Locus 5196

Sequence ID 3R_DroMel_CAF1
Location 13,618,565 – 13,618,678
Length 113
Max. P 0.751977
window8479

overview

Window 9

Location 13,618,565 – 13,618,678
Length 113
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 88.45
Mean single sequence MFE -25.43
Consensus MFE -19.68
Energy contribution -20.12
Covariance contribution 0.44
Combinations/Pair 1.05
Mean z-score -1.74
Structure conservation index 0.77
SVM decision value 0.48
SVM RNA-class probability 0.751977
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13618565 113 + 27905053
CCCACUGCAUCCCAGUCUAUCUGGCGGGGCAUACGACCCCCCCCCCCUUCCCCUUCUCAUACGCCAUCUCUUUUCACAACUGAGGCUAAGCCCCAAUUUGGAUUAUUUGUAGA
....(((((....((((((...((((((((....).))))......................(((.((.............)))))...)))......))))))...))))). ( -24.12)
>DroSec_CAF1 67546 109 + 1
CCCACUGCAUCCCAGUCUAUCUGGCGGGGCAUACGACCCCAC----UUCCUCCUGCCCCUGCGCCAUCUCUUUUCACAACUGAGGCUAAGCCCCAAUUUGGAUUAUUUGUAGA
....(((((....((((((...(((((((((...((......----.))....))))))...(((.((.............)))))...)))......))))))...))))). ( -27.82)
>DroSim_CAF1 61165 109 + 1
CCCACUGCAUCCCAGUCUAUCUGACGGGGCAUACGACCCCAC----UUCCUCCUGCCCCUGCGCCAUCGCUUUUCACAACUGAGGCUAAGCCCCAAUUUGGAUUAUUUGUAGA
....(((((..((((((.....)))(((((............----........((....))......(((((........)))))...)))))....)))......))))). ( -26.20)
>DroEre_CAF1 58823 103 + 1
CCCUCCGCAUCCCAGUCUACCUGGCGGGGCAUACGACCCCCA----UUCC------CCUUCCGCCACCUCUUUUCACAACUGAGGCUAAGCCCCAAUUUGGAUUAUUUGUAGA
...(((.....((((.....)))).(((((....(.....).----....------..........((((...........))))....))))).....)))........... ( -21.20)
>DroYak_CAF1 60168 103 + 1
CCCACUGCAUCCCAGUCUAUCUGGCGGGGCAUACGACCCCGU----UUCC------CCUUCCGCCAUCUCUUUUCACAACUGAGGGUAAGCCCCAAUUUGGAUUAUUUGUAGA
....(((((....((((((..((((((((...(((....)))----..))------))....))))..............((.(((....)))))...))))))...))))). ( -27.80)
>consensus
CCCACUGCAUCCCAGUCUAUCUGGCGGGGCAUACGACCCCAC____UUCC_CCU_CCCCUCCGCCAUCUCUUUUCACAACUGAGGCUAAGCCCCAAUUUGGAUUAUUUGUAGA
....(((((..((((((.....)))(((((....(....)......................(((.((.............)))))...)))))....)))......))))). (-19.68 = -20.12 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:47 2006