Origin IGS: nnnnnagacttctgatatccttkttgtgacgggatggtgtgtccatctagatctctggcaaattctcgatcatatttgtagactccatactcatctttctcttcccagtaaaatttcctgttaccataagggtcaacagctcttctgctgaattctggctgtctggtgaccgtttgaacgtctatgttgatcgatggatgggttgtattgcgagatcattgtttgaagctgttttctataccaccatctgcgtcttagaactcctttgtagtcttctgttcgcagttgctgcgttgatgcatgaacagattggctgctccattggttgtccgaakgatatctgcgatatcttctcgagatacstgtagwgtgyggccgtctattgcttttgcgaaaccattggggtccctgaaaataccaarttcgtctggggttagatacaggwyatctaatttatcttttttgcttacagtgatgttcggtattggatggttgtcgatcgatgtggtattgttgatgtcgatcgaatgttgaggaagcttatcgatcgattgctggttgatgttaggagttttcaaggctcctaatcaaatgttgtagtataaaagattgtcgaaccatccaaggtgattcttaagcaagggaatgcaagttcatgcttaaagctagtgcaatcccgtttttaagattgtatgaactaagaactaatttagctatgcattaaagtaatgaactttcttttctcatatgaagcaagaggactcatggggctaggcatttgnnnnnttaattaattaannnnngtgctggaagtgttgatcctctgactagtaaagtc .........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.........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 gactttactagtcagaggatcaacacttccagcacnnnnnttaattaattaannnnncaaatgcctagccccatgagtcctcttgcttcatatgagaaaagaaagttcattactttaatgcatagctaaattagttcttagttcatacaatcttaaaaacgggattgcactagctttaagcatgaacttgcattcccttgcttaagaatcaccttggatggttcgacaatcttttatactacaacatttgattaggagccttgaaaactcctaacatcaaccagcaatcgatcgataagcttcctcaacattcgatcgacatcaacaataccacatcgatcgacaaccatccaataccgaacatcactgtaagcaaaaaagataaattagatrwcctgtatctaaccccagacgaayttggtattttcagggaccccaatggtttcgcaaaagcaatagacggccrcacwctacasgtatctcgagaagatatcgcagatatcmttcggacaaccaatggagcagccaatctgttcatgcatcaacgcagcaactgcgaacagaagactacaaaggagttctaagacgcagatggtggtatagaaaacagcttcaaacaatgatctcgcaatacaacccatccatcgatcaacatagacgttcaaacggtcaccagacagccagaattcagcagaagagctgttgacccttatggtaacaggaaattttactgggaagagaaagatgagtatggagtctacaaatatgatcgagaatttgccagagatctagatggacacaccatcccgtcacaamaaggatatcagaagtctnnnnn Mask Tandem Repeat Region ================================================ nnnnnagacttctgatatccttkttgtgacgggatggtgtgtccatctagatctctggcaaattctcgatcatatttgtagactccatactcatctttctcttcccagtaaaatttcctgttaccataagggtcaacagctcttctgctgaattctggctgtctggtgaccgtttgaacgtctatgttgatcgatggatgggttgtattgcgagatcattgtttgaagctgttttctataccaccatctgcgtcttagaactcctttgtagtcttctgttcgcagttgctgcgttgatgcatgaacagattggctgctccattggttgtccgaakgatatctgcgatatcttctcgagatacstgtagwgtgyggccgtctattgcttttgcgaaaccattggggtccctgaaaataccaarttcgtctggggttagatacaggwyatctaatttatcttttttgcttacagtgatgttcggtattggatggttgtcgatcgatgtggtattgttgatgtcgatcgaatgttgaggaagcttatcgatcgattgctggttgatgttaggagttttcaaggctcctaatcaaatgttgtagtataaaagattgtcgaaccatccaaggtgattcttaagcaagggaatgcaagttcatgcttaaagctagtgcaatcccgtttttaagattgtatgaactaagaactaatttagctatgcattaaagtaatgaactttcttttctcatatgaagcaagaggactcatggggctaggcatttgnnnnnttaattaattaannnnngtgctggaagtgttgatcctctgactagtaaagtc Find is-nt database================================================ Query_seq: SMT_1854:SMT_1855|SMT_1854:SMT_1855:hypothetical protein predicted by Glimmer/Critica:K03650 tRNA modification GTPase:->->:1819013..1819850 838 