Locus 1592

Sequence ID 2R_DroMel_CAF1
Location 5,962,127 – 5,962,220
Length 93
Max. P 0.663668
window2673

overview

Window 3

Location 5,962,127 – 5,962,220
Length 93
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 82.13
Mean single sequence MFE -27.62
Consensus MFE -21.48
Energy contribution -21.22
Covariance contribution -0.25
Combinations/Pair 1.14
Mean z-score -1.61
Structure conservation index 0.78
SVM decision value 0.27
SVM RNA-class probability 0.663668
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5962127 93 - 20766785
CACA-------------------------GAACGCUUUCGUUGAGCACCAUAAAAUGCCGAGCACUUGGCUCUUAAAAAACAGUGAAUGUUUUGGUGACAGACUAAAAUAUAUAGAGA
(((.-------------------------....((((.....))))..........(((((....)))))............))).((((((((((.....))))))))))....... ( -20.00)
>DroSec_CAF1 4670 118 - 1
CACAAAAAGAGUGUCUUGCAGGCACGUAAGAACGCUUUCGUCGAGCACCAUAAAAUGCCGAGCACUUGGCUCUUAAAAAACAGUGAAUGUUUUGGUGACAGACUAAAAUAUAUGGAAA
.......((((((((((((......))))).))))))).(((...((((.......(((((....)))))......((((((.....))))))))))...)))............... ( -31.40)
>DroSim_CAF1 4777 118 - 1
CACAAAAAGAGUGUCUUGCAGGCACGUAAGAACGCUUUCGUCGAGCACCAUAAAAUGCCGAGUACUUGGCUCUUAAAAAACAGUGCAUGUUUUGGUGACAGACUAAAAUAUAUGGAAA
.......((((((((((((......))))).))))))).(((...((((.......(((((....)))))......((((((.....))))))))))...)))............... ( -31.40)
>DroYak_CAF1 5036 115 - 1
CAAA---AAAGUGUCUUCCAGGCACGUAAGAGCGCUUUCGUCGAGCACCAUAAAAUGCCGAGCACUUCGCUCCUAAAAAACGGCGAAUGUUUUGGUGACAGACUAGUAUAUAUAGAGG
....---...(((((.....)))))(((..((.((.(((((((.(((........))).((((.....))))........))))))).))((((....))))))..)))......... ( -27.70)
>consensus
CACA___AGAGUGUCUUGCAGGCACGUAAGAACGCUUUCGUCGAGCACCAUAAAAUGCCGAGCACUUGGCUCUUAAAAAACAGUGAAUGUUUUGGUGACAGACUAAAAUAUAUAGAAA
..........(((((.....)))))..............(((...((((..........((((.....))))....((((((.....))))))))))...)))............... (-21.48 = -21.22 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:24 2006