Locus 1980

Sequence ID 2R_DroMel_CAF1
Location 7,476,634 – 7,476,729
Length 95
Max. P 0.679201
window3275

overview

Window 5

Location 7,476,634 – 7,476,729
Length 95
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 86.36
Mean single sequence MFE -26.44
Consensus MFE -20.29
Energy contribution -21.82
Covariance contribution 1.53
Combinations/Pair 1.05
Mean z-score -2.53
Structure conservation index 0.77
SVM decision value 0.30
SVM RNA-class probability 0.679201
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7476634 95 + 20766785
UCUGCGGCUUCCUCUUGCCGCUUCUUGUUAGCAUUUCUGCCGACAUUUUCGGCGACCUUAGCGCCGAAGGAAAAACCAAAG--AAAAAAU--CAUCGAA
...(((((........)))))(((((((..(((....)))..)).(((((((((.......)))))))))........)))--)).....--....... ( -29.60)
>DroGri_CAF1 95142 88 + 1
UUUGCGGCUUCCUC-UGCAGCUUCUUGUUAGCAUUUUAGCCGACAUUUGAUUCGACCUUAA-GCUGA----AAAAUCAAAA---CAACAA--CAGCCAA
..(((((((.....-((((((.....))).)))....))))).))................-((((.----..........---......--))))... ( -15.53)
>DroSec_CAF1 93060 95 + 1
UCUGCGGCUUCCUCUUGCCGCUUCUUGUUAGCAUUUCUGCCGACAUUUUCGGCGACCUUAGCGCCGAAGGAAAAACCCAAG--AAAAAAU--CAUCGAA
...(((((........)))))(((((((..(((....)))..)).(((((((((.......)))))))))........)))--)).....--....... ( -29.60)
>DroEre_CAF1 92691 97 + 1
UCUGCGGCUUCCUCUUGCCGCUUCUUGUUAGCAUUUCUGCCGACAUUUUCGGCGACCUUAGCGCCGAAGGAAAAACAAAAAAAAAAAAAU--CAUCGAA
...(((((........)))))....(((..(((....)))..)))(((((((((.......)))))))))....................--....... ( -27.70)
>DroYak_CAF1 91357 93 + 1
UCUGCGGCUUCCUCUUGCCGCUUCUUGUUAGCAUUUCUGCCGACAUUUUCGGCGACCUUAGCGCCGAAGGAAAACCAAAA----AAAAAU--CAUCGAA
...(((((........)))))....(((..(((....)))..)))(((((((((.......)))))))))..........----......--....... ( -27.70)
>DroAna_CAF1 89452 99 + 1
UCUGUGGCUUCCUCUUGCCGCUUCUUGUUAGCAUUUCUGCCGACAUUUUCGGCGACCUUAGCGGCGAAGGAAAAACUAAAAUCAAAACAGCACAGCGAA
.(((((.((((((.((((((((...((....))....((((((.....)))))).....)))))))))))).................))))))).... ( -28.52)
>consensus
UCUGCGGCUUCCUCUUGCCGCUUCUUGUUAGCAUUUCUGCCGACAUUUUCGGCGACCUUAGCGCCGAAGGAAAAACCAAAA__AAAAAAU__CAUCGAA
...(((((........)))))....(((..((......))..)))(((((((((.......)))))))))............................. (-20.29 = -21.82 +   1.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:58 2006