Locus 2255

Sequence ID 3R_DroMel_CAF1
Location 6,399,747 – 6,399,848
Length 101
Max. P 0.528342
window3655

overview

Window 5

Location 6,399,747 – 6,399,848
Length 101
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 78.14
Mean single sequence MFE -19.10
Consensus MFE -12.90
Energy contribution -12.52
Covariance contribution -0.39
Combinations/Pair 1.09
Mean z-score -1.11
Structure conservation index 0.68
SVM decision value -0.01
SVM RNA-class probability 0.528342
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6399747 101 + 27905053
GCAUUUGUAUUUCACU-UUU---UGCUGCACCCCUCUGAUGAUUUUUGAAUUGAUUUGUGUUGUUAAAUAUUAAAUUCUUAUAAGUCAUUUGCACUCGGCGCGGG---
................-...---..((((.((.....((((((((..(((((.....(((((....)))))..)))))....)))))))).......)).)))).--- ( -18.40)
>DroVir_CAF1 181392 85 + 1
-----------------------UGUGCCCGGUCUCUGAUGAUUUUUGAAUUGAUUUGUGUUGUUAAAUAUUAAAUUCUUAUAAGUCAUUUGCACUCGGCCUGAGCCC
-----------------------...(((.((((...((((((((..(((((.....(((((....)))))..)))))....)))))))).).))).)))........ ( -17.30)
>DroPse_CAF1 162409 96 + 1
CCCUC--CG--CCUCC-AUC---UGCGUCCCGUCUCUGAUGAUUUUUGAAUUGAUUUGUGUUGUUAAAUAUUAAAUUCUUAUAAGUCAUUUGCACUCGGCGAUG----
.....--..--.....-...---..(((((((.....((((((((..(((((.....(((((....)))))..)))))....))))))))......))).))))---- ( -18.20)
>DroGri_CAF1 207961 89 + 1
UU------------UU-UUGUGUUGUGCCCGGCCUCUGAUGAUUUUUGAAUUGAUUUGUGUUGUUAAAUAUUAAAUUCUUAUAAGUCAUUUGCACUCGGGCU------
..------------..-.........((((((.....((((((((..(((((.....(((((....)))))..)))))....)))))))).....)))))).------ ( -21.90)
>DroWil_CAF1 261125 97 + 1
GCCUC--UG--CCUCAGCUC---UACCCCAGGUCUCUGAUGAUUUUUGAAUUGAUUUGUGUUGUUAAAUAUUAAAUUCUUAUAAGUCAUUUGCACUCGGCCUGG----
.....--..--.........---....(((((((...((((((((..(((((.....(((((....)))))..)))))....)))))))).......)))))))---- ( -20.60)
>DroPer_CAF1 169653 96 + 1
GCCUC--CG--CCUCC-AUC---UGCGUCCCGUCUCUGAUGAUUUUUGAAUUGAUUUGUGUUGUUAAAUAUUAAAUUCUUAUAAGUCAUUUGCACUCGGCGAUG----
.....--..--.....-...---..(((((((.....((((((((..(((((.....(((((....)))))..)))))....))))))))......))).))))---- ( -18.20)
>consensus
GCCUC___G__CCUCC_AUC___UGCGCCCCGUCUCUGAUGAUUUUUGAAUUGAUUUGUGUUGUUAAAUAUUAAAUUCUUAUAAGUCAUUUGCACUCGGCCUGG____
..............................((((...((((((((..(((((.....(((((....)))))..)))))....)))))))).......))))....... (-12.90 = -12.52 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:58 2006