Locus 7380

Sequence ID X_DroMel_CAF1
Location 18,376,869 – 18,376,961
Length 92
Max. P 0.755709
window12099 window12100

overview

Window 9

Location 18,376,869 – 18,376,961
Length 92
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 63.55
Mean single sequence MFE -21.50
Consensus MFE -10.23
Energy contribution -9.91
Covariance contribution -0.33
Combinations/Pair 1.16
Mean z-score -1.62
Structure conservation index 0.48
SVM decision value -0.02
SVM RNA-class probability 0.521131
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18376869 92 + 22224390
UUCAAUUGAAAAUUCGCUUAACGCAACAGUUGCAAGC-------------------------AAGCAGCUAAUGCA---ACGACAAUUGGCACAAAUCGCAGGUUUUGAUUGCGUUAAUU
.................((((((((((((((((((((-------------------------.....)))..))))---))...(((..((.......))..))).)).))))))))).. ( -22.10)
>DroAna_CAF1 25454 75 + 1
UUCAAUUGAAAUUUCGUUUUAUGCAACAGUUGCA---------------------------------------------ACAACAAUUGCCACAAACUGUACAAUUUGAUUGCGUUAAUU
..((((..((.....((.....)).(((((((((---------------------------------------------(......))))....))))))....))..))))........ ( -11.10)
>DroYak_CAF1 20439 120 + 1
UUCAAUUGAAAUUUCGCUUAACGCAACGGUUGCAAGCGGCUAAAGCAGCAAAAAGCUACAAAAAGCAGCUAAUGCACUAGCGACAAUUGGCACAAAGCGCAGGAUUUGAUUGUGUUAAUU
.(((((((.....(((((....(((..((((((..((.......))(((.....))).......))))))..)))...)))))))))))).....(((((((.......))))))).... ( -31.30)
>consensus
UUCAAUUGAAAUUUCGCUUAACGCAACAGUUGCAAGC_________________________AAGCAGCUAAUGCA___ACGACAAUUGGCACAAACCGCAGGAUUUGAUUGCGUUAAUU
.................(((((((((((((((...................................................))))))...((((........)))).))))))))).. (-10.23 =  -9.91 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 18,376,869 – 18,376,961
Length 92
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 63.55
Mean single sequence MFE -22.77
Consensus MFE -10.79
Energy contribution -9.94
Covariance contribution -0.85
Combinations/Pair 1.23
Mean z-score -1.77
Structure conservation index 0.47
SVM decision value 0.49
SVM RNA-class probability 0.755709
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18376869 92 - 22224390
AAUUAACGCAAUCAAAACCUGCGAUUUGUGCCAAUUGUCGU---UGCAUUAGCUGCUU-------------------------GCUUGCAACUGUUGCGUUAAGCGAAUUUUCAAUUGAA
..((((((((((........((((((......)))))).((---((((..(((.....-------------------------))))))))).))))))))))................. ( -23.30)
>DroAna_CAF1 25454 75 - 1
AAUUAACGCAAUCAAAUUGUACAGUUUGUGGCAAUUGUUGU---------------------------------------------UGCAACUGUUGCAUAAAACGAAAUUUCAAUUGAA
...........((((..(((((((((.(..(((.....)))---------------------------------------------..)))))).))))......((....))..)))). ( -14.20)
>DroYak_CAF1 20439 120 - 1
AAUUAACACAAUCAAAUCCUGCGCUUUGUGCCAAUUGUCGCUAGUGCAUUAGCUGCUUUUUGUAGCUUUUUGCUGCUUUAGCCGCUUGCAACCGUUGCGUUAAGCGAAAUUUCAAUUGAA
........((((..((.....(((((..(((.(((.((.((.((((((..((((((.....))))))...))).((....)).))).)).)).))))))..)))))....))..)))).. ( -30.80)
>consensus
AAUUAACGCAAUCAAAUCCUGCGAUUUGUGCCAAUUGUCGU___UGCAUUAGCUGCUU_________________________GCUUGCAACUGUUGCGUUAAGCGAAAUUUCAAUUGAA
......(((((..............))))).((((((((((....(((.....)))..............................((((.....))))....)))).....)))))).. (-10.79 =  -9.94 +  -0.85)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:31 2006