nnnnnagacttctgatatccttkttgtgacgggatggtgtgtccatctagatctctggcaaattctcgatcatatttgtagactccatactcatctttctcttcccagtaaaatttcctgttaccataagggtcaacagctcttctgctgaattctggctgtctggtgaccgtttgaacgtctatgttgatcgatggatgggttgtattgcgagatcattgtttgaagctgttttctataccaccatctgcgtcttagaactcctttgtagtcttctgttcgcagttgctgcgttgatgcatgaacagattggctgctccattggttgtccgaakgatatctgcgatatcttctcgagatacstgtagwgtgyggccgtctattgcttttgcgaaaccattggggtccctgaaaataccaarttcgtctggggttagatacaggwyatctaatttatcttttttgcttacagtgatgttcggtattggatggttgtcgatcgatgtggtattgttgatgtcgatcgaatgttgaggaagcttatcgatcgattgctggttgatgttaggagttttcaaggctcctaatcaaatgttgtagtataaaagattgtcgaaccatccaaggtgattcttaagcaagggaatgcaagttcatgcttaaagctagtgcaatcccgtttttaagattgtatgaactaagaactaatttagctatgcattaaagtaatgaactttcttttctcatatgaagcaagaggactcatggggctaggcatttgnnnnnttaattaattaannnnngtgctggaagtgttgatcctctgactagtaaagtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1854:SMT_1855|SMT_1854:SMT_1855:hypothetical protein predicted by Glimmer/Critica:K03650 tRNA modification GTPase:->->:1819013..1819850 838 nnnnnagacttctgatatccttkttgtgacgggatggtgtgtccatctagatctctggcaaattctcgatcatatttgtagactccatactcatctttctcttcccagtaaaatttcctgttaccataagggtcaacagctcttctgctgaattctggctgtctggtgaccgtttgaacgtctatgttgatcgatggatgggttgtattgcgagatcattgtttgaagctgttttctataccaccatctgcgtcttagaactcctttgtagtcttctgttcgcagttgctgcgttgatgcatgaacagattggctgctccattggttgtccgaakgatatctgcgatatcttctcgagatacstgtagwgtgyggccgtctattgcttttgcgaaaccattggggtccctgaaaataccaarttcgtctggggttagatacaggwyatctaatttatcttttttgcttacagtgatgttcggtattggatggttgtcgatcgatgtggtattgttgatgtcgatcgaatgttgaggaagcttatcgatcgattgctggttgatgttaggagttttcaaggctcctaatcaaatgttgtagtataaaagattgtcgaaccatccaaggtgattcttaagcaagggaatgcaagttcatgcttaaagctagtgcaatcccgtttttaagattgtatgaactaagaactaatttagctatgcattaaagtaatgaactttcttttctcatatgaagcaagaggactcatggggctaggcatttgnnnnnttaattaattaannnnngtgctggaagtgttgatcctctgactagtaaagtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1854:SMT_1855|SMT_1854:SMT_1855:hypothetical protein predicted by Glimmer/Critica:K03650 tRNA modification GTPase:->->:1819013..1819850 838 nnnnnagacttctgatatccttkttgtgacgggatggtgtgtccatctagatctctggcaaattctcgatcatatttgtagactccatactcatctttctcttcccagtaaaatttcctgttaccataagggtcaacagctcttctgctgaattctggctgtctggtgaccgtttgaacgtctatgttgatcgatggatgggttgtattgcgagatcattgtttgaagctgttttctataccaccatctgcgtcttagaactcctttgtagtcttctgttcgcagttgctgcgttgatgcatgaacagattggctgctccattggttgtccgaakgatatctgcgatatcttctcgagatacstgtagwgtgyggccgtctattgcttttgcgaaaccattggggtccctgaaaataccaarttcgtctggggttagatacaggwyatctaatttatcttttttgcttacagtgatgttcggtattggatggttgtcgatcgatgtggtattgttgatgtcgatcgaatgttgaggaagcttatcgatcgattgctggttgatgttaggagttttcaaggctcctaatcaaatgttgtagtataaaagattgtcgaaccatccaaggtgattcttaagcaagggaatgcaagttcatgcttaaagctagtgcaatcccgtttttaagattgtatgaactaagaactaatttagctatgcattaaagtaatgaactttcttttctcatatgaagcaagaggactcatggggctaggcatttgnnnnnttaattaattaannnnngtgctggaagtgttgatcctctgactagtaaagtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 