Locus 5894

Sequence ID 2R_DroMel_CAF1
Location 18,613,577 – 18,613,682
Length 105
Max. P 0.997928
window9464 window9465

overview

Window 4

Location 18,613,577 – 18,613,682
Length 105
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 64.93
Mean single sequence MFE -23.81
Consensus MFE -7.18
Energy contribution -8.34
Covariance contribution 1.16
Combinations/Pair 1.26
Mean z-score -2.04
Structure conservation index 0.30
SVM decision value 0.02
SVM RNA-class probability 0.542156
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18613577 105 + 20766785
UUGCAGCUUCAGUGGUUCACUAAGCUAACUUUAUAUUUGUGCAUUUUUUACACAUGGC---------UUACCA--UUUUUUCCAAGUGCAUCUGCAGUGGAAACUGAAACUUUGUC
....((.(((((((((.....((((((..........((((.........))))))))---------))))).--....(((((..(((....))).))))))))))).))..... ( -22.00)
>DroSec_CAF1 24439 104 + 1
UUGUAGCUUCAGUGGUCCACUAAGCUAACUUCAUAUCACUGAAUUUUUUACACAUGGC---------UUACU---UUUUUUCCAAGUGCAGCUGCAGUGGAAACUGAAACUUUGUC
....((.((((((..((((((.((((...((((......)))).......(((.(((.---------.....---......))).))).))))..)))))).)))))).))..... ( -25.90)
>DroEre_CAF1 26599 103 + 1
GUAUAGCUUGAGCU-UCCACUAAGCUGAACCCAUAUCUGUGCUCUUUUUGCAAA-UGC---------AUAAU--UAUUUUUGCAAGUGCAGCCGCAGUGGAAACUGAAACUUUGUC
....((.((.((.(-((((((..((((.((.........(((.......)))..-(((---------(.((.--...)).)))).)).))))...))))))).)).)).))..... ( -23.40)
>DroYak_CAF1 23145 95 + 1
GUAUAGCUUCAGUUUUCCACUAAGCU-----------UAUGCUUUUAUUACAAGCUGC---------AUACUUUUAUUUUUGCA-GUGCAGCUGCAGUGGAAACUGAAACUUUGUC
....((.((((((((.(((((((((.-----------...))))........((((((---------((...............-))))))))..))))))))))))).))..... ( -29.76)
>DroAna_CAF1 29796 100 + 1
UCAAAGCUUCAUUG-------------AAUAUAUAGUACUAUAAUUUAUAGUAGUUCCUAAUUAGUAAUAGU---AUUUUUCUCCGUGCUGUUGCAGCUGAAACUGAAACUUCGAC
((.(((.((((...-------------.........(((((((...)))))))...........((((((((---((........)))))))))).........)))).))).)). ( -18.00)
>consensus
UUAUAGCUUCAGUG_UCCACUAAGCU_AAUUCAUAUCUCUGCAUUUUUUACAAAUUGC_________AUACU___AUUUUUCCAAGUGCAGCUGCAGUGGAAACUGAAACUUUGUC
....((.(((((...(((((.................((((.......))))..................................(((....))))))))..))))).))..... ( -7.18 =  -8.34 +   1.16)

alignment

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secondary structure

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dotplot

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Window 5

Location 18,613,577 – 18,613,682
Length 105
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 64.93
Mean single sequence MFE -31.40
Consensus MFE -12.12
Energy contribution -13.08
Covariance contribution 0.96
Combinations/Pair 1.17
Mean z-score -4.58
Structure conservation index 0.39
SVM decision value 2.96
SVM RNA-class probability 0.997928
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18613577 105 - 20766785
GACAAAGUUUCAGUUUCCACUGCAGAUGCACUUGGAAAAAA--UGGUAA---------GCCAUGUGUAAAAAAUGCACAAAUAUAAAGUUAGCUUAGUGAACCACUGAAGCUGCAA
.....((((((((((((((.(((....)))..))))))...--((((..---------((..((((((.....))))))......(((....))).))..)))))))))))).... ( -28.20)
>DroSec_CAF1 24439 104 - 1
GACAAAGUUUCAGUUUCCACUGCAGCUGCACUUGGAAAAAA---AGUAA---------GCCAUGUGUAAAAAAUUCAGUGAUAUGAAGUUAGCUUAGUGGACCACUGAAGCUACAA
.....(((((((((.(((((((.((((((((.(((......---.....---------.))).))))......((((......))))...)))))))))))..))))))))).... ( -33.50)
>DroEre_CAF1 26599 103 - 1
GACAAAGUUUCAGUUUCCACUGCGGCUGCACUUGCAAAAAUA--AUUAU---------GCA-UUUGCAAAAAGAGCACAGAUAUGGGUUCAGCUUAGUGGA-AGCUCAAGCUAUAC
.....(((((.(((((((((((.(((((((..((((.((...--.)).)---------)))-..))).....((((.((....)).)))))))))))))))-)))).))))).... ( -36.20)
>DroYak_CAF1 23145 95 - 1
GACAAAGUUUCAGUUUCCACUGCAGCUGCAC-UGCAAAAAUAAAAGUAU---------GCAGCUUGUAAUAAAAGCAUA-----------AGCUUAGUGGAAAACUGAAGCUAUAC
.....(((((((((((((((((((((((((.-(((..........))))---------))))).))).....((((...-----------.))))))))).))))))))))).... ( -36.30)
>DroAna_CAF1 29796 100 - 1
GUCGAAGUUUCAGUUUCAGCUGCAACAGCACGGAGAAAAAU---ACUAUUACUAAUUAGGAACUACUAUAAAUUAUAGUACUAUAUAUU-------------CAAUGAAGCUUUGA
.(((((((((((.((((.((((...))))...))))....(---(((((.......(((......)))......)))))).........-------------...))))))))))) ( -22.82)
>consensus
GACAAAGUUUCAGUUUCCACUGCAGCUGCACUUGGAAAAAU___AGUAU_________GCAAUUUGUAAAAAAUGCACAAAUAUAAAGU_AGCUUAGUGGA_CACUGAAGCUAUAA
.....(((((((((..(((((((....)).............................((.....))............................)))))...))))))))).... (-12.12 = -13.08 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:32 2006