Locus 1287

Sequence ID 2R_DroMel_CAF1
Location 5,027,286 – 5,027,382
Length 96
Max. P 0.526332
window2226

overview

Window 6

Location 5,027,286 – 5,027,382
Length 96
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 76.19
Mean single sequence MFE -25.14
Consensus MFE -14.87
Energy contribution -17.07
Covariance contribution 2.20
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.59
SVM decision value -0.01
SVM RNA-class probability 0.526332
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5027286 96 - 20766785
UCCCACCUCUGCCACCUGCCACGCCCCCUAUCCGGAUAAGCC-UCCAACGCCAUGC-------CAAAUGGCCCCAACAAAUGGCAUUCCG-----GGCGCACUGGCCCG
.................(((((((((.......(((......-)))...(((((((-------(....)))........))))).....)-----))))...))))... ( -27.00)
>DroSec_CAF1 7333 96 - 1
UCCCACCUCUGCCACCUGCCACGCCCCCUAUCCGGAUAAGCC-UCCGACGCCAUGC-------CAAAUGGCCCCAACAAAUGGCAUUCCG-----GGCGCACUGGCCCG
.................(((((((((......((((......-))))..(((((((-------(....)))........))))).....)-----))))...))))... ( -28.80)
>DroSim_CAF1 7345 96 - 1
UCCCAACUCUGCCACCUGCCACGCCCCCUAUCCGGAUAAGCC-UCCAACGCCAUGC-------CAAAUGGCCCCAACAAAUGGCAUUCCG-----GGCGCACUGGCCCG
.................(((((((((.......(((......-)))...(((((((-------(....)))........))))).....)-----))))...))))... ( -27.00)
>DroEre_CAF1 7296 100 - 1
---------NNNNNNNNNNNUCGCCCCCCAUCCGGAUCAGCCGCCCACCCGCACCCAUCAUCAGAAAUGGCCCCAGCAAAUGGCAUGCCGCCGCAAGCGCCGUGGCCCA
---------........................((....(((((......))..((((........))))...........)))..(((((.((....)).))))))). ( -20.80)
>DroYak_CAF1 7431 96 - 1
UCCCACCUCUACUACCUGCCACGCCCCCUCACCGGAUAAGCC-CCCACCCCCACCU-------CAAAUGGCCCCAUCGAAUGGCAUUCCG-----GGCGCGCUGGCCCG
.................(((((((.(((.....(((...(((-..........((.-------.....))...........)))..))))-----)).))).))))... ( -22.10)
>consensus
UCCCACCUCUGCCACCUGCCACGCCCCCUAUCCGGAUAAGCC_UCCAACGCCAUGC_______CAAAUGGCCCCAACAAAUGGCAUUCCG_____GGCGCACUGGCCCG
.................((((((((.......((((...(((.......(((((............)))))..........)))..)))).....))))...))))... (-14.87 = -17.07 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:58 2006