Origin IGS: tatttatcaaattaattagtaaagaaagacactgaattacaaaaaaagttttttagtgtctttttaattgaaaaaagtggtataatactaagcacagataaaaaatataggagaataaaaaaatgaaatttatgaaaaaattatcactatttattatgtttttagctataggagcttttttttcaaaagattcctattctaaagaaaagtcttcaaattcatattatgaatataccacagaaaaaattaaaatatattcagatgagaataagaaagaaaatattggaactttaataaaaggaactcgggtaaatgtatatgatacaaaagaaattataaaaaaaagtaaagataaaaaaggaaaagaaattgagaaaaaaactgtt .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aacagtttttttctcaatttcttttccttttttatctttacttttttttataatttcttttgtatcatatacatttacccgagttccttttattaaagttccaatattttctttcttattctcatctgaatatattttaattttttctgtggtatattcataatatgaatttgaagacttttctttagaataggaatcttttgaaaaaaaagctcctatagctaaaaacataataaatagtgataattttttcataaatttcatttttttattctcctatattttttatctgtgcttagtattataccacttttttcaattaaaaagacactaaaaaactttttttgtaattcagtgtctttctttactaattaatttgataaata Mask Tandem Repeat Region ================================================ tatttatcaaattaattagtaaagaaagacactgaattacaaaaaaagttttttagtgtctttttaattgaaaaaagtggtataatactaagcacagataaaaaatataggagaataaaaaaatgaaatttatgaaaaaattatcactatttattatgtttttagctataggagcttttttttcaaaagattcctattctaaagaaaagtcttcaaattcatattatgaatataccacagaaaaaattaaaatatattcagatgagaataagaaagaaaatattggaactttaataaaaggaactcgggtaaatgtatatgatacaaaagaaattataaaaaaaagtaaagataaaaaaggaaaagaaattgagaaaaaaactgtt Find is-nt database================================================ Query_seq: FN0455:FN0456|FN0455:FN0456:Rubrerythrin:Hypothetical cytosolic protein:->->:1101874..1102259 386 tatttatcaaattaattagtaaagaaagacactgaattacaaaaaaagttttttagtgtctttttaattgaaaaaagtggtataatactaagcacagataaaaaatataggagaataaaaaaatgaaatttatgaaaaaattatcactatttattatgtttttagctataggagcttttttttcaaaagattcctattctaaagaaaagtcttcaaattcatattatgaatataccacagaaaaaattaaaatatattcagatgagaataagaaagaaaatattggaactttaataaaaggaactcgggtaaatgtatatgatacaaaagaaattataaaaaaaagtaaagataaaaaaggaaaagaaattgagaaaaaaactgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0455:FN0456|FN0455:FN0456:Rubrerythrin:Hypothetical cytosolic protein:->->:1101874..1102259 386 tatttatcaaattaattagtaaagaaagacactgaattacaaaaaaagttttttagtgtctttttaattgaaaaaagtggtataatactaagcacagataaaaaatataggagaataaaaaaatgaaatttatgaaaaaattatcactatttattatgtttttagctataggagcttttttttcaaaagattcctattctaaagaaaagtcttcaaattcatattatgaatataccacagaaaaaattaaaatatattcagatgagaataagaaagaaaatattggaactttaataaaaggaactcgggtaaatgtatatgatacaaaagaaattataaaaaaaagtaaagataaaaaaggaaaagaaattgagaaaaaaactgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0455:FN0456|FN0455:FN0456:Rubrerythrin:Hypothetical cytosolic protein:->->:1101874..1102259 386 tatttatcaaattaattagtaaagaaagacactgaattacaaaaaaagttttttagtgtctttttaattgaaaaaagtggtataatactaagcacagataaaaaatataggagaataaaaaaatgaaatttatgaaaaaattatcactatttattatgtttttagctataggagcttttttttcaaaagattcctattctaaagaaaagtcttcaaattcatattatgaatataccacagaaaaaattaaaatatattcagatgagaataagaaagaaaatattggaactttaataaaaggaactcgggtaaatgtatatgatacaaaagaaattataaaaaaaagtaaagataaaaaaggaaaagaaattgagaaaaaaactgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tatttatcaaattaattagtaaagaaagacactgaattacaaaaaaagttttttagtgtctttttaattgaaaaaagtggtataatactaagcacagataaaaaatataggagaataaaaaaatgaaatttatgaaaaaattatcactatttattatgtttttagctataggagcttttttttcaaaagattcctattctaaagaaaagtcttcaaattcatattatgaatataccacagaaaaaattaaaatatattcagatgagaataagaaagaaaatattggaactttaataaaaggaactcgggtaaatgtatatgatacaaaagaaattataaaaaaaagtaaagataaaaaaggaaaagaaattgagaaaaaaactgtt Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 190 End: 291 ............................................................................................................................................................................................. M