Locus 1330

Sequence ID 3R_DroMel_CAF1
Location 3,908,650 – 3,908,755
Length 105
Max. P 0.687911
window2175

overview

Window 5

Location 3,908,650 – 3,908,755
Length 105
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 85.77
Mean single sequence MFE -35.70
Consensus MFE -30.10
Energy contribution -31.38
Covariance contribution 1.28
Combinations/Pair 1.14
Mean z-score -1.76
Structure conservation index 0.84
SVM decision value 0.32
SVM RNA-class probability 0.687911
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3908650 105 + 27905053
UCCACCAUGUCGGGAUCCAGUUCCGA-CUCGGAGA---UUCUUGGUCCUGUUUUGCCACCAUUUGCACUGUGGCAGACGAUCCUGAUAGCCAUAUGCCUGGCGAUCUGU
.......(((((((((((((..((((-........---...))))..))).((((((((..........)))))))).))))))))))((((......))))....... ( -35.10)
>DroSec_CAF1 32072 105 + 1
UCCACCAUGUCGGGAUCCAGUUCCGA-CUCGGAGA---UUCUUGGUCCUGUUCUGCCACCAUUUGCCCUGUGGCAGACGAUCCUGAUAGCCAUAUGCCUGGCCAUUUGC
.......(((((((((((((..((((-........---...))))..))).((((((((..........)))))))).))))))))))((((......))))....... ( -36.80)
>DroSim_CAF1 32524 105 + 1
UCCACCAUGUCGGGAUCCAGUUCCGA-CUCGGAGA---UUCUUGGUCCUGUUCUGCCACCAUUUGCCCUGUGGCAGACGAUCCUGAUAGCCAUAUGCCUGGCGAUCUGU
.......(((((((((((((..((((-........---...))))..))).((((((((..........)))))))).))))))))))((((......))))....... ( -37.70)
>DroEre_CAF1 32526 105 + 1
UCCACCAUGUCGGGAGCCAGUUCCGA-CUCGGAGA---UCCUUGGCCCUGUUCUGCCACCAUUUGCCCUGUGGCAGACGAUCCUGAUAGCCAUAUGCCUGGCCAUCUGC
.......((((((((((((((((((.-..))))).---...))))).....((((((((..........))))))))...))))))))((((......))))....... ( -36.20)
>DroYak_CAF1 33956 105 + 1
UCCACCAUGUCGGGAUCCAAUUCCGA-CUCGGAGA---UCCUUGGUCCUGUUCUGCCACCAUUUGCCCUGUGGCAGACGAUCCUGAUAGCCAUCUGUCUGGCCAUCUGC
.......((((((((((.......((-((.((...---.))..))))....((((((((..........)))))))).))))))))))((((......))))....... ( -36.00)
>DroPer_CAF1 44646 105 + 1
ACUGCCAC---GG-ACACGGACCUGAGCUCGGACAAUGUCCUGGUGCCCGUGCUGCCGCCGUUCGCCCUCUGGCAGACGAUCUUCAUUGCCAUCUGUCUGGCCAUUUGC
.((((((.---((-(((..(.((.......)).)..))))).((((..((.((....))))..))))...))))))............((((......))))....... ( -32.40)
>consensus
UCCACCAUGUCGGGAUCCAGUUCCGA_CUCGGAGA___UCCUUGGUCCUGUUCUGCCACCAUUUGCCCUGUGGCAGACGAUCCUGAUAGCCAUAUGCCUGGCCAUCUGC
.......((((((((((...(((((....)))))...............((.(((((((..........)))))))))))))))))))((((......))))....... (-30.10 = -31.38 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:55 2006