Locus 962

Sequence ID 2R_DroMel_CAF1
Location 4,108,179 – 4,108,273
Length 94
Max. P 0.788929
window1715

overview

Window 5

Location 4,108,179 – 4,108,273
Length 94
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 75.37
Mean single sequence MFE -22.40
Consensus MFE -13.62
Energy contribution -14.02
Covariance contribution 0.40
Combinations/Pair 1.11
Mean z-score -1.73
Structure conservation index 0.61
SVM decision value 0.58
SVM RNA-class probability 0.788929
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4108179 94 + 20766785
AAAAUAGCGAAAAUAGCGCAAUUCGCACUGACACACAAAUUAUGAGCUAAUCAGGCAGCGCCCAGUGCCCGCGGGUCGG---CACACGACCAUCGGA
......(((.......))).....((((((............(((.....)))(((...)))))))))(((..(((((.---....)))))..))). ( -28.50)
>DroPse_CAF1 3458 78 + 1
CA--------------UGAAAACCGCAGUGCCACACAAAUUAUGAGCUAAUCAGGCAGCACCCAUUGCCA-CAGGUCGCAGCAACACGACACA----
..--------------........((.(((((..........(((.....)))(((((......))))).-..)).))).))...........---- ( -15.00)
>DroSec_CAF1 12301 94 + 1
AAAAUAGCGAAAAUAGCGCAAUUCGCACUGCCACACAAAUUAUGAGCUAAUCAGGCAGCGCCCAGUGCCCGCGGGUCGG---CACACGACCAUCGGA
......((.......))(((....((.(((((..........(((.....)))))))).))....)))(((..(((((.---....)))))..))). ( -28.60)
>DroSim_CAF1 16057 94 + 1
AAAAUAGCGAAAAUAUCGCAAUUCGCACUGCCACACAAAUUAUGAGCUAAUCAGGCAGCGCCCAAUGCCCGCGGGUCGG---CACACGACCAUCGGA
......((((.....)))).....((.(((((..........(((.....)))))))).)).......(((..(((((.---....)))))..))). ( -28.20)
>DroPer_CAF1 3487 78 + 1
CA--------------UGAAAACCCCAGUGCCACACAAAUUAUGAGCUAAUCAGGCAGCACCCAUUGCCC-CAGGUCGCAGCAACACGACACA----
..--------------...........(((((..........(((.....)))(((((......))))).-..)).)))..............---- ( -11.70)
>consensus
AAAAUAGCGAAAAUA_CGCAAUUCGCACUGCCACACAAAUUAUGAGCUAAUCAGGCAGCGCCCAGUGCCCGCGGGUCGG___CACACGACCAUCGGA
................(((.....((((((............(((.....)))((.....))))))))..)))(((((........)))))...... (-13.62 = -14.02 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:51 2006