nnnnnagacttctgatatccttkttgtgacgggatggtgtgtccatctagatctctggcaaattctcgatcatatttgtagactccatactcatctttctcttcccagtaaaatttcctgttaccataagggtcaacagctcttctgctgaattctggctgtctggtgaccgtttgaacgtctatgttgatcgatggatgggttgtattgcgagatcattgtttgaagctgttttctataccaccatctgcgtcttagaactcctttgtagtcttctgttcgcagttgctgcgttgatgcatgaacagattggctgctccattggttgtccgaakgatatctgcgatatcttctcgagatacstgtagwgtgyggccgtctattgcttttgcgaaaccattggggtccctgaaaataccaarttcgtctggggttagatacaggwyatctaatttatcttttttgcttacagtgatgttcggtattggatggttgtcgatcgatgtggtattgttgatgtcgatcgaatgttgaggaagcttatcgatcgattgctggttgatgttaggagttttcaaggctcctaatcaaatgttgtagtataaaagattgtcgaaccatccaaggtgattcttaagcaagggaatgcaagttcatgcttaaagctagtgcaatcccgtttttaagattgtatgaactaagaactaatttagctatgcattaaagtaatgaactttcttttctcatatgaagcaagaggactcatggggctaggcatttgnnnnnttaattaattaannnnngtgctggaagtgttgatcctctgactagtaaagtc Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 17 End: 148 ................ M L X V T G W C V H L D L W Q I L D H I C R L H T H L S L P S K I S C Y H K G Q Q L F C .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. Protein_Len: 60 Strand: + Start: 51 End: 365 .................................................. M S G K F S I I F V D S I L I F L F P V K F P V T I R V N S S S A E F W L S G D R L N V Y V D R W M G C I A R S L F E A ......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 32 Strand: + Start: 314 End: 409 ......................................................................................................................................................................................................................................................................................................................... M L H W L S E X Y L R Y L L E I X V X C G R L L L L R N H W G P ............................................................................................................................................................................................................................................................................................................................................................................................................................................. Protein_Len: 60 Strand: + Start: 301 End: 531 ............................................................................................................................................................................................................................................................................................................ M N R L A A P L V V R X I S A I S S R D T C X V X P S I A F A K P L G S L K I P X S S G V R Y R X S N L S F L L T V M F ................................................................................................................................................................................................................................................................................................................... Protein_Len: 43 Strand: + Start: 456 End: 584 ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................... M F F A Y S D V R Y W M V V D R C G I V D V D R M L R K L I D R L L V D V R S F Q G S .............................................................................................................................................................................................................................................................. Protein_Len: 60 Strand: - Start: 258 End: 578 ................................................................................................................................................................................................................................................................. N P D R F I G X E D P T L Y L X D L K D K K S V T I N P I P H N D I S T T N N I D I S H Q P L K D I S Q Q N I N P T K M .................................................................................................................................................................................................................................................................... Protein_Len: 37 Strand: - Start: 239 End: 349 .............................................................................................................................................................................................................................................. V V M Q T K S S R Q L R R N A T A A N I C S C I P Q E M P Q G F S I Q S M ......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 136 End: 453 ....................................................................................................................................... E T R L Q Q T S A H V S Q S S W Q N D S X Y R R Y R R S I X T X H P R R N S K R F W Q P G Q F Y W X R R P N S V P X R M ................................................................................................................................................................................................................................................................................................................................................................................................. Protein_Len: 30 Strand: - Start: 50 End: 139 ................................................. I E P L N E I M N T S E M S M K R K G T F N G T V M L T L M ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 3 End: 191 .. Q Y G X Q S P I T H G D L D R A F E R D Y K Y V G Y E D K E E W Y F K R N G Y P D V A R R S F E P Q R T V T Q V D I N M ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... nnnnnagacttctgatatccttkttgtgacgggatggtgtgtccatctagatctctggcaaattctcgatcatatttgtagactccatactcatctttctcttcccagtaaaatttcctgttaccataagggtcaacagctcttctgctgaattctggctgtctggtgaccgtttgaacgtctatgttgatcgatggatgggttgtattgcgagatcattgtttgaagctgttttctataccaccatctgcgtcttagaactcctttgtagtcttctgttcgcagttgctgcgttgatgcatgaacagattggctgctccattggttgtccgaakgatatctgcgatatcttctcgagatacstgtagwgtgyggccgtctattgcttttgcgaaaccattggggtccctgaaaataccaarttcgtctggggttagatacaggwyatctaatttatcttttttgcttacagtgatgttcggtattggatggttgtcgatcgatgtggtattgttgatgtcgatcgaatgttgaggaagcttatcgatcgattgctggttgatgttaggagttttcaaggctcctaatcaaatgttgtagtataaaagattgtcgaaccatccaaggtgattcttaagcaagggaatgcaagttcatgcttaaagctagtgcaatcccgtttttaagattgtatgaactaagaactaatttagctatgcattaaagtaatgaactttcttttctcatatgaagcaagaggactcatggggctaggcatttgnnnnnttaattaattaannnnngtgctggaagtgttgatcctctgactagtaaagtc 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================================================ PromScan Matrix: RpoN Strand: + Score: 82 Start: 366 End: 382 .............................................................................................................................................................................................................................................................................................................................................................................GTGGGCCGTCTATTGCT........................................................................................................................................................................................................................................................................................................................................................................................................................................................................ nnnnnagacttctgatatccttkttgtgacgggatggtgtgtccatctagatctctggcaaattctcgatcatatttgtagactccatactcatctttctcttcccagtaaaatttcctgttaccataagggtcaacagctcttctgctgaattctggctgtctggtgaccgtttgaacgtctatgttgatcgatggatgggttgtattgcgagatcattgtttgaagctgttttctataccaccatctgcgtcttagaactcctttgtagtcttctgttcgcagttgctgcgttgatgcatgaacagattggctgctccattggttgtccgaakgatatctgcgatatcttctcgagatacstgtagwgtgyggccgtctattgcttttgcgaaaccattggggtccctgaaaataccaarttcgtctggggttagatacaggwyatctaatttatcttttttgcttacagtgatgttcggtattggatggttgtcgatcgatgtggtattgttgatgtcgatcgaatgttgaggaagcttatcgatcgattgctggttgatgttaggagttttcaaggctcctaatcaaatgttgtagtataaaagattgtcgaaccatccaaggtgattcttaagcaagggaatgcaagttcatgcttaaagctagtgcaatcccgtttttaagattgtatgaactaagaactaatttagctatgcattaaagtaatgaactttcttttctcatatgaagcaagaggactcatggggctaggcatttgnnnnnttaattaattaannnnngtgctggaagtgttgatcctctgactagtaaagtc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 42 HP_score: -3.1 Tail_Score: -2.64354 Start: 133 End: 151 Full_Region: CTGTTACCATAAGGG TCAACAG CTCTT CTGCTGA ATTCTGGCTGTCTGG ....................................................................................................................................TCAACAGCTCTTCTGCTGA............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 47 HP_score: -3.1 Tail_Score: -3.30212 Start: 520 End: 551 Full_Region: GTGGTATTGTTGATG TCGATCGAATGTT GAGGA AGCTTATCGATCGA TTGCTGGTTGATGTT .......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCGATCGAATGTTGAGGAAGCTTATCGATCGA............................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: SMT_1854:SMT_1855|SMT_1854:SMT_1855:hypothetical protein predicted by Glimmer/Critica:K03650 tRNA modification GTPase:->->:1819013..1819850 838 nnnnnagacttctgatatccttkttgtgacgggatggtgtgtccatctagatctctggcaaattctcgatcatatttgtagactccatactcatctttctcttcccagtaaaatttcctgttaccataagggtcaacagctcttctgctgaattctggctgtctggtgaccgtttgaacgtctatgttgatcgatggatgggttgtattgcgagatcattgtttgaagctgttttctataccaccatctgcgtcttagaactcctttgtagtcttctgttcgcagttgctgcgttgatgcatgaacagattggctgctccattggttgtccgaakgatatctgcgatatcttctcgagatacstgtagwgtgyggccgtctattgcttttgcgaaaccattggggtccctgaaaataccaarttcgtctggggttagatacaggwyatctaatttatcttttttgcttacagtgatgttcggtattggatggttgtcgatcgatgtggtattgttgatgtcgatcgaatgttgaggaagcttatcgatcgattgctggttgatgttaggagttttcaaggctcctaatcaaatgttgtagtataaaagattgtcgaaccatccaaggtgattcttaagcaagggaatgcaagttcatgcttaaagctagtgcaatcccgtttttaagattgtatgaactaagaactaatttagctatgcattaaagtaatgaactttcttttctcatatgaagcaagaggactcatggggctaggcatttgnnnnnttaattaattaannnnngtgctggaagtgttgatcctctgactagtaaagtc