Locus 3708

Sequence ID X_DroMel_CAF1
Location 9,880,653 – 9,880,758
Length 105
Max. P 0.951433
window6073

overview

Window 3

Location 9,880,653 – 9,880,758
Length 105
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 84.55
Mean single sequence MFE -38.12
Consensus MFE -29.30
Energy contribution -30.05
Covariance contribution 0.75
Combinations/Pair 1.15
Mean z-score -2.32
Structure conservation index 0.77
SVM decision value 1.41
SVM RNA-class probability 0.951433
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9880653 105 - 22224390
UCAGCGCCUAGA------CUGGCUUCUUCAGCGACGAUAUCCAAGUCUGCGGUGCUGCUGGAGCUUUCUUCAGUGGUGCUGCUUACAGAUUGUUCCGUAGAACUGCUGACA
((((((((....------..)))((((...(.((((((......((..((((..(..((((((....))))))..)..))))..))..)))))).)..))))..))))).. ( -40.00)
>DroSec_CAF1 12011 105 - 1
UCAGCGUCUAGA------UUGGCUUCUUCAACGAGGGUAUUCAAAUCUGCGGUGCUGCUGGAGCUUUCUUCAGUGGUGCUGCUUACUGAUUGUUCCGAAGAACUGCCGACA
............------(((((...(((..((.(..((.(((.....((((..(..((((((....))))))..)..))))....))).))..)))..)))..))))).. ( -36.80)
>DroEre_CAF1 20587 111 - 1
UCUGCGCCCAGAUGGUCGUUGGCUUCUUCAACGACAGUAUUCAAUUCUGCGGCGCUGCUGGCGUUUUCUUCAGUGGUGCUGCUUACAGAUUCUUCCGAAGAACUGCUGACA
...(((((((((..((((((((.....))))))))..........)))).))))).(..((((..((((((.(.((..(((....)))...)).).)))))).))))..). ( -36.60)
>DroYak_CAF1 4184 111 - 1
UCUGCGCUCAGAUGUUCGUUGGCUUCUUCAACGACAGUGUUCAAUUCUGCGGUGCUGCUGAUGCUUUCUUCGGUGGUGCUGCUUACAGAUGCUUCUGAAGAACUGCUGACA
((((....))))...(((((((.....)))))))((((((((......((((..(..((((........))))..)..))))...((((....))))..)))).))))... ( -39.10)
>consensus
UCAGCGCCCAGA______UUGGCUUCUUCAACGACAGUAUUCAAUUCUGCGGUGCUGCUGGAGCUUUCUUCAGUGGUGCUGCUUACAGAUUCUUCCGAAGAACUGCUGACA
.................((((((((((((...................(((((((..((((((....))))))..))))))).....((....)).))))))..)))))). (-29.30 = -30.05 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:11 2006