Locus 1309

Sequence ID 3R_DroMel_CAF1
Location 3,852,458 – 3,852,551
Length 93
Max. P 0.654480
window2148

overview

Window 8

Location 3,852,458 – 3,852,551
Length 93
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 75.32
Mean single sequence MFE -20.35
Consensus MFE -13.92
Energy contribution -13.87
Covariance contribution -0.06
Combinations/Pair 1.06
Mean z-score -1.09
Structure conservation index 0.68
SVM decision value 0.25
SVM RNA-class probability 0.654480
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3852458 93 - 27905053
AACUUUGCACGCACGCCGCAAUUUCUGCGCAAAGUUAUCUCCGAGGCGCGCAGGUAAUUUCG------GGAAAAAAACAAAAACA------AA-GCUGGAGGGUGG
.(((((.((.((...(((.(((((((((((...(((........)))))))))).)))).))------)(.......).......------..-)))).))))).. ( -21.00)
>DroVir_CAF1 10722 93 - 1
AACUUUGCACGCACGCCGCAGUUUCUGCGCAAAGUCAUCAACGAGGCGCGCAGGUAAAUAAAUUUGCCCGCAACCGACAACAAUU------AAAACAAA-------
....((((..((.((((((((...))))......((......)))))).)).((((((....)))))).))))............------........------- ( -23.40)
>DroPse_CAF1 13002 97 - 1
AACUUUGCACGCACGCCGCAAUUUCUGCGCAAAGUUAUCAACGAGGCGCGCAGGUAAAACAA------A--AAACAACAAUAUCAAACACCAA-ACAUAUAGGUGG
...(((((..((.(((((((.....))).....((.....))..)))).))..)))))....------.--................((((..-.......)))). ( -21.00)
>DroGri_CAF1 9957 93 - 1
AACUUUGCACGCACACCGCAAUUUCUGCGCAAAGUCAUCAACGAGGCGCGCAGGUAAAUAAAUCUGGCUGCAACAGACAAAAACA------AAUGCAGA-------
...((((((.((.....))....(((((((...((.....))...))))((((.((........)).))))...)))........------..))))))------- ( -21.10)
>DroYak_CAF1 11050 93 - 1
AACUUUGCACGCACGCCGCAAUUUCUGCGCAAAGUUAUCUUCGAGGCGCGCAGGUAAAUUUA------GGAAGAAAACAAAAACA------AA-GCAGGAGGGUGG
..((((((..((.(((((((.....))).(.(((....))).).)))).))...........------(........).......------..-))).)))..... ( -17.20)
>DroPer_CAF1 13051 96 - 1
AACUUUGCACGCACGCCGCAAUUUCUGCGCAAAGUUAUCAACGAGGCGCGCAGGUAAAAUAA---------AAACAACAAUAUCAAACAUCAA-ACAUAUAGGUGG
...(((((..((.(((((((.....))).....((.....))..)))).))..)))))....---------................((((..-.......)))). ( -18.40)
>consensus
AACUUUGCACGCACGCCGCAAUUUCUGCGCAAAGUUAUCAACGAGGCGCGCAGGUAAAUUAA______GG_AAAAAACAAAAACA______AA_ACAGA__GGUGG
...(((((..((.....)).....((((((...(((........))))))))))))))................................................ (-13.92 = -13.87 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:28 2006