Locus 368

Sequence ID 2L_DroMel_CAF1
Location 1,159,312 – 1,159,414
Length 102
Max. P 0.681855
window580 window581

overview

Window 0

Location 1,159,312 – 1,159,414
Length 102
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 82.27
Mean single sequence MFE -39.10
Consensus MFE -25.14
Energy contribution -25.78
Covariance contribution 0.64
Combinations/Pair 1.16
Mean z-score -2.09
Structure conservation index 0.64
SVM decision value 0.31
SVM RNA-class probability 0.681855
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1159312 102 + 22407834
UGGACAUGGCCGAUCUCUGUCGAUCCACCAA---CGCGGACACGGGCAGCUGCUUAAAGUGGCCACCCGUAGCCAGUCCCAGCAAACUGGAGAACCAGCCCAAAA
.((((.(((..((((......))))..))).---...((..(((((..((..(.....)..))..)))))..)).)))).......((((....))))....... ( -35.20)
>DroSec_CAF1 52798 102 + 1
UGGACAUGGCCGAUCUCUGUCGGUCCACCAG---CGCGGACACGGGCAGCUGCUUAAAGUGGCCACCCGUAGCCGGUCCCAGCAAACUGGAGAACCAGCCCAAAA
(((...((((((((....))))).)))....---.((((..(((((..((..(.....)..))..)))))..))((((((((....)))).).))).)))))... ( -40.80)
>DroSim_CAF1 47862 102 + 1
UGGACAUGGCCGAUCUCUGUCGGUCCACCAG---CGCGGACACGGGCAGCUGCUUAAAGUGGCCACCCGUAGCCGGUCCCAGCAAGCUGGAGAACCAGCCCAAAA
.((((.((((((((....))))).)))....---..(((..(((((..((..(.....)..))..)))))..)))))))......(((((....)))))...... ( -43.00)
>DroEre_CAF1 46680 102 + 1
UGGACAUGGCCGAUCUCUGUCGGUCCACCAG---CGGGGACACGCGCAGCUGCUUAAAGUGGCCACCCGGUCCCAUUCCCAGCAAACUGGAGAACCAGCCCAAAA
(((...((((((((....))))).)))...(---(.(((((.((.(..((..(.....)..))..).))))))).(((((((....)))).)))...)))))... ( -36.70)
>DroYak_CAF1 48051 102 + 1
UGGACAUGGCCGAUCUGUGUCGGUCAACCAG---CGGGGACACGGGCAGCUGCUUAAAGUGGCCACCCGGUCCAAGUCCCAGCAAACUGGAGAGCCUGCCCAAAA
(((...((((((((....))))))))....(---(((((((.((((..((..(.....)..))..))))))))...((((((....)))).))..)))))))... ( -44.40)
>DroAna_CAF1 52389 99 + 1
UGGAGCUGGCUGAGCUGUGUCAGCCAUCCAAUGAUGAGGGAACCGGCAGCCACUUUAAGUGGCCAG------CGAAGCCCAAGAAGCCUGAGAGCGCGCCAAUAA
(((.((.((((..((((.....(((.(((.........)))...))).(((((.....))))))))------)..))))......((......)))).))).... ( -34.50)
>consensus
UGGACAUGGCCGAUCUCUGUCGGUCCACCAG___CGCGGACACGGGCAGCUGCUUAAAGUGGCCACCCGUAGCCAGUCCCAGCAAACUGGAGAACCAGCCCAAAA
(((....(((((((....)))))))..))).............((((.(((((.....))))).............((((((....)))).))....)))).... (-25.14 = -25.78 +   0.64) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,159,312 – 1,159,414
Length 102
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 82.27
Mean single sequence MFE -43.32
Consensus MFE -26.16
Energy contribution -26.17
Covariance contribution 0.01
Combinations/Pair 1.40
Mean z-score -1.98
Structure conservation index 0.60
SVM decision value 0.03
SVM RNA-class probability 0.549188
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1159312 102 - 22407834
UUUUGGGCUGGUUCUCCAGUUUGCUGGGACUGGCUACGGGUGGCCACUUUAAGCAGCUGCCCGUGUCCGCG---UUGGUGGAUCGACAGAGAUCGGCCAUGUCCA
...(..(((((....)))))..)...((((.((.((((((..((..(.....)..))..)))))).))...---.((((.((((......)))).)))).)))). ( -44.80)
>DroSec_CAF1 52798 102 - 1
UUUUGGGCUGGUUCUCCAGUUUGCUGGGACCGGCUACGGGUGGCCACUUUAAGCAGCUGCCCGUGUCCGCG---CUGGUGGACCGACAGAGAUCGGCCAUGUCCA
...(((((.(((.(.((((....))))))))(((((((((..((..(.....)..))..)))))((((((.---...))))))...........))))..))))) ( -44.90)
>DroSim_CAF1 47862 102 - 1
UUUUGGGCUGGUUCUCCAGCUUGCUGGGACCGGCUACGGGUGGCCACUUUAAGCAGCUGCCCGUGUCCGCG---CUGGUGGACCGACAGAGAUCGGCCAUGUCCA
....(((((((....)))))))....(((((((.((((((..((..(.....)..))..)))))).)))..---...((((.((((......)))))))))))). ( -45.80)
>DroEre_CAF1 46680 102 - 1
UUUUGGGCUGGUUCUCCAGUUUGCUGGGAAUGGGACCGGGUGGCCACUUUAAGCAGCUGCGCGUGUCCCCG---CUGGUGGACCGACAGAGAUCGGCCAUGUCCA
...(((((..((((.((((....))))))))(((((((.(..((..(.....)..))..).)).)))))..---...((((.((((......))))))))))))) ( -42.50)
>DroYak_CAF1 48051 102 - 1
UUUUGGGCAGGCUCUCCAGUUUGCUGGGACUUGGACCGGGUGGCCACUUUAAGCAGCUGCCCGUGUCCCCG---CUGGUUGACCGACACAGAUCGGCCAUGUCCA
...(((((((((((.((((....))))))...((((((((..((..(.....)..))..)))).))))..)---))((((((.(......).)))))).)))))) ( -43.80)
>DroAna_CAF1 52389 99 - 1
UUAUUGGCGCGCUCUCAGGCUUCUUGGGCUUCG------CUGGCCACUUAAAGUGGCUGCCGGUUCCCUCAUCAUUGGAUGGCUGACACAGCUCAGCCAGCUCCA
..(((((((((..((((((...))))))...))------).((((((.....))))))))))))...........(((((((((((......)))))))..)))) ( -38.10)
>consensus
UUUUGGGCUGGUUCUCCAGUUUGCUGGGACUGGCUACGGGUGGCCACUUUAAGCAGCUGCCCGUGUCCGCG___CUGGUGGACCGACAGAGAUCGGCCAUGUCCA
...((((((((.((.((((....))))))))).......((((((.......((....)).((.((((((.......)))))))).........))))))))))) (-26.16 = -26.17 +   0.01) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:07 2006