Origin IGS: ctttcctcttctgtcactccgagaaagtcaagaagactttccaatgacttgtttgtaatcactttcattttaacatcttaaaaaagacttgaatagaccaaaaaacctattccttgaaaagaatagggaaatttaataattcagatattttaatgttggagacatactttaatagtttgttgaattctccag .........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 ctggagaattcaacaaactattaaagtatgtctccaacattaaaatatctgaattattaaatttccctattcttttcaaggaataggttttttggtctattcaagtcttttttaagatgttaaaatgaaagtgattacaaacaagtcattggaaagtcttcttgactttctcggagtgacagaagaggaaag Mask Tandem Repeat Region ================================================ ctttcctcttctgtcactccgagaaagtcaagaagactttccaatgacttgtttgtaatcactttcattttaacatcttaaaaaagacttgaatagaccaaaaaacctattccttgaaaagaatagggaaatttaataattcagatattttaatgttggagacatactttaatagtttgttgaattctccag Find is-nt database================================================ Query_seq: SSA_1321:SSA_1322|SSA_1321:SSA_1322:Ferrochelatase, putative:Glycosyl transferase, putative:<-<-:1338434..1338625 192 ctttcctcttctgtcactccgagaaagtcaagaagactttccaatgacttgtttgtaatcactttcattttaacatcttaaaaaagacttgaatagaccaaaaaacctattccttgaaaagaatagggaaatttaataattcagatattttaatgttggagacatactttaatagtttgttgaattctccag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1321:SSA_1322|SSA_1321:SSA_1322:Ferrochelatase, putative:Glycosyl transferase, putative:<-<-:1338434..1338625 192 ctttcctcttctgtcactccgagaaagtcaagaagactttccaatgacttgtttgtaatcactttcattttaacatcttaaaaaagacttgaatagaccaaaaaacctattccttgaaaagaatagggaaatttaataattcagatattttaatgttggagacatactttaatagtttgttgaattctccag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1321:SSA_1322|SSA_1321:SSA_1322:Ferrochelatase, putative:Glycosyl transferase, putative:<-<-:1338434..1338625 192 ctttcctcttctgtcactccgagaaagtcaagaagactttccaatgacttgtttgtaatcactttcattttaacatcttaaaaaagacttgaatagaccaaaaaacctattccttgaaaagaatagggaaatttaataattcagatattttaatgttggagacatactttaatagtttgttgaattctccag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttcctcttctgtcactccgagaaagtcaagaagactttccaatgacttgtttgtaatcactttcattttaacatcttaaaaaagacttgaatagaccaaaaaacctattccttgaaaagaatagggaaatttaataattcagatattttaatgttggagacatactttaatagtttgttgaattctccag Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 93 End: 191 ............................................................................................ M D Q K T Y S L K R I G K F N N S D I L M L E T Y F N S L L N S P . ctttcctcttctgtcactccgagaaagtcaagaagactttccaatgacttgtttgtaatcactttcattttaacatcttaaaaaagacttgaatagaccaaaaaacctattccttgaaaagaatagggaaatttaataattcagatattttaatgttggagacatactttaatagtttgttgaattctccag 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================================================ ctttcctcttctgtcactccgagaaagtcaagaagactttccaatgacttgtttgtaatcactttcattttaacatcttaaaaaagacttgaatagaccaaaaaacctattccttgaaaagaatagggaaatttaataattcagatattttaatgttggagacatactttaatagtttgttgaattctccag Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 93 HP_score: -8.1 Tail_Score: -5.27399 Start: 106 End: 127 Full_Region: gaattattaaatttc cctattctt ttca aggaatagg ttttttggtctattc .........................................................................................................cctattcttttcaaggaatagg................................................................. Find