Locus 2054

Sequence ID 3R_DroMel_CAF1
Location 5,828,852 – 5,828,972
Length 120
Max. P 0.993778
window3363

overview

Window 3

Location 5,828,852 – 5,828,972
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 95.28
Mean single sequence MFE -35.12
Consensus MFE -32.95
Energy contribution -32.53
Covariance contribution -0.42
Combinations/Pair 1.11
Mean z-score -1.75
Structure conservation index 0.94
SVM decision value 2.42
SVM RNA-class probability 0.993778
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5828852 120 + 27905053
UCCUCCUGUUCCCGCUGAAUCUCUUGAGCGAUUCGCAAUCGCUUGAGCUCAGCUUGUCGUGAAGCCUUCGAUAUGGCACGUUGCUUCUUAUGCUCUCGUGUCUCGUUAGCGUAGCUCUCA
.............(((((....((..((((((.....))))))..)).))))).....((...((...(((...((((((..((.......))...)))))))))...))...))..... ( -34.60)
>DroVir_CAF1 2792 120 + 1
UCCUCCUGUUCGCGCUGUAUUUCUUGAGCGAUUCGCAAUCGCUUGAGUUCAGCUUGUCGUGAAGCCUUCGAUAUGGCACGUUGCUUCUUAUGCUCUCGUGUCUCGUUAGCGUUGCUCUCA
.......((.(((((((.....((..((((((.....))))))..))..)))).(((((.........))))).((((((..((.......))...))))))......)))..))..... ( -35.40)
>DroGri_CAF1 2562 120 + 1
UCCUCCUGUUCACGCUGUAUUUCUUGAGCGAUUCGCAAUCGCUUGAGCUCAGCCUGUCGUGAAGCCUUCGAUAUGGCACGUUGCUUCUUAUGCUCUCGUGUCUCGUUAGCGUUGCUCUCA
........(((((((((.....((..((((((.....))))))..))..)))).....)))))((...(((...((((((..((.......))...)))))))))...)).......... ( -34.20)
>DroWil_CAF1 2671 120 + 1
UCCUCCUGUUCACGCUGUAUUUCUUGAGCGAUUCGCAAUCGCUUGAGCUCAGCUUGUCGUGAAGCCUUCGAUAUGGCACGUUGCUUUUUAUGCUCUCGUGUCUCGUUAGCAUAACUCUCA
........(((((((((.....((..((((((.....))))))..))..)))).....)))))((...(((...((((((..((.......))...)))))))))...)).......... ( -34.20)
>DroMoj_CAF1 2293 120 + 1
UCCUCCUGUUCACGCUGUAUUUCUUGAGCGAUUCGCAAUCGCUUGAGUUCAGCCUGUCGCGAAGCCUUCGAUAUGGCACGUUGCUUCUUAUGCUCUCGUGUCUCGUUAGCGUUGCUUUCA
..........((.((((.....((..((((((.....))))))..))..)))).))..((((.((...(((...((((((..((.......))...)))))))))...)).))))..... ( -37.10)
>DroAna_CAF1 2529 120 + 1
UCCUCCUGUUCCCGCUGGAUUUCUUGAGCGAUUCGCAGUCGCUUGAGCUCAGCUUGUCGUGAAGCCUUCGAUAUGGCACGUUGCUUCUUAUGCUCGCGUGUCUCGUUAGCGUAGCUCUCA
.............(((((....((..((((((.....))))))..)).))))).....((...((...(((...(((((((.((.......))..))))))))))...))...))..... ( -35.20)
>consensus
UCCUCCUGUUCACGCUGUAUUUCUUGAGCGAUUCGCAAUCGCUUGAGCUCAGCUUGUCGUGAAGCCUUCGAUAUGGCACGUUGCUUCUUAUGCUCUCGUGUCUCGUUAGCGUAGCUCUCA
.............((((.....((..((((((.....))))))..))..)))).....((...((...(((...((((((..((.......))...)))))))))...))...))..... (-32.95 = -32.53 +  -0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:16 2006