Locus 1794

Sequence ID 3R_DroMel_CAF1
Location 5,120,323 – 5,120,442
Length 119
Max. P 0.993008
window2957 window2958

overview

Window 7

Location 5,120,323 – 5,120,442
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 91.55
Mean single sequence MFE -23.20
Consensus MFE -22.36
Energy contribution -22.70
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.97
Structure conservation index 0.96
SVM decision value 2.37
SVM RNA-class probability 0.993008
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5120323 119 + 27905053
UCCAGCAAAUAUUACAAUACCAAAGUGCAAAAUCACAGACCCCAAAAUAAACUCACUGUGACUUUGACAUUUGCGUAAUAUUUGUGGUCCUAUAUGCAAAUCAAAUA-AAAAAAAAACAA
.(((.((((((((((.......(((((((((.((((((.................)))))).)))).)))))..)))))))))))))....................-............ ( -23.53)
>DroSim_CAF1 22495 113 + 1
UCCAGCAAAUAUUACAGUACCAAAGUGCAAAAUCACAGACCCCAAAAUAAACUCACUGUGACUUUGACAUUUGCGUAAUAUUUGUGGUCCUA--UGCAAAU----UA-AAAAAAAAACAA
.(((.((((((((((.(((....((((((((.((((((.................)))))).)))).)))))))))))))))))))).....--.......----..-............ ( -24.63)
>DroYak_CAF1 23625 116 + 1
GCCAGCAAAUAUUACAGUUCCAAAGUGCAAACUCACAGACCCCAAAAUAAACUCACUGUGACUUUGACAUUUGCAUAAUAUUUGUGGACCUAUAUGCAAAU----GAUAAAAACAAACAA
.(((.(((((((((..((....(((((((((.((((((.................)))))).)))).))))))).))))))))))))..............----............... ( -21.43)
>consensus
UCCAGCAAAUAUUACAGUACCAAAGUGCAAAAUCACAGACCCCAAAAUAAACUCACUGUGACUUUGACAUUUGCGUAAUAUUUGUGGUCCUAUAUGCAAAU____UA_AAAAAAAAACAA
.(((.((((((((((.......(((((((((.((((((.................)))))).)))).)))))..)))))))))))))................................. (-22.36 = -22.70 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 5,120,323 – 5,120,442
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 91.55
Mean single sequence MFE -27.63
Consensus MFE -26.75
Energy contribution -26.86
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.00
Structure conservation index 0.97
SVM decision value 1.27
SVM RNA-class probability 0.938192
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5120323 119 - 27905053
UUGUUUUUUUUU-UAUUUGAUUUGCAUAUAGGACCACAAAUAUUACGCAAAUGUCAAAGUCACAGUGAGUUUAUUUUGGGGUCUGUGAUUUUGCACUUUGGUAUUGUAAUAUUUGCUGGA
.........(((-(((.((.....)).))))))((((((((((((((((((.(((((((((((((.................))))))))))).))))))....))))))))))).))). ( -30.03)
>DroSim_CAF1 22495 113 - 1
UUGUUUUUUUUU-UA----AUUUGCA--UAGGACCACAAAUAUUACGCAAAUGUCAAAGUCACAGUGAGUUUAUUUUGGGGUCUGUGAUUUUGCACUUUGGUACUGUAAUAUUUGCUGGA
............-..----.......--.....((((((((((((((((((.(((((((((((((.................))))))))))).))))))....))))))))))).))). ( -28.73)
>DroYak_CAF1 23625 116 - 1
UUGUUUGUUUUUAUC----AUUUGCAUAUAGGUCCACAAAUAUUAUGCAAAUGUCAAAGUCACAGUGAGUUUAUUUUGGGGUCUGUGAGUUUGCACUUUGGAACUGUAAUAUUUGCUGGC
((((.(((.......----....))).))))..((((((((((((((((((.((((((.((((((.................)))))).)))).))))))....))))))))))).))). ( -24.13)
>consensus
UUGUUUUUUUUU_UA____AUUUGCAUAUAGGACCACAAAUAUUACGCAAAUGUCAAAGUCACAGUGAGUUUAUUUUGGGGUCUGUGAUUUUGCACUUUGGUACUGUAAUAUUUGCUGGA
.................................((((((((((((((((((.(((((((((((((.................))))))))))).))))))....))))))))))).))). (-26.75 = -26.86 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:44 2006