Origin IGS: atttgctgatagaaaaagttcttctaaaataatagaagggcttttttggaccacaaaaagagtctgactgagttagaagcaagactaaggaaaagccctctgaatccagagggggtgatttgtgctcggactaagatcccagtgaaaaagaaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtactaaaattctcttaaaaaataaaaaatctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcatgatgctaagggcgtcaaaaatccgtatgaaaatagggaaacgacaccgtgttcgatgaacacaaggagtttcatctttttcactaggattttagcccgagctcaaattggctctctgacttcagggagctttttctgttccgtcaccttacctcgatatactcaagtattatcttcggttacggttcctagcactgtaaggtaaaataaaccaaatcttctcccttaggggagattttttattttttaagagaattttagtacaatcttcggctcgtcgccttgtctagaaacattttatcctgcaagaatggagcactcttatttgtagagtgctttttctttttcactgggatcttagtccgagcacaaatcaccccctctggattcagagggcttttccttagtcttgcttctaactcagtcagactctttttgtggtccaaaaaagcccttctattattttagaagaactttttctatcagcaaat Mask Tandem Repeat Region ================================================ atttgctgatagaaaaagttcttctaaaataatagaagggcttttttggaccacaaaaagagtctgactgagttagaagcaagactaaggaaaagccctctgaatccagagggggtgatttgtgctcggactaagatcccagtgaaaaagaaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtactaaaattctcttaaaaaataaaaaatctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga Find is-nt database================================================ Query_seq: SSA_2056:SSA_2058|SSA_2056:SSA_2058:Cinnamoyl ester hydrolase, putative:30S ribosomal protein S15, putative:-><-:2059654..2060147 494 atttgctgatagaaaaagttcttctaaaataatagaagggcttttttggaccacaaaaagagtctgactgagttagaagcaagactaaggaaaagccctctgaatccagagggggtgatttgtgctcggactaagatcccagtgaaaaagaaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtactaaaattctcttaaaaaataaaaaatctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_2056:SSA_2058|SSA_2056:SSA_2058:Cinnamoyl ester hydrolase, putative:30S ribosomal protein S15, putative:-><-:2059654..2060147 494 atttgctgatagaaaaagttcttctaaaataatagaagggcttttttggaccacaaaaagagtctgactgagttagaagcaagactaaggaaaagccctctgaatccagagggggtgatttgtgctcggactaagatcccagtgaaaaagaaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtactaaaattctcttaaaaaataaaaaatctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_2056:SSA_2058|SSA_2056:SSA_2058:Cinnamoyl ester hydrolase, putative:30S ribosomal protein S15, putative:-><-:2059654..2060147 494 atttgctgatagaaaaagttcttctaaaataatagaagggcttttttggaccacaaaaagagtctgactgagttagaagcaagactaaggaaaagccctctgaatccagagggggtgatttgtgctcggactaagatcccagtgaaaaagaaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtactaaaattctcttaaaaaataaaaaatctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atttgctgatagaaaaagttcttctaaaataatagaagggcttttttggaccacaaaaagagtctgactgagttagaagcaagactaaggaaaagccctctgaatccagagggggtgatttgtgctcggactaagatcccagtgaaaaagaaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtactaaaattctcttaaaaaataaaaaatctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 46 End: 231 ............................................. M D H K K S L T E L E A R L R K S P L N P E G V I C A R T K I P V K K K K H S T N K S A P F L Q D K M F L D K A T S R R ....................................................................................................................................................................................................................................................................... Protein_Len: 31 Strand: + Start: 402 End: 491 ................................................................................................................................................................................................................................................................................................................................................................................................................. M L V K K M K L L V F I E H G V V S L F S Y G F L T P L A S * ... Protein_Len: 49 Strand: - Start: 290 End: 436 ................................................................................................................................................................................................................................................................................................. R V T S P V T V S S L V Q T Y R P L T V S C F F S G S T L S G I Q A R A L I R T F F I F S R T N M .......................................................... Protein_Len: 35 Strand: - Start: 88 End: 192 ....................................................................................... P F A R Q I W L P H N T S P S L D W H F L F L V R C I L T S W E Q L M .............................................................................................................................................................................................................................................................................................................. Protein_Len: 60 Strand: - Start: 27 End: 209 .......................... L L L A K K S W L F L R V S N S A L S L F L G R F G S P T I Q A R V L I G T F F F F C E V F L L A G N K C S L I N R S M ............................................................................................................................................................................................................................................................................................. Protein_Len: 36 Strand: - Start: 2 End: 109 . K S I S F T R R F Y Y F P K K P G C F S D S Q T L L L V L S F G E S D M ................................................................................................................................................................................................................................................................................................................................................................................................. atttgctgatagaaaaagttcttctaaaataatagaagggcttttttggaccacaaaaagagtctgactgagttagaagcaagactaaggaaaagccctctgaatccagagggggtgatttgtgctcggactaagatcccagtgaaaaagaaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtactaaaattctcttaaaaaataaaaaatctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga 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================================================ atttgctgatagaaaaagttcttctaaaataatagaagggcttttttggaccacaaaaagagtctgactgagttagaagcaagactaaggaaaagccctctgaatccagagggggtgatttgtgctcggactaagatcccagtgaaaaagaaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtactaaaattctcttaaaaaataaaaaatctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 82 HP_score: -7.8 Tail_Score: -4.49337 Start: 95 End: 114 Full_Region: ccgagcacaaatcac cccctctg gatt cagagggc ttttccttagtcttg ..............................................................................................cccctctggattcagagggc............................................................................................................................................................................................................................................................................................................................................................................................ TransTerm Strand: - Conf: 85 HP_score: -11.3 Tail_Score: -3.28518 Start: 96 End: 113 Full_Region: cgagcacaaatcacc ccctctg gatt cagaggg cttttccttagtctt ...............................................................................................ccctctggattcagaggg............................................................................................................................................................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -6.9 Tail_Score: -5.63236 Start: 156 End: 176 Full_Region: tcctgcaagaatgga gcactct tatttgt agagtgc tttttctttttcact ...........................................................................................................................................................gcactcttatttgtagagtgc.............................................................................................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -9.0 Tail_Score: -6.04324 Start: 257 End: 272 Full_Region: aaataaaccaaatct tctccc ttag gggaga ttttttattttttaa ................................................................................................................................................................................................................................................................tctcccttaggggaga.............................................................................................................................................................................................................................. TransTerm Strand: - Conf: 93 HP_score: -10.0 Tail_Score: -5.10767 Start: 362 End: 381 Full_Region: cccgagctcaaattg gctctctg actt cagggagc tttttctgttccgtc .........................................................................................................................................................................................................................................................................................................................................................................gctctctgacttcagggagc................................................................................................................. TransTerm Strand: - Conf: 64 HP_score: -2.4 Tail_Score: -4.67011 Start: 416 End: 437 Full_Region: aacgacaccgtgttc gatgaacac aagga gtttcatc tttttcactaggatt ...............................................................................................................................................................................................................................................................................................................................................................................................................................gatgaacacaaggagtttcatc......................................................... Find igs database================================================ Query_seq: SSA_2056:SSA_2058|SSA_2056:SSA_2058:Cinnamoyl ester hydrolase, putative:30S ribosomal protein S15, putative:-><-:2059654..2060147 494 atttgctgatagaaaaagttcttctaaaataatagaagggcttttttggaccacaaaaagagtctgactgagttagaagcaagactaaggaaaagccctctgaatccagagggggtgatttgtgctcggactaagatcccagtgaaaaagaaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtactaaaattctcttaaaaaataaaaaatctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga Intra-Species Hit: Count: 1 Min: 1 Max: 494 Len: 494 Subject: NC_009009_SSA_2056_SSA_2058|Cinnamoyl ester hydrolase, putative:30S ribosomal protein S15, putative|POSITIVE:NEGATIVE|[2059654,2060147]|494 HSP 1 e-value: 1.0E-135 bit: 482.0 Len: 243 Query Start:1 Query End:243 Subject Strand: POSITIVE Subject Start: 1 Subject End: 243 