Intra-Species Hit: Count: 1 Min: 6 Max: 838 Len: 833 Subject: smit_SMT_1854_SMT_1855|hypothetical protein predicted by Glimmer/Critica:K03650 tRNA modification GTPase|POSITIVE:POSITIVE|[1819013,1819850]|838 HSP 1 e-value: 0.0 bit: 1570.0 Len: 833 Query Start:6 Query End:838 Subject Strand: POSITIVE Subject Start: 6 Subject End: 838 .....agacttctgatatccttkttgtgacgggatggtgtgtccatctagatctctggcaaattctcgatcatatttgtagactccatactcatctttctcttcccagtaaaatttcctgttaccataagggtcaacagctcttctgctgaattctggctgtctggtgaccgtttgaacgtctatgttgatcgatggatgggttgtattgcgagatcattgtttgaagctgttttctataccaccatctgcgtcttagaactcctttgtagtcttctgttcgcagttgctgcgttgatgcatgaacagattggctgctccattggttgtccgaakgatatctgcgatatcttctcgagatacstgtagwgtgyggccgtctattgcttttgcgaaaccattggggtccctgaaaataccaarttcgtctggggttagatacaggwyatctaatttatcttttttgcttacagtgatgttcggtattggatggttgtcgatcgatgtggtattgttgatgtcgatcgaatgttgaggaagcttatcgatcgattgctggttgatgttaggagttttcaaggctcctaatcaaatgttgtagtataaaagattgtcgaaccatccaaggtgattcttaagcaagggaatgcaagttcatgcttaaagctagtgcaatcccgtttttaagattgtatgaactaagaactaatttagctatgcattaaagtaatgaactttcttttctcatatgaagcaagaggactcatggggctaggcatttgnnnnnttaattaattaannnnngtgctggaagtgttgatcctctgactagtaaagtc .....agacttctgatatccttkttgtgacgggatggtgtgtccatctagatctctggcaaattctcgatcatatttgtagactccatactcatctttctcttcccagtaaaatttcctgttaccataagggtcaacagctcttctgctgaattctggctgtctggtgaccgtttgaacgtctatgttgatcgatggatgggttgtattgcgagatcattgtttgaagctgttttctataccaccatctgcgtcttagaactcctttgtagtcttctgttcgcagttgctgcgttgatgcatgaacagattggctgctccattggttgtccgaakgatatctgcgatatcttctcgagatacstgtagwgtgyggccgtctattgcttttgcgaaaccattggggtccctgaaaataccaarttcgtctggggttagatacaggwyatctaatttatcttttttgcttacagtgatgttcggtattggatggttgtcgatcgatgtggtattgttgatgtcgatcgaatgttgaggaagcttatcgatcgattgctggttgatgttaggagttttcaaggctcctaatcaaatgttgtagtataaaagattgtcgaaccatccaaggtgattcttaagcaagggaatgcaagttcatgcttaaagctagtgcaatcccgtttttaagattgtatgaactaagaactaatttagctatgcattaaagtaatgaactttcttttctcatatgaagcaagaggactcatggggctaggcatttgnnnnnttaattaattaannnnngtgctggaagtgttgatcctctgactagtaaagtc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGACUUCUGAUAUCCUUKUUGUGACGGGAUGGUGUGUCCAUCUAGAUCUCUGGCAAAUUCUCGAUCAUAUUUGUAGACUCCAUACUCAUCUUUCUCUUCCCAGUAAAAUUUCCUGUUACCAUAAGGGUCAACAGCUCUUCUGCUGAAUUCUGGCUGUCUGGUGACCGUUUGAACGUCUAUGUUGAUCGAUGGAUGGGUUGUAUUGCGAGAUCAUUGUUUGAAGCUGUUUUCUAUACCACCAUCUGCGUCUUAGAACUCCUUUGUAGUCUUCUGUUCGCAGUUGCUGCGUUGAUGCAUGAACAGAUUGGCUGCUCCAUUGGUUGUCCGAAKGAUAUCUGCGAUAUCUUCUCGAGAUACSUGUAGWGUGYGGCCGUCUAUUGCUUUUGCGAAACCAUUGGGGUCCCUGAAAAUACCAARUUCGUCUGGGGUUAGAUACAGGWYAUCUAAUUUAUCUUUUUUGCUUACAGUGAUGUUCGGUAUUGGAUGGUUGUCGAUCGAUGUGGUAUUGUUGAUGUCGAUCGAAUGUUGAGGAAGCUUAUCGAUCGAUUGCUGGUUGAUGUUAGGAGUUUUCAAGGCUCCUAAUCAAAUGUUGUAGUAUAAAAGAUUGUCGAACCAUCCAAGGUGAUUCUUAAGCAAGGGAAUGCAAGUUCAUGCUUAAAGCUAGUGCAAUCCCGUUUUUAAGAUUGUAUGAACUAAGAACUAAUUUAGCUAUGCAUUAAAGUAAUGAACUUUCUUUUCUCAUAUGAAGCAAGAGGACUCAUGGGGCUAGGCAUUUGNNNNNUUAAUUAAUUAANNNNNGUGCUGGAAGUGUUGAUCCUCUGACUAGUAAAGUC ..((((((..............((((((((((((.((.......((((((..(((((((((((((((....(((((((......................(((((.......((((((((.....))).)))))......)))))..(((..((.(((....))).))..))).))))))).))))))).))))...)))).....)))))).......