Locus 3992

Sequence ID 2L_DroMel_CAF1
Location 11,626,908 – 11,627,055
Length 147
Max. P 0.604766
window6296 window6297

overview

Window 6

Location 11,626,908 – 11,627,026
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.53
Mean single sequence MFE -21.26
Consensus MFE -13.54
Energy contribution -14.23
Covariance contribution 0.70
Combinations/Pair 1.26
Mean z-score -1.56
Structure conservation index 0.64
SVM decision value 0.14
SVM RNA-class probability 0.604766
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11626908 118 - 22407834
UGCUAUACUUCAACACAUCUAGCUAAGCAUUCCCUCCAUUUUCAAAUGGACGUUUUUGCGUUGCCUACUUAGCGGCGCAUUUGCAUUUCCCUCGCCAUUCUUCGUUAGUC--CGGCAUUA
.((((..............))))...(((.....((((((....))))))......((((((((.......))))))))..))).........(((...((.....))..--.))).... ( -24.94)
>DroSec_CAF1 80258 120 - 1
UCCUAUAUUCCAACACAUCUAGCUAAGCAUUCCCUCCAUUUUCAAAUGGACGUUUUUGCGUUGCCUACUUAGCGGCGCAUUUGCAUUUCCCUCUCCAUUCUUCGUUAGUCCCCGGCAUUA
.........((.......(((((.(((.......((((((....)))))).((...((((((((.......))))))))...))...............))).))))).....))..... ( -23.00)
>DroSim_CAF1 84030 118 - 1
UUCUAUAUUCCAACACAUCUAGCUAAGCAUUGCCUCCAUUUUCAAAUGGACGUUUUUGCGUUGCCUACUUAGCGGCGCAUUUGCAUUUCCCUCUCCAUUCUUCGUUAGUC--CGGCAUUA
..............................((((((((((....)))))).((...((((((((.......))))))))...))..........................--.))))... ( -23.90)
>DroEre_CAF1 110571 110 - 1
UUCUGUGUUCCAACACAUCCAGCUUAGCAUUCCCUCCAGUUUCAAAUGGACGUUUUUGCGUUGCCUACUUAGCGGCGCAUUUGCAUAUCCCUCUCCAUUCUUCGUUAGUC----------
...(((((....)))))......(((((......((((........)))).((...((((((((.......))))))))...))...................)))))..---------- ( -22.80)
>DroYak_CAF1 83654 110 - 1
UUUUAUAUUCCAACACAAAAAGCUAAGCAAUCCCUCCAGCUUCAAAUGGACGUUUUUGCGUUGCCUACUUAGCGGCGCAUUUGCAUUUUCCUCGCCAUUCUUCGUUAGUC----------
.....................(((((........((((........)))).((...((((((((.......))))))))...))....................))))).---------- ( -19.30)
>DroAna_CAF1 93823 105 - 1
UUUAAUAUUCCAGCACAU------------U-CCAUCAACUUCAGUUAGAAUUUUUUCCGCUGCCUACUUAGCAACGCAUUUGCAUUUCCCAUGCCAGUCGUCCUUAUCC--CGGCUUUA
...........(((....------------.-.....(((....))).(((....))).)))(((....(((..(((.(((.((((.....)))).))))))..)))...--.))).... ( -13.60)
>consensus
UUCUAUAUUCCAACACAUCUAGCUAAGCAUUCCCUCCAUUUUCAAAUGGACGUUUUUGCGUUGCCUACUUAGCGGCGCAUUUGCAUUUCCCUCGCCAUUCUUCGUUAGUC__CGGCAUUA
...........(((....................((((((....)))))).((...((((((((.......))))))))...))...................))).............. (-13.54 = -14.23 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 11,626,946 – 11,627,055
Length 109
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 92.66
Mean single sequence MFE -19.38
Consensus MFE -14.95
Energy contribution -15.20
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.80
Structure conservation index 0.77
SVM decision value 0.10
SVM RNA-class probability 0.582408
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11626946 109 - 22407834
CACCUCGUUCAUUUCUGAUUUAAUUUCUUUGCUAUACUUCAACACAUCUAGCUAAGCAUUCCCUCCAUUUUCAAAUGGACGUUUUUGCGUUGCCUACUUAGCGGCGCAU
.....((((((((..(((...........((((...((...........))...))))............)))))))))))....((((((((.......)))))))). ( -21.30)
>DroSec_CAF1 80298 109 - 1
UACAUCAUUCUUCUCUGAUUUAAUUUCUUUCCUAUAUUCCAACACAUCUAGCUAAGCAUUCCCUCCAUUUUCAAAUGGACGUUUUUGCGUUGCCUACUUAGCGGCGCAU
...((((........))))............................................((((((....))))))......((((((((.......)))))))). ( -15.90)
>DroSim_CAF1 84068 109 - 1
CACAUCGUUCAUCUCUGAUUUAAUUUCUUUUCUAUAUUCCAACACAUCUAGCUAAGCAUUGCCUCCAUUUUCAAAUGGACGUUUUUGCGUUGCCUACUUAGCGGCGCAU
..................................................((...(((..((.((((((....)))))).))...)))(((((.......))))))).. ( -18.10)
>DroEre_CAF1 110601 109 - 1
CACCUCGUUCAUCUCUGAUUUAAUUUAUUUUCUGUGUUCCAACACAUCCAGCUUAGCAUUCCCUCCAGUUUCAAAUGGACGUUUUUGCGUUGCCUACUUAGCGGCGCAU
.....(((((((..(((...............(((((....)))))....((...))........)))......)))))))....((((((((.......)))))))). ( -22.20)
>consensus
CACAUCGUUCAUCUCUGAUUUAAUUUCUUUUCUAUAUUCCAACACAUCUAGCUAAGCAUUCCCUCCAUUUUCAAAUGGACGUUUUUGCGUUGCCUACUUAGCGGCGCAU
...............................................................((((((....))))))......((((((((.......)))))))). (-14.95 = -15.20 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:41 2006