Origin IGS: tttcgcttaagtttcgaaccgcttcgaaggtgtggcatgtacagaaaaagggttgacagttggagagaatcgattcaactgtcaaccctttttccgtatggtgtcattcgccggaggaatacctgaaggtattaagcatccatgcagggtaggcccgattccgacaggcttacttccttgatagatcaggttctcccgttgga .........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 tccaacgggagaacctgatctatcaaggaagtaagcctgtcggaatcgggcctaccctgcatggatgcttaataccttcaggtattcctccggcgaatgacaccatacggaaaaagggttgacagttgaatcgattctctccaactgtcaaccctttttctgtacatgccacaccttcgaagcggttcgaaacttaagcgaaa Mask Tandem Repeat Region ================================================ tttcgcttaagtttcgaaccgcttcgaaggtgtggcatgtacagaaaaagggttgacagttggagagaatcgattcaactgtcaaccctttttccgtatggtgtcattcgccggaggaatacctgaaggtattaagcatccatgcagggtaggcccgattccgacaggcttacttccttgatagatcaggttctcccgttgga Find is-nt database================================================ Query_seq: PG1636:PG1638|PG1636:PG1638:FtsK/SpoIIIE family protein:thioredoxin family protein:<-<-:1718551..1718753 203 tttcgcttaagtttcgaaccgcttcgaaggtgtggcatgtacagaaaaagggttgacagttggagagaatcgattcaactgtcaaccctttttccgtatggtgtcattcgccggaggaatacctgaaggtattaagcatccatgcagggtaggcccgattccgacaggcttacttccttgatagatcaggttctcccgttgga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1636:PG1638|PG1636:PG1638:FtsK/SpoIIIE family protein:thioredoxin family protein:<-<-:1718551..1718753 203 tttcgcttaagtttcgaaccgcttcgaaggtgtggcatgtacagaaaaagggttgacagttggagagaatcgattcaactgtcaaccctttttccgtatggtgtcattcgccggaggaatacctgaaggtattaagcatccatgcagggtaggcccgattccgacaggcttacttccttgatagatcaggttctcccgttgga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1636:PG1638|PG1636:PG1638:FtsK/SpoIIIE family protein:thioredoxin family protein:<-<-:1718551..1718753 203 tttcgcttaagtttcgaaccgcttcgaaggtgtggcatgtacagaaaaagggttgacagttggagagaatcgattcaactgtcaaccctttttccgtatggtgtcattcgccggaggaatacctgaaggtattaagcatccatgcagggtaggcccgattccgacaggcttacttccttgatagatcaggttctcccgttgga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttcgcttaagtttcgaaccgcttcgaaggtgtggcatgtacagaaaaagggttgacagttggagagaatcgattcaactgtcaaccctttttccgtatggtgtcattcgccggaggaatacctgaaggtattaagcatccatgcagggtaggcccgattccgacaggcttacttccttgatagatcaggttctcccgttgga Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 60 End: 149 ........................................................... M E R I D S T V N P F S V W C H S P E E Y L K V L S I H A G ...................................................... Protein_Len: 49 Strand: + Start: 32 End: 178 ............................... M A C T E K G L T V G E N R F N C Q P F F R M V S F A G G I P E G I K H P C R V G P I P T G L L P ......................... Protein_Len: 35 Strand: - Start: 85 End: 189 .................................................................................... G K K R I T D N A P P I G S P I L C G H L T P G I G V P K S G Q Y I M .............. tttcgcttaagtttcgaaccgcttcgaaggtgtggcatgtacagaaaaagggttgacagttggagagaatcgattcaactgtcaaccctttttccgtatggtgtcattcgccggaggaatacctgaaggtattaagcatccatgcagggtaggcccgattccgacaggcttacttccttgatagatcaggttctcccgttgga 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================================================ tttcgcttaagtttcgaaccgcttcgaaggtgtggcatgtacagaaaaagggttgacagttggagagaatcgattcaactgtcaaccctttttccgtatggtgtcattcgccggaggaatacctgaaggtattaagcatccatgcagggtaggcccgattccgacaggcttacttccttgatagatcaggttctcccgttgga Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -15.4 Tail_Score: -4.7173 Start: 50 End: 88 Full_Region: GCATGTACAGAAAAA GGGTTGACAGTTGGAGAG AAT CGATTCAACTGTCAACCC TTTTTCCGTATGGTG .................................................GGGTTGACAGTTGGAGAGAATCGATTCAACTGTCAACCC................