Locus 6176

Sequence ID 2R_DroMel_CAF1
Location 19,440,588 – 19,440,680
Length 92
Max. P 0.702740
window9891

overview

Window 1

Location 19,440,588 – 19,440,680
Length 92
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 85.64
Mean single sequence MFE -23.12
Consensus MFE -17.22
Energy contribution -18.60
Covariance contribution 1.38
Combinations/Pair 1.07
Mean z-score -1.78
Structure conservation index 0.74
SVM decision value 0.36
SVM RNA-class probability 0.702740
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19440588 92 - 20766785
UACCCGUGAGCCGAGUGCCGUGCACAUGCACAUGUACGAC-----CACUUAUUCAGAACCUAAUGAGGUAGUUUUAACUGCAAACGUACAUGCCAGU
....((((.((((.....)).)).))))..((((((((..-----..((((((........))))))(((((....)))))...))))))))..... ( -24.50)
>DroSec_CAF1 5088 92 - 1
UACCCGUGAGCCGAGUGCCGUGCACAUGCACAUGUACGAC-----CACUUAUUCAGAACCUAAUGAGGUAGUUUUAACUGCAAACGUACAUGCCAGC
....((((.((((.....)).)).))))..((((((((..-----..((((((........))))))(((((....)))))...))))))))..... ( -24.50)
>DroSim_CAF1 6082 92 - 1
UACCCGUGAGCCGAGUGCCGUGCACAUGCACAUGUACGAC-----CACUUAUUCAGAACCUAAUGAGGUAGUUUUAACUGCAAACGUACAUGCCAGC
....((((.((((.....)).)).))))..((((((((..-----..((((((........))))))(((((....)))))...))))))))..... ( -24.50)
>DroYak_CAF1 5761 92 - 1
UACCCGUGAGCCGAGUACCGUGCACAUGCACAUGUACGAC-----CACUUAUUCAGAACCUAAUGAGGUAGUUUUAACUGCAAACGUACAUGCCAGC
....((((.((((.....)).)).))))..((((((((..-----..((((((........))))))(((((....)))))...))))))))..... ( -24.50)
>DroAna_CAF1 4024 83 - 1
UACCCGUG------------UGCACAUGCACAUGUACAGUACAUACAUACAUUC--UACCUAAUGAGGUAGUUUUAACUGCAAACACACUUACCUUC
.....(((------------((....((((.(((((.......))))).....(--(((((....)))))).......))))..)))))........ ( -17.60)
>consensus
UACCCGUGAGCCGAGUGCCGUGCACAUGCACAUGUACGAC_____CACUUAUUCAGAACCUAAUGAGGUAGUUUUAACUGCAAACGUACAUGCCAGC
....((((.((((.....)).)).))))..((((((((.........((((((........))))))(((((....)))))...))))))))..... (-17.22 = -18.60 +   1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:42 2006