Locus 8551

Sequence ID 3L_DroMel_CAF1
Location 22,330,785 – 22,330,889
Length 104
Max. P 0.995686
window14015 window14016

overview

Window 5

Location 22,330,785 – 22,330,889
Length 104
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 82.10
Mean single sequence MFE -31.76
Consensus MFE -21.58
Energy contribution -23.82
Covariance contribution 2.25
Combinations/Pair 1.04
Mean z-score -1.54
Structure conservation index 0.68
SVM decision value -0.03
SVM RNA-class probability 0.516212
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22330785 104 + 23771897
GUCCACCCACACAGCGCUUUCCAACCCC-AAGGGCAUGCUCCAAUCCCACCCAGGUUAACAGCGGGAAUUGGAACUGGAACGGGAACGGGACACGUGUCGGUGGC
..(((((.((((......(((((.(((.-..))).....(((((((((.(...........).))).))))))..)))))((....))......)))).))))). ( -33.40)
>DroSec_CAF1 10138 105 + 1
GUCCACCCACACAGCGCUUUCCAACCCCGAAGGGCAUGCUCCAAUCCCAGCCAGGUUAACAGCGGGAACUGGAACUGGAACGAGAACGGGACACGUGUCGGUGGC
..(((((.((((.((.(((((.......))))))).((.(((....((((((((..............))))..))))..((....))))))).)))).))))). ( -32.44)
>DroEre_CAF1 8063 86 + 1
GUCCACCCACACAGCACUUUCCAACCCC-AGGGGUAUGCUCCAAUCCCAGCCAGGUUAACAAC------------------UGGAACGGGACACGUGUCGGUGGC
..(((((.((((((((..((((......-.))))..))))....((((..((((........)------------------)))...))))...)))).))))). ( -33.60)
>DroYak_CAF1 7534 86 + 1
GUCCACCCACACAGCACUUUCCAACCCC-AAGGGAAUGCUCCAAUCCAACCCAGGUUAACAAU------------------UGGAACGGGACACGUGUCGGUGGC
..(((((.((((((((.(((((......-..)))))))))....(((...((((........)------------------)))....)))...)))).))))). ( -27.60)
>consensus
GUCCACCCACACAGCACUUUCCAACCCC_AAGGGCAUGCUCCAAUCCCACCCAGGUUAACAAC__________________GGGAACGGGACACGUGUCGGUGGC
..(((((.((((............(((....)))..((..((..((((..((((....................))))...))))..))..)).)))).))))). (-21.58 = -23.82 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 22,330,785 – 22,330,889
Length 104
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 82.10
Mean single sequence MFE -44.03
Consensus MFE -30.95
Energy contribution -30.89
Covariance contribution -0.06
Combinations/Pair 1.13
Mean z-score -3.04
Structure conservation index 0.70
SVM decision value 2.60
SVM RNA-class probability 0.995686
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22330785 104 - 23771897
GCCACCGACACGUGUCCCGUUCCCGUUCCAGUUCCAAUUCCCGCUGUUAACCUGGGUGGGAUUGGAGCAUGCCCUU-GGGGUUGGAAAGCGCUGUGUGGGUGGAC
.(((((.((((((((.(((..((((...((((((((((.((((((.........)))))))))))))).))....)-)))..)))...)))).)))).))))).. ( -49.60)
>DroSec_CAF1 10138 105 - 1
GCCACCGACACGUGUCCCGUUCUCGUUCCAGUUCCAGUUCCCGCUGUUAACCUGGCUGGGAUUGGAGCAUGCCCUUCGGGGUUGGAAAGCGCUGUGUGGGUGGAC
.(((((.((((((((..((....))((((((((((((((((.(((........))).)))))))))))..((((....))))))))).)))).)))).))))).. ( -53.50)
>DroEre_CAF1 8063 86 - 1
GCCACCGACACGUGUCCCGUUCCA------------------GUUGUUAACCUGGCUGGGAUUGGAGCAUACCCCU-GGGGUUGGAAAGUGCUGUGUGGGUGGAC
.(((((.((((...(((.((((((------------------(((........))))))))).)))((((((((..-.))))......)))).)))).))))).. ( -37.70)
>DroYak_CAF1 7534 86 - 1
GCCACCGACACGUGUCCCGUUCCA------------------AUUGUUAACCUGGGUUGGAUUGGAGCAUUCCCUU-GGGGUUGGAAAGUGCUGUGUGGGUGGAC
.(((((.((((((.(((.((((((------------------(((..((((....)))))))))))))..(((...-.)))..)))....)).)))).))))).. ( -35.30)
>consensus
GCCACCGACACGUGUCCCGUUCCA__________________GCUGUUAACCUGGCUGGGAUUGGAGCAUGCCCUU_GGGGUUGGAAAGCGCUGUGUGGGUGGAC
.(((((.(((((((..(((.((((.................................)))).)))..)))((((....))))...........)))).))))).. (-30.95 = -30.89 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:51 2006