Locus 7460

Sequence ID 2L_DroMel_CAF1
Location 20,700,471 – 20,700,586
Length 115
Max. P 0.999917
window11994 window11995

overview

Window 4

Location 20,700,471 – 20,700,586
Length 115
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 73.11
Mean single sequence MFE -27.33
Consensus MFE -18.87
Energy contribution -20.32
Covariance contribution 1.45
Combinations/Pair 1.05
Mean z-score -1.74
Structure conservation index 0.69
SVM decision value 1.95
SVM RNA-class probability 0.983550
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20700471 115 + 22407834
UUUGGCAAUGCGCGCUGCACAUUGCGUAUACGCCGCGUGUGCUAUUAGCGAAUUAGAAGAAAACACCACAGCGGCGUUUGAGUU-UGGAAAAUACAAAAAAACAAAAAACGAAAAA
((((((((((.((...)).))))))......(((((((((.((.((((....)))).))...))))....)))))((((...((-((.......)))).))))......))))... ( -28.20)
>DroEre_CAF1 20293 87 + 1
UUUGGCAAUGGGCGCUGCACAUUGCGUAUACGACGCGUGUGCGAUUAGCGGAUCAGAAGAAGACGCCACAGCGG-------------AAAAAAGAAAAC----------------A
(((.((....((((((((((((.((((.....))))))))))((((....))))......)).))))...)).)-------------))..........----------------. ( -27.30)
>DroYak_CAF1 23596 100 + 1
UUUGGCAAUGGGCGCUGCACAUUGCGUAUACGCCGCGUGUGCUCUUAGUGAAUUAGAAGAAAACACCACAGCGGCGUUUGAGUUUUGGGAAAUAUAAAA----------------A
....((((((.((...)).)))))).((.(((((((((((..((((..........))))..))))....))))))).))...................----------------. ( -26.50)
>consensus
UUUGGCAAUGGGCGCUGCACAUUGCGUAUACGCCGCGUGUGCUAUUAGCGAAUUAGAAGAAAACACCACAGCGGCGUUUGAGUU_UGGAAAAUAAAAAA________________A
....((((((.((...)).))))))....(((((((.((((......(((.............))))))))))))))....................................... (-18.87 = -20.32 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,700,471 – 20,700,586
Length 115
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 73.11
Mean single sequence MFE -27.21
Consensus MFE -20.96
Energy contribution -21.63
Covariance contribution 0.67
Combinations/Pair 1.12
Mean z-score -2.44
Structure conservation index 0.77
SVM decision value 4.54
SVM RNA-class probability 0.999917
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20700471 115 - 22407834
UUUUUCGUUUUUUGUUUUUUUGUAUUUUCCA-AACUCAAACGCCGCUGUGGUGUUUUCUUCUAAUUCGCUAAUAGCACACGCGGCGUAUACGCAAUGUGCAGCGCGCAUUGCCAAA
...............................-.......(((((((((((.((((..(.........)..)))).)))).)))))))....(((((((((...))))))))).... ( -32.80)
>DroEre_CAF1 20293 87 - 1
U----------------GUUUUCUUUUUU-------------CCGCUGUGGCGUCUUCUUCUGAUCCGCUAAUCGCACACGCGUCGUAUACGCAAUGUGCAGCGCCCAUUGCCAAA
.----------------............-------------.((((((((.(((.......))))))).....(((((.((((.....))))..)))))))))............ ( -21.60)
>DroYak_CAF1 23596 100 - 1
U----------------UUUUAUAUUUCCCAAAACUCAAACGCCGCUGUGGUGUUUUCUUCUAAUUCACUAAGAGCACACGCGGCGUAUACGCAAUGUGCAGCGCCCAUUGCCAAA
.----------------......................(((((((.(((.((((((..............))))))))))))))))....((((((.((...)).)))))).... ( -27.24)
>consensus
U________________UUUUAUAUUUUCCA_AACUCAAACGCCGCUGUGGUGUUUUCUUCUAAUUCGCUAAUAGCACACGCGGCGUAUACGCAAUGUGCAGCGCCCAUUGCCAAA
.......................................((((((((((((((..((.....))..)))......)))).)))))))....((((((.((...)).)))))).... (-20.96 = -21.63 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:26 2006