Locus 305

Sequence ID X_DroMel_CAF1
Location 981,518 – 981,613
Length 95
Max. P 0.960454
window460 window461

overview

Window 0

Location 981,518 – 981,613
Length 95
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 84.35
Mean single sequence MFE -12.07
Consensus MFE -8.62
Energy contribution -9.12
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.71
SVM decision value 0.41
SVM RNA-class probability 0.725595
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 981518 95 + 22224390
AAUGAAAAUGAAGUUGCCUUGGGCAACUUUCCCCCUCCUUCUAGCCCCCCCUU-AAUAAAAAAUAAGAAAUAAAAAAGGAAAACCCAAAAACAAAA
.........(((((((((...))))))))).....(((((..........(((-(........))))........)))))................ ( -13.57)
>DroSec_CAF1 64273 85 + 1
AAUGAAAAUUAAGUUGCCUUGGGCAACUUUCCCCC---UUCUGGCC--CCCUU-AAUAAAAAAUAAGAAAUAAAAAAGGAAAACCCAAAAA-----
............((((((...))))))(((((.((---....))..--..(((-(........))))..........))))).........----- ( -12.70)
>DroSim_CAF1 43495 85 + 1
AAUGAAAAUGAAGUUGCCUUGGGCAACUUUCCCCC---UUCUGGCC--CCCUU-AAUAAAAAAUAAGAAAUAAAAAAGGAAAACCCAAAAA-----
.........(((((((((...)))))))))...((---((......--..(((-(........))))........))))............----- ( -13.29)
>DroYak_CAF1 69827 82 + 1
AAUGAAAAUGAAGGUGCCUUGGGCAACUUUCCCCC---UUCUAGCC--CCCUUGAAUAAAAAAACUAAAAUGGAAAAA----AAAUAAAAA-----
.........(((((((((...))).))))))....---(((((...--......................)))))...----.........----- (  -8.71)
>consensus
AAUGAAAAUGAAGUUGCCUUGGGCAACUUUCCCCC___UUCUAGCC__CCCUU_AAUAAAAAAUAAGAAAUAAAAAAGGAAAACCCAAAAA_____
.........(((((((((...))))))))).................................................................. ( -8.62 =  -9.12 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 981,518 – 981,613
Length 95
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 84.35
Mean single sequence MFE -23.00
Consensus MFE -14.35
Energy contribution -14.97
Covariance contribution 0.62
Combinations/Pair 1.12
Mean z-score -3.15
Structure conservation index 0.62
SVM decision value 1.51
SVM RNA-class probability 0.960454
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 981518 95 - 22224390
UUUUGUUUUUGGGUUUUCCUUUUUUAUUUCUUAUUUUUUAUU-AAGGGGGGGCUAGAAGGAGGGGGAAAGUUGCCCAAGGCAACUUCAUUUUCAUU
..((.(((((((.((..((((.....................-))))..)).))))))).))(..((((((((((...))))))))..))..)... ( -24.70)
>DroSec_CAF1 64273 85 - 1
-----UUUUUGGGUUUUCCUUUUUUAUUUCUUAUUUUUUAUU-AAGGG--GGCCAGAA---GGGGGAAAGUUGCCCAAGGCAACUUAAUUUUCAUU
-----....((((((..((((((...(..((((........)-)))..--)...))))---))..))((((((((...))))))))....)))).. ( -24.30)
>DroSim_CAF1 43495 85 - 1
-----UUUUUGGGUUUUCCUUUUUUAUUUCUUAUUUUUUAUU-AAGGG--GGCCAGAA---GGGGGAAAGUUGCCCAAGGCAACUUCAUUUUCAUU
-----....((((((..((((((...(..((((........)-)))..--)...))))---))..))((((((((...))))))))....)))).. ( -23.70)
>DroYak_CAF1 69827 82 - 1
-----UUUUUAUUU----UUUUUCCAUUUUAGUUUUUUUAUUCAAGGG--GGCUAGAA---GGGGGAAAGUUGCCCAAGGCACCUUCAUUUUCAUU
-----.......((----(((..((.(((((((((((((....)))))--))))))))---))..))))).((((...)))).............. ( -19.30)
>consensus
_____UUUUUGGGUUUUCCUUUUUUAUUUCUUAUUUUUUAUU_AAGGG__GGCCAGAA___GGGGGAAAGUUGCCCAAGGCAACUUCAUUUUCAUU
......((((((.(..(((((...((............))...)))))..).))))))....(..((((((((((...))))))))..))..)... (-14.35 = -14.97 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:15 2006