Locus 4001

Sequence ID X_DroMel_CAF1
Location 10,595,640 – 10,595,760
Length 120
Max. P 0.976194
window6578 window6579

overview

Window 8

Location 10,595,640 – 10,595,760
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 86.09
Mean single sequence MFE -16.95
Consensus MFE -15.81
Energy contribution -15.37
Covariance contribution -0.44
Combinations/Pair 1.05
Mean z-score -1.25
Structure conservation index 0.93
SVM decision value 0.45
SVM RNA-class probability 0.739834
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10595640 120 + 22224390
CCAAAAACAUUUAAUCGUGUCUAGAUAUUUACCAAAUGGUUAAACCCUUUUAAAACGGCCAUUUACAUAACCCCCUUUUUCAGCAUUAAAGACUUGCGUCUUUAGUUGCUAGUUUAAAUA
........((((((.(.................((((((((...............)))))))).................((((((((((((....)))))))).)))).).)))))). ( -18.96)
>DroSec_CAF1 4524 105 + 1
--------------UUGUGUCUAGAUAUUUACCAAUUGGUUAAACCCUUUAAAAACAGUCAUUUACAUAACCCC-AUUUUCAGCAUUAAAGACUUUCGUCUUUAGUUGCUAGUUCAAAUA
--------------((((((..((((...........((.....))...........))).)..))))))....-......((((((((((((....)))))))).)))).......... ( -15.55)
>DroSim_CAF1 4552 105 + 1
--------------UUGUGUCUAGAUAUUUACCAAAUGGUUAAGCCCUUUAAAAACAGUCAUUUACAUAACCCC-AUUUUCAGCAUUAAAGACUUUCGUCUUUAGUUGCUAGUUCAAAUA
--------------((((((..((((.......(((.((.....)).))).......))).)..))))))....-......((((((((((((....)))))))).)))).......... ( -16.34)
>consensus
______________UUGUGUCUAGAUAUUUACCAAAUGGUUAAACCCUUUAAAAACAGUCAUUUACAUAACCCC_AUUUUCAGCAUUAAAGACUUUCGUCUUUAGUUGCUAGUUCAAAUA
..............((((....((......(((....)))......))......)))).......................((((((((((((....)))))))).)))).......... (-15.81 = -15.37 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 10,595,640 – 10,595,760
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.09
Mean single sequence MFE -26.67
Consensus MFE -23.86
Energy contribution -23.53
Covariance contribution -0.33
Combinations/Pair 1.12
Mean z-score -2.68
Structure conservation index 0.89
SVM decision value 1.77
SVM RNA-class probability 0.976194
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10595640 120 - 22224390
UAUUUAAACUAGCAACUAAAGACGCAAGUCUUUAAUGCUGAAAAAGGGGGUUAUGUAAAUGGCCGUUUUAAAAGGGUUUAACCAUUUGGUAAAUAUCUAGACACGAUUAAAUGUUUUUGG
....((((((((((..(((((((....))))))).))))....((((.((((((....)))))).)))).....))))))(((....)))......(((((.(((......))).))))) ( -28.90)
>DroSec_CAF1 4524 105 - 1
UAUUUGAACUAGCAACUAAAGACGAAAGUCUUUAAUGCUGAAAAU-GGGGUUAUGUAAAUGACUGUUUUUAAAGGGUUUAACCAAUUGGUAAAUAUCUAGACACAA--------------
....((((((((((..(((((((....))))))).))))((((((-..((((((....))))))))))))....))))))(((....)))................-------------- ( -25.40)
>DroSim_CAF1 4552 105 - 1
UAUUUGAACUAGCAACUAAAGACGAAAGUCUUUAAUGCUGAAAAU-GGGGUUAUGUAAAUGACUGUUUUUAAAGGGCUUAACCAUUUGGUAAAUAUCUAGACACAA--------------
((((((...(((((..(((((((....))))))).))))).((((-((((((((....))))))((((.....))))....))))))..))))))...........-------------- ( -25.70)
>consensus
UAUUUGAACUAGCAACUAAAGACGAAAGUCUUUAAUGCUGAAAAU_GGGGUUAUGUAAAUGACUGUUUUUAAAGGGUUUAACCAUUUGGUAAAUAUCUAGACACAA______________
....((((((((((..(((((((....))))))).)))).........((((((....))))))..........))))))(((....))).............................. (-23.86 = -23.53 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:58 2006