Locus 9492

Sequence ID 3R_DroMel_CAF1
Location 25,103,742 – 25,103,853
Length 111
Max. P 0.539773
window15197

overview

Window 7

Location 25,103,742 – 25,103,853
Length 111
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 82.28
Mean single sequence MFE -28.47
Consensus MFE -20.67
Energy contribution -20.28
Covariance contribution -0.39
Combinations/Pair 1.14
Mean z-score -1.38
Structure conservation index 0.73
SVM decision value 0.01
SVM RNA-class probability 0.539773
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25103742 111 - 27905053
GGGGGACACAAGAGCGUGUUGCAAAAACUCACAACAUGCCACGCACUCCGCUUCCCCGAUGCUUCCCCAGUAG-AUCCCCUCCUACAAA-----AAGAUCAUCAGGUUCUCAACUUU
((((((.....(.((((((((..........)))))))))..((.....))))))))((((..((....((((-........))))...-----..)).)))).............. ( -26.70)
>DroSec_CAF1 32679 107 - 1
GGGGGACACAAGAGCGUGUUGCAAAAACUCACAACAUGCCACGCACUCCGCUUCCCCGUUGU--UCCCAGUAG-AUCC-C-CCUACAAA-----AAGAUCAUCAGGUUCUCAAGUUU
.((((((((..(.((((((((..........)))))))))..((.....))......).)))--)))).((((-....-.-.))))...-----....................... ( -25.10)
>DroSim_CAF1 33634 108 - 1
GGGGGACACAAGAGCGUGUUGCAAAAACUCACAACAUGCCACGCACUCCGCUUCCCCGAUGC--CCCCAGUAG-AUCCCC-CCUACAAA-----AAGAUCAUCAGGUUCUCAAGUUU
(((((.(((..(.((((((((..........)))))))))..((.....))......).)))--)))).((((-......-.))))...-----....................... ( -25.80)
>DroEre_CAF1 33051 107 - 1
GGGGGACACAAGAGCGUGUUGCAAAAACUCACAACAUGCCACGCACUCUGCUUCCCCGAUUC--CCCCAGUAG-AUCC-C-UCUACAAG-----AAGCCCCUCGGGUUCUUAAGUUU
((((((.....(.((((((((..........)))))))))..((.....)).........))--)))).((((-(...-.-)))))(((-----((.((....)).)))))...... ( -34.50)
>DroYak_CAF1 33843 107 - 1
GGGGGACACAAGAGCGUGUUGCAAAAACUCACAACAUGCCACGCACUCUGCUUCCCCGAUUC--CCCCCGUAG-AUCC-C-UCUACGAA-----AAGUCCAUCAGGUUCUCAAGUUU
((((((.....(.((((((((..........)))))))))..((.....)).........))--))))(((((-(...-.-))))))..-----....................... ( -29.10)
>DroPer_CAF1 37042 113 - 1
GGGGGACACAAGAGCGUGUUGCAAUGUCUCACAACAUGCCACGCACUAUGCUUCUUCUGUAC--GAUCAGCCGGGGCA-C-GCUGCAGAGGAACGAGAGAACCAGAGAAGGAACUUC
(((.(((((......))))).)..(.((((............((.....))(((((((((((--(....((....)).-)-).)))))))))).)))).).)).............. ( -29.60)
>consensus
GGGGGACACAAGAGCGUGUUGCAAAAACUCACAACAUGCCACGCACUCCGCUUCCCCGAUGC__CCCCAGUAG_AUCC_C_CCUACAAA_____AAGAUCAUCAGGUUCUCAAGUUU
((((((.....(.((((((((..........)))))))))..((.....))))))))............((((.........))))............................... (-20.67 = -20.28 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:35:50 2006