Locus 4660

Sequence ID 2L_DroMel_CAF1
Location 13,361,324 – 13,361,440
Length 116
Max. P 0.527499
window7369

overview

Window 9

Location 13,361,324 – 13,361,440
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.06
Mean single sequence MFE -41.22
Consensus MFE -24.31
Energy contribution -25.00
Covariance contribution 0.70
Combinations/Pair 1.24
Mean z-score -1.63
Structure conservation index 0.59
SVM decision value -0.01
SVM RNA-class probability 0.527499
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13361324 116 - 22407834
UAGUGCCCUCC----AUAGCGGCAUCCAAAGUCUGCGGACCGGAAAAGCAUUGCGUUCCCUACGAGCAGUGCAACGAGGGCUUAAUGGUGGACGGAAAAUUCUAUCCGGAUCGCAGCAGA
..(((((((..----..)).))))).....(.((((((.(((((...(((((((...........)))))))..((...(((....)))...))..........))))).)))))))... ( -37.20)
>DroVir_CAF1 975 117 - 1
---GGCCGUGCGGAAACAUCCGGCUACAAAUCGUGUGCACCAGACAAGAACUGUGUGUCCUACGAUUUGUGCAAUGAGGGUAUUUUUGUGGAUGGCCACUUUUAUCCCGACCGCAGUCGC
---(((((((((((((.((((.((.((((((((((..((((((.......))).)))..).))))))))))).....)))).)))))))..))))))..........((((....)))). ( -43.30)
>DroSec_CAF1 2137 116 - 1
UAGUGCCGUGC----ACAUCGGCAUUCAAGGUCUGCGGACCGGAAAAGCAUUGCGUUCCAUAUGAGCAGUGCAACGAGGGCUUGAUGGUGGACGGAAAAUUCUAUCCGGAUCGCAGUAGA
.(((((((...----....)))))))......((((((.(((((...(((((((...........)))))))....((((.((..((.....))..)).)))).))))).)))))).... ( -39.20)
>DroSim_CAF1 1257 116 - 1
UAGUGCCCUCA----UUAGGGGCAUUCAAGGCCUGCGGACCGGAAAAGCAUUGUGUUCCCUACGAGCAGUGCAACGAGGGCUUGAUGGUGGACGGAAAAUUCUAUCCGGAUCGCAGUAGA
.((((((((..----...))))))))......((((((.(((((......((.(((((((..(((((.(.....)....)))))..)).))))).)).......))))).)))))).... ( -41.12)
>DroEre_CAF1 10557 116 - 1
UACUGCCCUCG----AUAUCGGCAUUCAAGGGCUGCGGGCCGGAAAAGCAUUGCGUUCCCUACGAGCAGUGCAACGAGGGCAUACUGGUGGACGGAAAAUUCUAUCCGGAUCGCAGUAGA
...((((((((----...(((((...((.....))...)))))....(((((((...........)))))))..))))))))(((((.(((.((((........))))..)))))))).. ( -44.90)
>DroYak_CAF1 1347 116 - 1
UAGUGCCCUCG----AUAUUGGCUUUCAAGAGCUGCGGACCGGAAAAGCACUGCGUUCCAUACGAGCAGUGCAACGAGGGCUUGCUGGUGGACGGAAAGUUCUAUCAGGAUCGCAGUAGA
..(((((((((----.....(((((....))))).............(((((((...........)))))))..)))))))...(((((((((.....).))))))))....))...... ( -41.60)
>consensus
UAGUGCCCUCC____AUAUCGGCAUUCAAGGCCUGCGGACCGGAAAAGCAUUGCGUUCCCUACGAGCAGUGCAACGAGGGCUUGAUGGUGGACGGAAAAUUCUAUCCGGAUCGCAGUAGA
...((((.............))))........(((((..(((((...(((((((...........)))))))................((((........)))))))))..))))).... (-24.31 = -25.00 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:57 2006