Locus 1997

Sequence ID 2R_DroMel_CAF1
Location 7,523,402 – 7,523,495
Length 93
Max. P 0.556858
window3296

overview

Window 6

Location 7,523,402 – 7,523,495
Length 93
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 84.29
Mean single sequence MFE -17.63
Consensus MFE -13.12
Energy contribution -13.82
Covariance contribution 0.70
Combinations/Pair 1.16
Mean z-score -1.83
Structure conservation index 0.74
SVM decision value 0.05
SVM RNA-class probability 0.556858
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7523402 93 + 20766785
AAUUGUCGGAUGCCGAGCGAUGCUGCUCCUUAAAGUUCUAAUUUGGUAUCCC-CCCAAAUAAUUUAUUCAAAUUGUUUUCCUACAUUCUCUAUU
.......((((((((((((....)))))....((((....))))))))))).-...(((((((((....)))))))))................ ( -17.80)
>DroSec_CAF1 5299 93 + 1
AAUUGUCGGAUGCCGAGCGAUGCUGCUCCUUAAAGUUCUAAUUUGGUAUCCC-CCCAAAUAAUUUAUUCAAAUUGUUUUCCUAGAUUUCCUAUA
....(((((((((((((((....)))))....((((....))))))))))).-...(((((((((....))))))))).....)))........ ( -18.70)
>DroSim_CAF1 5283 93 + 1
AAUUGUCGGAUACCGAGCGAUGCUGCUCCUUAAAGUUCUAAUUUGGUAUCCC-CCCAAAUAAUUUAUUCAAAUUGUUUUCCUAGAUUCCCUAUA
....(((((((((((((((....)))))....((((....))))))))))).-...(((((((((....))))))))).....)))........ ( -18.70)
>DroEre_CAF1 5344 93 + 1
AAUUGUCGGAUGCCGAGCGAUGCUGCUCCUUAAAGUUCUAAUUUGGUAUCCC-CCCAAAUAAUUUAUUCAAAUUGUUUUCCUAGAUUCUCUAUU
....(((((((((((((((....)))))....((((....))))))))))).-...(((((((((....))))))))).....)))........ ( -18.70)
>DroYak_CAF1 5329 94 + 1
AAUUGUCGGAUGCCAAGCGAUGCUGCUCCUUAAAGUUCUAAUUUGGUAUCCCCCCCAAAUAAUUUAUUCAAAUUGUUUUCCUAGAUUCUCUAUU
....(((((((((((((....(((.........))).....)))))))))).....(((((((((....))))))))).....)))........ ( -17.80)
>DroPer_CAF1 6467 78 + 1
AAUUGUCAAUCGCCGCGAGAUUGUUCGCCUUAAAGUUCUCAUUUGAGCU----CUUGGAUAAUUUAUUCAAAUGGUAUUUUU------------
...........((((((((....))))).....(((((......)))))----.(((((((...)))))))..)))......------------ ( -14.10)
>consensus
AAUUGUCGGAUGCCGAGCGAUGCUGCUCCUUAAAGUUCUAAUUUGGUAUCCC_CCCAAAUAAUUUAUUCAAAUUGUUUUCCUAGAUUCUCUAUU
.......((((((((((((....)))))....((((....))))))))))).....(((((((((....)))))))))................ (-13.12 = -13.82 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:19 2006