Locus 2758

Sequence ID 3R_DroMel_CAF1
Location 7,372,939 – 7,373,033
Length 94
Max. P 0.603345
window4480 window4481

overview

Window 0

Location 7,372,939 – 7,373,033
Length 94
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 83.66
Mean single sequence MFE -29.48
Consensus MFE -21.73
Energy contribution -22.98
Covariance contribution 1.25
Combinations/Pair 1.05
Mean z-score -1.53
Structure conservation index 0.74
SVM decision value 0.08
SVM RNA-class probability 0.575903
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7372939 94 + 27905053
UUGAGAUGCCACCACAAACUGUCAGCGCAUCUGGCGGUUGCGACUGAUGGAUAUCGGGGAAGGACAAGGAUUCGGAAAUGGAAAUGGAGACGG-A
........((.(((....(((((((((((.(.....).)))).)))))))...(((((............)))))...)))....(....)))-. ( -21.00)
>DroSec_CAF1 48665 94 + 1
UUGAGAUGCCACCGCAAACUGUCAGCGCAUCUGGCGGAUGCGACUGAUGGGUAUCGCGGAAGGACAAGGAUUCGGAGAUGGAAAUGGAGACGG-A
........(((((((...(((((((((((((.....)))))).))))))).....))))..(((......))).....)))...((....)).-. ( -29.10)
>DroEre_CAF1 52405 89 + 1
UUGAGAUGCCACCACAAAAUGUCAGCGCAUCUGGCGGAUGCGACUGAUGGGUAUCGGAGAU------GGAGACGUAGACAGAUCCGGGCACGGAA
....((((((..........(((((((((((.....)))))).))))).))))))(...((------(....)))...)...((((....)))). ( -31.80)
>DroYak_CAF1 58143 95 + 1
UUGAGAUGCCACCACAAAAUGUCAGCGCAUCUGGCGGAUGCGACUGAUGGGUAUCGGAGAUGGAGAUGGAGACGUAGACAGAUCCGGGCACGGAA
......(((((((.((.....((((((((((.....)))))).)))))))))..((((..((...(((....)))...))..))))))))..... ( -36.00)
>consensus
UUGAGAUGCCACCACAAAAUGUCAGCGCAUCUGGCGGAUGCGACUGAUGGGUAUCGGAGAAGGACAAGGAGACGGAGACAGAAACGGACACGG_A
....((((((..........(((((((((((.....)))))).))))).))))))...........................((((....)))). (-21.73 = -22.98 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 7,372,939 – 7,373,033
Length 94
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 83.66
Mean single sequence MFE -23.40
Consensus MFE -17.25
Energy contribution -16.75
Covariance contribution -0.50
Combinations/Pair 1.16
Mean z-score -1.56
Structure conservation index 0.74
SVM decision value 0.14
SVM RNA-class probability 0.603345
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7372939 94 - 27905053
U-CCGUCUCCAUUUCCAUUUCCGAAUCCUUGUCCUUCCCCGAUAUCCAUCAGUCGCAACCGCCAGAUGCGCUGACAGUUUGUGGUGGCAUCUCAA
.-..(((.((((...(.............((((.......))))....((((.((((.(.....).))))))))..)...)))).)))....... ( -17.20)
>DroSec_CAF1 48665 94 - 1
U-CCGUCUCCAUUUCCAUCUCCGAAUCCUUGUCCUUCCGCGAUACCCAUCAGUCGCAUCCGCCAGAUGCGCUGACAGUUUGCGGUGGCAUCUCAA
.-...........................((((...((((((.((...((((.((((((.....))))))))))..)))))))).))))...... ( -25.50)
>DroEre_CAF1 52405 89 - 1
UUCCGUGCCCGGAUCUGUCUACGUCUCC------AUCUCCGAUACCCAUCAGUCGCAUCCGCCAGAUGCGCUGACAUUUUGUGGUGGCAUCUCAA
....(((((((((..((..........)------)..))))..(((((((((.((((((.....)))))))))).....)).))))))))..... ( -25.70)
>DroYak_CAF1 58143 95 - 1
UUCCGUGCCCGGAUCUGUCUACGUCUCCAUCUCCAUCUCCGAUACCCAUCAGUCGCAUCCGCCAGAUGCGCUGACAUUUUGUGGUGGCAUCUCAA
....(((((((((..((................))..))))..(((((((((.((((((.....)))))))))).....)).))))))))..... ( -25.19)
>consensus
U_CCGUCCCCAGAUCCAUCUACGAAUCCUUGUCCAUCCCCGAUACCCAUCAGUCGCAUCCGCCAGAUGCGCUGACAGUUUGUGGUGGCAUCUCAA
....(((.((((((........))))......................((((.((((((.....))))))))))........)).)))....... (-17.25 = -16.75 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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