Locus 1975

Sequence ID 3L_DroMel_CAF1
Location 5,450,439 – 5,450,534
Length 95
Max. P 0.967782
window3095 window3096

overview

Window 5

Location 5,450,439 – 5,450,534
Length 95
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 96.32
Mean single sequence MFE -21.55
Consensus MFE -21.16
Energy contribution -21.23
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -2.23
Structure conservation index 0.98
SVM decision value 1.62
SVM RNA-class probability 0.967782
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5450439 95 + 23771897
UUUUCCUUUCACCUGCAUUGAAAGGAAAACGUGGCUUAUAUCUGCCCAGAUAAUAUUAAUUGCCGCUGCAUUUGUUAAACUAUCUGAACUGACCC
(((((((((((.......)))))))))))...(((........)))((((((...((((((((....)))...)))))..))))))......... ( -22.70)
>DroSec_CAF1 11896 95 + 1
UUUUCCUUUCACCUGCAUUGAAAGCAAAACGUGGCUUAUAUCUGCCCAGAUAAUAUUAAUUGCCGCUGCAUUUGUUAAACUAUCUGAACUGACCC
((((.((((((.......)))))).))))...(((........)))((((((...((((((((....)))...)))))..))))))......... ( -15.90)
>DroSim_CAF1 11994 95 + 1
UUUUCCUUUCACCUGCAUUGAAAGGAAAACGUGGCUUAUAUCUGCCCAGAUAAUAUUAAUUGCCGCUGCAUUUGUUAAACUAUCUGAACUGACCC
(((((((((((.......)))))))))))...(((........)))((((((...((((((((....)))...)))))..))))))......... ( -22.70)
>DroEre_CAF1 11596 95 + 1
UUUUCCUUUCACCUGCAUUGAAAGGAAAGCGUGGCUUAUAUCUGCCCAGAUAAUAUUAAUUGCUGCUGCAUUUGCAAAGCUAUCUGAACCGACCC
(((((((((((.......)))))))))))...(((........)))((((((.........(((..(((....))).)))))))))......... ( -24.90)
>consensus
UUUUCCUUUCACCUGCAUUGAAAGGAAAACGUGGCUUAUAUCUGCCCAGAUAAUAUUAAUUGCCGCUGCAUUUGUUAAACUAUCUGAACUGACCC
(((((((((((.......)))))))))))...(((........)))((((((....(((.(((....))).)))......))))))......... (-21.16 = -21.23 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 5,450,439 – 5,450,534
Length 95
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 96.32
Mean single sequence MFE -25.75
Consensus MFE -24.19
Energy contribution -24.69
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.26
Structure conservation index 0.94
SVM decision value 1.40
SVM RNA-class probability 0.950247
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5450439 95 - 23771897
GGGUCAGUUCAGAUAGUUUAACAAAUGCAGCGGCAAUUAAUAUUAUCUGGGCAGAUAUAAGCCACGUUUUCCUUUCAAUGCAGGUGAAAGGAAAA
..(((.(((((((((((((((....(((....))).)))).))))))))))).)))..........(((((((((((.......))))))))))) ( -26.50)
>DroSec_CAF1 11896 95 - 1
GGGUCAGUUCAGAUAGUUUAACAAAUGCAGCGGCAAUUAAUAUUAUCUGGGCAGAUAUAAGCCACGUUUUGCUUUCAAUGCAGGUGAAAGGAAAA
..(((.(((((((((((((((....(((....))).)))).))))))))))).)))..........((((.((((((.......)))))).)))) ( -21.80)
>DroSim_CAF1 11994 95 - 1
GGGUCAGUUCAGAUAGUUUAACAAAUGCAGCGGCAAUUAAUAUUAUCUGGGCAGAUAUAAGCCACGUUUUCCUUUCAAUGCAGGUGAAAGGAAAA
..(((.(((((((((((((((....(((....))).)))).))))))))))).)))..........(((((((((((.......))))))))))) ( -26.50)
>DroEre_CAF1 11596 95 - 1
GGGUCGGUUCAGAUAGCUUUGCAAAUGCAGCAGCAAUUAAUAUUAUCUGGGCAGAUAUAAGCCACGCUUUCCUUUCAAUGCAGGUGAAAGGAAAA
..(((.((((((((((((((((....)))).))).........))))))))).)))...........((((((((((.......)))))))))). ( -28.20)
>consensus
GGGUCAGUUCAGAUAGUUUAACAAAUGCAGCGGCAAUUAAUAUUAUCUGGGCAGAUAUAAGCCACGUUUUCCUUUCAAUGCAGGUGAAAGGAAAA
..(((.(((((((((((........(((....)))......))))))))))).)))...........((((((((((.......)))))))))). (-24.19 = -24.69 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:35 2006