Origin IGS: attgtttgcgcagttttattttttctacttaagaaaaatgcaggagtatttgttcgatactcgctgaaatcctgaaccataactttgcaaaagaacagccgacccgctcttttggtttatgtttctttcgccgggatatacggttattccgaatgccgtactgtgtttttgttatcgagaaggataaggatgaaagaaagact .........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 agtctttctttcatccttatccttctcgataacaaaaacacagtacggcattcggaataaccgtatatcccggcgaaagaaacataaaccaaaagagcgggtcggctgttcttttgcaaagttatggttcaggatttcagcgagtatcgaacaaatactcctgcatttttcttaagtagaaaaaataaaactgcgcaaacaat Mask Tandem Repeat Region ================================================ attgtttgcgcagttttattttttctacttaagaaaaatgcaggagtatttgttcgatactcgctgaaatcctgaaccataactttgcaaaagaacagccgacccgctcttttggtttatgtttctttcgccgggatatacggttattccgaatgccgtactgtgtttttgttatcgagaaggataaggatgaaagaaagact Find is-nt database================================================ Query_seq: PG0047:PG0048|PG0047:PG0048:cell division protein FtsH, putative:conserved hypothetical protein TIGR00092:<-<-:59341..59543 203 attgtttgcgcagttttattttttctacttaagaaaaatgcaggagtatttgttcgatactcgctgaaatcctgaaccataactttgcaaaagaacagccgacccgctcttttggtttatgtttctttcgccgggatatacggttattccgaatgccgtactgtgtttttgttatcgagaaggataaggatgaaagaaagact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0047:PG0048|PG0047:PG0048:cell division protein FtsH, putative:conserved hypothetical protein TIGR00092:<-<-:59341..59543 203 attgtttgcgcagttttattttttctacttaagaaaaatgcaggagtatttgttcgatactcgctgaaatcctgaaccataactttgcaaaagaacagccgacccgctcttttggtttatgtttctttcgccgggatatacggttattccgaatgccgtactgtgtttttgttatcgagaaggataaggatgaaagaaagact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0047:PG0048|PG0047:PG0048:cell division protein FtsH, putative:conserved hypothetical protein TIGR00092:<-<-:59341..59543 203 attgtttgcgcagttttattttttctacttaagaaaaatgcaggagtatttgttcgatactcgctgaaatcctgaaccataactttgcaaaagaacagccgacccgctcttttggtttatgtttctttcgccgggatatacggttattccgaatgccgtactgtgtttttgttatcgagaaggataaggatgaaagaaagact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attgtttgcgcagttttattttttctacttaagaaaaatgcaggagtatttgttcgatactcgctgaaatcctgaaccataactttgcaaaagaacagccgacccgctcttttggtttatgtttctttcgccgggatatacggttattccgaatgccgtactgtgtttttgttatcgagaaggataaggatgaaagaaagact Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 79 End: 201 .............................................................................. M T L Q K N S R P A L L V Y V S F A G I Y G Y S E C R T V F L L S R R I R M K E R .. Protein_Len: 52 Strand: + Start: 48 End: 203 ............................................... M C S I L A E I L N H N F A K E Q P T R S F G L C F F R R D I R L F R M P Y C V F V I E K D K D E R K T Protein_Len: 48 Strand: - Start: 32 End: 175 ............................... S F H L L I Q E I S A S I R F W L K A F S C G V R E K P K H K K R R S I R N N R I G Y Q T K T M ............................ Protein_Len: 40 Strand: - Start: 28 End: 147 ........................... K L F I C S Y K N S V R Q F G S G Y S Q L L V A S G S K Q N I N R E G P Y V T M ........................................................ Protein_Len: 32 Strand: - Start: 3 End: 98 .. T Q A T K N K R S L F F A P T N T R Y E S F D Q V M V K C F F M ......................................................................................................... attgtttgcgcagttttattttttctacttaagaaaaatgcaggagtatttgttcgatactcgctgaaatcctgaaccataactttgcaaaagaacagccgacccgctcttttggtttatgtttctttcgccgggatatacggttattccgaatgccgtactgtgtttttgttatcgagaaggataaggatgaaagaaagact 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================================================ attgtttgcgcagttttattttttctacttaagaaaaatgcaggagtatttgttcgatactcgctgaaatcctgaaccataactttgcaaaagaacagccgacccgctcttttggtttatgtttctttcgccgggatatacggttattccgaatgccgtactgtgtttttgttatcgagaaggataaggatgaaagaaagact Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 42 HP_score: -2.7 Tail_Score: -2.78609 Start: 41 End: 66 Full_Region: tatggttcaggattt cagcgagtat cgaacaa atactcctg catttttcttaagta ........................................cagcgagtatcgaacaaatactcctg......................................................................................................................................... TransTerm Strand: + Conf: 49 HP_score: -3.7 Tail_Score: -3.28969 Start: 88 End: 114 Full_Region: TGAACCATAACTTTG CAAAAGAACAG CCGAC CCGCTCTTTTG GTTTATGTTTCTTTC .......................................................................................CAAAAGAACAGCCGACCCGCTCTTTTG......................................................................................... Find igs database================================================ Query_seq: PG0047:PG0048|PG0047:PG0048:cell division protein FtsH, putative:conserved hypothetical protein TIGR00092:<-<-:59341..59543 203 attgtttgcgcagttttattttttctacttaagaaaaatgcaggagtatttgttcgatactcgctgaaatcctgaaccataactttgcaaaagaacagccgacccgctcttttggtttatgtttctttcgccgggatatacggttattccgaatgccgtactgtgtttttgttatcgagaaggataaggatgaaagaaagact Intra-Species Hit: Count: 1 Min: 1 Max: 203 Len: 203 Subject: NC_002950_PG0047_PG0048|cell division protein FtsH, putative:conserved hypothetical protein TIGR00092|NEGATIVE:NEGATIVE|[59341,59543]|203 HSP 1 e-value: 1.0E-111 bit: 402.0 Len: 203 Query Start:1 Query End:203 Subject Strand: POSITIVE Subject Start: 1 Subject End: 203 attgtttgcgcagttttattttttctacttaagaaaaatgcaggagtatttgttcgatactcgctgaaatcctgaaccataactttgcaaaagaacagccgacccgctcttttggtttatgtttctttcgccgggatatacggttattccgaatgccgtactgtgtttttgttatcgagaaggataaggatgaaagaaagact attgtttgcgcagttttattttttctacttaagaaaaatgcaggagtatttgttcgatactcgctgaaatcctgaaccataactttgcaaaagaacagccgacccgctcttttggtttatgtttctttcgccgggatatacggttattccgaatgccgtactgtgtttttgttatcgagaaggataaggatgaaagaaagact Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGUUUGCGCAGUUUUAUUUUUUCUACUUAAGAAAAAUGCAGGAGUAUUUGUUCGAUACUCGCUGAAAUCCUGAACCAUAACUUUGCAAAAGAACAGCCGACCCGCUCUUUUGGUUUAUGUUUCUUUCGCCGGGAUAUACGGUUAUUCCGAAUGCCGUACUGUGUUUUUGUUAUCGAGAAGGAUAAGGAUGAAAGAAAGACU ...((((...((.((((((((((.((...(((.(((((((((((((((((.....)))))))......((((((............((.((((((((...((((.........))))..)).)))))).)))))))).((((((..........)))))))))))))))).)))...)))))))))))).))......)))). (-45.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUCUUUCUUUCAUCCUUAUCCUUCUCGAUAACAAAAACACAGUACGGCAUUCGGAAUAACCGUAUAUCCCGGCGAAAGAAACAUAAACCAAAAGAGCGGGUCGGCUGUUCUUUUGCAAAGUUAUGGUUCAGGAUUUCAGCGAGUAUCGAACAAAUACUCCUGCAUUUUUCUUAAGUAGAAAAAAUAAAACUGCGCAAACAAU .((.((((((((....(((((......))))).............(((.((.(((.....)))...)).)))..)))))))).))....(((((((((((.....)))))))))))....(((...((.(((.....(((.((((((.......)))))))))..(((((((.....)))))))......))).)).)))... (-45.