Origin IGS: ggattcaaacgataaaaacaaaaacgacaaaggctgctttcctcgaccggagagcagcctttattcttatgaagatcgcttcgcttcggacgcgaggcgttacggtaagaatcttctg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cagaagattcttaccgtaacgcctcgcgtccgaagcgaagcgatcttcataagaataaaggctgctctccggtcgaggaaagcagcctttgtcgtttttgtttttatcgtttgaatcc Mask Tandem Repeat Region ================================================ ggattcaaacgataaaaacaaaaacgacaaaggctgctttcctcgaccggagagcagcctttattcttatgaagatcgcttcgcttcggacgcgaggcgttacggtaagaatcttctg Find is-nt database================================================ Query_seq: PG2106:PG2107|PG2106:PG2107:hypothetical protein:thiamine biosynthesis protein ThiH:-><-:2215518..2215635 118 ggattcaaacgataaaaacaaaaacgacaaaggctgctttcctcgaccggagagcagcctttattcttatgaagatcgcttcgcttcggacgcgaggcgttacggtaagaatcttctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2106:PG2107|PG2106:PG2107:hypothetical protein:thiamine biosynthesis protein ThiH:-><-:2215518..2215635 118 ggattcaaacgataaaaacaaaaacgacaaaggctgctttcctcgaccggagagcagcctttattcttatgaagatcgcttcgcttcggacgcgaggcgttacggtaagaatcttctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2106:PG2107|PG2106:PG2107:hypothetical protein:thiamine biosynthesis protein ThiH:-><-:2215518..2215635 118 ggattcaaacgataaaaacaaaaacgacaaaggctgctttcctcgaccggagagcagcctttattcttatgaagatcgcttcgcttcggacgcgaggcgttacggtaagaatcttctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggattcaaacgataaaaacaaaaacgacaaaggctgctttcctcgaccggagagcagcctttattcttatgaagatcgcttcgcttcggacgcgaggcgttacggtaagaatcttctg Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 3 End: 116 .. M Q T I K T K T T K A A F L D R R A A F I L M K I A S L R T R G V T V R I F .. Protein_Len: 35 Strand: - Start: 8 End: 112 ....... V I F V F V V F A A K R S R L A A K I R I F I A E S R V R P T V T L M ...... ggattcaaacgataaaaacaaaaacgacaaaggctgctttcctcgaccggagagcagcctttattcttatgaagatcgcttcgcttcggacgcgaggcgttacggtaagaatcttctg 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================================================ ggattcaaacgataaaaacaaaaacgacaaaggctgctttcctcgaccggagagcagcctttattcttatgaagatcgcttcgcttcggacgcgaggcgttacggtaagaatcttctg Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 93 HP_score: -6.6 Tail_Score: -5.69262 Start: 25 End: 66 Full_Region: aagcgatcttcataa gaataaaggctgctctcc ggtcga ggaaagcagcctttgtcg tttttgtttttatcg ........................gaataaaggctgctctccggtcgaggaaagcagcctttgtcg.................................................... TransTerm Strand: + Conf: 93 HP_score: -12.7 Tail_Score: -3.79906 Start: 28 End: 63 Full_Region: TAAAAACAAAAACGA CAAAGGCTGCTTTCC TCGACC GGAGAGCAGCCTTTA TTCTTATGAAGATCG ...........................CAAAGGCTGCTTTCCTCGACCGGAGAGCAGCCTTTA....................................................... TransTerm Strand: - Conf: 88 HP_score: -12.7 Tail_Score: -3.53667 Start: 28 End: 63 Full_Region: cgatcttcataagaa taaaggctgctctcc ggtcga ggaaagcagcctttg tcgtttttgttttta ...........................taaaggctgctctccggtcgaggaaagcagcctttg....................................................... TransTerm Strand: - Conf: 91 HP_score: -11.3 Tail_Score: -4.30635 Start: 32 End: 59 Full_Region: cttcataagaataaa ggctgctctcc ggtcga ggaaagcagcc tttgtcgtttttgtt ...............................ggctgctctccggtcgaggaaagcagcc........................................................... Find igs database================================================ Query_seq: PG2106:PG2107|PG2106:PG2107:hypothetical protein:thiamine biosynthesis protein ThiH:-><-:2215518..2215635 118 ggattcaaacgataaaaacaaaaacgacaaaggctgctttcctcgaccggagagcagcctttattcttatgaagatcgcttcgcttcggacgcgaggcgttacggtaagaatcttctg Intra-Species Hit: Count: 1 Min: 1 Max: 118 Len: 118 Subject: NC_002950_PG2106_PG2107|hypothetical protein:thiamine biosynthesis protein ThiH|POSITIVE:NEGATIVE|[2215518,2215635]|118 HSP 1 e-value: 5.0E-61 bit: 234.0 Len: 118 Query Start:1 Query End:118 Subject Strand: POSITIVE Subject Start: 1 Subject End: 118 ggattcaaacgataaaaacaaaaacgacaaaggctgctttcctcgaccggagagcagcctttattcttatgaagatcgcttcgcttcggacgcgaggcgttacggtaagaatcttctg ggattcaaacgataaaaacaaaaacgacaaaggctgctttcctcgaccggagagcagcctttattcttatgaagatcgcttcgcttcggacgcgaggcgttacggtaagaatcttctg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAUUCAAACGAUAAAAACAAAAACGACAAAGGCUGCUUUCCUCGACCGGAGAGCAGCCUUUAUUCUUAUGAAGAUCGCUUCGCUUCGGACGCGAGGCGUUACGGUAAGAAUCUUCUG ((((((......................