Locus 1239

Sequence ID 3L_DroMel_CAF1
Location 3,522,660 – 3,522,754
Length 94
Max. P 0.800216
window1941

overview

Window 1

Location 3,522,660 – 3,522,754
Length 94
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 74.09
Mean single sequence MFE -15.02
Consensus MFE -11.22
Energy contribution -11.70
Covariance contribution 0.48
Combinations/Pair 1.12
Mean z-score -1.16
Structure conservation index 0.75
SVM decision value 0.61
SVM RNA-class probability 0.800216
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3522660 94 - 23771897
------ACAAAACUAAUUUGAGGGCACCACUCUCGAGUGGAAUUAAAUAUAUGAAAAAUAGGGAGAGAGGGGAAUGGAACUUGAUGAAUGUCUCAAGUGU
------.........((((((((.(((((((....)))))............................(((........)))......)))))))))).. ( -14.80)
>DroSec_CAF1 53024 73 - 1
------ACAAAACUAAUUUGAGGGCACCACUCUCGAGUGGAAUUAAAUAUAUGAAAA---------------------ACCUGAUGAACGUCUCAAGUGU
------.........((((((((.(.(((((....))))).........(((.(...---------------------...).)))...))))))))).. ( -12.70)
>DroSim_CAF1 53705 73 - 1
------ACAAAACUAAUUUGAGGGCACCACUCUCGAGUGGAAUUAAAUAUAUGAAAA---------------------ACUUGAUGAAUGUCUCAAGUGU
------......(((.((((((((.....))))))))))).................---------------------((((((.(.....))))))).. ( -14.20)
>DroYak_CAF1 55442 85 - 1
------ACAAAACUAAUUUGAGGGCAUCACUCUCGAGUGGAAUUAAAUAUAUGAAAAAUAGGGGGAG---------CUACUUGAUGAAUGUCUCAAGUGU
------.........((((((((.(((((...((((((((.........(((.....))).......---------)))))))))).))))))))))).. ( -18.09)
>DroAna_CAF1 66716 82 - 1
AAAAAAAAAAGACUAAUUUGAGGGCAAGACUCUCGAAAGGAAUUAAUUUUAUAGAGGUUU------------------GUGUGAUUAGAGUCUCAAGAGC
.........(((((..((((((((.....)))))))).....((((((.(((((....))------------------))).)))))))))))....... ( -15.30)
>consensus
______ACAAAACUAAUUUGAGGGCACCACUCUCGAGUGGAAUUAAAUAUAUGAAAA_U___________________ACUUGAUGAAUGUCUCAAGUGU
............(((.((((((((.....)))))))))))......................................((((((........)))))).. (-11.22 = -11.70 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:48 2006