Locus 1258

Sequence ID X_DroMel_CAF1
Location 3,750,407 – 3,750,522
Length 115
Max. P 0.735209
window2023

overview

Window 3

Location 3,750,407 – 3,750,522
Length 115
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 89.70
Mean single sequence MFE -28.44
Consensus MFE -21.86
Energy contribution -21.78
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -1.73
Structure conservation index 0.77
SVM decision value 0.43
SVM RNA-class probability 0.735209
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3750407 115 + 22224390
UUUUAAGUUAAAUGCAAUUGUGUCUGAAGCUCUCACAAGCCAUUUGCUAGUGAAUUGUGAAUGGAAUAAAGCGUGAAGCAUUUGAAAAGCCAU-UUGGCAUUAAAACCAGCACA---AU
................((((((.(((..(((.((((...(((((..(.........)..)))))........))))))).........(((..-..)))........)))))))---)) ( -27.70)
>DroSec_CAF1 4130 115 + 1
UUUAAAGCUAAAUGCAAUUGUGUCUGAAGCUCUCACAAGCCAUUUGCUAGUGAAUUGUGAAUGGAAUAAAGCGUGAAGCAUUUGAAAAGCCAU-UUGGCAUUAAAACCAGCACA---AA
......((.....))..(((((.(((..(((.((((...(((((..(.........)..)))))........))))))).........(((..-..)))........)))))))---). ( -29.10)
>DroSim_CAF1 4154 115 + 1
UUUAAAGCUAAAUGCAAUUGUGUCUGAAGCUCUCACAAGCCAUUUGCUAGUAAAUAGUGAAUGGAAUAAAGCGUGAAGCAUUUGAAAAGCCAU-UUGGCAUUAAAACCAGCACA---GU
......((.....)).((((((.(((..(((.((((...(((((..(((.....)))..)))))........))))))).........(((..-..)))........)))))))---)) ( -32.70)
>DroEre_CAF1 4058 114 + 1
UUUUAAGCCAAAUGCAAUUGUGUCUGAAGCUCUCACAAGCCAUUUGCUAGUGAAUUGUGAGUGGGUUAAAGCGUGAAGCAUUUGAAAGGCCAU-UUGGCAUUAA-GCCUGCAGU---GC
......(((((((((..(..(((...((.(((((((((..((((....))))..))))))).)).))...)))..).)))))))....(((..-..))).....-....))...---.. ( -31.10)
>DroYak_CAF1 4217 118 + 1
UCCUAAGCUAAAUGCAAUUGUGUCUGAAGCUCUCACAAGCCAUUAGCUAGUGAAUUGUGAAUGGAAUAAAGCGUGAAACAUUUGAAAUGGCAUUUUGGCAUUAA-ACCUGCAAUUCUGC
......(((((((((..(..((..(....((.((((((..((((....))))..))))))..))....)..))..)..(((.....)))))).)))))).....-....(((....))) ( -21.60)
>consensus
UUUUAAGCUAAAUGCAAUUGUGUCUGAAGCUCUCACAAGCCAUUUGCUAGUGAAUUGUGAAUGGAAUAAAGCGUGAAGCAUUUGAAAAGCCAU_UUGGCAUUAAAACCAGCACA___GC
......(((((((((..(((((...(.....).))))).(((((..(.........)..))))).............)))))))....(((.....)))..........))........ (-21.86 = -21.78 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:12 2006