((((((((((((((......))))))))))))))............((((...(((((((....)))))))...))))..)))))).... (-43.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGAAGAUUCUUACCGUAACGCCUCGCGUCCGAAGCGAAGCGAUCUUCAUAAGAAUAAAGGCUGCUCUCCGGUCGAGGAAAGCAGCCUUUGUCGUUUUUGUUUUUAUCGUUUGAAUCC .....(((((..((.(((((((.((((.......)))).)))......((((((((((((((((((.(((......))).))))))))))))...))))))..)))).))..))))). (-42.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 395 78 34 190 144 NC_002950:PG2189|5end_aspartate_kinase_2297151..2297381_NEGATIVE 375 99 51 179 127 NC_002950:PG0268|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_300898..301128_POSITIVE 368 104 74 227 198 NC_002950:PG2098|5end_hypothetical_protein_2206635..2206865_NEGATIVE 366 79 31 79 17 NC_002950:PG1859|5end_glycerate_kinase_family_protein_1958334..1958564_NEGATIVE 358 62 21 120 85 NC_002950:PG1029|5end_hypothetical_protein_1091080..1091310_POSITIVE 348 62 25 196 152 NC_002950:PG2003|5end_deoxyguanosinetriphosphate_triphosphohydrolase_2092991..2093221_NEGATIVE 341 100 56 119 83 NC_002950:PG2146|5end_hypothetical_protein_2253815..2254045_POSITIVE 333 105 71 59 14 NC_002950:PG0210|5end_precorrin-6x_reductase/cobalamin_biosynthetic_protein_CbiD_245969..246199_NEGATIVE 325 59 24 148 112 NC_002950:PG2142|5end_GTP-binding_protein_Era_2247585..2247815_POSITIVE 325 100 54 72 19 NC_002950:PG1040|5end_transcriptional_regulator,_putative_1107949..1108179_NEGATIVE 321 110 66 78 42 NC_002950:PG1210|5end_peptidase,_M24_family_1289044..1289274_POSITIVE 320 62 24 179 132 NC_002950:PG1488|5end_hypothetical_protein_1561747..1561977_POSITIVE 319 106 61 55 4 NC_002950:PG0585|5end_YqeY_family_protein_643272..643502_POSITIVE 319 89 42 175 132 NC_002950:PG0141|5end_spoOJ_protein_164747..164977_NEGATIVE 318 100 52 159 103 NC_002950:PG0979|5end_hypothetical_protein_1040752..1040982_POSITIVE 318 88 45 160 114 NC_002950:PG0800|5end_hypothetical_protein_856278..856508_NEGATIVE 317 88 42 228 178 NC_002950:PG1876|5end_hypothetical_protein_1971460..1971690_NEGATIVE 317 89 48 48 1 NC_002950:PG1232|5end_glutamate_dehydrogenase_1309611..1309841_NEGATIVE 317 67 26 60 20 NC_002950:PG1057|5end_hypothetical_protein_1123419..1123649_POSITIVE 316 99 55 214 162 NC_002950:PG2110|5end_thiamine_biosynthesis_protein_ThiC_2221212..2221442_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 504 62 29 62 29 NC_002950:PG2106|3end_hypothetical_protein_2215457..2215607_POSITIVE 432 63 21 63 23 NC_002950:PG2082|3end_POT_family_protein_2181843..2181993_NEGATIVE 405 78 31 73 31 NC_002950:PG1055|3end_thiol_protease_1121202..1121352_NEGATIVE 403 78 31 74 28 NC_002950:PG2177|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_F_2285266..2285416_NEGATIVE 370 60 19 63 18 NC_002950:PG1786|3end_hypothetical_protein_1875322..1875472_POSITIVE 358 62 21 56 21 NC_002950:PG1028|3end_TPR_domain_protein_1091096..1091246_POSITIVE 349 90 44 126 78 NC_002950:PG0210|3end_precorrin-6x_reductase/cobalamin_biosynthetic_protein_CbiD_244161..244311_NEGATIVE 348 62 25 52 8 NC_002950:PG2004|3end_hypothetical_protein_2093135..2093285_NEGATIVE 335 61 25 114 72 NC_002950:PG0424|3end_hypothetical_protein_463213..463363_POSITIVE 333 105 71 62 17 NC_002950:PG0211|3end_cobalamin_biosynthesis_protein_CbiG/precorrin-4_C11-methyltransferase_245966..246116_NEGATIVE 332 105 75 40 1 NC_002950:PG1110|3end_hypothetical_protein_1183237..1183387_POSITIVE 329 90 44 117 72 NC_002950:PG2102|3end_immunoreactive_61_kDa_antigen_PG91_2211424..2211574_NEGATIVE 327 98 55 132 85 NC_002950:PG0280|3end_ABC_transporter,_permease_protein,_putative_313297..313447_NEGATIVE 325 59 24 69 33 NC_002950:PG2141|3end_3-oxoacyl-(acyl_carrier_protein)_synthase_2247586..2247736_POSITIVE 325 68 25 138 96 NC_002950:PG1578|3end_quinolinate_synthetase_1656472..1656622_POSITIVE 322 105 62 69 20 NC_002950:PG0052|3end_sensor_histidine_kinase_64686..64836_POSITIVE 321 89 42 134 62 NC_002950:PG1858|3end_flavodoxin_1956538..1956688_NEGATIVE 320 62 24 151 104 NC_002950:PG1487|3end_hypothetical_protein_1561799..1561949_POSITIVE 318 87 43 57 8 NC_002950:PG2172|3end_hypothetical_protein_2279191..2279341_NEGATIVE 316 99 55 144 92 NC_002950:PG2111|3end_thiS_protein_2221282..2221432_NEGATIVE