atttgctgatagaaaaagttcttctaaaataatagaagggcttttttggaccacaaaaagagtctgactgagttagaagcaagactaaggaaaagccctctgaatccagagggggtgatttgtgctcggactaagatcccagtgaaaaagaaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtactaaaattctctt........................................................................................................................................................................................................................................................... atttgctgatagaaaaagttcttctaaaataatagaagggcttttttggaccacaaaaagagtctgactgagttagaagcaagactaaggaaaagccctctgaatccagagggggtgatttgtgctcggactaagatcccagtgaaaaagaaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtactaaaattctctt........................................................................................................................................................................................................................................................... HSP 2 e-value: 1.0E-132 bit: 472.0 Len: 238 Query Start:257 Query End:494 Subject Strand: POSITIVE Subject Start: 257 Subject End: 494 ................................................................................................................................................................................................................................................................tctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga ................................................................................................................................................................................................................................................................tctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga Inter-species Hit: Count: 5 Min: 151 Max: 494 Len: 344 Subject: NC_008533_SPD_1438_SPD_1439|cadmium resistance transporter, putative:ribosomal protein S15|NEGATIVE:NEGATIVE|[1456387,1457119]|733 HSP 1 e-value: 3.0E-53 bit: 210.0 Len: 138 Query Start:357 Query End:494 Subject Strand: POSITIVE Subject Start: 343 Subject End: 480 ....................................................................................................................................................................................................................................................................................................................................................................aaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga ....................................................................................................................................................................................................................................................................................................................................................................aaaaagccctctgaagtcagagagctgatttgagcccgggctaaaatcctagtgaaaaagatgaaactccttgtgctcatcgaacactgtgtcatttccctattttcatacggatttttgacgcccttagcatcatga HSP 2 e-value: 1.0E-28 bit: 129.0 Len: 93 Query Start:257 Query End:349 Subject Strand: POSITIVE Subject Start: 557 Subject End: 649 ................................................................................................................................................................................................................................................................tctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgac................................................................................................................................................. ................................................................................................................................................................................................................................................................tctccccgaagggagaaaagctggtttattttaccttacagtgctaggaaccgtaaccaaagattatacttgagtatagcgaggtaaggtgac................................................................................................................................................. Subject: NC_003098_spr1466_spr1467|Confers low level cadmium resistance in Staphylococcus aureus:30S ribosomal protein S15|NEGATIVE:NEGATIVE|[1448856,1449588]|733 HSP 1 e-value: 3.0E-53 bit: 210.0 Len: 138 Query Start:357 Query End:494 Subject Strand: POSITIVE Subject Start: 343 Subject End: 480 ....................................................................................................................................................................................................................................................................................................................................................................aaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga ....................................................................................................................................................................................................................................................................................................................................................................aaaaagccctctgaagtcagagagctgatttgagcccgggctaaaatcctagtgaaaaagatgaaactccttgtgctcatcgaacactgtgtcatttccctattttcatacggatttttgacgcccttagcatcatga HSP 2 e-value: 1.0E-28 bit: 129.0 Len: 93 Query Start:257 Query End:349 Subject Strand: POSITIVE Subject Start: 557 Subject End: 649 ................................................................................................................................................................................................................................................................tctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgac................................................................................................................................................. ................................................................................................................................................................................................................................................................tctccccgaagggagaaaagctggtttattttaccttacagtgctaggaaccgtaaccaaagattatacttgagtatagcgaggtaaggtgac................................................................................................................................................. Subject: NC_003028_SP_1625_SP_1626|cadmium resistance transporter, putative:30S ribosomal protein S15|NEGATIVE:NEGATIVE|[1527453,1528267]|815 HSP 1 e-value: 3.0E-53 bit: 210.0 Len: 138 Query Start:357 Query End:494 Subject Strand: POSITIVE Subject Start: 344 Subject End: 481 ....................................................................................................................................................................................................................................................................................................................................................................aaaaagctccctgaagtcagagagccaatttgagctcgggctaaaatcctagtgaaaaagatgaaactccttgtgttcatcgaacacggtgtcgtttccctattttcatacggatttttgacgcccttagcatcatga ....................................................................................................................................................................................................................................................................................................................................................................aaaaagccctctgaagtcagagagctgatttgagcccgggctaaaatcctagtgaaaaagatgaaactccttgtgctcatcgaacactgtgtcatttccctattttcatacggatttttgacgcccttagcatcatga HSP 2 e-value: 4.0E-31 bit: 137.0 Len: 93 Query Start:257 Query End:349 Subject Strand: POSITIVE Subject Start: 558 Subject End: 650 ................................................................................................................................................................................................................................................................tctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgac................................................................................................................................................. ................................................................................................................................................................................................................................................................tctccccgaagggagaaaagctggtttattttaccttacagtgctaggaaccgtaaccaaagattatacttgagtatatcgaggtaaggtgac................................................................................................................................................. Subject: smit_SMT_968_SMT_969|K01990 ABC-2 type transport system ATP-binding protein:30S ribosomal protein S15|NEGATIVE:NEGATIVE|[914106,914742]|637 HSP 1 e-value: 4.0E-34 bit: 147.0 Len: 93 Query Start:257 Query End:349 Subject Strand: POSITIVE Subject Start: 515 Subject End: 608 ................................................................................................................................................................................................................................................................tctcccctaagggagaagatt-tggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgac................................................................................................................................................. ................................................................................................................................................................................................................................................................tctccccgaagggagatcattctggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgac................................................................................................................................................. HSP 2 e-value: 1.0E-28 bit: 129.0 Len: 93 Query Start:257 Query End:349 Subject Strand: POSITIVE Subject Start: 312 Subject End: 404 ................................................................................................................................................................................................................................................................tctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgac................................................................................................................................................. ................................................................................................................................................................................................................................................................tctccccgtagggagaatatctggtttattttaccttacagtgctaggaaccgtaaccaaagataatacttgagcatatcaaggtaaggtgac................................................................................................................................................. HSP 