Locus 8434

Sequence ID X_DroMel_CAF1
Location 20,938,817 – 20,938,945
Length 128
Max. P 0.856753
window13854 window13855

overview

Window 4

Location 20,938,817 – 20,938,917
Length 100
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 81.76
Mean single sequence MFE -29.00
Consensus MFE -21.61
Energy contribution -22.83
Covariance contribution 1.23
Combinations/Pair 1.07
Mean z-score -2.00
Structure conservation index 0.75
SVM decision value 0.77
SVM RNA-class probability 0.847438
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20938817 100 - 22224390
AGGAGAAGGCAAUGGGCAUUAUGCCCCCUUUGGCCAUAAUAGCCAGAUGUUUUCGCGUACUUUUUUACAAGUAGGUACCGCGUAGGUAAGCAAGACUUAU
.((.(((((((..((((.....))))..((((((.......)))))))))))))((.(((((......))))).)).))..((((((.......)))))) ( -29.40)
>DroSec_CAF1 11044 96 - 1
AGGAGAAGGCAAUGGGCAUUAUGCCCCCUUUGGCCAUAAUAGCCAGAUGUUUUCGCGUACUUUUUUACAAGUAGGUACCU----GCAAAGCGAAACUAAU
(((.(((((((..((((.....))))..((((((.......)))))))))))))((.(((((......))))).)).)))----................ ( -27.70)
>DroEre_CAF1 9540 88 - 1
AGGAGGAGGCAAUGGGCAUUGUGCC-UCUUGGGCCAUAAUGGCCAGAUGUUUUCGCCAACUUUUC-------AGGUACCU----GCAAACCGAAACUAAU
.((.(((((((.(((.(((((((((-.....)).))))))).)))..))))))).))....((((-------.(((....----....)))))))..... ( -29.90)
>consensus
AGGAGAAGGCAAUGGGCAUUAUGCCCCCUUUGGCCAUAAUAGCCAGAUGUUUUCGCGUACUUUUUUACAAGUAGGUACCU____GCAAAGCGAAACUAAU
.((.(((((((...(((((((((((......)).)))))).)))...)))))))((.(((((......))))).)).))..................... (-21.61 = -22.83 +   1.23)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 20,938,851 – 20,938,945
Length 94
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 83.88
Mean single sequence MFE -32.83
Consensus MFE -24.86
Energy contribution -25.55
Covariance contribution 0.69
Combinations/Pair 1.09
Mean z-score -1.95
Structure conservation index 0.76
SVM decision value 0.81
SVM RNA-class probability 0.856753
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20938851 94 + 22224390
AAAAAAGUACGCGAAAACAUCUGGCUAUUAUGGCCAAAGGGGGCAUAAUGCCCAUUGCCUUCUCCUGGGCACUGGGGGGA-----ACUACGUGCCGGGA
...................(((((((((((((.((.....)).)))))))((((.(((((......))))).))))....-----.......)))))). ( -32.50)
>DroSec_CAF1 11074 93 + 1
AAAAAAGUACGCGAAAACAUCUGGCUAUUAUGGCCAAAGGGGGCAUAAUGCCCAUUGCCUUCUCCUGGCCACUGGGGGG------ACUACGUGCCGGGA
..........((((.......(((((.....)))))....((((.....)))).))))....(((((((.((..((...------.))..))))))))) ( -33.20)
>DroEre_CAF1 9564 97 + 1
-GAAAAGUUGGCGAAAACAUCUGGCCAUUAUGGCCCAAGA-GGCACAAUGCCCAUUGCCUCCUCCUGGCCACUGCUGGGACUGGGACUACGUGCCGGGA
-.....(..(((((.....(((((((.....))))..)))-(((.....)))..)))))..)(((..((....))..)))((((.((...)).)))).. ( -33.30)
>DroYak_CAF1 10689 80 + 1
-------------AAAACAUCUGGCUAUUAUGGCCAAAGG-GGCAUAAUGCCCAUUGCCUCCUCCUGGCCACUGGGGGGA-----ACUACGUGCCGGGA
-------------......((((((......(((.....(-(((.....))))...)))((((((..(...)..))))))-----.......)))))). ( -32.30)
>consensus
_AAAAAGUACGCGAAAACAUCUGGCUAUUAUGGCCAAAGG_GGCAUAAUGCCCAUUGCCUCCUCCUGGCCACUGGGGGGA_____ACUACGUGCCGGGA
.....................(((((.....)))))..(((((((..........)))))))((((((.(((....((........))..))))))))) (-24.86 = -25.55 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:54 2006