Locus 1227

Sequence ID 3R_DroMel_CAF1
Location 3,705,837 – 3,705,941
Length 104
Max. P 0.631822
window2006

overview

Window 6

Location 3,705,837 – 3,705,941
Length 104
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 84.42
Mean single sequence MFE -26.10
Consensus MFE -18.20
Energy contribution -16.87
Covariance contribution -1.33
Combinations/Pair 1.43
Mean z-score -2.53
Structure conservation index 0.70
SVM decision value 0.20
SVM RNA-class probability 0.631822
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3705837 104 - 27905053
UCACAGAAGCAUUAGCAUAUAUCCAUUCAAACAUUGAUGUUUGUUUUGCAUUCUGCAGUGCCAUUCUGUGCUGCAUUGUCUUAAUGGCAUUCAACCAACGUUCA-----
...((((((((..((((.(((((.((......)).))))).)))).))).))))).(((((((((..(.((......)))..))))))))).............----- ( -24.50)
>DroSec_CAF1 63705 104 - 1
UCACAGAAGCAUUAGCACAUAUCCAUUCAAACAUUGAUGUUUGUUUUGCAUGCUGCAGUGCCAUUCUGUGCUGCAUUGUCUUAAUGGCAUUCAAGCAACGUUCA-----
..(((((((((((.((((((...((..((((((....))))))...)).))).))))))))..))))))(((....((((.....))))....)))........----- ( -27.60)
>DroSim_CAF1 66819 104 - 1
UCACAGAAGCAUUAGCACAUAUCCAUUCAAACAUUGAUGUUUGUUUUGCAUGCUGCAGUGCCAUUCUGUGCUGCAUUGUCUUAAUGGCAUUCAAGCAACGUUCA-----
..(((((((((((.((((((...((..((((((....))))))...)).))).))))))))..))))))(((....((((.....))))....)))........----- ( -27.60)
>DroEre_CAF1 65399 104 - 1
UCACAGAAGCAUUAGCACAUAUCCAUUCAAACACAGAUGUUUGUUUUCCACGCUGCAGUGCAAUUCUGUACUGCAUUGUCUUAAUGGCAUUCAACCAACGUUCA-----
.....((((((((((.(((........((((((....))))))..........(((((((((....))))))))).))).))))).)).)))............----- ( -23.40)
>DroYak_CAF1 61959 104 - 1
UCACAGAAGCAUUAGCACAUACCCAUUCAAACACCAAUGUUUGCUUUGCACGCUGCAGUGCAAUUCUGUACUGCAUUGUCUUAAUGGCAUUCAACCAACGUUCA-----
.....((((((((((.(((........((((((....))))))..........(((((((((....))))))))).))).))))).)).)))............----- ( -23.20)
>DroPer_CAF1 72091 105 - 1
--AGGGAGGAAUAUAUAUAUACCUAUUCGUA--UGUAUUCCUAUUCUGUAUGCUGCAGUGCCAUUUUAUGCUGCAUUGUCUUAAUGGCAUUCAACCGGCGUUCUCGUCC
--.(((((((((((((((..........)))--))))))))........((((((.(((((((((....((......))...)))))))))....)))))))))).... ( -30.30)
>consensus
UCACAGAAGCAUUAGCACAUAUCCAUUCAAACAUUGAUGUUUGUUUUGCAUGCUGCAGUGCCAUUCUGUGCUGCAUUGUCUUAAUGGCAUUCAACCAACGUUCA_____
......(((((((((..................)))))))))...........((((((((......)))))))).((((.....)))).................... (-18.20 = -16.87 +  -1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:07 2006