Locus 4471

Sequence ID X_DroMel_CAF1
Location 11,834,647 – 11,834,740
Length 93
Max. P 0.883108
window7349 window7350

overview

Window 9

Location 11,834,647 – 11,834,740
Length 93
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 75.31
Mean single sequence MFE -26.40
Consensus MFE -13.77
Energy contribution -14.15
Covariance contribution 0.38
Combinations/Pair 1.06
Mean z-score -2.24
Structure conservation index 0.52
SVM decision value 0.93
SVM RNA-class probability 0.883108
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11834647 93 + 22224390
CUGCUCAGUAGAAAAAAAAUAAGCUUUUGCCAAUAUUUGGGU---AUUGUGGC--UCAUUAGAAAGGUGCCCCAUAUUGCCGAUGUGACAACAUCGGU
((((...))))...........((....))((((((..((((---(((....(--(....))...))))))).))))))(((((((....))))))). ( -23.40)
>DroSec_CAF1 10515 80 + 1
CUGCUCAGUAGCAA--AAAUAAGCUU-----------UGGGU---AUUGUGGC--UUAUUAGAAAGGUGCCCCAUAUUGCCGAUGUGACAACAUCGGU
.(((((((.(((..--......))))-----------)))))---).(((((.--.((((.....))))..)))))..((((((((....)))))))) ( -24.70)
>DroSim_CAF1 10965 91 + 1
CUGCUCAGUAGCAA--AAAUAAGCUUUGGCCAAUAUUUGGGU---AUUGUGGC--UUAUUAGAAAGGUGCCCCAUAUUGCCGAUGUGACAACAUCGGU
..((.(((.(((..--......))))))))((((((..((((---(((....(--(....))...))))))).))))))(((((((....))))))). ( -27.70)
>DroEre_CAF1 11736 81 + 1
UGGCUC-----------------CUUUUGUCGAUAUUUGGUGUGGUUGGUGCCGGCUAUUAGAAAGGUGGCCCAUAUAGCCGAUGUGACAACAUCGGU
.(((((-----------------(((((...((((.((((..(.....)..)))).)))).)))))).))))......((((((((....)))))))) ( -29.80)
>consensus
CUGCUCAGUAGCAA__AAAUAAGCUUUUGCCAAUAUUUGGGU___AUUGUGGC__UUAUUAGAAAGGUGCCCCAUAUUGCCGAUGUGACAACAUCGGU
......................................((((....((.(((......))).))....))))......((((((((....)))))))) (-13.77 = -14.15 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,834,647 – 11,834,740
Length 93
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 75.31
Mean single sequence MFE -20.30
Consensus MFE -12.14
Energy contribution -12.20
Covariance contribution 0.06
Combinations/Pair 1.18
Mean z-score -1.78
Structure conservation index 0.60
SVM decision value 0.36
SVM RNA-class probability 0.706398
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11834647 93 - 22224390
ACCGAUGUUGUCACAUCGGCAAUAUGGGGCACCUUUCUAAUGA--GCCACAAU---ACCCAAAUAUUGGCAAAAGCUUAUUUUUUUUCUACUGAGCAG
.((.((((((((.....)))))))).))((........(((((--((..((((---(......)))))......))))))).....((....)))).. ( -20.70)
>DroSec_CAF1 10515 80 - 1
ACCGAUGUUGUCACAUCGGCAAUAUGGGGCACCUUUCUAAUAA--GCCACAAU---ACCCA-----------AAGCUUAUUU--UUGCUACUGAGCAG
.((.((((((((.....)))))))).))..........(((((--((......---.....-----------..))))))).--.((((....)))). ( -19.32)
>DroSim_CAF1 10965 91 - 1
ACCGAUGUUGUCACAUCGGCAAUAUGGGGCACCUUUCUAAUAA--GCCACAAU---ACCCAAAUAUUGGCCAAAGCUUAUUU--UUGCUACUGAGCAG
.((.((((((((.....)))))))).))..........(((((--((..((((---(......)))))......))))))).--.((((....)))). ( -22.00)
>DroEre_CAF1 11736 81 - 1
ACCGAUGUUGUCACAUCGGCUAUAUGGGCCACCUUUCUAAUAGCCGGCACCAACCACACCAAAUAUCGACAAAAG-----------------GAGCCA
...(((((....)))))((((((.((((.......))))))))))(((.((.......................)-----------------).))). ( -19.20)
>consensus
ACCGAUGUUGUCACAUCGGCAAUAUGGGGCACCUUUCUAAUAA__GCCACAAU___ACCCAAAUAUUGGCAAAAGCUUAUUU__UUGCUACUGAGCAG
.(((((((....)))))))........(((...((......))..)))..........................(((((............))))).. (-12.14 = -12.20 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:55 2006