Locus 9846

Sequence ID 3R_DroMel_CAF1
Location 26,210,139 – 26,210,230
Length 91
Max. P 0.725809
window15717 window15718

overview

Window 7

Location 26,210,139 – 26,210,230
Length 91
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 77.21
Mean single sequence MFE -15.94
Consensus MFE -12.58
Energy contribution -12.22
Covariance contribution -0.36
Combinations/Pair 1.19
Mean z-score -1.24
Structure conservation index 0.79
SVM decision value 0.41
SVM RNA-class probability 0.725809
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26210139 91 + 27905053
UGGACAUUUUUACAAGUGACUUAUGAAUUAUUCCGUGCACUUGCUCCUGUCCAUCUGCAAGUAGCACACUGAAAACUAAAU---------------AC-UAGUUUAU
.(((....((((.(((...))).))))....)))((((((((((............)))))).)))).....((((((...---------------..-)))))).. ( -20.00)
>DroSec_CAF1 184242 82 + 1
UGGACAUUUUUACAAGUAACUUAUGAAUUAUUCCAUGUACUUGCUCCUGUCCAUCCGCAAGUCGCACACUGAAAACUAAAG-------------------------U
((((((......((((((...((((........))))))))))....))))))...((.....))................-------------------------. ( -13.80)
>DroSim_CAF1 191020 82 + 1
UGGACAUUUUUACAAGUGACUUAUGAAUUAUUCCAUGUACUUGCUCCUGUCCAUCUGCAAGUCGCACACUGAAAACUAAAG-------------------------U
((((((......((((((...((((........))))))))))....))))))..(((.....)))...............-------------------------. ( -13.70)
>DroEre_CAF1 194142 91 + 1
UGGACAUUUUUACAAGUGACUUAUGAAUUAUUCCAUGCACUUGCUCCUGGCCAUCUGCAAGUCGCGCACUGAAAC---------------AAAAAUGU-AAACUAAA
...((((((((...((((....(((........)))((((((((............)))))).)).)))).....---------------))))))))-........ ( -18.00)
>DroYak_CAF1 195152 107 + 1
UGGACAUUUUUACAAGUGACUUAUGAAUUAUUCCAUGCACUUGCUCCUGUCCAUCUGCAAGACCCACACUGAAAACUAAGCGUUACAAUAAAAAAUCUCAAAAUAAA
((((((......((((((...((((........))))))))))....))))))............((.((........)).))........................ ( -14.20)
>consensus
UGGACAUUUUUACAAGUGACUUAUGAAUUAUUCCAUGCACUUGCUCCUGUCCAUCUGCAAGUCGCACACUGAAAACUAAAG___________________A__U_AU
((((((......((((((...((((........))))))))))....))))))...................................................... (-12.58 = -12.22 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 8

Location 26,210,139 – 26,210,230
Length 91
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 77.21
Mean single sequence MFE -20.74
Consensus MFE -15.20
Energy contribution -15.84
Covariance contribution 0.64
Combinations/Pair 1.09
Mean z-score -1.28
Structure conservation index 0.73
SVM decision value 0.12
SVM RNA-class probability 0.594016
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26210139 91 - 27905053
AUAAACUA-GU---------------AUUUAGUUUUCAGUGUGCUACUUGCAGAUGGACAGGAGCAAGUGCACGGAAUAAUUCAUAAGUCACUUGUAAAAAUGUCCA
..((((((-(.---------------..)))))))...((.(((.....))).))(((((...(((((((.((.((.....))....))))))))).....))))). ( -22.60)
>DroSec_CAF1 184242 82 - 1
A-------------------------CUUUAGUUUUCAGUGUGCGACUUGCGGAUGGACAGGAGCAAGUACAUGGAAUAAUUCAUAAGUUACUUGUAAAAAUGUCCA
.-------------------------............((.(((.....))).))(((((...(((((((.(((((....)))))....))))))).....))))). ( -17.80)
>DroSim_CAF1 191020 82 - 1
A-------------------------CUUUAGUUUUCAGUGUGCGACUUGCAGAUGGACAGGAGCAAGUACAUGGAAUAAUUCAUAAGUCACUUGUAAAAAUGUCCA
.-------------------------............((.(((.....))).))(((((...(((((((((((((....)))))..)).)))))).....))))). ( -18.30)
>DroEre_CAF1 194142 91 - 1
UUUAGUUU-ACAUUUUU---------------GUUUCAGUGCGCGACUUGCAGAUGGCCAGGAGCAAGUGCAUGGAAUAAUUCAUAAGUCACUUGUAAAAAUGUCCA
........-((((((((---------------(....(((((((.((((((............))))))))(((((....)))))..).))))..)))))))))... ( -19.10)
>DroYak_CAF1 195152 107 - 1
UUUAUUUUGAGAUUUUUUAUUGUAACGCUUAGUUUUCAGUGUGGGUCUUGCAGAUGGACAGGAGCAAGUGCAUGGAAUAAUUCAUAAGUCACUUGUAAAAAUGUCCA
...((((((((((((..(((((.(((.....)))..))))).)))))))).))))(((((...(((((((((((((....)))))..).))))))).....))))). ( -25.90)
>consensus
AU_A__U___________________CUUUAGUUUUCAGUGUGCGACUUGCAGAUGGACAGGAGCAAGUGCAUGGAAUAAUUCAUAAGUCACUUGUAAAAAUGUCCA
......................................((.(((.....))).))(((((...(((((((.(((((....)))))....))))))).....))))). (-15.20 = -15.84 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:43:25 2006