P I L K K S L Q I H I M N I P Q K K L K Y I Q M R I R K K I L E L ............................................................................................... Protein_Len: 60 Strand: + Start: 123 End: 386 .......................................................................................................................... M K F M K K L S L F I M F L A I G A F F S K D S Y S K E K S S N S Y Y E Y T T E K I K I Y S D E N K K E N I G T L I K G Protein_Len: 48 Strand: - Start: 227 End: 370 .................................................................................................................................................................................................................................. S Y V V S F I L I Y E S S F L F S F I P V K I F P V R T F T Y S V F S I I F F L L S L F P F S M ................ Protein_Len: 38 Strand: - Start: 56 End: 169 ....................................................... H R K L Q F F H Y L V L C L Y F I Y S F L F I F N I F F N D S N I I N K A M ......................................................................................................................................................................................................................... Protein_Len: 34 Strand: - Start: 15 End: 116 .............. N T F F S V S N C F F N K L T K K I S F L P I I S L V S L F Y L L M .............................................................................................................................................................................................................................................................................. tatttatcaaattaattagtaaagaaagacactgaattacaaaaaaagttttttagtgtctttttaattgaaaaaagtggtataatactaagcacagataaaaaatataggagaataaaaaaatgaaatttatgaaaaaattatcactatttattatgtttttagctataggagcttttttttcaaaagattcctattctaaagaaaagtcttcaaattcatattatgaatataccacagaaaaaattaaaatatattcagatgagaataagaaagaaaatattggaactttaataaaaggaactcgggtaaatgtatatgatacaaaagaaattataaaaaaaagtaaagataaaaaaggaaaagaaattgagaaaaaaactgtt 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================================================ tatttatcaaattaattagtaaagaaagacactgaattacaaaaaaagttttttagtgtctttttaattgaaaaaagtggtataatactaagcacagataaaaaatataggagaataaaaaaatgaaatttatgaaaaaattatcactatttattatgtttttagctataggagcttttttttcaaaagattcctattctaaagaaaagtcttcaaattcatattatgaatataccacagaaaaaattaaaatatattcagatgagaataagaaagaaaatattggaactttaataaaaggaactcgggtaaatgtatatgatacaaaagaaattataaaaaaaagtaaagataaaaaaggaaaagaaattgagaaaaaaactgtt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 42 HP_score: -2.9 Tail_Score: -3.28924 Start: 169 End: 196 Full_Region: TTATGTTTTTAGCTA TAGGAGCTTTT TTTTC AAAAGATTCCTA TTCTAAAGAAAAGTC ........................................................................................................................................................................TAGGAGCTTTTTTTTCAAAAGATTCCTA.............................................................................................................................................................................................. Find igs database================================================ Query_seq: FN0455:FN0456|FN0455:FN0456:Rubrerythrin:Hypothetical cytosolic protein:->->:1101874..1102259 386 