Locus 7129

Sequence ID 2L_DroMel_CAF1
Location 19,983,018 – 19,983,108
Length 90
Max. P 0.822017
window11379 window11380

overview

Window 9

Location 19,983,018 – 19,983,108
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 86.98
Mean single sequence MFE -19.08
Consensus MFE -13.74
Energy contribution -14.34
Covariance contribution 0.60
Combinations/Pair 1.12
Mean z-score -1.65
Structure conservation index 0.72
SVM decision value 0.04
SVM RNA-class probability 0.552169
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19983018 90 + 22407834
UUAAGGUUCUCAACUCGGCUUUUGCCACCUUUUAUGUGAGCCAGUUUUUUUCUUUUUGGCCAACUGUGAACUUUGCGGCCAGUUCAUUCU
.((((((((.((....(((....))).........((..(((((...........)))))..)))).))))))))............... ( -20.00)
>DroSec_CAF1 165899 86 + 1
UUAAGGUUCUCAACUCGGCUUUUGCCACCUUUUAUGUGAGCCAGUUUUU----UUUUGGCCAACUGUGAACUUUGCGGCCAGUUUAUUCU
.((((((((.((....(((....))).........((..(((((.....----..)))))..)))).))))))))............... ( -20.70)
>DroSim_CAF1 168435 86 + 1
UUAAGGUUCUCAACUCGGCUUUUGCCACCUUUUAUGUGAGCCAGUUUUU----UUUUGGCCAACUGUGAACUUUGCGGCCAGUUUAUUCU
.((((((((.((....(((....))).........((..(((((.....----..)))))..)))).))))))))............... ( -20.70)
>DroEre_CAF1 163941 77 + 1
-----AUUCUCAACUCGGCUUUUGCCACCUUUU-GGUGACUCAGUUU-------UUGGGCCAACUGUGAACUUUGCGGCCAGUCUGUUCU
-----...........(((....)))(((....-)))((..(((...-------((((.((((..(....).))).).)))).))).)). ( -17.50)
>DroYak_CAF1 164842 78 + 1
-----GUUCUUAACUCGGCUUUUGCCACCUUUUCGGUGACUCAGUUU-------UUUGGCCAACUGUGAACUUUGCGGCCAGUUUAUUCU
-----......((((.((((...((((((.....)))).(.(((((.-------.......))))).)......))))))))))...... ( -16.50)
>consensus
UUAAGGUUCUCAACUCGGCUUUUGCCACCUUUUAUGUGAGCCAGUUUUU____UUUUGGCCAACUGUGAACUUUGCGGCCAGUUUAUUCU
....(((((.......(((....)))((.......))))))).............((((((...............))))))........ (-13.74 = -14.34 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 19,983,018 – 19,983,108
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 86.98
Mean single sequence MFE -18.92
Consensus MFE -14.02
Energy contribution -14.38
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -2.02
Structure conservation index 0.74
SVM decision value 0.68
SVM RNA-class probability 0.822017
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19983018 90 - 22407834
AGAAUGAACUGGCCGCAAAGUUCACAGUUGGCCAAAAAGAAAAAAACUGGCUCACAUAAAAGGUGGCAAAAGCCGAGUUGAGAACCUUAA
....((((((........))))))..((.(((((.............))))).))....((((((((....))).........))))).. ( -19.12)
>DroSec_CAF1 165899 86 - 1
AGAAUAAACUGGCCGCAAAGUUCACAGUUGGCCAAAA----AAAAACUGGCUCACAUAAAAGGUGGCAAAAGCCGAGUUGAGAACCUUAA
...................((((.((((.(((((...----......))))).))........((((....))))...)).))))..... ( -16.00)
>DroSim_CAF1 168435 86 - 1
AGAAUAAACUGGCCGCAAAGUUCACAGUUGGCCAAAA----AAAAACUGGCUCACAUAAAAGGUGGCAAAAGCCGAGUUGAGAACCUUAA
...................((((.((((.(((((...----......))))).))........((((....))))...)).))))..... ( -16.00)
>DroEre_CAF1 163941 77 - 1
AGAACAGACUGGCCGCAAAGUUCACAGUUGGCCCAA-------AAACUGAGUCACC-AAAAGGUGGCAAAAGCCGAGUUGAGAAU-----
......(((((((...........(((((.......-------.))))).((((((-....))))))....))).))))......----- ( -21.60)
>DroYak_CAF1 164842 78 - 1
AGAAUAAACUGGCCGCAAAGUUCACAGUUGGCCAAA-------AAACUGAGUCACCGAAAAGGUGGCAAAAGCCGAGUUAAGAAC-----
......(((((((...........(((((.......-------.))))).((((((.....))))))....))).))))......----- ( -21.90)
>consensus
AGAAUAAACUGGCCGCAAAGUUCACAGUUGGCCAAAA____AAAAACUGGCUCACAUAAAAGGUGGCAAAAGCCGAGUUGAGAACCUUAA
.........(((((((..........).))))))............(((((((((.......))(((....)))))))).))........ (-14.02 = -14.38 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:09 2006