igs database================================================ Query_seq: SSA_1321:SSA_1322|SSA_1321:SSA_1322:Ferrochelatase, putative:Glycosyl transferase, putative:<-<-:1338434..1338625 192 ctttcctcttctgtcactccgagaaagtcaagaagactttccaatgacttgtttgtaatcactttcattttaacatcttaaaaaagacttgaatagaccaaaaaacctattccttgaaaagaatagggaaatttaataattcagatattttaatgttggagacatactttaatagtttgttgaattctccag Intra-Species Hit: Count: 1 Min: 1 Max: 192 Len: 192 Subject: NC_009009_SSA_1321_SSA_1322|Ferrochelatase, putative:Glycosyl transferase, putative|NEGATIVE:NEGATIVE|[1338434,1338625]|192 HSP 1 e-value: 1.0E-105 bit: 381.0 Len: 192 Query Start:1 Query End:192 Subject Strand: POSITIVE Subject Start: 1 Subject End: 192 ctttcctcttctgtcactccgagaaagtcaagaagactttccaatgacttgtttgtaatcactttcattttaacatcttaaaaaagacttgaatagaccaaaaaacctattccttgaaaagaatagggaaatttaataattcagatattttaatgttggagacatactttaatagtttgttgaattctccag ctttcctcttctgtcactccgagaaagtcaagaagactttccaatgacttgtttgtaatcactttcattttaacatcttaaaaaagacttgaatagaccaaaaaacctattccttgaaaagaatagggaaatttaataattcagatattttaatgttggagacatactttaatagtttgttgaattctccag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUCCUCUUCUGUCACUCCGAGAAAGUCAAGAAGACUUUCCAAUGACUUGUUUGUAAUCACUUUCAUUUUAACAUCUUAAAAAAGACUUGAAUAGACCAAAAAACCUAUUCCUUGAAAAGAAUAGGGAAAUUUAAUAAUUCAGAUAUUUUAAUGUUGGAGACAUACUUUAAUAGUUUGUUGAAUUCUCCAG .((((((.(((.((((....(.(((((((.....))))))))..))))..............(((((........((((....))))...((((((..........))))))..))))).))).)))))).......(((((((..(((((((.((((....)).)).)))).)))...)))))))...... (-33.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGGAGAAUUCAACAAACUAUUAAAGUAUGUCUCCAACAUUAAAAUAUCUGAAUUAUUAAAUUUCCCUAUUCUUUUCAAGGAAUAGGUUUUUUGGUCUAUUCAAGUCUUUUUUAAGAUGUUAAAAUGAAAGUGAUUACAAACAAGUCAUUGGAAAGUCUUCUUGACUUUCUCGGAGUGACAGAAGAGGAAAG .((((((......((.(((.....))).)))))))).............(((((.((((((....(((((((((....)))))))))...))))))..)))))..((((((((....(((....((....))....))).....((((((((((((((.....))))))))...)))))).))))))))... (-44.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 889 50 1 141 92 NC_009009:SSA_1321|5end_Ferrochelatase,_putative_1338343..1338573_NEGATIVE 300 54 12 176 121 NC_009009:SSA_0250|5end_GTP_pyrophosphokinase,_putative_242167..242397_POSITIVE 288 54 11 199 152 NC_009009:SSA_0749|5end_Competence_protein,_putative_730668..730898_POSITIVE 257 56 12 147 100 NC_009009:SSA_1294|5end_hypothetical_protein_1312581..1312811_NEGATIVE 255 38 6 199 170 NC_009009:SSA_2009|5end_Heat_shock_transcription_repressor_HrcA,_putative_2011132..2011362_NEGATIVE 255 48 1 59 14 NC_009009:SSA_1122|5end_Thioredoxin_family_protein,_putative_1147871..1148101_POSITIVE 255 49 1 231 169 NC_009009:SSA_0988|5end_TfoX_N-terminal_domain_family_protein,_putative_990662..990892_POSITIVE 238 41 4 196 160 NC_009009:SSA_1415|5end_Oxidoreductase,_putative_1426508..1426738_NEGATIVE 235 40 5 70 35 NC_009009:SSA_0087|5end_V-type_sodium_ATPase,_subunit_E,_putative_88329..88559_POSITIVE 234 41 5 152 101 NC_009009:SSA_1027|5end_hypothetical_protein_1043527..1043757_POSITIVE 232 43 3 228 171 NC_009009:SSA_2197|5end_hypothetical_protein_2197784..2198014_NEGATIVE 229 52 11 212 170 