Locus 4030

Sequence ID 2R_DroMel_CAF1
Location 13,307,129 – 13,307,245
Length 116
Max. P 0.850700
window6497

overview

Window 7

Location 13,307,129 – 13,307,245
Length 116
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.39
Mean single sequence MFE -40.22
Consensus MFE -25.74
Energy contribution -25.46
Covariance contribution -0.28
Combinations/Pair 1.32
Mean z-score -1.59
Structure conservation index 0.64
SVM decision value 0.79
SVM RNA-class probability 0.850700
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13307129 116 + 20766785
UGAGUUUGGUGUGCUGGAUGUUAACUGGCAUCCGGUGCAGCCAUGGGUCUUCUCCACGGGCGCGGACAGUACCAUCCGACUAUACACGUAAUUUAGGUGUACA-AACCCCAAGAAAG
...(((((.((..(((((((((....)))))))))..))(((...((......))...))).((((........))))....(((((.((...)).)))))))-))).......... ( -37.60)
>DroVir_CAF1 5700 112 + 1
CGAGUUCGGCGUCCUGGAUGUCAGCUGGCAUCCGGUGCAGCCUUGGGUCUUCUCCACAGGCGCCGACUGCACAAUCAGGCUUUACACGUGAAGC--GUGCA---GCUUGUUGCACAU
.....((((((..(((((((((....)))))))))..).((((((((.....)))).)))))))))(((......)))((((((....))))))--(((((---(....)))))).. ( -50.70)
>DroGri_CAF1 6292 117 + 1
UGAGUUUGGUGUCCUGGAUGUGAAUUGGCAUCCGGUGCAGCCUUGGAUCUUCUCAACGGGCGCUGAUUGCACCAUUCGACUCUACACGUGAAGCACAUGCAGGAUUGUGCGGCAUAC
.(((((((((((.((((((((......))))))))..((((((((...........)))).))))...))))))...))))).....(((..(((((........)))))..))).. ( -41.10)
>DroEre_CAF1 7468 116 + 1
UGAGUUUGGCGUGUUGGAUGUCAACUGGCAUCCGGUACAGCCAUGGGUCUUUUCCACGGGCGCCGACAGUACCAUCCGACUAUACACGUAAUCUAGGUGUACA-AACCCUAAGAAAG
........((((((.(((((((....)))))))(((((.(((.((((.....))))..)))(....).)))))..........))))))..((((((.((...-.))))).)))... ( -37.00)
>DroYak_CAF1 7435 116 + 1
UGAGUUUGGCGUGCUGGAUGUCAACUGGCAUCCGGUGCAGCCAUGGAUCUUCUCCACGGGCGCUGACAGCACCAUCCGACUAUACACGUAAUCUAGGUGUACA-AACCCUAAGCAAG
...((((((((..(((((((((....)))))))))..).(((.((((.....))))..))))).....(((((....((.(((....))).))..))))).))-))).......... ( -40.20)
>DroMoj_CAF1 5764 112 + 1
CGAGUUUGGCGUCCUAGAUGUAACUUGGCAUCCGGUGCAGCCUUGGGUGUUCUCCACAGGCGCCGAUUGCACAAUCCGACUCUACACAUAAAGC--AUGCA---UUGUUUUGCAUCU
.(((((.((((..(..(((((......)))))..)..).((((((((.....)))).)))))))((((....)))).))))).........((.--(((((---......))))))) ( -34.70)
>consensus
UGAGUUUGGCGUCCUGGAUGUCAACUGGCAUCCGGUGCAGCCAUGGGUCUUCUCCACGGGCGCCGACAGCACCAUCCGACUAUACACGUAAAGCAGGUGCACA_AACCCUAACAAAG
.....((((((..(((((((((....)))))))))..).(((..(((.....)))...))))))))..((((........................))))................. (-25.74 = -25.46 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:01 2006