Locus 1898

Sequence ID 3L_DroMel_CAF1
Location 5,320,213 – 5,320,311
Length 98
Max. P 0.659012
window2954

overview

Window 4

Location 5,320,213 – 5,320,311
Length 98
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 80.37
Mean single sequence MFE -18.70
Consensus MFE -13.81
Energy contribution -13.37
Covariance contribution -0.44
Combinations/Pair 1.21
Mean z-score -1.31
Structure conservation index 0.74
SVM decision value 0.26
SVM RNA-class probability 0.659012
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5320213 98 - 23771897
CACCACCCAUGAACCAAUCGGCCAAGGCGCUCAACAGCGUGGCCACCGAGAUCAGCACCUCCUGCUCCUCCAGCACCUUCACCAA---CCAUCCACAGAA-C
.........((((......((((...(((((....)))))))))...(((...((((.....)))).))).......))))....---............-. ( -18.80)
>DroPse_CAF1 114261 101 - 1
CAACACCAAUGAACCACUCGGCCGCAUCGCUUUACAGCGUGGCCACCAUCAACAGCACCUGCUCCUGCUCCUACUCCUGCUCCAGCU-CCAGCUCCUGCAUC
...................((((((...(((....)))))))))..........(((...(((...(((....(....)....))).-..)))...)))... ( -20.50)
>DroEre_CAF1 67480 98 - 1
CACCACCCAUGAACCAAACGGCCAAGGCGCUCAACAGCGUGGCCACCGAGAUCAGCACCUCCUGCUCCUCCAGCACCUUCACCAU---CCAUCCACAGAA-U
.........((((......((((...(((((....)))))))))...(((...((((.....)))).))).......))))....---............-. ( -18.80)
>DroYak_CAF1 75893 101 - 1
CACCACCCAUGAACCAAUCGGCCAAGGCGCUCAACAGCGUGGCCACCGAGAUCAGCACCUCCUGCUCCUCCAGCACCUUCACCAUCUUCCAUCCACAGAA-C
.........((((......((((...(((((....)))))))))...(((...((((.....)))).))).......))))...................-. ( -18.80)
>DroAna_CAF1 66584 95 - 1
CACCACCCAUGAACCACUCGGCCGAAGCGCUCAACAGCGUGGCCACCAAGAUUAGCACCUCCUGCUCCU---GCACCUGCACCAC---CCAACCACUGAC-C
...................((((...(((((....)))))))))..........(((.....(((....---)))..))).....---............-. ( -17.40)
>DroPer_CAF1 114481 101 - 1
CAACACCAAUGAACCACUCGGCCGCAUCGCUUUACAGCGUGGCCACCAUCAACAGCACCUGCUCCUGCUCCUACUCCUGCUCCAGAU-CCAGCUCCUGCAUC
...................((((((...(((....)))))))))..........(((...(((.(((...(.......)...)))..-..)))...)))... ( -17.90)
>consensus
CACCACCCAUGAACCAAUCGGCCAAAGCGCUCAACAGCGUGGCCACCAAGAUCAGCACCUCCUGCUCCUCCAGCACCUGCACCAG___CCAUCCACAGAA_C
...................(((((...((((....))))))))).....((.(((......))).))................................... (-13.81 = -13.37 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:22 2006