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -13.2 Tail_Score: -4.99035 Start: 50 End: 88 Full_Region: caccatacggaaaaa gggttgacagttgaatcg att ctctccaactgtcaaccc tttttctgtacatgc .................................................gggttgacagttgaatcgattctctccaactgtcaaccc................................................................................................................... TransTerm Strand: + Conf: 48 HP_score: -3.5 Tail_Score: -3.40867 Start: 149 End: 173 Full_Region: AAGCATCCATGCAGG GTAGGCCCG ATTCCGA CAGGCTTAC TTCCTTGATAGATCA ....................................................................................................................................................GTAGGCCCGATTCCGACAGGCTTAC.............................. Find igs database================================================ Query_seq: PG1636:PG1638|PG1636:PG1638:FtsK/SpoIIIE family protein:thioredoxin family protein:<-<-:1718551..1718753 203 tttcgcttaagtttcgaaccgcttcgaaggtgtggcatgtacagaaaaagggttgacagttggagagaatcgattcaactgtcaaccctttttccgtatggtgtcattcgccggaggaatacctgaaggtattaagcatccatgcagggtaggcccgattccgacaggcttacttccttgatagatcaggttctcccgttgga Intra-Species Hit: Count: 1 Min: 1 Max: 203 Len: 203 Subject: NC_002950_PG1636_PG1638|FtsK/SpoIIIE family protein:thioredoxin family protein|NEGATIVE:NEGATIVE|[1718551,1718753]|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 tttcgcttaagtttcgaaccgcttcgaaggtgtggcatgtacagaaaaagggttgacagttggagagaatcgattcaactgtcaaccctttttccgtatggtgtcattcgccggaggaatacctgaaggtattaagcatccatgcagggtaggcccgattccgacaggcttacttccttgatagatcaggttctcccgttgga tttcgcttaagtttcgaaccgcttcgaaggtgtggcatgtacagaaaaagggttgacagttggagagaatcgattcaactgtcaaccctttttccgtatggtgtcattcgccggaggaatacctgaaggtattaagcatccatgcagggtaggcccgattccgacaggcttacttccttgatagatcaggttctcccgttgga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCGCUUAAGUUUCGAACCGCUUCGAAGGUGUGGCAUGUACAGAAAAAGGGUUGACAGUUGGAGAGAAUCGAUUCAACUGUCAACCCUUUUUCCGUAUGGUGUCAUUCGCCGGAGGAAUACCUGAAGGUAUUAAGCAUCCAUGCAGGGUAGGCCCGAUUCCGACAGGCUUACUUCCUUGAUAGAUCAGGUUCUCCCGUUGGA ....((((((...........((((...((((((((((((((.(((((((((((((((((((((.........))))))))))))))))))))).)))).))))))..)))).))))..((((....)))))))))).((((....(((..((((.((((....((((........))))...)))).))))..)))..)))) (-77.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCAACGGGAGAACCUGAUCUAUCAAGGAAGUAAGCCUGUCGGAAUCGGGCCUACCCUGCAUGGAUGCUUAAUACCUUCAGGUAUUCCUCCGGCGAAUGACACCAUACGGAAAAAGGGUUGACAGUUGAAUCGAUUCUCUCCAACUGUCAACCCUUUUUCUGUACAUGCCACACCUUCGAAGCGGUUCGAAACUUAAGCGAAA ......(((((.(((((((((((..(((..(((.(((((.......))))).))))))..)))))............)))))).)))))..((((..((....))(((((((((((((((((((((((.............)))))))))))))))))))))))..)))).....((((((....))))))............ (-70.82) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 979 130 81 221 172 NC_002950:PG1636|5end_FtsK/SpoIIIE_family_protein_1718460..1718690_NEGATIVE 429 67 23 154 112 NC_002950:PG0496|5end_hypothetical_protein_537168..537398_POSITIVE 420 169 124 203 150 NC_002950:PG1579|5end_ATPase,_MoxR_family_1656493..1656723_POSITIVE 402 123 87 216 183 NC_002950:PG0529|5end_carbamoyl-phosphate_synthase_small_subunit_574637..574867_POSITIVE 389 200 151 202 146 NC_002950:PG1381|5end_ABC_transporter,_permease_protein_1460622..1460852_POSITIVE 385 180 131 231 175 NC_002950:PG0447|5end_hypothetical_protein_487278..487508_POSITIVE 351 180 136 68 22 NC_002950:PG1856|5end_cytidine/deoxycytidylate_deaminase_family_protein_1955939..1956169_NEGATIVE 351 150 101 227 176 NC_002950:PG0677|5end_saccharopine_dehydrogenase_727653..727883_POSITIVE 350 189 144 67 27 NC_002950:PG2050|5end_hypothetical_protein_2149434..2149664_NEGATIVE 347 200 151 52 2 NC_002950:PG2225|5end_hypothetical_protein_2339440..2339670_POSITIVE 346 189 141 226 183 NC_002950:PG1913|5end_30S_ribosomal_protein_S11_2012926..2013156_NEGATIVE 346 159 111 210 152 NC_002950:PG0635|5end_ribosomal_protein_L11_methyltransferase_687773..688003_NEGATIVE 346 180 137 175 124 NC_002950:PG0538|5end_outer_membrane_efflux_protein_589142..589372_POSITIVE 344 68 21 149 95 NC_002950:PG0741|5end_hypothetical_protein_789316..789546_NEGATIVE 343 170 124 226 163 NC_002950:PG0319|5end_hypothetical_protein_352949..353179_POSITIVE 341 190 143 71 26 NC_002950:PG1829|5end_long-chain-fatty-acid--CoA_ligase,_putative_1922980..1923210_NEGATIVE 338 140 100 92 44 NC_002950:PG0791|5end_adenylate_kinase_843177..843407_NEGATIVE 338 178 135 63 19 NC_002950:PG0062|5end_TPR_domain_protein_73688..73918_POSITIVE 333 138 93 65 21 NC_002950:PG2174|5end_hypothetical_protein_2282578..2282808_NEGATIVE 333 169 121 212 153 NC_002950:PG1853|5end_DNA_polymerase_III,_beta_subunit_1953119..1953349_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 420 169 124 102 49 NC_002950:PG1578|3end_quinolinate_synthetase_1656472..1656622_POSITIVE 384 199 151 113 67 NC_002950:PG2037|3end_hypothetical_protein_2137591..2137741_NEGATIVE 362 119 75 135 91 NC_002950:PG0264|3end_glycosyl_transferase,_group_2_family_protein_298122..298272_POSITIVE 359 129 81 118 66 NC_002950:PG0143|3end_hydrolase,_carbon-nitrogen_family_165747..165897_NEGATIVE 352 67 25 40 1 NC_002950:PG0294|3end_glycosyl_transferase,_group_2_family_protein_329271..329421_NEGATIVE 344 140 92 147 94 NC_002950:PG1012|3end_tRNA-i(6)A37_modification_enzyme_MiaB_1070089..1070239_NEGATIVE 343 116 86 112 84 NC_002950:PG2126|3end_conserved_hypothetical_protein_TIGR00044_2232438..2232588_NEGATIVE 339 200 152 67 12 NC_002950:PG2100|3end_immunoreactive_63_kDa_antigen_PG102_2208527..2208677_NEGATIVE 338 140 100 91 43 NC_002950:PG0792|3end_hypoxanthine_phosphoribosyltransferase_843178..843328_NEGATIVE 338 178 135 58 14 NC_002950:PG0061|3end_yngK_protein_73763..73913_POSITIVE 329 46 3 121 78 NC_002950:PG1826|3end_hypothetical_protein_1919646..1919796_NEGATIVE 329 147 102 49 6 NC_002950:PG0770|3end_hypothetical_protein_824159..824309_NEGATIVE 329 190 143 146 75 NC_002950:PG0198|3end_hypothetical_protein_237501..237651_POSITIVE 321 130 90 110 61 NC_002950:PG0204|3end_hypothetical_protein_240262..240412_NEGATIVE 320 46 3 108 72 NC_002950:PG0199|3end_TatD_family_protein_237424..237574_NEGATIVE 319 103 62 50 5 NC_002950:PG0093|3end_HlyD_family_secretion_protein_108643..108793_NEGATIVE 317 178 142 55 8 NC_002950:PG0484|3end_hypothetical_protein_523851..524001_NEGATIVE 316 198 151 124 65 NC_002950:PG1942|3end_30S_ribosomal_protein_S12_2027946..2028096_NEGATIVE 315 157 111 151 107 NC_002950:PG0289|3end_hypothetical_protein_323980..324130_POSITIVE 314 170 123 66 12 NC_002950:PG0547|3end_hypothetical_protein_601989..602139_POSITIVE