Locus 5546

Sequence ID 2R_DroMel_CAF1
Location 17,693,824 – 17,693,919
Length 95
Max. P 0.593017
window8897

overview

Window 7

Location 17,693,824 – 17,693,919
Length 95
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.87
Mean single sequence MFE -25.18
Consensus MFE -19.79
Energy contribution -20.07
Covariance contribution 0.28
Combinations/Pair 1.17
Mean z-score -1.09
Structure conservation index 0.79
SVM decision value 0.12
SVM RNA-class probability 0.593017
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17693824 95 + 20766785
-GGUCCAA--AUCCCA--------CGUCCAUGUAUCCCUGGAGCUCCUCCUCGUACGGCGGCCAGAUUCCCAGUGCCGCCAACGUCCGGGUAAAUACUCCGC--------CAAU------
-((.....--..((((--------(((....((((....((((...))))..))))(((((((.........).)))))).))))..)))........))..--------....------ ( -26.46)
>DroPse_CAF1 2414 120 + 1
CCAACCAACAAACACUCAUCAUAACCACUAUGUACCCCUGGAGCUCAUCCUCGUACAGCGGCCAAGCGCCCAAUCCUGCUCAGAAUAGGGUAAAUAACUCACACUCACUCCAACCACUAA
..............................(((((....(((.....)))..)))))((......))((((.((.((....)).)).))))............................. ( -15.60)
>DroSec_CAF1 3446 95 + 1
-GGUCCAA--AACCCA--------CGUCCAUGUAUCCCUGGAGCUCCUCCUCGUACGGCGGCCAGAUUCCCAGUGCCGCCAACGCCCGGGUAAAUACUCCGC--------CAAU------
-((.....--.((((.--------.......((((....((((...))))..))))(((((((.........).)))))).......)))).......))..--------....------ ( -26.02)
>DroSim_CAF1 2625 95 + 1
-GGUCCAA--AACCCA--------CGUCCAUGUAUCCCUGGAGCUCCUCCUCGUACGGCGGCCAGAUUCCCAGUGCCGCCAACGCCCGGGUAAAUACUCCGC--------CAAU------
-((.....--.((((.--------.......((((....((((...))))..))))(((((((.........).)))))).......)))).......))..--------....------ ( -26.02)
>DroEre_CAF1 3254 95 + 1
-GGUCCAA--AACCCA--------CGUCCAUGUAUCCCUGGAGCUCCUCCUCGUACGGCGGGCACAUUCCCAGUGCCGCCAACGUCCGGGUAAAUACUCUAC--------CAAU------
-(((....--.(((((--------(((....((((....((((...))))..))))(((((.(((.......)))))))).))))..)))).........))--------)...------ ( -28.14)
>DroYak_CAF1 3119 95 + 1
-GGUCCAA--AACCCA--------CGUCCAUGUAUCCCUGGAGCUCCUCCUCGUACGGCGGCCAGGUUCCCAGUGCCGCCAACGUCCGGGUAAAUACUCCAC--------GAAU------
-((.....--.(((((--------(((....((((....((((...))))..))))(((((((.((...)).).)))))).))))..)))).......))..--------....------ ( -28.82)
>consensus
_GGUCCAA__AACCCA________CGUCCAUGUAUCCCUGGAGCUCCUCCUCGUACGGCGGCCAGAUUCCCAGUGCCGCCAACGUCCGGGUAAAUACUCCAC________CAAU______
...........((((................((((....((((...))))..))))((((((............)))))).......))))............................. (-19.79 = -20.07 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:25 2006