Locus 2459

Sequence ID 3L_DroMel_CAF1
Location 6,955,053 – 6,955,156
Length 103
Max. P 0.879114
window3790 window3791

overview

Window 0

Location 6,955,053 – 6,955,156
Length 103
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 81.85
Mean single sequence MFE -37.00
Consensus MFE -29.93
Energy contribution -29.93
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.81
SVM decision value 0.91
SVM RNA-class probability 0.879114
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6955053 103 + 23771897
UGAGGAUGAGGAUGGGGUCGCAGUGCAAAAGUUUUGCCGCCGCCGGAGGACGUCACAUGUGGCCACCAUCCCCCUCCCCUCCUCAAGAAACACCCCCACCCCC
((((((.((((((((((((((((((.(...(((((.(((....)))))))).)))).))))))).))))))...))...)))))).................. ( -36.90)
>DroSec_CAF1 24630 94 + 1
UGAGGAUGGGGAUGGGGUCGCAGUGCAAAAGUUUUGCCGCCGCCGGAGGACGUCACAUGUGGCC-CCAUCCC--------CCUAAAGAAACACCCCCUCCCCC
.((((..((((((((((((((((((.(...(((((.(((....)))))))).)))).)))))))-)))))))--------)(....)........)))).... ( -43.10)
>DroYak_CAF1 25201 82 + 1
UGCGGAUGAGGAUGGGGUCGCAGUGCAAAAGUUUUGCCGCCGCCGGAGGACGUCACAUGUGGCCCCCAUCCCCC----------AAGAA-----------CCC
...((..(.((((((((((((((((.(...(((((.(((....)))))))).)))).))))).)))))))))))----------.....-----------... ( -31.00)
>consensus
UGAGGAUGAGGAUGGGGUCGCAGUGCAAAAGUUUUGCCGCCGCCGGAGGACGUCACAUGUGGCC_CCAUCCCCC______CCU_AAGAAACACCCCC_CCCCC
.........((((((((((((((((.(...(((((.(((....)))))))).)))).))))))).))))))................................ (-29.93 = -29.93 +   0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 1

Location 6,955,053 – 6,955,156
Length 103
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 81.85
Mean single sequence MFE -41.70
Consensus MFE -27.52
Energy contribution -29.97
Covariance contribution 2.45
Combinations/Pair 1.04
Mean z-score -1.83
Structure conservation index 0.66
SVM decision value 0.15
SVM RNA-class probability 0.608761
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6955053 103 - 23771897
GGGGGUGGGGGUGUUUCUUGAGGAGGGGAGGGGGAUGGUGGCCACAUGUGACGUCCUCCGGCGGCGGCAAAACUUUUGCACUGCGACCCCAUCCUCAUCCUCA
((((((((((((..(((....)))((((.((((((((.(.((.....)).))))))))).((((..((((.....)))).))))..)))))))))))))))). ( -49.40)
>DroSec_CAF1 24630 94 - 1
GGGGGAGGGGGUGUUUCUUUAGG--------GGGAUGG-GGCCACAUGUGACGUCCUCCGGCGGCGGCAAAACUUUUGCACUGCGACCCCAUCCCCAUCCUCA
.(((((.(((((.........((--------((((((.-.((.....))..)))))))).((((..((((.....)))).)))).))))).)))))....... ( -44.60)
>DroYak_CAF1 25201 82 - 1
GGG-----------UUCUU----------GGGGGAUGGGGGCCACAUGUGACGUCCUCCGGCGGCGGCAAAACUUUUGCACUGCGACCCCAUCCUCAUCCGCA
(((-----------(....----------.((((((((((...........((((....))))((.((((.....))))...))..))))))))))))))... ( -31.10)
>consensus
GGGGG_GGGGGUGUUUCUU_AGG______GGGGGAUGG_GGCCACAUGUGACGUCCUCCGGCGGCGGCAAAACUUUUGCACUGCGACCCCAUCCUCAUCCUCA
(((((.((((...................((((((((...((.....))..)))))))).((((..((((.....)))).))))..)))).)))))....... (-27.52 = -29.97 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:47 2006