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 969 110 61 201 152 NC_002950:PG0047|5end_cell_division_protein_FtsH,_putative_59250..59480_NEGATIVE 350 170 122 230 160 NC_002950:PG0275|5end_thioredoxin_family_protein_307464..307694_NEGATIVE 348 116 71 126 78 NC_002950:PG0438|5end_hypothetical_protein_476884..477114_POSITIVE 340 136 97 56 19 NC_002950:PG1755|5end_fructose-bisphosphate_aldolase_1843278..1843508_NEGATIVE 334 130 83 226 165 NC_002950:PG0647|5end_iron_compound_ABC_transporter,_permease_protein_700113..700343_NEGATIVE 330 143 104 104 70 NC_002950:PG1818|5end_hypothetical_protein_1913744..1913974_NEGATIVE 330 158 120 220 182 NC_002950:PG1604|5end_immunoreactive_84_kDa_antigen_PG93_1682737..1682967_POSITIVE 329 164 125 49 18 NC_002950:PG0325|5end_hypothetical_protein_359714..359944_NEGATIVE 326 158 112 217 157 NC_002950:PG1248|5end_hypothetical_protein_1326532..1326762_NEGATIVE 326 150 102 74 9 NC_002950:PG0690|5end_4-hydroxybutyrate_CoA-transferase_747179..747409_NEGATIVE 325 171 131 50 12 NC_002950:PG1593|5end_shikimate_kinase_1671503..1671733_POSITIVE 322 72 39 79 48 NC_002950:PG1316|5end_hypothetical_protein_1396771..1397001_NEGATIVE 321 160 113 44 1 NC_002950:PG2041|5end_hypothetical_protein_2139966..2140196_NEGATIVE 316 163 128 205 163 NC_002950:PG2100|5end_immunoreactive_63_kDa_antigen_PG102_2210191..2210421_NEGATIVE 312 188 155 131 93 NC_002950:PG2037|5end_hypothetical_protein_2137812..2138042_NEGATIVE 311 179 131 95 48 NC_002950:PG1213|5end_ribonuclease_H_1292433..1292663_POSITIVE 309 160 112 208 158 NC_002950:PG1728|5end_cytidine/deoxycytidylate_deaminase_family_protein_1817644..1817874_POSITIVE 309 136 96 224 175 NC_002950:PG0793|5end_fructose-1,6-bisphosphatase_844288..844518_POSITIVE 307 180 132 71 31 NC_002950:PG0776|5end_electron_transfer_flavoprotein,_alpha_subunit_830184..830414_NEGATIVE 307 158 114 147 105 NC_002950:PG0658|5end_phosphatase,_YrbI_family_708319..708549_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 350 170 122 92 22 NC_002950:PG0276|3end_hypothetical_protein_307602..307752_NEGATIVE 343 138 91 70 21 NC_002950:PG1313|3end_dipeptidase-related_protein_1394020..1394170_POSITIVE 331 150 104 75 20 NC_002950:PG1784|3end_hypothetical_protein_1873440..1873590_POSITIVE 326 150 102 68 3 NC_002950:PG0691|3end_NifU-related_protein_747185..747335_NEGATIVE 322 72 39 106 75 NC_002950:PG1317|3end_hypothetical_protein_1396744..1396894_NEGATIVE 317 137 92 110 54 NC_002950:PG2044|3end_hypothetical_protein_2144165..2144315_POSITIVE 316 163 128 118 76 NC_002950:PG2101|3end_hypothetical_protein_2210278..2210428_NEGATIVE 312 188 155 134 96 NC_002950:PG2038|3end_N-acetylmuramoyl-L-alanine_amidase,_putative_2137809..2137959_NEGATIVE 311 179 131 67 20 NC_002950:PG1212|3end_TPR_domain_protein_1292485..1292635_POSITIVE 311 171 131 58 7 NC_002950:PG0771|3end_hypothetical_protein_824867..825017_POSITIVE 309 160 112 136 86 NC_002950:PG1727|3end_yitL_protein_1817652..1817802_POSITIVE 307 180 132 62 22 NC_002950:PG0777|3end_electron_transfer_flavoprotein,_beta_subunit_830193..830343_NEGATIVE 307 158 114 130 88 NC_002950:PG0659|3end_hypothetical_protein_708336..708486_NEGATIVE 306 190 142 148 96 NC_002950:PG0514|3end_translocase_552929..553079_NEGATIVE 306 178 131 47 5 NC_002950:PG0488|3end_Holliday_junction_DNA_helicase_RuvB_529280..529430_POSITIVE 305 174 132 93 35 NC_002950:PG1397|3end_bifunctional_phosphoribosylaminoimidazolecarboxamide_formyltransferase/IMP_cyclohydrolase_1478829..1478979_NEGATIVE 300 110 61 91 35 NC_002950:PG2004|3end_hypothetical_protein_2093135..2093285_NEGATIVE 300 159 120 151 101 NC_002950:PG0747|3end_sigma-54_dependent_DNA-binding_response_regulator_793900..794050_NEGATIVE 297 142 104 151 118 NC_002950:PG1819|3end_hypothetical_protein_1913696..1913846_NEGATIVE 297 158 111 103 54 NC_002950:PG1675|3end_hypothetical_protein_1760360..1760510_POSITIVE