tatttatcaaattaattagtaaagaaagacactgaattacaaaaaaagttttttagtgtctttttaattgaaaaaagtggtataatactaagcacagataaaaaatataggagaataaaaaaatgaaatttatgaaaaaattatcactatttattatgtttttagctataggagcttttttttcaaaagattcctattctaaagaaaagtcttcaaattcatattatgaatataccacagaaaaaattaaaatatattcagatgagaataagaaagaaaatattggaactttaataaaaggaactcgggtaaatgtatatgatacaaaagaaattataaaaaaaagtaaagataaaaaaggaaaagaaattgagaaaaaaactgtt Intra-Species Hit: Count: 1 Min: 1 Max: 325 Len: 325 Subject: NC_003454_FN0455_FN0456|Rubrerythrin:Hypothetical cytosolic protein|POSITIVE:POSITIVE|[1101874,1102259]|386 HSP 1 e-value: 2.0E-85 bit: 317.0 Len: 184 Query Start:142 Query End:325 Subject Strand: POSITIVE Subject Start: 142 Subject End: 325 .............................................................................................................................................tatcactatttattatgtttttagctataggagcnnnnnnnncaaaagattcctattctaaagaaaagtcttcaaattcatattatgaatataccacagaaaaaattaaaatatattcagatgagaataagaaagaaaatattggaactttaataaaaggaactcgggtaaatgtatatgatac............................................................. .............................................................................................................................................tatcactatttattatgtttttagctataggagcttttttttcaaaagattcctattctaaagaaaagtcttcaaattcatattatgaatataccacagaaaaaattaaaatatattcagatgagaataagaaagaaaatattggaactttaataaaaggaactcgggtaaatgtatatgatac............................................................. HSP 2 e-value: 1.0E-36 bit: 155.0 Len: 99 Query Start:1 Query End:99 Subject Strand: POSITIVE Subject Start: 1 Subject End: 99 tatttatcaaattaattagtaaagaaagacactgaattacnnnnnnngttttttagtgtctttttaattgaaaaaagtggtataatactaagcacagat............................................................................................................................................................................................................................................................................................... tatttatcaaattaattagtaaagaaagacactgaattacaaaaaaagttttttagtgtctttttaattgaaaaaagtggtataatactaagcacagat............................................................................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUUAUCAAAUUAAUUAGUAAAGAAAGACACUGAAUUACAAAAAAAGUUUUUUAGUGUCUUUUUAAUUGAAAAAAGUGGUAUAAUACUAAGCACAGAUAAAAAAUAUAGGAGAAUAAAAAAAUGAAAUUUAUGAAAAAAUUAUCACUAUUUAUUAUGUUUUUAGCUAUAGGAGCUUUUUUUUCAAAAGAUUCCUAUUCUAAAGAAAAGUCUUCAAAUUCAUAUUAUGAAUAUACCACAGAAAAAAUUAAAAUAUAUUCAGAUGAGAAUAAGAAAGAAAAUAUUGGAACUUUAAUAAAAGGAACUCGGGUAAAUGUAUAUGAUAC ....(((((..((((((.....((((((((((((((..((.......))..))))))))))))))...........((((((((.........................(((((.........((((((((......))))).)))............(((((((..((((((((((((.....))))).))))))).)))))))....)))))...(((((...)))))))))))))......))))))....(((((......)))))..........((((.((.((((....))))....)).))))........))))). (-58.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAUCAUAUACAUUUACCCGAGUUCCUUUUAUUAAAGUUCCAAUAUUUUCUUUCUUAUUCUCAUCUGAAUAUAUUUUAAUUUUUUCUGUGGUAUAUUCAUAAUAUGAAUUUGAAGACUUUUCUUUAGAAUAGGAAUCUUUUGAAAAAAAAGCUCCUAUAGCUAAAAACAUAAUAAAUAGUGAUAAUUUUUUCAUAAAUUUCAUUUUUUUAUUCUCCUAUAUUUUUUAUCUGUGCUUAGUAUUAUACCACUUUUUUCAAUUAAAAAGACACUAAAAAACUUUUUUUGUAAUUCAGUGUCUUUCUUUACUAAUUAAUUUGAUAAAUA ...........(((((..((((((....(((.(((((..................(((((......)))))..((((((((......((((((((.............((((((((....))))))))((((((..(((((.....))))).)))))).(((((..(((.((((((.(((((.(((((......))))))))))..)))))).....(((.....))).)))..)))))..)))))))).......)))))))).((((((.((..((.......))..)).))))))...))))).)))