Locus 1209

Sequence ID X_DroMel_CAF1
Location 3,590,886 – 3,590,993
Length 107
Max. P 0.631896
window1944

overview

Window 4

Location 3,590,886 – 3,590,993
Length 107
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 81.80
Mean single sequence MFE -14.14
Consensus MFE -12.40
Energy contribution -12.65
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.40
Structure conservation index 0.88
SVM decision value 0.20
SVM RNA-class probability 0.631896
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3590886 107 + 22224390
UUUUAACCCCACCGCU---CCCACCAA----CAGUACCCAUCCCAAA----AAAAAAAAAAA--UCCAUACCCUCACACACAUUUAUACGUAGAGCUGCAGAUAUUUUCCAGUUCUGGGG
......((((...(((---........----.)))............----...........--...........................(((((((..((.....))))))))))))) ( -13.60)
>DroSec_CAF1 49865 106 + 1
UUUUAACCCCACCGCU---CCCACCAACAAACAGUACCCAUCCCAAA----A-----AAAAA--UCCAUACCAUCACACACAUUUAUACGUAGAGCUGCAGAUAUUUUCCAGUUCUGGGG
......((((......---.......((.....))............----.-----.....--...........................(((((((..((.....))))))))))))) ( -13.40)
>DroEre_CAF1 44950 114 + 1
UUUUAACCCCAACGCCGCACGCCCCUC----CACUACCCAUCCCAAACUCAAAAA--AAAAAGUACCAUCCCCUCACACACAUUUAUACGGAGAGCUGCAGAUAUUUUCCAGUUCUGGGG
......(((((..((.(((.((..(((----(.......................--................................)))).))))).((.....))..))..))))) ( -16.16)
>DroYak_CAF1 46162 107 + 1
UUUUAACCCCACUGCAGAA-ACCCCCC----CAAUAACCAUCCC----CCAAAAA--AAAAA--ACCAUCCCCUCACACACAUUUAUACGUAGAGCUGCAGAUAUUUUCCAGUUCUGGGG
......((((.........-.......----.............----.......--.....--...............((........))(((((((..((.....))))))))))))) ( -13.40)
>consensus
UUUUAACCCCACCGCU___CCCACCAA____CAGUACCCAUCCCAAA____AAAA__AAAAA__ACCAUACCCUCACACACAUUUAUACGUAGAGCUGCAGAUAUUUUCCAGUUCUGGGG
......((((.....................................................................((........))(((((((..((.....))))))))))))) (-12.40 = -12.65 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:59 2006