Locus 4376

Sequence ID 2R_DroMel_CAF1
Location 14,385,946 – 14,386,042
Length 96
Max. P 0.561561
window7000

overview

Window 0

Location 14,385,946 – 14,386,042
Length 96
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 83.58
Mean single sequence MFE -20.23
Consensus MFE -13.11
Energy contribution -13.39
Covariance contribution 0.28
Combinations/Pair 1.05
Mean z-score -2.24
Structure conservation index 0.65
SVM decision value 0.06
SVM RNA-class probability 0.561561
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14385946 96 - 20766785
---UUGGGCCUGC---U---------GCAGAUGCCAAUCGAGAGAUAACCACA----CACAGAUACAAGCACACACUCACACUGGCCUACAAUUUCAAUACAAUAUUUGAAAUAA
---.(((((((((---(---------((....))..(((....))).......----..........))))............))))))..(((((((........))))))).. ( -18.50)
>DroPse_CAF1 17478 109 - 1
UCCCUGGACCUGAGUCCGGACUACGACCAGAUGCCAAUCGAAAGAUAACCACAC--ACACAGAUACGAACACAC----ACACUGGCAUACAAUUUCAAUACAAUAUUUGAAAUAA
...((((((....))))))...........(((((((((....)))........--...(......).......----....))))))...(((((((........))))))).. ( -22.20)
>DroSim_CAF1 21386 96 - 1
---UUGGGCCUGC---U---------GCAGAUGCCAAUCGAGAGAUAACCACA----CACAGAUACAAGCACACACUCACACUGGCCUACAAUUUCAAUACAAUAUUUGAAAUAA
---.(((((((((---(---------((....))..(((....))).......----..........))))............))))))..(((((((........))))))).. ( -18.50)
>DroEre_CAF1 19933 96 - 1
---CUGGGCCUGC---U---------GCAGAUGCCAAUCGAGAGAUAACCACA----CACAGAUACAAGCACACACUCACACUGGCCUACAAUUUCAAUACAAUAUUUGAAAUAA
---.(((((((((---(---------((....))..(((....))).......----..........))))............))))))..(((((((........))))))).. ( -18.40)
>DroYak_CAF1 18969 103 - 1
---CUGGGCCUGCUGCU---------GCAGAUGCCAAUCGAGAGAUAACCACACACACACAGAUACUAGCACACACUCAAACUGGCCUACAAUUUCAAUACAAUAUUUGAAAUAA
---((((((((((....---------))))..))).(((....))).............)))...((((............))))......(((((((........))))))).. ( -19.50)
>DroPer_CAF1 17472 109 - 1
UCCCUGGGCCUGAGCCCGGACUACGACCAGAUGCCAAUCGAAAGAUAACCACAC--ACACAGAUACGAACACAC----ACACUGGCAUACAAUUUCAAUACAAUAUUUGAAAUAA
...((((((....))))))...........(((((((((....)))........--...(......).......----....))))))...(((((((........))))))).. ( -24.30)
>consensus
___CUGGGCCUGC___U_________GCAGAUGCCAAUCGAGAGAUAACCACA____CACAGAUACAAGCACACACUCACACUGGCCUACAAUUUCAAUACAAUAUUUGAAAUAA
...((((((((((.............))))..))).(((....))).............))).............................(((((((........))))))).. (-13.11 = -13.39 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:08 2006