3 e-value: 6.0E-24 bit: 113.0 Len: 93 Query Start:257 Query End:349 Subject Strand: POSITIVE Subject Start: 109 Subject End: 201 ................................................................................................................................................................................................................................................................tctcccctaagggagaagatttggtttattttaccttacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgac................................................................................................................................................. ................................................................................................................................................................................................................................................................tctccccgtagggagaatatctggtttattttaccttacagtgctaggaaccgtaacctaagattatacttgagcataccaaggtaaggtgac................................................................................................................................................. HSP 4 e-value: 1.0E-9 bit: 65.9 Len: 81 Query Start:151 Query End:231 Subject Strand: POSITIVE Subject Start: 207 Subject End: 287 ......................................................................................................................................................aaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtac....................................................................................................................................................................................................................................................................... ......................................................................................................................................................aaaaagccctctgaaaatcagagagctccagtcttgctggataaaccgtttatagactaggcgacgaggcgaagattgtac....................................................................................................................................................................................................................................................................... HSP 5 e-value: 3.0E-7 bit: 58.0 Len: 81 Query Start:151 Query End:231 Subject Strand: POSITIVE Subject Start: 410 Subject End: 490 ......................................................................................................................................................aaaaagcactctacaaataagagtgctccattcttgcaggataaaatgtttctagacaaggcgacgagccgaagattgtac....................................................................................................................................................................................................................................................................... ......................................................................................................................................................aaaaagccctctgaaaatcagagagctacagtcttgctggataaaccgtttatagactaggcgacgaggcgaagattgtac....................................................................................................................................................................................................................................................................... Subject: smit_SMT_963_SMT_964|K02015 iron complex transport system permease protein:cadmium resistance transporter, putative|NEGATIVE:NEGATIVE|[909723,909980]|258 HSP 1 e-value: 2.0E-20 bit: 101.0 Len: 121 Query Start:293 Query End:413 Subject Strand: POSITIVE Subject Start: 130 Subject End: 249 ....................................................................................................................................................................................................................................................................................................tacagtgctaggaaccgtaaccgaagataatacttgagtatatcgaggtaaggtgacggaacagaaaaagctccctg-aagtcagagagccaatttgagctcgggctaaaatcctagtgaaa................................................................................. ....................................................................................................................................................................................................................................................................................................tacagttctaggaaccgtaaccaaagataatacttgagcataccaaggtaaggtgac--aatgtaaaaagccctctgaaaatcagagagctgatttgagctcgggctaaaatcctagtgaaa................................................................................. Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAGCACUCUACAAAUAAGAGUGCUCCAUUCUUGCAGGAUAAAAUGUUUCUAGACAAGGCGACGAGCCGAAGAUUGUACUAAAAUUCUCUUAAAAAAUAAAAAAUCUCCCCUAAGGGAGAAGAUUUGGUUUAUUUUACCUUACAGUGCUAGGAACCGUAACCGAAGAUAAUACUUGAGUAUAUCGAGGUAAGGUGACGGAACAGAAAAAGCUCCCUGAAGUCAGAGAGCCAAUUUGAGCUCGGGCUAAAAUCCUAGUGAAAAAGAUGAAACUCCUUGUGUUCAUCGAACACGGUGUCGUUUCCCUAUUUUCAUACGGAUUUUUGACGCCCUUAGCAUCAUGA ....((((((((.......))))))))((..((((((.((.((....((((((((....(((.....)))....((((((..........................((((((....))))))......(((.......))).)))))).))))))))..)).))...