Locus 5296

Sequence ID 3R_DroMel_CAF1
Location 13,822,438 – 13,822,546
Length 108
Max. P 0.817050
window8638

overview

Window 8

Location 13,822,438 – 13,822,546
Length 108
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 81.03
Mean single sequence MFE -28.29
Consensus MFE -21.68
Energy contribution -22.51
Covariance contribution 0.83
Combinations/Pair 1.23
Mean z-score -1.75
Structure conservation index 0.77
SVM decision value 0.67
SVM RNA-class probability 0.817050
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13822438 108 + 27905053
----GAGAUCUCAGAAUCUGGGGGUUCUGACCUCUUCCCCCAACUGAUUUCAAAACCAGAUUUCCGUUUUCAAUUUGCAAAUCAAAUUGCCAGUUGGCC-AAGGGGCGGAAAA
----..((..((((....((((((....(....)..)))))).))))..)).........(((((.....(((((.((((......)))).)))))(((-....)))))))). ( -32.00)
>DroSec_CAF1 94276 108 + 1
----GAGAUCUCAGAAUCUGGGGGUCCUGACCUCUUACCACCACUGAUUUCCAAACCAGAUUUCCGUUUUCAAUUUGCAAAUCAAAUUGCCAGUUGACC-AAGGGGCGGAAAA
----((((((.........((((((....))))))..........)))))).........(((((((((((((((.((((......)))).))))))..-...))))))))). ( -29.01)
>DroSim_CAF1 96372 108 + 1
----GAGAUCUCAGAAUCUGGGGGUCCUGACCUCUUACCACCACUGAUUUCCAAACCAGAUUUCCGUUUUCAAUUUGCAAAUCAAAUUGCCAGUUGGCC-AAGGGGCGGAAAA
----((((((.........((((((....))))))..........)))))).........(((((.....(((((.((((......)))).)))))(((-....)))))))). ( -28.71)
>DroEre_CAF1 92299 108 + 1
----GAGAUCUCAAAAUCUGGGGGUCCUGACCUCUUCCCCCCACUGAUUUCAAAACCAGAUUUCCGUUUUCAAUUUGCAAAUCAAAUUGCCAGUUGGCC-AAGGGGCGGAAAA
----((((((........((((((....(....)...))))))..)))))).........(((((.....(((((.((((......)))).)))))(((-....)))))))). ( -30.10)
>DroYak_CAF1 101574 112 + 1
CCCAGAAGUCUCAGAAUCUGGGGGUCCUGACCCCUUCCUCCCACUGAUUUCAAAACCAGAUUUCCGUUUUCAAUUUGCAAAUCAAAUUGCCAGUUGGCC-AAGGGGCGGAAAA
....((((((.........((((((....))))))..........)))))).........(((((.....(((((.((((......)))).)))))(((-....)))))))). ( -32.71)
>DroAna_CAF1 93482 86 + 1
----CAGCUCACC----CUA-------------------GACGCUAAUUUCGAAGCCAGAUUUUAGUUUCCAAUUUGCAAAUCAAAUUGAAAGCUGUUUGAAGUGACAGAAGA
----..(.((((.----.((-------------------((((((........)))........(((((.(((((((.....))))))).))))))))))..)))))...... ( -17.20)
>consensus
____GAGAUCUCAGAAUCUGGGGGUCCUGACCUCUUCCCCCCACUGAUUUCAAAACCAGAUUUCCGUUUUCAAUUUGCAAAUCAAAUUGCCAGUUGGCC_AAGGGGCGGAAAA
....((((((.........((((((....))))))..........)))))).........(((((((((((((((.((((......)))).))))))......))))))))). (-21.68 = -22.51 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:18 2006