Locus 1686

Sequence ID 2R_DroMel_CAF1
Location 6,388,397 – 6,388,506
Length 109
Max. P 0.965221
window2811

overview

Window 1

Location 6,388,397 – 6,388,506
Length 109
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 75.46
Mean single sequence MFE -26.38
Consensus MFE -10.48
Energy contribution -10.44
Covariance contribution -0.04
Combinations/Pair 1.07
Mean z-score -2.26
Structure conservation index 0.40
SVM decision value 1.58
SVM RNA-class probability 0.965221
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6388397 109 + 20766785
-------ACUGAGAACUGCAAAUUAGCAUUUCAUUGCAAUAUUUGGCAUGGAUGUUUUUAAAAACU-AUUUUUUUCUGUGCAUCAUACAGAGACUUCUUGCCAUUUUGCGAUGUCAG
-------.(((((((.(((......))).)))(((((((....(((((.(((.((((....)))).-.....((((((((.....)))))))).))).)))))..))))))).)))) ( -30.30)
>DroSec_CAF1 28940 114 + 1
UGACUUUAAUGACAAGGACACAGUA-UAUUUUUUGGCUAUGUUUUGGCUGCAUGUUUUCAAAAACU--UUUUUUUCUGUGCAUCUUACAGAGGCUUCUUGCCAUUUUGCGAUGUCAG
.........(((((...........-........(((((.....)))))(((..............--......((((((.....))))))(((.....)))....)))..))))). ( -22.70)
>DroSim_CAF1 26754 115 + 1
UGACUUUAAUGACAAGGACAGAGUA-UAUUUUUUGGCUAUAUUUUGGCUGCAUGUUUUCAAAAACU-AUUUUUUUCUGUGCAUCUUACAGAGGCUUCUUGCCAUUUUGCGAUGUCAG
.........(((((.((.(((((((-((.........))))))))).))(((..............-.......((((((.....))))))(((.....)))....)))..))))). ( -24.00)
>DroEre_CAF1 30192 102 + 1
AAACAU---------------AUUUGCAUAUCAUGGCCAUAUUUGGUAUGGAUGUCUUAAAAAAAUGAUUUUUUUCUGUGCAUCUCAGAGAGGCUUCUUGCCAUUUUGCGAUGUCAG
...(((---------------.(((..(((((...((((....))))...))))).....))).)))........(((.(((((.(((((.(((.....))).))))).)))))))) ( -26.40)
>DroYak_CAF1 30299 100 + 1
AAACUU---------------AUUUGCAUUUCAUGCCAAUAUUUGGUAUGGAUGUUUUAAACAAUU--CUUUUUUCUGUGCAUCUCAGAGAGGCUUCUUGCCAUUUUGCGAUGUCAG
....((---------------(...(((((.(((((((.....))))))))))))..)))......--.......(((.(((((.(((((.(((.....))).))))).)))))))) ( -28.50)
>consensus
AAACUU_A_UGA_AA___CA_AUUAGCAUUUCAUGGCAAUAUUUGGGAUGGAUGUUUUAAAAAACU_AUUUUUUUCUGUGCAUCUUACAGAGGCUUCUUGCCAUUUUGCGAUGUCAG
...........................................................................(((.(((((.((.((.(((.....))).)).)).)))))))) (-10.48 = -10.44 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:37 2006