..)))))).))))). (-47.72) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 372 65 23 202 157 NC_003454:FN1339|5end_Transposase_1991669..1991899_POSITIVE 372 65 23 202 157 NC_003454:FN0529|5end_Transposase_1186369..1186599_NEGATIVE 372 65 23 202 157 NC_003454:FN0403|5end_Transposase_1042307..1042537_NEGATIVE 372 65 23 202 157 NC_003454:FN1511|5end_Transposase_14217..14447_POSITIVE 367 65 23 203 157 NC_003454:FN0372|5end_Transposase_1002479..1002709_NEGATIVE 301 65 23 200 157 NC_003454:FN0028|5end_Transposase_664913..665143_POSITIVE 257 203 165 198 157 NC_003454:FN1158|5end_hypothetical_protein_1814420..1814650_POSITIVE 242 200 157 53 3 NC_003454:FN1971|5end_Hemin_receptor_471106..471336_NEGATIVE 240 214 176 126 81 NC_003454:FN1097|5end_hypothetical_protein_1741840..1742070_POSITIVE 229 195 156 151 116 NC_003454:FN0772|5end_Flavodoxin_1428694..1428924_POSITIVE 219 204 162 48 3 NC_003454:FN0029|5end_Flavodoxin_667027..667257_NEGATIVE 210 174 147 203 175 NC_003454:FN1749|5end_Pyruvate-flavodoxin_oxidoreductase_247461..247691_POSITIVE 206 200 159 126 81 NC_003454:FN1823|5end_Transcriptional_regulator,_TetR_family_311720..311950_POSITIVE 205 185 141 151 105 NC_003454:FN0606|5end_Translation_initiation_inhibitor_1261014..1261244_POSITIVE 204 200 157 51 10 NC_003454:FN1494|5end_Rod_shape-determining_protein_mreC_2174386..2174616_NEGATIVE 204 190 142 185 116 NC_003454:FN0343|5end_hypothetical_protein_976653..976883_NEGATIVE 204 181 142 115 79 NC_003454:FN2110|5end_Hypothetical_exported_24-amino_acid_repeat_protein_622330..622560_NEGATIVE 202 134 91 209 164 NC_003454:FN1133|5end_N-acetylglucosamine-6-phosphate_deacetylase_1781429..1781659_NEGATIVE 201 217 171 201 158 NC_003454:FN0344|5end_Methyltransferase_977761..977991_NEGATIVE 199 202 169 57 26 NC_003454:FN1738|5end_ATP_synthase_subunit_C_237344..237574_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 372 65 23 47 2 NC_003454:FN0532|3end_Hypothetical_membrane-spanning_protein_1186524..1186674_NEGATIVE 361 65 28 44 5 NC_003454:FN0405|3end_tryptophanyl-tRNA_synthetase_1042465..1042615_NEGATIVE 250 65 32 39 5 NC_003454:FN0026|3end_Hypothetical_exported_24-amino_acid_repeat_protein_664832..664982_POSITIVE 247 195 166 146 123 NC_003454:FN0675|3end_60_kDa_chaperonin_GROEL_1330471..1330621_NEGATIVE 240 214 176 117 72 NC_003454:FN1096|3end_hypothetical_protein_1741911..1742061_POSITIVE 206 200 159 63 18 NC_003454:FN1822|3end_Flavodoxin_311737..311887_POSITIVE 205 65 23 68 26 NC_003454:FN0455|3end_Rubrerythrin_1101813..1101963_POSITIVE 202 183 144 146 102 NC_003454:FN0389|3end_hypothetical_protein_1028042..1028192_POSITIVE 199 202 169 50 19 NC_003454:FN1739|3end_V-type_sodium_ATP_synthase_subunit_E_237351..237501_NEGATIVE 196 187 151 150 111 NC_003454:FN1259|3end_Uracil-DNA_glycosylase_1915756..1915906_POSITIVE 196 190 141 116 64 NC_003454:FN0706|3end_Hypothetical_cytosolic_protein_1365802..1365952_POSITIVE 193 194 151 151 105 NC_003454:FN1383|3end_DNA_polymerase_III_alpha_subunit_2034455..2034605_NEGATIVE 186 210 163 48 6 NC_003454:FN0167|3end_hypothetical_protein_794416..794566_POSITIVE 185 69 21 65 12 NC_003454:FN0530|3end_hypothetical_protein_1186435..1186585_POSITIVE 185 69 21 65 12 NC_003454:FN0404|3end_hypothetical_protein_1042373..1042523_POSITIVE 185 69 21 65 12 NC_003454:FN1510|3end_hypothetical_protein_14231..14381_NEGATIVE 181 186 148 113 70 NC_003454:FN1317|3end_RNA_polymerase_sigma_factor_1970273..1970423_NEGATIVE 180 199 160 145 102 NC_003454:FN1202|3end_NAD(+)_synthetase_1861522..1861672_NEGATIVE 180 69 21 65 11 NC_003454:FN0373|3end_hypothetical_protein_1002545..1002695_POSITIVE 180 196 161 50 16 NC_003454:FN0329|3end_50S_ribosomal_protein_L13_964647..964797_POSITIVE