Locus 2407

Sequence ID 2L_DroMel_CAF1
Location 6,562,108 – 6,562,215
Length 107
Max. P 0.805913
window3875

overview

Window 5

Location 6,562,108 – 6,562,215
Length 107
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 81.64
Mean single sequence MFE -24.68
Consensus MFE -18.22
Energy contribution -18.34
Covariance contribution 0.12
Combinations/Pair 1.24
Mean z-score -1.83
Structure conservation index 0.74
SVM decision value 0.63
SVM RNA-class probability 0.805913
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6562108 107 + 22407834
GUAGCUAACAGGGAUGGUGAAAGUGUGAGUAAA------------UACCUUGAAUUACUAUGACUAAGUAAUAAUCAUUGCCAAA-AAUACAUUAUUUACUGCCCAUACUUACGGUCCCU
.........((((((.(((..((((((((((((------------((...((.((((((.......))))))....(((......-))).)).))))))))...))))))))).)))))) ( -24.50)
>DroSec_CAF1 34059 108 + 1
GUAGCUAACAGGGAUGGUGAAAGUGUGAGUAAC------------UACCUUGAAUUACUAUGAUUAAGUAAUACUCAUUACAAAAAAAAACAUUAUUUACUGCACAUACUUACCGUCCCU
.........(((((((((((..(((((((((((------------......).((((((.......))))))........................))))).)))))..))))))))))) ( -28.30)
>DroSim_CAF1 36031 107 + 1
GUAGCUAACGGGGAUGGUGAAAGUGUGAGUAAC------------UACCUUGAAUUACUAUGAUUAAGUAACACUCAUUGCCAAA-AAAACAUUAUUUACUGCCCAUACCCACGGUCCCU
.........((((((.(((...(((((.(((.(------------......)..(((((.......)))))..............-..............))).))))).))).)))))) ( -20.20)
>DroYak_CAF1 35460 119 + 1
GUAGCUAACAGGGGUUGUGAUAGUGGGAGUAACUCACAUAACAUGUACAUUCAAUUACUUUGAUUUAGUAAUACUCAAAGCCAAG-AAAACAUUAUUUACGGCCUCUACUAACGUCCCCU
.........(((((.(((..(((((((((((....((((...))))........(((((.......))))))))))...(((...-(((......)))..)))..))))))))).))))) ( -25.70)
>consensus
GUAGCUAACAGGGAUGGUGAAAGUGUGAGUAAC____________UACCUUGAAUUACUAUGAUUAAGUAAUACUCAUUGCCAAA_AAAACAUUAUUUACUGCCCAUACUUACGGUCCCU
.........((((((((((..((((((.(((..............))).....((((((.......))))))................................)))))))))))))))) (-18.22 = -18.34 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:18 2006