Locus 3714

Sequence ID 2L_DroMel_CAF1
Location 10,823,922 – 10,824,021
Length 99
Max. P 0.693387
window5851

overview

Window 1

Location 10,823,922 – 10,824,021
Length 99
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 78.36
Mean single sequence MFE -21.69
Consensus MFE -11.96
Energy contribution -12.04
Covariance contribution 0.09
Combinations/Pair 1.33
Mean z-score -1.85
Structure conservation index 0.55
SVM decision value 0.33
SVM RNA-class probability 0.693387
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10823922 99 + 22407834
----GUAUAAAUUUCCACCUCGAGGGGUGAAAAAAAAAAA---ACACAAUUCCCGCCGAGCUAAAAUUACCUAA-AAUAUUCAAAUGCUUGUAGCUGGAAACU---AGAA
----...........(((((....)))))...........---......((((.(((((((.............-...........)))))..)).))))...---.... ( -17.36)
>DroSec_CAF1 57380 96 + 1
----UUAUAAAUUUUCACCUCGAGGGGUGAAAAA---AAA---ACGCGAUUCCCGCCGAGCUAAAAUUACCUAA-AAUAUUCAAAUGCUUGUAGCUGGAAACU---AGAA
----.......(((((((((....))))))))).---...---......((((.(((((((.............-...........)))))..)).))))...---.... ( -21.66)
>DroSim_CAF1 64328 94 + 1
----GUAUAAAUUUCCACCUCUAGGGGUGGAA-----AAA---ACGCGAUUCCCGCCGAGCUAAAAUUACCUAA-AAUAUUCAAAUGCUUGUAGCUGGAAACU---AGAA
----.......(((((((((....))))))))-----)..---......((((.(((((((.............-...........)))))..)).))))...---.... ( -24.06)
>DroEre_CAF1 58047 93 + 1
----GUAUAAAUUUCCACGCAGAGGGGUGAAA------AA---ACGCGAUUCCCGCAGAGCUUAAAUUACCUAA-AAUAUUCAAAUGCUUGCAGCUGGAAACU---AUAA
----.((((..((((((.((...((((((...------..---.)))....)))(((.(((.............-...........)))))).)))))))).)---))). ( -18.16)
>DroYak_CAF1 60313 94 + 1
----GUAUAAAUUUCCACCUAGAGGGGUGGAA------AA---ACGCGAUUCCCGCAGAGCUAAAAUUACCUAAAAAUAUUCAAAUGCUUGCAGCUGGAAACU---AGAA
----.......(((((((((....))))))))------).---......((((.((.((((.........................))))...)).))))...---.... ( -22.01)
>DroPer_CAF1 57741 99 + 1
CGCAGUUUGAAUUUGCAUGC-UACUCGUGGCC-----GGGGCCCCUGCUUUUGCGCAAAGUUUCAAUUAACUAA-AAUAUUCAAAUGCUUGCAGC----AACUGCGAGUA
....((((((((((((....-.....(.(((.-----...))).).((....))))))((((......))))..-...))))))))((((((((.----..)))))))). ( -26.90)
>consensus
____GUAUAAAUUUCCACCUCGAGGGGUGAAA_____AAA___ACGCGAUUCCCGCAGAGCUAAAAUUACCUAA_AAUAUUCAAAUGCUUGCAGCUGGAAACU___AGAA
...............(((((....)))))....................((((.((.((((.........................))))...)).)))).......... (-11.96 = -12.04 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:14 2006