Locus 6336

Sequence ID 2L_DroMel_CAF1
Location 17,690,039 – 17,690,159
Length 120
Max. P 0.993722
window10128 window10129

overview

Window 8

Location 17,690,039 – 17,690,159
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.97
Mean single sequence MFE -24.02
Consensus MFE -17.75
Energy contribution -17.62
Covariance contribution -0.13
Combinations/Pair 1.04
Mean z-score -2.92
Structure conservation index 0.74
SVM decision value 0.86
SVM RNA-class probability 0.868287
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17690039 120 + 22407834
AUUAAUACUUUUCCUUUACUGGGUGUAAUUUAAUAGCACCUUUUCAAAAAUUGAAAAAUAUGCUAAACUUGCUCAUGGAAUUUGAAAAAUGUAAAUUAACAAAUUCCUUGCAGCGAAAAG
.....(((...(((......))).)))......(((((..((((((.....))))))...)))))...(((((((.((((((((...(((....)))..)))))))).)).))))).... ( -25.80)
>DroSec_CAF1 80858 120 + 1
AUUAAUACUUUUCCUUUUCAGGCUCUAAUUUAAUAGCACCUUCUAAAAAAUUCAAAAAUAUGCUAAACUUGCUCAUGGAAUUUGAAAAAUUUAAAUUAACAAAUUCCUUGUAGCGAAAAG
.............(((((((((..(((......)))..))).............................(((((.((((((((...............)))))))).)).))))))))) ( -20.06)
>DroSim_CAF1 63417 120 + 1
AUUAAUACUUUUCCUUUUCAGGCUGUAAUUUAAUAGCACCUUCUAAAAAUUUCAAAAAUAUGCUAAACUUGCUCAUGGAAUUUGAAAAAUUUAAAUUAACAAAUUCCUUGCAGCGAAAAG
.............((((((..(((((......))))).................................(((((.((((((((...............)))))))).)).))))))))) ( -22.16)
>DroYak_CAF1 84634 119 + 1
AUUAACACUUUUCCUUUUCAGGGUGUAAUUAAAUAGCUCCUUACAA-AAAUUUAAAAAUAUGCUAAAUUUGCUGGUGGAAUUUGAAAAAUUUAAAUUAACAAAUUCCACGCAGCGAAAAG
....(((((((........))))))).......((((.........-..............))))..(((((((((((((((((...............)))))))))).)))))))... ( -28.06)
>consensus
AUUAAUACUUUUCCUUUUCAGGCUGUAAUUUAAUAGCACCUUCUAAAAAAUUCAAAAAUAUGCUAAACUUGCUCAUGGAAUUUGAAAAAUUUAAAUUAACAAAUUCCUUGCAGCGAAAAG
.......((((((....................((((........................)))).....(((((.((((((((...............)))))))).)).))))))))) (-17.75 = -17.62 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 17,690,039 – 17,690,159
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 90.97
Mean single sequence MFE -29.27
Consensus MFE -25.59
Energy contribution -25.15
Covariance contribution -0.44
Combinations/Pair 1.15
Mean z-score -3.34
Structure conservation index 0.87
SVM decision value 2.42
SVM RNA-class probability 0.993722
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17690039 120 - 22407834
CUUUUCGCUGCAAGGAAUUUGUUAAUUUACAUUUUUCAAAUUCCAUGAGCAAGUUUAGCAUAUUUUUCAAUUUUUGAAAAGGUGCUAUUAAAUUACACCCAGUAAAGGAAAAGUAUUAAU
(((((((((.((.((((((((..((.......))..)))))))).))))).....((((((.(((((((.....))))))))))))).....((((.....))))..))))))....... ( -29.70)
>DroSec_CAF1 80858 120 - 1
CUUUUCGCUACAAGGAAUUUGUUAAUUUAAAUUUUUCAAAUUCCAUGAGCAAGUUUAGCAUAUUUUUGAAUUUUUUAGAAGGUGCUAUUAAAUUAGAGCCUGAAAAGGAAAAGUAUUAAU
(((((((((.((.((((((((..((.......))..)))))))).))))).....((((((.(((((((.....)))))))))))))..............))))))............. ( -27.80)
>DroSim_CAF1 63417 120 - 1
CUUUUCGCUGCAAGGAAUUUGUUAAUUUAAAUUUUUCAAAUUCCAUGAGCAAGUUUAGCAUAUUUUUGAAAUUUUUAGAAGGUGCUAUUAAAUUACAGCCUGAAAAGGAAAAGUAUUAAU
((((((((((((.((((((((..((.......))..)))))))).))........((((((.(((((((.....)))))))))))))........))))((....))))))))....... ( -28.30)
>DroYak_CAF1 84634 119 - 1
CUUUUCGCUGCGUGGAAUUUGUUAAUUUAAAUUUUUCAAAUUCCACCAGCAAAUUUAGCAUAUUUUUAAAUUU-UUGUAAGGAGCUAUUUAAUUACACCCUGAAAAGGAAAAGUGUUAAU
......((((.((((((((((..((.......))..))))))))))))))....(((((((............-.(((((..((....))..))))).(((....)))....))))))). ( -31.30)
>consensus
CUUUUCGCUGCAAGGAAUUUGUUAAUUUAAAUUUUUCAAAUUCCAUGAGCAAGUUUAGCAUAUUUUUGAAUUUUUUAGAAGGUGCUAUUAAAUUACACCCUGAAAAGGAAAAGUAUUAAU
(((((((((.((.((((((((..((.......))..)))))))).))))).....((((((.(((((((.....)))))))))))))....................))))))....... (-25.59 = -25.15 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:39 2006