Locus 1966

Sequence ID 3L_DroMel_CAF1
Location 5,445,835 – 5,445,950
Length 115
Max. P 0.984239
window3076 window3077

overview

Window 6

Location 5,445,835 – 5,445,950
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.47
Mean single sequence MFE -23.91
Consensus MFE -20.26
Energy contribution -20.26
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.85
SVM decision value 0.10
SVM RNA-class probability 0.584951
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5445835 115 + 23771897
CUCGGCAUUAACAGGCCAACAAACU----UGCCUUGCACAAAGUGAACAUUCAGCAGAAAUCUUUAAG-AGCCAAUUAGCCAAAUGUAUCACAUGCUCAAAGUUCACAUUGCGCAUUGGA
...(((........)))........----..((.(((.(((.((((((.((.((((............-.((......)).............)))).)).)))))).))).)))..)). ( -26.27)
>DroSec_CAF1 7399 104 + 1
C----------------AGCAAAUUUGCAUGCCUGGCACAAAGUGAACAUUCAGCAGAAAUCUUUAAGUAGCCAAUUAGCCAAAUGUAUCCCAUGCUCAAAGUUCACAUUGCGCAUUGGA
.----------------.(((....)))...((..((.(((.((((((.((.((((..............((......)).............)))).)).)))))).))).))...)). ( -22.73)
>DroSim_CAF1 7454 104 + 1
C----------------AGCAAAUUUGCAUGCCUGGCACAAAGUGAACAUUCAGCAGAAAUCUUUAAGUAGCCAAUUAGCCAAAUGUAUCCCAUGCUCAAAGUUCACAUUGCGCAUUGGA
.----------------.(((....)))...((..((.(((.((((((.((.((((..............((......)).............)))).)).)))))).))).))...)). ( -22.73)
>consensus
C________________AGCAAAUUUGCAUGCCUGGCACAAAGUGAACAUUCAGCAGAAAUCUUUAAGUAGCCAAUUAGCCAAAUGUAUCCCAUGCUCAAAGUUCACAUUGCGCAUUGGA
...............................((..((.(((.((((((.((.((((..............((......)).............)))).)).)))))).))).))...)). (-20.26 = -20.26 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 5,445,835 – 5,445,950
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.47
Mean single sequence MFE -33.44
Consensus MFE -30.52
Energy contribution -30.97
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.64
Structure conservation index 0.91
SVM decision value 1.97
SVM RNA-class probability 0.984239
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5445835 115 - 23771897
UCCAAUGCGCAAUGUGAACUUUGAGCAUGUGAUACAUUUGGCUAAUUGGCU-CUUAAAGAUUUCUGCUGAAUGUUCACUUUGUGCAAGGCA----AGUUUGUUGGCCUGUUAAUGCCGAG
.....(((((((.((((((.((.((((.(.(((......((((....))))-.......))).))))).)).)))))).))))))).....----......(((((........))))). ( -33.12)
>DroSec_CAF1 7399 104 - 1
UCCAAUGCGCAAUGUGAACUUUGAGCAUGGGAUACAUUUGGCUAAUUGGCUACUUAAAGAUUUCUGCUGAAUGUUCACUUUGUGCCAGGCAUGCAAAUUUGCU----------------G
......((((((.((((((.((.((((.(..((.....(((((....))))).......))..))))).)).)))))).))))))..((((........))))----------------. ( -33.60)
>DroSim_CAF1 7454 104 - 1
UCCAAUGCGCAAUGUGAACUUUGAGCAUGGGAUACAUUUGGCUAAUUGGCUACUUAAAGAUUUCUGCUGAAUGUUCACUUUGUGCCAGGCAUGCAAAUUUGCU----------------G
......((((((.((((((.((.((((.(..((.....(((((....))))).......))..))))).)).)))))).))))))..((((........))))----------------. ( -33.60)
>consensus
UCCAAUGCGCAAUGUGAACUUUGAGCAUGGGAUACAUUUGGCUAAUUGGCUACUUAAAGAUUUCUGCUGAAUGUUCACUUUGUGCCAGGCAUGCAAAUUUGCU________________G
......((((((.((((((.((.((((.(((((.....(((((....))))).......))))))))).)).)))))).))))))..((((........))))................. (-30.52 = -30.97 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:17 2006