Locus 1270

Sequence ID X_DroMel_CAF1
Location 3,799,821 – 3,799,930
Length 109
Max. P 0.963808
window2037 window2038

overview

Window 7

Location 3,799,821 – 3,799,930
Length 109
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 86.79
Mean single sequence MFE -24.07
Consensus MFE -19.83
Energy contribution -20.17
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.15
Structure conservation index 0.82
SVM decision value 1.56
SVM RNA-class probability 0.963808
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3799821 109 + 22224390
AAGAAAACACAAAAAAAAAAAGGAACGAAAAAACCUUUACUAGAAGCAAAACAAACGCGUGUUGUUCAUGGUUUACACUGCACCCGUGGAUCCAU-AGAUUUGGAUCCAU
..................(((((..........))))).......(((....((((.((((.....))))))))....)))....(((((((((.-.....))))))))) ( -23.90)
>DroSec_CAF1 4953 97 + 1
AA------------A-AAAAAAGAGCGAAAAAAUCUUUACUAGAAGCAAAACAAACGCGUGUUGUUCAUGGUUUACACUGCACCCGCGGAUCCAUUAGAUAUGGAUCCAU
..------------.-........(((......(((.....))).(((....((((.((((.....))))))))....)))...)))((((((((.....)))))))).. ( -25.70)
>DroSim_CAF1 5743 96 + 1
AA------------AAAAAAAAGAACGAAA-AACCUUUACUAG-AGCAAAACAAACGCGUGUUGUUCAUGGUUUACACUGCACCCGCGGAUCCAUUAGAUAUGGAUCCAU
..------------...............(-((((.......(-(((((.((......)).))))))..))))).....((....))((((((((.....)))))))).. ( -22.60)
>consensus
AA____________AAAAAAAAGAACGAAAAAACCUUUACUAGAAGCAAAACAAACGCGUGUUGUUCAUGGUUUACACUGCACCCGCGGAUCCAUUAGAUAUGGAUCCAU
.............................................(((....((((.((((.....))))))))....)))......((((((((.....)))))))).. (-19.83 = -20.17 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 3,799,821 – 3,799,930
Length 109
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 86.79
Mean single sequence MFE -23.73
Consensus MFE -22.05
Energy contribution -22.17
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -1.67
Structure conservation index 0.93
SVM decision value 0.86
SVM RNA-class probability 0.869669
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3799821 109 - 22224390
AUGGAUCCAAAUCU-AUGGAUCCACGGGUGCAGUGUAAACCAUGAACAACACGCGUUUGUUUUGCUUCUAGUAAAGGUUUUUUCGUUCCUUUUUUUUUUUGUGUUUUCUU
.((((((((.....-.))))))))..(((.........)))..(((.((((((((.......))).......(((((..........)))))........)))))))).. ( -23.70)
>DroSec_CAF1 4953 97 - 1
AUGGAUCCAUAUCUAAUGGAUCCGCGGGUGCAGUGUAAACCAUGAACAACACGCGUUUGUUUUGCUUCUAGUAAAGAUUUUUUCGCUCUUUUUU-U------------UU
..((((((((.....))))))))(((((.((((..((((((.((.....)).).)))))..)))).(((.....)))....)))))........-.------------.. ( -24.20)
>DroSim_CAF1 5743 96 - 1
AUGGAUCCAUAUCUAAUGGAUCCGCGGGUGCAGUGUAAACCAUGAACAACACGCGUUUGUUUUGCU-CUAGUAAAGGUU-UUUCGUUCUUUUUUUU------------UU
..((((((((.....))))))))((.((.((((..((((((.((.....)).).)))))..)))).-)).))(((((..-......))))).....------------.. ( -23.30)
>consensus
AUGGAUCCAUAUCUAAUGGAUCCGCGGGUGCAGUGUAAACCAUGAACAACACGCGUUUGUUUUGCUUCUAGUAAAGGUUUUUUCGUUCUUUUUUUU____________UU
..((((((((.....))))))))(((..(((.((((............)))))))..)))(((((.....)))))................................... (-22.05 = -22.17 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:26 2006