Locus 855

Sequence ID 3L_DroMel_CAF1
Location 2,579,800 – 2,579,920
Length 120
Max. P 0.957229
window1313 window1314

overview

Window 3

Location 2,579,800 – 2,579,920
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.00
Mean single sequence MFE -43.43
Consensus MFE -29.17
Energy contribution -30.46
Covariance contribution 1.28
Combinations/Pair 1.19
Mean z-score -2.78
Structure conservation index 0.67
SVM decision value 1.48
SVM RNA-class probability 0.957229
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2579800 120 + 23771897
UGCCGCCAAUGCCCCCACUACCACCACCGGGCAGUGGCGGCAAAAAGCCGGCAAUGGUACCUAACUUCAUCAAACGCAACAAGAUAUGUGCCGGACAAACGGUUCCCUGUCCCCCGCCAC
((((((((.(((((..............))))).)))))))).......(((...(((((.((.(((.............))).)).)))))(((((..........)))))...))).. ( -42.06)
>DroGri_CAF1 7307 120 + 1
GAGAGUCGAUGCCGCCAUUGCCCGAGAUGGGCAAAAAGAUGAAGAAAGCGGAUAUGGUGCCAAAUUUCGUUUUGCGCAACAUAAAGUGUGCACGGAACACAGUGCGCUGUCCGCCGCCAC
.............((..((((((.....)))))).............(((((((((.(((((((......)))).))).))).....((((((........)))))).)))))).))... ( -36.30)
>DroSec_CAF1 6788 120 + 1
UGCCGCCAAUGCCCCCACUACCACCACCGGGCAGUGGCGGCAAAAAGCCGGCCAUGGUACCCAACUUCAUCAAACGCAACAAGUUGUGUGCCGGACAGACGGUUCCCUGUCCCCCGCCAC
((((((((.(((((..............))))).)))))))).......(((...(((((.((((((.............)))))).)))))((((((........))))))...))).. ( -50.76)
>DroSim_CAF1 6777 120 + 1
UGCCGCCAAUGCCCCCACUACCACCACCGGGCAGUGGCGGCAAAAAGCCGGCCAUGGUACCCAACUUCAUCAAACGCAACAAGUUGUGUGCCGGACAGACGGUACCCUGUCCCCCGCCAC
((((((((.(((((..............))))).)))))))).......(((...(((((.((((((.............)))))).)))))((((((........))))))...))).. ( -50.76)
>DroEre_CAF1 4090 120 + 1
UGCCGCCAAUGCCGCCACUUCCACCGGCGGGUAGUGGCCGCAAAAAGCCGACCAUGGUACCCAAUUUCAUUAAGCGCAACAGGAUGUGCGCCGGACAGACGAUUCCCUGUCCUCCGCCAC
(((.((((.(((((((.........))).)))).)))).)))............((((...............(((((........))))).((((((........))))))...)))). ( -40.30)
>DroYak_CAF1 6788 120 + 1
UGCCGCCAAUGCCCCCACUUCCACCACCGGGCAGUGGCGGCAAAAAGCCCACCAUGGUGCCGAAUUUCAUUAAACGCAACCGGAUGUGCGCCGGAAAGACGAUUCCCUGUCCUCCGCCAC
((((((((.(((((..............))))).))))))))....((.(((..((((((...............)).))))...))).))((((..((((......)))).)))).... ( -40.40)
>consensus
UGCCGCCAAUGCCCCCACUACCACCACCGGGCAGUGGCGGCAAAAAGCCGGCCAUGGUACCCAACUUCAUCAAACGCAACAAGAUGUGUGCCGGACAGACGGUUCCCUGUCCCCCGCCAC
((((((((.(((((..............))))).))))))))............((((................((((........))))..((((((........))))))...)))). (-29.17 = -30.46 +   1.28) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 2,579,800 – 2,579,920
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.00
Mean single sequence MFE -48.17
Consensus MFE -35.80
Energy contribution -36.75
Covariance contribution 0.95
Combinations/Pair 1.39
Mean z-score -1.09
Structure conservation index 0.74
SVM decision value 0.05
SVM RNA-class probability 0.557066
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2579800 120 - 23771897
GUGGCGGGGGACAGGGAACCGUUUGUCCGGCACAUAUCUUGUUGCGUUUGAUGAAGUUAGGUACCAUUGCCGGCUUUUUGCCGCCACUGCCCGGUGGUGGUAGUGGGGGCAUUGGCGGCA
(((.((((((((.(....).)))).)))).)))......((((((.......((((((.((((....)))))))))).((((.(((((((((....).)))))))).))))...)))))) ( -49.50)
>DroGri_CAF1 7307 120 - 1
GUGGCGGCGGACAGCGCACUGUGUUCCGUGCACACUUUAUGUUGCGCAAAACGAAAUUUGGCACCAUAUCCGCUUUCUUCAUCUUUUUGCCCAUCUCGGGCAAUGGCGGCAUCGACUCUC
((.((((((((..(.((((........)))).)....((((.(((.((((......))))))).))))))))))............((((((.....))))))..)).)).......... ( -37.40)
>DroSec_CAF1 6788 120 - 1
GUGGCGGGGGACAGGGAACCGUCUGUCCGGCACACAACUUGUUGCGUUUGAUGAAGUUGGGUACCAUGGCCGGCUUUUUGCCGCCACUGCCCGGUGGUGGUAGUGGGGGCAUUGGCGGCA
(((.((((((((.(....).)))).)))).))).(((((((((......))).)))))).........((((.(....((((.(((((((((....).)))))))).))))..).)))). ( -54.90)
>DroSim_CAF1 6777 120 - 1
GUGGCGGGGGACAGGGUACCGUCUGUCCGGCACACAACUUGUUGCGUUUGAUGAAGUUGGGUACCAUGGCCGGCUUUUUGCCGCCACUGCCCGGUGGUGGUAGUGGGGGCAUUGGCGGCA
(((.((((((((.(....).)))).)))).))).(((((((((......))).)))))).........((((.(....((((.(((((((((....).)))))))).))))..).)))). ( -53.40)
>DroEre_CAF1 4090 120 - 1
GUGGCGGAGGACAGGGAAUCGUCUGUCCGGCGCACAUCCUGUUGCGCUUAAUGAAAUUGGGUACCAUGGUCGGCUUUUUGCGGCCACUACCCGCCGGUGGAAGUGGCGGCAUUGGCGGCA
((.((.(((((((((......)))))))((((((........))))))..........(((((...((((((.(.....))))))).)))))((((.(......).)))).)).)).)). ( -47.30)
>DroYak_CAF1 6788 120 - 1
GUGGCGGAGGACAGGGAAUCGUCUUUCCGGCGCACAUCCGGUUGCGUUUAAUGAAAUUCGGCACCAUGGUGGGCUUUUUGCCGCCACUGCCCGGUGGUGGAAGUGGGGGCAUUGGCGGCA
(((.((((((((........))).))))).))).((((.(((.((...............)))))..)))).......((((((((.(((((..............))))).)))))))) ( -46.50)
>consensus
GUGGCGGGGGACAGGGAACCGUCUGUCCGGCACACAUCUUGUUGCGUUUAAUGAAAUUGGGUACCAUGGCCGGCUUUUUGCCGCCACUGCCCGGUGGUGGUAGUGGGGGCAUUGGCGGCA
(((.((((((((.(....).)))).)))).))).......(((((.......((((((((.(.....).)))))))).((((.((((((((.......)))))))).))))...))))). (-35.80 = -36.75 +   0.95) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:50 2006