((((....))))...)))))))))).))))......((((..((.((((((((((((...((((((...((((((((((...(((((((..((((((.(((((((((((..((((((...))))))...))).)))).....................((((....)))).)))).))))))....................(((..((((..((((((..........(((((.....((((.(((....)))..)))).((((((((((.(((((..((((.(((.((....(((((((((....((((....))))))))))))).))...(((((..((((((((.....))))))))))))).....))).))))...))))).).))))))))).))))).(((((((...((((.((((.......((.....))...)))).))))...))))))))))))).)))).))).)))))))...)))))))))))))))))))).....((((......))))..)))))))))).))))...(((((........((((....)))).....)))))))))))...........((((.....)))) (-215.14) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GACUUUACUAGUCAGAGGAUCAACACUUCCAGCACNNNNNUUAAUUAAUUAANNNNNCAAAUGCCUAGCCCCAUGAGUCCUCUUGCUUCAUAUGAGAAAAGAAAGUUCAUUACUUUAAUGCAUAGCUAAAUUAGUUCUUAGUUCAUACAAUCUUAAAAACGGGAUUGCACUAGCUUUAAGCAUGAACUUGCAUUCCCUUGCUUAAGAAUCACCUUGGAUGGUUCGACAAUCUUUUAUACUACAACAUUUGAUUAGGAGCCUUGAAAACUCCUAACAUCAACCAGCAAUCGAUCGAUAAGCUUCCUCAACAUUCGAUCGACAUCAACAAUACCACAUCGAUCGACAACCAUCCAAUACCGAACAUCACUGUAAGCAAAAAAGAUAAAUUAGAURWCCUGUAUCUAACCCCAGACGAAYUUGGUAUUUUCAGGGACCCCAAUGGUUUCGCAAAAGCAAUAGACGGCCRCACWCUACASGUAUCUCGAGAAGAUAUCGCAGAUAUCMUUCGGACAACCAAUGGAGCAGCCAAUCUGUUCAUGCAUCAACGCAGCAACUGCGAACAGAAGACUACAAAGGAGUUCUAAGACGCAGAUGGUGGUAUAGAAAACAGCUUCAAACAAUGAUCUCGCAAUACAACCCAUCCAUCGAUCAACAUAGACGUUCAAACGGUCACCAGACAGCCAGAAUUCAGCAGAAGAGCUGUUGACCCUUAUGGUAACAGGAAAUUUUACUGGGAAGAGAAAGAUGAGUAUGGAGUCUACAAAUAUGAUCGAGAAUUUGCCAGAGAUCUAGAUGGACACACCAUCCCGUCACAAMAAGGAUAUCAGAAGUCU ((((((..(((((.((((((((.........(((......((((....)))).........))).........))).))))).((((((((..((((.....((((((((...(((((.((..((((((........))))))....(((((((......))))))).....)).))))).))))))))((..((..((((((..(((......(((((((((((((....................(((((((((((.........))))))..))))).......((((((((................))))))))..................).))))..)))))))).((((((...((..((....))....(((((...(((.....))))))))..........))..))))))..))).(..(((.....)))..)....))))))..))..))...............))))..(((((((((...)))))).))).........)))))))).....(((((((..((......)).((....))))))))).)))))....((.(((((..((((..(((((((((...(((......))).......((((((((((.............(((((((...(((((.((((.((.(((........((((....(((((((.....)))))))......))))..(((.........)))..........)))..)).)))))))))......)))))))....))))..)))))).......)).))))))).))))......))))).)).)))))). (-186.15) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 374 317 272 173 132 smit:SMT_1364|5end_50S_ribosomal_protein_L35_1343865..1344095_NEGATIVE 371 686 641 80 32 smit:SMT_894|5end_hypothetical_protein_841701..841931_NEGATIVE 362 498 451 151 101 smit:SMT_308|5end_trans-2-enoyl-ACP_reductase_II_249439..249669_POSITIVE 361 316 271 60 1 smit:SMT_1695|5end_ribulose-phosphate_3-epimerase_1677563..1677793_POSITIVE 358 676 632 120 72 smit:SMT_2064|5end_amino_acid_ABC_transporter,_ATP-binding_protein_1972182..1972412_POSITIVE 353 528 485 218 175 smit:SMT_1854|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1818375..1818605_POSITIVE 337 507 462 189 149 smit:SMT_943|5end_hypothetical_protein_894765..894995_NEGATIVE 334 823 782 177 136 smit:SMT_464|5end_ribonuclease_Z_402867..403097_POSITIVE 330 169 125 195 