Locus 1161

Sequence ID 3R_DroMel_CAF1
Location 3,512,034 – 3,512,139
Length 105
Max. P 0.751913
window1907

overview

Window 7

Location 3,512,034 – 3,512,139
Length 105
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 92.72
Mean single sequence MFE -27.95
Consensus MFE -26.04
Energy contribution -26.84
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.20
Structure conservation index 0.93
SVM decision value 0.48
SVM RNA-class probability 0.751913
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3512034 105 - 27905053
AGAGAGACAGAAAAGUGAGUGUGGGCAGAACGUAAGUGUAGGCCACAAAGCACGCAGAACAUCAUCGCAACGUGGCGUAUGCGUAAUGUGCAUUGUUAACAUUUG
.....(((((....(((..(((((.(...((....))...).)))))...)))((...((((...(((((((...))).))))..)))))).)))))........ ( -27.80)
>DroSec_CAF1 109434 104 - 1
-GGGAGAUAGAAAAGUGAGUGUGGGCAGAACGUAAGUGUAGGCCACGAAGCACGCAGAACAUCAUCGCAACGUGGCGUAUGCGUAAUGUGCAUUGUUAACAUUUG
-...............((((((..((((.((((..(((((.((((((..((...............))..)))))).)))))...))))...))))..)))))). ( -29.36)
>DroSim_CAF1 134249 104 - 1
-GGGAGAUAGAAAAGUGAGUGUGGGCAGAACGUAAGUGUAGGCCACGAAGCACGCAGAACAUCAUCGCAACGUGGCGUAUGCGUAAUGUGCAUUGUUAACAUUUG
-...............((((((..((((.((((..(((((.((((((..((...............))..)))))).)))))...))))...))))..)))))). ( -29.36)
>DroEre_CAF1 119230 101 - 1
-GAG--AGAGAACAGAGAGUGUGGGCAGAUCGUAAGUGUAGGCCACGAAGCAGGCA-GACAUCAACGCAACGUGGCGUAUGCGUAAUGUGCAUUGUUAACAUUUG
-...--..........((((((..((((..(((..(((((.((((((..((.....-.........))..)))))).)))))...)))....))))..)))))). ( -27.34)
>DroYak_CAF1 175398 104 - 1
-GAGACAGAGAAAUGAGAGUGUGGGCCGAUCGUAAGUGUAGGCCACGAAGCACGCAAAACAUCAUCGCAACGUGGCGUAUGCGUAAUGUGCAUUGUUAACAUUUG
-.........(((((...((((.((((...(....)....)))).....))))((((.((((...(((((((...))).))))..))))...))))...))))). ( -25.90)
>consensus
_GAGAGAGAGAAAAGUGAGUGUGGGCAGAACGUAAGUGUAGGCCACGAAGCACGCAGAACAUCAUCGCAACGUGGCGUAUGCGUAAUGUGCAUUGUUAACAUUUG
................((((((..((((.((((..(((((.((((((..((...............))..)))))).)))))...))))...))))..)))))). (-26.04 = -26.84 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:33 2006