151 96 NC_002950:PG0566|3end_DNA-binding_protein,_histone-like_family_622935..623085_NEGATIVE 263 120 75 119 63 NC_002950:PG0415|3end_peptidyl-prolyl_cis-trans_isomerase,_PPIC-type_453714..453864_NEGATIVE 259 46 10 64 24 NC_002950:PG1750|3end_alpha-1,3/4-fucosidase,_putative_1837223..1837373_POSITIVE 256 112 74 128 84 NC_002950:PG1222|3end_hypothetical_protein_1299075..1299225_NEGATIVE 256 104 72 48 6 NC_002950:PG0671|3end_iron_compound_ABC_transporter,_permease_protein_723038..723188_POSITIVE 252 109 61 71 29 NC_002950:PG1156|3end_S4_domain_protein_1237267..1237417_POSITIVE 252 119 71 143 73 NC_002950:PG0857|3end_transcriptional_regulator,_putative_917623..917773_POSITIVE 251 118 72 139 83 NC_002950:PG0731|3end_hypothetical_protein_782020..782170_NEGATIVE 249 95 53 149 99 NC_002950:PG1701|3end_glutamine_amidotransferase,_class_II/dipeptidase_1786145..1786295_NEGATIVE 248 101 68 98 64 NC_002950:PG0635|3end_ribosomal_protein_L11_methyltransferase_686838..686988_NEGATIVE 246 109 77 54 16 NC_002950:PG2037|3end_hypothetical_protein_2137591..2137741_NEGATIVE 246 110 77 97 67 NC_002950:PG1270|3end_hypothetical_protein_1349278..1349428_NEGATIVE 246 95 54 140 95 NC_002950:PG1162|3end_ATP:cob(I)alamin_adenosyltransferase,_putative_1241473..1241623_NEGATIVE 241 114 75 35 4 NC_002950:PG0109|3end_hypothetical_protein_132634..132784_POSITIVE