Locus 481

Sequence ID X_DroMel_CAF1
Location 1,405,645 – 1,405,742
Length 97
Max. P 0.961942
window742 window743

overview

Window 2

Location 1,405,645 – 1,405,742
Length 97
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 87.74
Mean single sequence MFE -23.16
Consensus MFE -16.97
Energy contribution -17.84
Covariance contribution 0.88
Combinations/Pair 1.10
Mean z-score -3.06
Structure conservation index 0.73
SVM decision value 1.53
SVM RNA-class probability 0.961942
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1405645 97 + 22224390
CACAUUCACAGCCACAGCCACAUCCACAGCCAUAUCCAC------------AUCCACGGCUGUGUGUGUGCAUCUUUUUGCUUUCGUUUUAGAAAACUCACGGCUCGCA
..........((...(((((((..(((((((........------------......)))))))..)))(((......)))((((......))))......)))).)). ( -26.64)
>DroSec_CAF1 11073 103 + 1
CACAUCUACAGCCACAUCCACAUUCACAGCCAUAUCCAC------AUCCACAUCCACGGCUGUGUGUGUGCAUCUUUUUGCUUUCGUUUUAGAAAACUCACGGUUCGCA
.........((((.....(((((.(((((((........------............))))))).)))))...........((((......))))......)))).... ( -21.95)
>DroSim_CAF1 8273 103 + 1
CACAUCCACGGCCACAUCCACAUUCACAGCCAUAUCCAC------AUCCACAUCCACGGCUGUGUGUGUGCAUCUUUUUGCUUUCGUUUUAGAAAACUCACGGCUCGCA
........(((((.....(((((.(((((((........------............))))))).)))))...........((((......))))......))).)).. ( -25.15)
>DroEre_CAF1 7507 107 + 1
CAUAUCCACAGCAACAUCCACAUCCACAUCCACAUCCACGUCCACGUCCACAUCCACAGCU--GUGUGUGCAUCUUUUUGCUUUCGUUUUAGAAAACUCACGGCUCGCA
..........((.........................(((....)))..........((((--(((.(((((......)))((((......)))))).))))))).)). ( -18.90)
>consensus
CACAUCCACAGCCACAUCCACAUCCACAGCCAUAUCCAC______AUCCACAUCCACGGCUGUGUGUGUGCAUCUUUUUGCUUUCGUUUUAGAAAACUCACGGCUCGCA
.........((((.....(((((.(((((((..........................))))))).)))))...........((((......))))......)))).... (-16.97 = -17.84 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 1,405,645 – 1,405,742
Length 97
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 87.74
Mean single sequence MFE -30.50
Consensus MFE -24.12
Energy contribution -24.88
Covariance contribution 0.75
Combinations/Pair 1.13
Mean z-score -1.88
Structure conservation index 0.79
SVM decision value 0.71
SVM RNA-class probability 0.829573
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1405645 97 - 22224390
UGCGAGCCGUGAGUUUUCUAAAACGAAAGCAAAAAGAUGCACACACACAGCCGUGGAU------------GUGGAUAUGGCUGUGGAUGUGGCUGUGGCUGUGAAUGUG
.((.(((((...((((((......)))))).........((((..((((((((((...------------.....))))))))))..))))....)))))))....... ( -34.60)
>DroSec_CAF1 11073 103 - 1
UGCGAACCGUGAGUUUUCUAAAACGAAAGCAAAAAGAUGCACACACACAGCCGUGGAUGUGGAU------GUGGAUAUGGCUGUGAAUGUGGAUGUGGCUGUAGAUGUG
((((..((....((((((......))))))....(.((.((((..((((((((((..(......------..)..))))))))))..)))).)).))).))))...... ( -29.00)
>DroSim_CAF1 8273 103 - 1
UGCGAGCCGUGAGUUUUCUAAAACGAAAGCAAAAAGAUGCACACACACAGCCGUGGAUGUGGAU------GUGGAUAUGGCUGUGAAUGUGGAUGUGGCCGUGGAUGUG
.(((.(((....((((((......))))))....(.((.((((..((((((((((..(......------..)..))))))))))..)))).)).)))))))....... ( -35.10)
>DroEre_CAF1 7507 107 - 1
UGCGAGCCGUGAGUUUUCUAAAACGAAAGCAAAAAGAUGCACACAC--AGCUGUGGAUGUGGACGUGGACGUGGAUGUGGAUGUGGAUGUGGAUGUUGCUGUGGAUAUG
.((((.((....((((((......))))))....(.((.(((((((--(.(..((.(((....)))...))..).))))..)))).)).)))...)))).......... ( -23.30)
>consensus
UGCGAGCCGUGAGUUUUCUAAAACGAAAGCAAAAAGAUGCACACACACAGCCGUGGAUGUGGAU______GUGGAUAUGGCUGUGAAUGUGGAUGUGGCUGUGGAUGUG
((((.((((...((((((......))))))......((.((((..((((((((((....................))))))))))..)))).)).))))))))...... (-24.12 = -24.88 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:39 2006