Locus 1310

Sequence ID 2L_DroMel_CAF1
Location 3,443,392 – 3,443,506
Length 114
Max. P 0.735471
window2146

overview

Window 6

Location 3,443,392 – 3,443,506
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 81.69
Mean single sequence MFE -30.32
Consensus MFE -19.91
Energy contribution -18.98
Covariance contribution -0.94
Combinations/Pair 1.20
Mean z-score -1.87
Structure conservation index 0.66
SVM decision value 0.44
SVM RNA-class probability 0.735471
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3443392 114 + 22407834
AGGACGAAGAUACGGAUGAGCCGGCGAGGCAA------CAGCCAUAUUUCACAAUUUAUUGUGCUUGUCAAUUGCAAGCAGGCAGCAAAAAAAAAAUGUUCAGCAUGCAAAAUGCAUACU
.(((((......(((.....)))((..(....------).(((.......((((....))))((((((.....)))))).))).))..........))))).((((.....))))..... ( -28.80)
>DroAna_CAF1 36931 108 + 1
ACGAUGAAGAUGUGCAGGAGUUGGCAAGGCAA------CGGCCAUAUUUCACAAUUUAUUGUGCUUGUCAAUUGCAAGUAGGCAA------AAAAUGGUUACCCCUGCCAUAUGCACACU
..(.((...(((.(((((((((((((((((..------..)))......(((((....))))).)))))))))....((((.((.------....)).)))).))))))))...)))... ( -30.60)
>DroSim_CAF1 32486 111 + 1
AGGACGAAGAUGUGGAUGAGCCGGCGAGGCAA------CAGCCAUAUUUCACAAUUUAUUGUGCUUGUCAAUUGCAAGCAGGCAGCAAAAAAAAA---UGCAGCAUGCAAAAUGCAUAGU
..(((((((((((((.((.(((.....)))..------)).))))))))(((((....))))).)))))...((((.(((.((.(((........---))).)).)))....)))).... ( -30.60)
>DroYak_CAF1 34827 116 + 1
AGGACGAAGAUGUGGAUGAGCCGGCAAGGCAACGGCAACGGCCAUAUUUCACAAUUUAUUGUGCUUGUCAAUUGCAAGCAGGCAACACAAAAA-C---UGCACCAUGCCAUAUGCAUACU
.((..((.(((((((....(((.....)))..((....)).)))))))))........((((((((((.....)))))).(....)))))...-.---....))((((.....))))... ( -31.30)
>consensus
AGGACGAAGAUGUGGAUGAGCCGGCAAGGCAA______CAGCCAUAUUUCACAAUUUAUUGUGCUUGUCAAUUGCAAGCAGGCAACAAAAAAAAA___UGCACCAUGCAAAAUGCAUACU
.............(.(((.(((.....)))..........(((.......((((....))))((((((.....)))))).)))....................))).)............ (-19.91 = -18.98 +  -0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:21 2006