Locus 6445

Sequence ID 2R_DroMel_CAF1
Location 20,117,856 – 20,117,952
Length 96
Max. P 0.603933
window10282

overview

Window 2

Location 20,117,856 – 20,117,952
Length 96
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 80.77
Mean single sequence MFE -21.82
Consensus MFE -13.13
Energy contribution -14.35
Covariance contribution 1.22
Combinations/Pair 1.06
Mean z-score -1.77
Structure conservation index 0.60
SVM decision value 0.14
SVM RNA-class probability 0.603933
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20117856 96 - 20766785
AGUUGUCGUUGGAAACCACGGCGGCAUUCUUUUCGUAUGCCAGCUGCAAAAUGAAACUGAAAAA--AAA-AAUUAUGCAUUUCCAU----------UUCUAAAUAGAAG-
.((((((((.(....).)))))))).(((.((((((.(((.....)))..))))))..)))...--...-................----------((((....)))).- ( -20.00)
>DroSec_CAF1 2599 96 - 1
AGUUGUCGUUGGAAACCACGGCAGCAUUCUUUUCGUAUGCCAGCUGCAAAAUGAAACUAAA-AA--AGG-AAUUUUACAUUUCCAU----------UUCUAGAUAGAAAA
.((((((((.(....).)))))))).((((((((((.(((.....)))..))))))(((.(-((--.((-((........)))).)----------)).)))..)))).. ( -25.70)
>DroSim_CAF1 3176 96 - 1
AGUUGUCGUUGGAAACCACGGCAGCAUUCUUUUCGUAUGCCAGCUGCAAAAUGAAACUAAA-AA--AGG-AAUUUUGCAUUUCCAU----------UUCUAGAUAGAAAA
.((((((((.(....).)))))))).((((((((((.(((.....)))..))))))(((.(-((--.((-((........)))).)----------)).)))..)))).. ( -25.70)
>DroEre_CAF1 2523 95 - 1
AGUUGUCGUUGGAAACCACGGCAGCAUUCUUUUCGUAUGCCAGCUGCAAAAUGAAACUGAA-AA--AGG-AAUUAUACAUUUUCAU-----------UCUAAAUACAAAA
.((((((((.(....).)))))))).....((((((.(((.....)))..)))))).((((-((--.(.-.......).)))))).-----------............. ( -21.50)
>DroYak_CAF1 2575 96 - 1
AGUUGUCGUUGGAAACCACGGCAGCAUUCUUUUCGUAUGCCAGUUGCAAAAUGAAACUGAA-AAC-AGG-AGUUAUAAAUUUUCAA-----------UCUAGAUACAAAG
.((((((((.(....).)))))))).........((((..(((((.(.....).)))))..-...-.((-((........))))..-----------.....)))).... ( -21.60)
>DroPer_CAF1 2692 109 - 1
AGUUAUCAUUCGACACCACAGCUGCAUUCCACUCGUACGCCAGCUGCAAUAUGAAGCUGAA-GGAUAGGAAACCAAGUAUUUUAAUGGAGAUUUAAUGGGAAAUACAAAA
...............((.((......(((((...((((..(((((.(.....).)))))..-.....(....)...)))).....)))))......)))).......... ( -16.40)
>consensus
AGUUGUCGUUGGAAACCACGGCAGCAUUCUUUUCGUAUGCCAGCUGCAAAAUGAAACUGAA_AA__AGG_AAUUAUACAUUUCCAU__________UUCUAAAUACAAAA
.((((((((.(....).)))))))).....((((((.(((.....)))..))))))...................................................... (-13.13 = -14.35 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:12 2006