Locus 5554

Sequence ID 3R_DroMel_CAF1
Location 14,690,921 – 14,691,014
Length 93
Max. P 0.963269
window9054

overview

Window 4

Location 14,690,921 – 14,691,014
Length 93
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 80.03
Mean single sequence MFE -28.74
Consensus MFE -14.86
Energy contribution -14.50
Covariance contribution -0.36
Combinations/Pair 1.21
Mean z-score -3.24
Structure conservation index 0.52
SVM decision value 1.55
SVM RNA-class probability 0.963269
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14690921 93 - 27905053
UGAGCCGAAAGCGGCAAAAAACAACUGAAAACUUUCUGGU----UGCCAGUCGCCUGGCAACAGUGCGUAUGAUUAAUAUGUAUACA-AGAAAUGCGA---
...((((....)))).................(((((.((----((((((....)))))))).((((((((.....))))))))...-))))).....--- ( -28.70)
>DroPse_CAF1 101827 94 - 1
UGAACCGCCAGCG--AAAAACCAACUCAAAACUUUCUGCC--AUUGUUGGUUGGCUGGCAACUGUGCGUAUGAUUAAUAUGUACGCACAGAAAUAUAG---
......((((((.--...(((((((...............--...))))))).))))))..((((((((((.........))))))))))........--- ( -34.97)
>DroEre_CAF1 105200 97 - 1
UGAGCCGAAAGCGGCAAAAAACAACUGAAAACUUUCUGGCUCCUUGCCAGUCGCCUGGCAACAGUGCGUAUGAUUAAUAUGUAUACA-AGAAAUGCCA---
...((((....))))......................(((...(((((((....)))))))..((((((((.....))))))))...-......))).--- ( -27.50)
>DroYak_CAF1 110965 97 - 1
UGAGCCGAAAGCGGCAAAAAACAACUGAAAACUUUCUGGCUCCUUGCCAGUCGCCUGGCAACAGUGCGUAUGAUUAAUAUGUAUACA-AGAAAUGCCA---
...((((....))))......................(((...(((((((....)))))))..((((((((.....))))))))...-......))).--- ( -27.50)
>DroAna_CAF1 111944 91 - 1
UGAACCAAAGG----AAAAAACAGCUGAAAAGUUUCUGCU-C----CGGGUUGCCUGGCAACUGUGCGUAUGAUUAAUAUGUAUGAA-AGAAACACAAGAC
...........----................((((((..(-(----..((((((...))))))((((((((.....)))))))))).-))))))....... ( -18.80)
>DroPer_CAF1 104039 94 - 1
UGAACCGCCAGCG--AAAAACCAACUCAAAACUUUCUGCC--CUUGUUGGUUGGCUGGCAACUGUGCGUAUGAUUAAUAUGUACGCACAGAAAUAUAG---
......((((((.--...(((((((...............--...))))))).))))))..((((((((((.........))))))))))........--- ( -34.97)
>consensus
UGAACCGAAAGCG__AAAAAACAACUGAAAACUUUCUGCC__CUUGCCAGUCGCCUGGCAACAGUGCGUAUGAUUAAUAUGUAUACA_AGAAAUACAA___
................................(((((.......((((((....))))))...((((((((.....))))))))....)))))........ (-14.86 = -14.50 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:56 2006