Locus 1767

Sequence ID 3R_DroMel_CAF1
Location 5,096,524 – 5,096,637
Length 113
Max. P 0.979863
window2900

overview

Window 0

Location 5,096,524 – 5,096,637
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.11
Mean single sequence MFE -41.84
Consensus MFE -33.19
Energy contribution -35.31
Covariance contribution 2.12
Combinations/Pair 1.06
Mean z-score -2.43
Structure conservation index 0.79
SVM decision value 1.85
SVM RNA-class probability 0.979863
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5096524 113 + 27905053
UGCCGGCCGAGCUGUAAGUAGUUGACAUUGCUCCUAAACACGUUUGCCAGCCGCAGAGA-GA-----CGAAGAAUGGGAGGCUGGAAAAUGUGACU-GCAGGGGAAGCCAAGCUGGCAAC
(((((((....(((((((((((....))))))......(((((((.((((((.......-..-----............)))))).)))))))..)-))))((....))..))))))).. ( -40.20)
>DroSec_CAF1 3658 119 + 1
UGCCGGCCGGGCUGUAAGUAGUUGACAUUGCCCCUAAACACGUUUGCCAGCCGCAGAGAAGAUGAAGAGAAGAAUGGGAGGCUGGAAAAUGUGACU-GUGGGGGAAGCCAUGCUGGCAAC
(((((((..((((....((.....))....((((((..(((((((.((((((...........................)))))).)))))))...-.)))))).))))..))))))).. ( -46.83)
>DroSim_CAF1 3657 119 + 1
UGCCGGCCGGGCUGUAAGUAGUUGACAUAGCCCCUAAACACGUUUGCCAGCCGCAGAGAAGAUGAAGAGAAGAAUGGGAGGCUGGAAAAUGUGACU-GCGGGGGAAGCCAUGCUGGCAAC
(((((((..((((....((.....))....(((((...(((((((.((((((...........................)))))).)))))))...-..))))).))))..))))))).. ( -44.43)
>DroEre_CAF1 3655 103 + 1
UGCC----GGGCUGUAAGUAGUUGACAUUGCCCCUAAACACGUUUGCCAGCCGCAGAGAA-A-----------CCGGGGGGCUGGCAAAUGUGACU-GCGGGGGAAGCCGUGCUGGCAAC
((((----(((((((.........)))..)))).....((((((((((((((.(...(..-.-----------.)..).))))))))))))))...-(((.((....)).))).)))).. ( -47.40)
>DroYak_CAF1 3714 98 + 1
UGCC----GGGCUGUAAGUAGUUGACAUUGCCCCUAAACACGUUUGCCAGCCGCAAAAGA-A-----------U-----GGCUAA-AAAGGAGGCUGGCUGGGGAAGCCAUGCUGGCAAC
((((----((((((....))))...(((.(((((((.........(((((((........-.-----------.-----......-......))))))))))))..)).))))))))).. ( -30.35)
>consensus
UGCCGGCCGGGCUGUAAGUAGUUGACAUUGCCCCUAAACACGUUUGCCAGCCGCAGAGAAGA______GAAGAAUGGGAGGCUGGAAAAUGUGACU_GCGGGGGAAGCCAUGCUGGCAAC
(((((((..((((....((.....))....(((((...(((((((.((((((...........................)))))).)))))))......))))).))))..))))))).. (-33.19 = -35.31 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:47 2006