Locus 1987

Sequence ID 3L_DroMel_CAF1
Location 5,463,996 – 5,464,105
Length 109
Max. P 0.515163
window3112

overview

Window 2

Location 5,463,996 – 5,464,105
Length 109
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 90.55
Mean single sequence MFE -25.88
Consensus MFE -18.09
Energy contribution -20.01
Covariance contribution 1.92
Combinations/Pair 1.07
Mean z-score -2.00
Structure conservation index 0.70
SVM decision value -0.04
SVM RNA-class probability 0.515163
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5463996 109 - 23771897
UCAGCGUAGCUUGACAAUAAAAGUGUCAUUUUAAAAAUGAUAUAUGUAUGUGGGCCCCACAUUCUCAUUGCCAAACACAUCCCACAUGCAAAAGUUGCUCUUUGCCAUU
..((.(((((((..........((((((((.....)))))))).((((((((((..........................)))))))))).))))))).))........ ( -26.27)
>DroSec_CAF1 25541 108 - 1
UCAGCGGAGCUUGACAAUAAAAGUGUCAUUUUAAAAAUGAUAUAUGUAUGUGGGCCCCACAUUCACAUCGC-AAACACAUCCCACAUGCAAAAGUUGCUGUGUGCCAUU
...(((.(((..(((.......((((((((.....)))))))).((((((((((.................-........))))))))))...)))))).)))...... ( -26.61)
>DroSim_CAF1 26976 108 - 1
UCAGCGGAGCUUGACAAUAAAAGUGUCAUUUUAAAAAUGAUAUAUGUAUGUGGGCCCCACAUUCACAUCGC-AAACACAUCCCACAUGCAAAAGUUGCUGUGUGCCAUU
...(((.(((..(((.......((((((((.....)))))))).((((((((((.................-........))))))))))...)))))).)))...... ( -26.61)
>DroEre_CAF1 25209 103 - 1
UCGGCGGAGCUUGACAAUAAAAGUGUCAUUUUAAAAAUGAUAUAUG----UGGGCU-CCCAUUCACAUGGC-AAACACAUACCAAAUGCAAAAGUUGCUGCGAGCCAUU
..((((((((((.(((......((((((((.....)))))))).))----))))))-))......(..(((-((...(((.....)))......)))))..).)))... ( -25.20)
>DroYak_CAF1 12947 103 - 1
UCAGCGGAGCUUGACAAUAAAACUGUCAUUUUAAAAAUGAUAUAUG----UGGGCU-CGCAUUCACAUGGC-AAACACAUUCCACAUGCAAAAGUUGCUGUGUGCCAGU
...(((.((((((...(((....(((((((.....)))))))))).----))))))-))).......((((-(.........((((.(((.....)))))))))))).. ( -24.70)
>consensus
UCAGCGGAGCUUGACAAUAAAAGUGUCAUUUUAAAAAUGAUAUAUGUAUGUGGGCCCCACAUUCACAUCGC_AAACACAUCCCACAUGCAAAAGUUGCUGUGUGCCAUU
.(((((..((((..........((((((((.....)))))))).((((((((((..........................)))))))))).)))))))))......... (-18.09 = -20.01 +   1.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:51 2006