((((.(((....)))))))...))))))....))..........((((.(((....))).)))).....((((((.((((.(((((((..(((((((((..(((((..(((((((((...)))))))).)..))))).)).)))))))..)))))))....))))..))).)))... (-95.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCAUGAUGCUAAGGGCGUCAAAAAUCCGUAUGAAAAUAGGGAAACGACACCGUGUUCGAUGAACACAAGGAGUUUCAUCUUUUUCACUAGGAUUUUAGCCCGAGCUCAAAUUGGCUCUCUGACUUCAGGGAGCUUUUUCUGUUCCGUCACCUUACCUCGAUAUACUCAAGUAUUAUCUUCGGUUACGGUUCCUAGCACUGUAAGGUAAAAUAAACCAAAUCUUCUCCCUUAGGGGAGAUUUUUUAUUUUUUAAGAGAAUUUUAGUACAAUCUUCGGCUCGUCGCCUUGUCUAGAAACAUUUUAUCCUGCAAGAAUGGAGCACUCUUAUUUGUAGAGUGCUUUUU ...(((.(((..((((....(((((((...((((((.((((((((..(...((((((...))))))..)..))))).)))))))))...))))))).)))).))))))....(((((((((....)))))))))...(((((((.(..(((..(((..(((((((....))).))))...)))...)))..)......((((.((((((((...........((((((....))))))(((((((.....))))))).((((((.((((.....(((.....)))))))))))))..)))))))).)))).)))))))(((((((.......)))))))..... (-103.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 379 260 211 109 44 NC_009009:SSA_1793|5end_Histidine_kinase_(sensor_protein),_putative_1776361..1776591_NEGATIVE 361 299 254 211 166 NC_009009:SSA_0101|5end_Conserved_uncharacterized_protein_103596..103826_POSITIVE 341 258 211 61 17 NC_009009:SSA_1466|5end_Prephenate_dehydrogenase,_putative_1473111..1473341_NEGATIVE 336 170 124 123 72 NC_009009:SSA_2055|5end_hypothetical_protein_2058160..2058390_NEGATIVE 335 217 177 52 17 NC_009009:SSA_2302|5end_Type_IV_fimbrial_biogenesis_protein,_prepilin_cysteine_protease_(C20)_PilD,_putative_2304044..2304274_NEGATIVE 327 146 101 230 192 NC_009009:SSA_2182|5end_hypothetical_protein_2181020..2181250_NEGATIVE 315 248 205 230 182 NC_009009:SSA_0162|5end_hypothetical_protein_161391..161621_POSITIVE 314 256 211 164 121 NC_009009:SSA_0978|5end_hypothetical_protein_983736..983966_POSITIVE 313 249 212 48 9 NC_009009:SSA_0746|5end_Glucosamine-6-phosphate_deaminase,_putative_727078..727308_POSITIVE 312 258 211 63 13 NC_009009:SSA_1650|5end_3-Ketoacyl-ACP_reductase,_putative_1649594..1649824_NEGATIVE 306 306 263 131 95 NC_009009:SSA_1509|5end_Polysaccharide_biosynthesis_protein/_rhamnosyltransferase,_putative_1514191..1514421_NEGATIVE 305 260 212 213 135 NC_009009:SSA_1492|5end_hypothetical_protein_1498954..1499184_NEGATIVE 305 74 31 67 25 NC_009009:SSA_0508|5end_Conserved_uncharacterized_protein,_possible_phosphoserine_phosphatase_506668..506898_POSITIVE 302 339 291 134 89 NC_009009:SSA_2224|5end_Phosphotyrosine-protein_phosphatase,_putative_2225442..2225672_NEGATIVE 302 247 204 67 19 NC_009009:SSA_2165|5end_ABC-type_oligopeptide_transporter,_periplasmic_component,_putative_2161734..2161964_POSITIVE 302 259 211 57 23 NC_009009:SSA_2071|5end_hypothetical_protein_2074766..2074996_NEGATIVE 302 202 164 43 3 NC_009009:SSA_2027|5end_P-type_ATPase-metal/cation_transport_(probably_copper),_putative_2035172..2035402_NEGATIVE 302 233 194 231 178 NC_009009:SSA_1300|5end_Maltose_ABC_transporter,_permease_protein,_putative_1317987..1318217_POSITIVE 299 248 204 53 13 NC_009009:SSA_0433|5end_Methenyl_tetrahydrofolate_cyclohydrolase,_putative_435654..435884_NEGATIVE 298 238 193 67 13 NC_009009:SSA_0834|5end_Accessory_secretory_protein_Asp2,_putative_819510..819740_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 402 340 295 84 37 NC_009009:SSA_2110|3end_30S_ribosomal_protein_S7,_putative_2115109..2115259_NEGATIVE 379 260 211 125 60 NC_009009:SSA_1794|3end_Two-component_response_transcriptional_regulator_(CheY-like_receiver_and_winged-helix_DNA-binding_domains),_putative_1776345..1776495_NEGATIVE 378 150 101 102 57 NC_009009:SSA_2183|3end_Glucose-6-phosphate_isomerase,_putative_2181155..2181305_NEGATIVE 341 258 211 45 1 NC_009009:SSA_1467|3end_Chorismate_synthase,_putative_1473127..1473277_NEGATIVE 312 258 211 70 20 NC_009009:SSA_1651|3end_hypothetical_protein_1649587..1649737_NEGATIVE 307 69 22 79 23 NC_009009:SSA_2209|3end_Penicillin-binding_protein_2A,_putative_2208144..2208294_NEGATIVE 306 306 263 134 98 NC_009009:SSA_1510|3end_Rhamnosyltransferase,_putative_1514188..1514338_NEGATIVE 306 248 209 150 102 NC_009009:SSA_1056|3end_Firmicute_fructose-1,6-bisphosphatase,_putative_1073750..1073900_POSITIVE 304 248 205 91 47 NC_009009:SSA_2109|3end_Elongation_factor_G,_putative_2112787..2112937_NEGATIVE 302 339 291 137 92 NC_009009:SSA_2225|3end_Transcriptional_attenuator_LytR,_putative_2225439..2225589_NEGATIVE 302 202 164 41 1 NC_009009:SSA_2028|3end_Conserved_uncharacterized_protein_2035174..2035324_NEGATIVE 298 80 31 86 31 NC_009009:SSA_1573|3end_hypothetical_protein_1576054..1576204_NEGATIVE 298 238 193 77 23 NC_009009:SSA_0833|3end_Accessory_secretory_protein_Asp1,_putative_819600..819750_POSITIVE 298 307 265 140 96 NC_009009:SSA_0263|3end_Zinc_metalloproteinase_in_scaA_5'region,_putative_258246..258396_POSITIVE 288 248 204 104 57 NC_009009:SSA_0733|3end_hypothetical_protein_716937..717087_POSITIVE 287 245 212 44 13 NC_009009:SSA_2357|3end_50S_ribosomal_protein_L9,_putative_2357985..2358135_NEGATIVE 287 240 193 63 7 NC_009009:SSA_0180|3end_hypothetical_protein_184989..185139_POSITIVE 286 82 49 140 105 NC_009009:SSA_0939|3end_Inositol_monophosphatase_(Mg++_dependent),_putative_947705..947855_POSITIVE 286 230 186 58 12 NC_009009:SSA_0436|3end_Imidazolonepropionase,_putative_440214..440364_POSITIVE 283 69 21 145 87 NC_009009:SSA_2257|3end_DNA_mismatch_repair_protein,_putative_2251241..2251391_NEGATIVE