NC_009009:SSA_1720|5end_Initiation-control_protein,_putative_1707113..1707343_NEGATIVE 229 43 1 199 145 NC_009009:SSA_0088|5end_V-type_sodium_ATPase,_subunit_C,_putative_88930..89160_POSITIVE 228 50 2 141 99 NC_009009:SSA_2145|5end_Tributyrin_esterase,_putative_2146658..2146888_NEGATIVE 228 38 5 135 99 NC_009009:SSA_1904|5end_ABC-type_multidrug_transport_system,_permease_component,_putative_1899279..1899509_NEGATIVE 227 48 1 145 92 NC_009009:SSA_0219|5end_PTS_system,_sugar-specific_enzyme_IIA_component,_putative_215367..215597_POSITIVE 226 78 37 144 103 NC_009009:SSA_1450|5end_hypothetical_protein_1452710..1452940_NEGATIVE 226 59 19 119 77 NC_009009:SSA_0221|5end_PTS_system,_mannose-specific_IIC_component,_putative_216370..216600_POSITIVE 225 79 34 81 35 NC_009009:SSA_1737|5end_Cystathionine_gamma-synthase,_putative_1723778..1724008_NEGATIVE 225 86 51 144 109 NC_009009:SSA_0419|5end_Alpha-galactosidase,_putative_416213..416443_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 54 11 86 39 NC_009009:SSA_0748|3end_Sugar:H+_symporter,_permease_of_the_major_facilitator_superfamily,_putative_730635..730785_POSITIVE 285 47 1 104 50 NC_009009:SSA_0897|3end_Two_component_system_histidine_kinase,_putative_889811..889961_POSITIVE 264 50 1 84 21 NC_009009:SSA_0987|3end_ABC-type_choline_transporter,_membrane-spanning_permease,_putative_990594..990744_POSITIVE 257 56 12 146 99 NC_009009:SSA_1296|3end_hypothetical_protein_1312582..1312732_NEGATIVE 255 38 6 35 6 NC_009009:SSA_2010|3end_ABC-type_multidrug_transport_system,_permease_component,_putative_2011296..2011446_NEGATIVE 249 49 3 124 84 NC_009009:SSA_1478|3end_Transposase_ORF1,_putative_1483124..1483274_POSITIVE 248 48 6 44 2 NC_009009:SSA_1121|3end_Cytochrome_C-type_biogenesis_protein,_putative_1147936..1148086_POSITIVE 235 40 5 59 24 NC_009009:SSA_0086|3end_V-type_sodium_ATPase,_subunit_K,_putative_88398..88548_POSITIVE 228 58 11 134 87 NC_009009:SSA_2269|3end_hypothetical_protein_2269392..2269542_NEGATIVE 228 50 2 67 25 NC_009009:SSA_2146|3end_Metallo-beta-lactamase,_putative_2146732..2146882_NEGATIVE 228 38 5 138 102 NC_009009:SSA_1905|3end_ABC-type_multidrug_transport_system,_ATPase_component,_putative_1899276..1899426_NEGATIVE 228 49 7 116 79 NC_009009:SSA_0040|3end_Phosphoribosylaminoimidazole_carboxylase,_ATPase_subunit,_putative_47479..47629_POSITIVE 226 78 37 110 69 NC_009009:SSA_1451|3end_Exonuclease_RexA,_putative_1452744..1452894_NEGATIVE 226 54 17 44 1 NC_009009:SSA_0249|3end_hypothetical_protein_242115..242265_POSITIVE 226 59 19 91 49 NC_009009:SSA_0220|3end_PTS_system,_mannose-specific_IIB_component,_putative_216422..216572_POSITIVE 220 50 5 143 96 NC_009009:SSA_0201|3end_ABC_multidrug_transporter_(3-component_subtilin_immunity_exporter),_putative_200612..200762_POSITIVE 218 63 27 123 90 NC_009009:SSA_1292|3end_hypothetical_protein_1311099..1311249_NEGATIVE 218 47 4 102 45 NC_009009:SSA_0832|3end_SecY-like_protein,_putative_818011..818161_POSITIVE 218 57 11 66 28 NC_009009:SSA_0602|3end_ABC-type_cobalt_transport_system,_ATPase_component,_putative_591683..591833_POSITIVE 218 29 2 83 50 NC_009009:SSA_0298|3end_Malate_permease,_putative_292447..292597_POSITIVE