Locus 2244

Sequence ID X_DroMel_CAF1
Location 6,058,871 – 6,058,976
Length 105
Max. P 0.996065
window3634 window3635

overview

Window 4

Location 6,058,871 – 6,058,976
Length 105
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.49
Mean single sequence MFE -23.93
Consensus MFE -15.20
Energy contribution -16.53
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -1.57
Structure conservation index 0.64
SVM decision value 0.08
SVM RNA-class probability 0.572528
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6058871 105 + 22224390
--------AUUUGA-GAUUUUACUCCGCUUUUUCGCGUGUAACUGUUAGUUUUCAGUUACUGGCACUUUUUUUUUUUGUCGAUGGUGUAACCACUUGUGGUUAUAUAGCCUG------UU
--------....((-(......)))(((......))).(((((((........))))))).(((((...........)).....(((((((((....))))))))).)))..------.. ( -24.40)
>DroSec_CAF1 70069 111 + 1
--------AUUAGA-GAUUUUACUCAGCUUUUCCGCGUGUAACUGUUAGUUUUCAGUUAGUGGCACCAUUUUUUUUUGUCGGUGGUGUAACCACUUGUGGUUAUAUAGCCUGUUGCUGUU
--------......-.........((((....((((...((((((........)))))))))).................(((.(((((((((....))))))))).)))....)))).. ( -28.50)
>DroYak_CAF1 70201 115 + 1
CCAUACAUAUUUAAUCAAUUAAAUCUAUUUUUUUGCGUGUAUCUACUAGUUUUCAGUUACUGGCA-----UUUUUUUGUCGAUGGUGUAACCACUUGUGGUUAGAAAGCCUGUUGCUGUU
..((((((((((((....))))))............))))))...........((((.(((((((-----......)))))..(((.((((((....))))))....))).)).)))).. ( -18.90)
>consensus
________AUUUGA_GAUUUUACUCAGCUUUUUCGCGUGUAACUGUUAGUUUUCAGUUACUGGCAC__UUUUUUUUUGUCGAUGGUGUAACCACUUGUGGUUAUAUAGCCUGUUGCUGUU
..................................((..(((((((........)))))))..))...................((((((((((....)))))))...))).......... (-15.20 = -16.53 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 6,058,871 – 6,058,976
Length 105
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.49
Mean single sequence MFE -20.71
Consensus MFE -13.39
Energy contribution -13.83
Covariance contribution 0.45
Combinations/Pair 1.06
Mean z-score -2.65
Structure conservation index 0.65
SVM decision value 2.65
SVM RNA-class probability 0.996065
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6058871 105 - 22224390
AA------CAGGCUAUAUAACCACAAGUGGUUACACCAUCGACAAAAAAAAAAAGUGCCAGUAACUGAAAACUAACAGUUACACGCGAAAAAGCGGAGUAAAAUC-UCAAAU--------
..------..(((....((((((....))))))(......)...............))).(((((((........))))))).(((......)))(((......)-))....-------- ( -23.80)
>DroSec_CAF1 70069 111 - 1
AACAGCAACAGGCUAUAUAACCACAAGUGGUUACACCACCGACAAAAAAAAAUGGUGCCACUAACUGAAAACUAACAGUUACACGCGGAAAAGCUGAGUAAAAUC-UCUAAU--------
..((((....(((....((((((....)))))).((((..............)))))))..((((((........))))))...........)))).........-......-------- ( -23.24)
>DroYak_CAF1 70201 115 - 1
AACAGCAACAGGCUUUCUAACCACAAGUGGUUACACCAUCGACAAAAAAA-----UGCCAGUAACUGAAAACUAGUAGAUACACGCAAAAAAAUAGAUUUAAUUGAUUAAAUAUGUAUGG
...(((.....)))...((((((....))))))..((((..(((......-----(((..(((.(((........))).)))..))).........((((((....)))))).))))))) ( -15.10)
>consensus
AACAGCAACAGGCUAUAUAACCACAAGUGGUUACACCAUCGACAAAAAAAAA__GUGCCAGUAACUGAAAACUAACAGUUACACGCGAAAAAGCAGAGUAAAAUC_UCAAAU________
..........(((....((((((....))))))(......)...............))).(((((((........)))))))...................................... (-13.39 = -13.83 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:37 2006