Locus 3915

Sequence ID 3L_DroMel_CAF1
Location 11,333,772 – 11,333,862
Length 90
Max. P 0.996087
window6094 window6095

overview

Window 4

Location 11,333,772 – 11,333,862
Length 90
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 76.54
Mean single sequence MFE -34.27
Consensus MFE -20.36
Energy contribution -22.05
Covariance contribution 1.69
Combinations/Pair 1.15
Mean z-score -2.70
Structure conservation index 0.59
SVM decision value 2.65
SVM RNA-class probability 0.996087
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11333772 90 + 23771897
UUAAGCGAUGCCGCUCCGGAUCCGUAUCCGGAAAAUCCCUCCCCCC-CACUCCAUCCACCAUCACCUUU-----------GGGAAGG-UG---GCUAGAAAAACCC
....(((....)))(((((((....)))))))..............-...((...(((((.((.((...-----------)))).))-))---)...))....... ( -22.90)
>DroSim_CAF1 61585 90 + 1
UUAAGCGAUGCCGCUCCGGAUCCGUAUCCGGAAAACCCCCCCUCCC-CGCUG---CCAACUCCACCUUU-----------GGGGAGG-GGGAGUCUAGAAAAACCC
....(((....)))(((((((....)))))))..((.(((((((((-((..(---..........)..)-----------)))))))-))).))............ ( -36.90)
>DroEre_CAF1 58310 84 + 1
UUAAGCGAUGCCGCUCCGUAUCCGUAUCCGGAAAAUCCCCCUCCCC-UG---------CCACCACCUUU-----------GGGGGGUGGGGGG-CUAGAAAAACCC
...((((....)))).....((((....))))...((((((.((((-..---------(((.......)-----------)))))).))))))-............ ( -29.90)
>DroYak_CAF1 46991 97 + 1
UUAAGCGAUGCCGCUCCGGAUCCGUAUCCGGAAAAUCCCCCCCUCCACG---------CCACCACCUUUCAGGGGGGAGUGGGGGGUGGGGGGUCUAGAAAAACCC
....(((....)))(((((((....)))))))....((((((((((((.---------((.((.((.....)))))).)))))))).))))(((........))). ( -47.40)
>consensus
UUAAGCGAUGCCGCUCCGGAUCCGUAUCCGGAAAAUCCCCCCCCCC_CG_________CCACCACCUUU___________GGGGAGG_GGGGGUCUAGAAAAACCC
....(((....)))(((((((....)))))))....((((((((((...................................))))))))))............... (-20.36 = -22.05 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 11,333,772 – 11,333,862
Length 90
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 76.54
Mean single sequence MFE -39.27
Consensus MFE -21.04
Energy contribution -22.72
Covariance contribution 1.69
Combinations/Pair 1.15
Mean z-score -2.27
Structure conservation index 0.54
SVM decision value 0.94
SVM RNA-class probability 0.886453
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11333772 90 - 23771897
GGGUUUUUCUAGC---CA-CCUUCCC-----------AAAGGUGAUGGUGGAUGGAGUG-GGGGGGAGGGAUUUUCCGGAUACGGAUCCGGAGCGGCAUCGCUUAA
((((((.((((.(---((-((.((((-----------...)).)).))))).))))(((-.((..((....))..))...))))))))).(((((....))))).. ( -31.00)
>DroSim_CAF1 61585 90 - 1
GGGUUUUUCUAGACUCCC-CCUCCCC-----------AAAGGUGGAGUUGG---CAGCG-GGGAGGGGGGGUUUUCCGGAUACGGAUCCGGAGCGGCAUCGCUUAA
..........((((((((-(((((((-----------...(.((.......---)).))-))))))))))))))(((((((....)))))))(((....))).... ( -43.70)
>DroEre_CAF1 58310 84 - 1
GGGUUUUUCUAG-CCCCCCACCCCCC-----------AAAGGUGGUGG---------CA-GGGGAGGGGGAUUUUCCGGAUACGGAUACGGAGCGGCAUCGCUUAA
.....(..((..-(((((((((((..-----------...)).)))))---------..-))))..))..)...((((....))))....(((((....))))).. ( -33.00)
>DroYak_CAF1 46991 97 - 1
GGGUUUUUCUAGACCCCCCACCCCCCACUCCCCCCUGAAAGGUGGUGG---------CGUGGAGGGGGGGAUUUUCCGGAUACGGAUCCGGAGCGGCAUCGCUUAA
((((((....))))))(((.((((((((.((((((.....)).)).))---------.)))).)))))))....(((((((....)))))))(((....))).... ( -49.40)
>consensus
GGGUUUUUCUAGACCCCC_ACCCCCC___________AAAGGUGGUGG_________CG_GGGGGGGGGGAUUUUCCGGAUACGGAUCCGGAGCGGCAUCGCUUAA
...............((((((((((...................................))))))))))....(((((((....)))))))(((....))).... (-21.04 = -22.72 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:54 2006