153 smit:SMT_1751|5end_indole-3-glycerol_phosphate_synthase_1729012..1729242_POSITIVE 326 313 271 227 166 smit:SMT_754|5end_3-dehydroquinate_synthase_659044..659274_NEGATIVE 323 179 135 132 95 smit:SMT_1647|5end_3-isopropylmalate_dehydratase_small_subunit_1633403..1633633_POSITIVE 319 167 121 53 2 smit:SMT_1817|5end_exonuclease_RexB_1792113..1792343_NEGATIVE 318 179 134 166 119 smit:SMT_1189|5end_phosphoribosylaminoimidazole_carboxylase_ATPase_subunit_1147754..1147984_NEGATIVE 318 199 154 66 18 smit:SMT_525|5end_30S_ribosomal_protein_S16_450875..451105_POSITIVE 315 178 133 147 94 smit:SMT_1274|5end_K02008_cobalt_transport_system_permease_protein_1237741..1237971_POSITIVE 315 140 93 226 172 smit:SMT_1214|5end_K03584_DNA_repair_protein_RecO_(recombination_protein_O)_1173422..1173652_NEGATIVE 315 200 151 71 30 smit:SMT_573|5end_1-phosphofructokinase_490976..491206_POSITIVE 311 120 80 130 88 smit:SMT_1474|5end_K02003_1455170..1455400_POSITIVE 309 329 287 219 176 smit:SMT_1130|5end_MATE_efflux_family_protein_1065210..1065440_NEGATIVE 309 144 107 217 169 smit:SMT_293|5end_dTDP-4-dehydrorhamnose_reductase_235919..236149_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 374 317 272 140 99 smit:SMT_1365|3end_translation_initiation_factor_IF-3_1343898..1344048_NEGATIVE 371 686 641 87 39 smit:SMT_895|3end_cysteinyl-tRNA_synthetase_841694..841844_NEGATIVE 338 298 257 73 23 smit:SMT_1044|3end_chaperonin_GroEL_(HSP60_family)_986038..986188_NEGATIVE 334 823 782 69 28 smit:SMT_463|3end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_402839..402989_POSITIVE 324 407 365 78 30 smit:SMT_2006|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1926803..1926953_POSITIVE 323 179 135 122 85 smit:SMT_1646|3end_3-isopropylmalate_dehydratase_large_subunit_1633473..1633623_POSITIVE 320 407 365 78 32 smit:SMT_2044|3end_transcriptional_activator_TipA,_putative_1955274..1955424_NEGATIVE 320 407 365 78 32 smit:SMT_2016|3end_tyrosine_recombinase_1933021..1933171_NEGATIVE 320 407 365 88 42 smit:SMT_2001|3end_membrane_protease_protein_family_1923889..1924039_POSITIVE 320 407 365 88 42 smit:SMT_1985|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1914407..1914557_NEGATIVE 320 407 365 78 32 smit:SMT_1957|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1890829..1890979_POSITIVE 320 407 365 78 32 smit:SMT_1886|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1841198..1841348_POSITIVE 320 407 365 78 32 smit:SMT_1658|3end_hypothetical_protein_1648937..1649087_POSITIVE 320 407 365 78 32 smit:SMT_1558|3end_hypothetical_protein_1543855..1544005_NEGATIVE 320 407 365 78 32 smit:SMT_1155|3end_ABC-type_oligopeptide_transport_system,_periplasmic_component_1099183..1099333_NEGATIVE 317 288 241 74 19 smit:SMT_2123|3end_hypothetical_protein_2008541..2008691_POSITIVE 315 200 151 74 33 smit:SMT_572|3end_fructose_repressor_491059..491209_POSITIVE 309 144 107 151 103 smit:SMT_292|3end_dTDP-glucose_4,6-dehydratase_235933..236083_POSITIVE 305 179 131 134 82 smit:SMT_1635|3end_putative_N-acetyldiaminopimelate_deacetylase_1622636..1622786_POSITIVE 305 199 151 125 53 smit:SMT_1112|3end_K02248_competence_protein_ComGF_1051387..1051537_NEGATIVE