Locus 376

Sequence ID 3R_DroMel_CAF1
Location 1,427,331 – 1,427,434
Length 103
Max. P 0.692469
window624

overview

Window 4

Location 1,427,331 – 1,427,434
Length 103
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 79.32
Mean single sequence MFE -23.72
Consensus MFE -15.56
Energy contribution -15.70
Covariance contribution 0.14
Combinations/Pair 1.21
Mean z-score -1.49
Structure conservation index 0.66
SVM decision value 0.33
SVM RNA-class probability 0.692469
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1427331 103 + 27905053
CAACUGGGACUGGCUGCGCAACGCAGUAAGCAGCGCAGUUUUAAGGAGCUGCUCGAAAAGGUAAUCAAACCGAAAUUAAACCCAAAUUAA----UUG-----AUAACUCCAU
....(((((((((((((............))))).)))))))).((((.((.((.....(((......)))..((((((.......))))----)))-----))).)))).. ( -25.30)
>DroPse_CAF1 281 112 + 1
CAGCUGGGACUGGCAGCGCAGCGCCCCAAGCAGCGUGGAUUUAAAGAGCUCCUUGAAAAGGUAAACAAUACUGAUUAAAACUAAUAUGUAAAUAUUCUCAAAAUCAUCAAAU
..((((.(........).))))(((.((((.(((.............))).))))....))).........(((((......(((((....))))).....)))))...... ( -17.22)
>DroSec_CAF1 35 103 + 1
CAACUGGGACUGGCUGCGCAACGCAGCAAGCAGCGCAGUUUUAAGGAGCUGCUCGAAAAGGUAAACAAACAAAAAUUAAACCCAAAUCAA----UUG-----AUAACUCCAG
....((((.((.((((((...)))))).))..(.(((((((....))))))).)..........................)))).(((..----..)-----))........ ( -24.80)
>DroSim_CAF1 58 103 + 1
CAACUGGGACUGGCUGCGCAACGCAGCAAGCAGCGCAGUUUUAAGGAGCUGCUCGAAAAGGUAAACAAACCAAAAUUAAACCCAAAUGAA----UUG-----AUAACUCCAG
((..((((.((.((((((...)))))).))..(.(((((((....))))))).).....(((......))).........))))..))..----...-----.......... ( -26.90)
>DroEre_CAF1 628 99 + 1
CAACUGGGACUGGCUGCACAACGCAGCAAGCAGCGUAGUUUUAAGGAGCUGCUUGAAAAGGUAAACAAAUCGAAAUUUAACC-AACUAAA------------AUGACUAAUG
....(((.....(((((.....)))))(((((((.............)))))))..........................))-)......------------.......... ( -21.52)
>DroYak_CAF1 58 98 + 1
CAACUGGGACUGGCUGCACAACGCAGCAAGCAGCGCAGUUUCAAGGAGCUGCUCGAAAAGGUGAA-AACCCUAAAUGUAACU-UAAUGAA------------AUAACUCAAG
....((((....(((((.....)))))..((((.(((((((....))))))).).....(((...-.))).....)))....-.......------------....)))).. ( -26.60)
>consensus
CAACUGGGACUGGCUGCGCAACGCAGCAAGCAGCGCAGUUUUAAGGAGCUGCUCGAAAAGGUAAACAAACCAAAAUUAAACCCAAAUGAA____UUG_____AUAACUCAAG
..(((..(.((((((((.....)))))...))))(((((((....))))))).......))).................................................. (-15.56 = -15.70 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:44 2006