Locus 8243

Sequence ID 3R_DroMel_CAF1
Location 22,071,515 – 22,071,632
Length 117
Max. P 0.516171
window13289

overview

Window 9

Location 22,071,515 – 22,071,632
Length 117
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 83.66
Mean single sequence MFE -22.77
Consensus MFE -15.18
Energy contribution -14.90
Covariance contribution -0.28
Combinations/Pair 1.22
Mean z-score -1.66
Structure conservation index 0.67
SVM decision value -0.03
SVM RNA-class probability 0.516171
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22071515 117 + 27905053
GAAGUAA-AAAA-UUCCAGUUUAAAUUAAACGGAAUUUCCCAUUCGGAAUUCUCGUAAAUAACAAAUAAUUACGAUUAAACGAAGUAGCAAACAUUGGACACUUCUUCGAAGUUGUGAA
(((((..-.(((-((((.(((((...)))))))))))).(((((((......((((((.((.....)).)))))).....))))((.....))..)))..))))).............. ( -20.40)
>DroSec_CAF1 63584 117 + 1
AAAGAAA-AGAA-AUCCAGCUUAAAUUAAAUGGAAAUUCCCAUUCGAGAUUCCAGUGAAUAACAAACAAUUACGAUUAAUCGAAGUAGCAAACAUUGGACACUUCUUCGAAGUUAGGAA
.......-....-.((((((((......(((((......)))))(((((.((((((((((........))).(((....)))..........)))))))....)).)))))))).))). ( -20.30)
>DroSim_CAF1 56562 117 + 1
AAAUAAA-AAAA-UUCCAGCUUAAAUGUAGUGGAAUUUCCCAUUCGAGAUUCCAGUGAAUAACAAACAAUUACGAUUAAACGAAGUAGCAAACAUUGGACACUUCUUCGAAGUUGUGAA
.......-....-(((((((((...((((((((((((((......)))))))).((.....)).....))))))......(((((.((.............)).))))))))))).))) ( -24.02)
>DroEre_CAF1 58097 118 + 1
AAAGAAA-AAAAUUUCCAGCUUAGGUUAAAUGGAAUUUUCCAUUAGGGAUUCCCAUAAAAACCAAAGAAUAACGAUUAGGCAAAGCAGCUAGCAUUGGACACUUCUUCGAAGUUGAGAU
.......-......((((((((.((((.((((((....)))))).(((...))).....)))).........(((..((((((.((.....)).)))....)))..))))))))).)). ( -23.70)
>DroYak_CAF1 66033 119 + 1
AGAGAAAAAAAAUUUCCAGCUUAAAUUAAAUGGAAUUUCCCAUUCGGGAUUCCCAAUAAAUGCUAAGAAUUACGAUUAGGCGAAGUAGCCAACAUUGGACACUUCUUCGAAGUUGUGAA
.(.((((.....)))))(((...........((((..((((....))))))))........))).....((((((((.((.(((((..(((....)))..))))).))..)))))))). ( -25.41)
>consensus
AAAGAAA_AAAA_UUCCAGCUUAAAUUAAAUGGAAUUUCCCAUUCGGGAUUCCCGUAAAUAACAAACAAUUACGAUUAAACGAAGUAGCAAACAUUGGACACUUCUUCGAAGUUGUGAA
..............((((((((.........((((((((......))))))))...........................(((((.((.............)).))))))))))).)). (-15.18 = -14.90 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:36 2006