Locus 7615

Sequence ID 3L_DroMel_CAF1
Location 20,493,149 – 20,493,255
Length 106
Max. P 0.742826
window12377 window12378

overview

Window 7

Location 20,493,149 – 20,493,255
Length 106
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 83.61
Mean single sequence MFE -24.02
Consensus MFE -15.12
Energy contribution -15.25
Covariance contribution 0.13
Combinations/Pair 1.12
Mean z-score -1.92
Structure conservation index 0.63
SVM decision value 0.28
SVM RNA-class probability 0.665783
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20493149 106 + 23771897
UGCCACGCUUUCAACUACUCAGUGCGACAUGCACCGAGAGAAACUCAGUGUGUUAAAGAAAUUACCAAAAAAAAAGUUAAAACAAACUGGCUA------------AAUGUAUUGGCUA
...((((((.....((.(((.((((.....)))).)))))......))))))......................((((......))))(((((------------(.....)))))). ( -20.80)
>DroSec_CAF1 35701 106 + 1
UGCCACGCUUUCAACUACUCAGUGCGGCAUGCACCGAGAGAAACUUGGGGUAUUAAAGAAAUUACCAAAAAAAAAGGUAAAACAAACUGGCUA------------AAUAUAUUGGCUA
.(((.((((...........)))).)))((((.(((((.....))))).))))........(((((.........))))).......((((((------------(.....))))))) ( -24.20)
>DroSim_CAF1 35656 104 + 1
UGCCACGCUUUCAACUACUCAGUGCGGCAUGCACCGAGAGAAACUUGGGGUAUUAAAUAAAUUACCAAAA--AAAGGUAAAACAAACUGGCUA------------AAUAUAUUGGCUA
.(((.((((...........)))).)))((((.(((((.....))))).))))........(((((....--...))))).......((((((------------(.....))))))) ( -24.70)
>DroEre_CAF1 37584 117 + 1
UGCCACGCUUUCAACUACUCAGUGUGGCAUGCACAGAGAGAAUAUUAUGGCAUUAAAUAAAUUACCUCAA-AAAAGUGAAAACAAACUGGCUUUGGGAACAGCAUAGUGUAUUGCAUA
.((((((((...........))))))))(((((..(((..(((.((((........)))))))..)))..-....((....))..(((((((..(....)))).))))....))))). ( -26.40)
>consensus
UGCCACGCUUUCAACUACUCAGUGCGGCAUGCACCGAGAGAAACUUAGGGUAUUAAAGAAAUUACCAAAA_AAAAGGUAAAACAAACUGGCUA____________AAUAUAUUGGCUA
.((((.........((.(((.((((.....)))).)))))........((((..........)))).....................))))........................... (-15.12 = -15.25 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 20,493,149 – 20,493,255
Length 106
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 83.61
Mean single sequence MFE -25.82
Consensus MFE -19.11
Energy contribution -19.92
Covariance contribution 0.81
Combinations/Pair 1.05
Mean z-score -1.75
Structure conservation index 0.74
SVM decision value 0.45
SVM RNA-class probability 0.742826
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20493149 106 - 23771897
UAGCCAAUACAUU------------UAGCCAGUUUGUUUUAACUUUUUUUUUGGUAAUUUCUUUAACACACUGAGUUUCUCUCGGUGCAUGUCGCACUGAGUAGUUGAAAGCGUGGCA
..((((...(.((------------((((((((.((((..........................)))).)))).......((((((((.....))))))))..)))))).)..)))). ( -27.27)
>DroSec_CAF1 35701 106 - 1
UAGCCAAUAUAUU------------UAGCCAGUUUGUUUUACCUUUUUUUUUGGUAAUUUCUUUAAUACCCCAAGUUUCUCUCGGUGCAUGCCGCACUGAGUAGUUGAAAGCGUGGCA
.............------------..((((((((...(((((.........)))))..............(((.(....((((((((.....)))))))).).))).)))).)))). ( -26.30)
>DroSim_CAF1 35656 104 - 1
UAGCCAAUAUAUU------------UAGCCAGUUUGUUUUACCUUU--UUUUGGUAAUUUAUUUAAUACCCCAAGUUUCUCUCGGUGCAUGCCGCACUGAGUAGUUGAAAGCGUGGCA
..((((.....((------------((((.....((..(((((...--....)))))..))...................((((((((.....))))))))..))))))....)))). ( -27.00)
>DroEre_CAF1 37584 117 - 1
UAUGCAAUACACUAUGCUGUUCCCAAAGCCAGUUUGUUUUCACUUUU-UUGAGGUAAUUUAUUUAAUGCCAUAAUAUUCUCUCUGUGCAUGCCACACUGAGUAGUUGAAAGCGUGGCA
...(((........)))..........((((...((((((((((...-....((((..........))))........(((..((((.....))))..))).)).)))))))))))). ( -22.70)
>consensus
UAGCCAAUACAUU____________UAGCCAGUUUGUUUUAACUUUU_UUUUGGUAAUUUAUUUAAUACCCCAAGUUUCUCUCGGUGCAUGCCGCACUGAGUAGUUGAAAGCGUGGCA
...........................((((((((.................((((..........))))........((((((((((.....)))))))).))....)))).)))). (-19.11 = -19.92 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:46 2006