Locus 464

Sequence ID X_DroMel_CAF1
Location 1,365,514 – 1,365,613
Length 99
Max. P 0.973722
window710 window711

overview

Window 0

Location 1,365,514 – 1,365,613
Length 99
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 79.47
Mean single sequence MFE -33.07
Consensus MFE -23.92
Energy contribution -23.93
Covariance contribution 0.01
Combinations/Pair 1.19
Mean z-score -2.27
Structure conservation index 0.72
SVM decision value 1.72
SVM RNA-class probability 0.973722
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1365514 99 + 22224390
----------------UGAUUCAGACUCUGGUGCUGUGGCUAAGGCUCAGGCUGCCUUAGCUUUCUCUGGCUUUCGCUUCUUACGCACGGUGUAGCCAUUUGCCAAUUGAAUGCU
----------------..((((((....((((.....(((((((((.......))))))))).....(((((..((((..........)))).)))))...)))).))))))... ( -29.90)
>DroSec_CAF1 25680 108 + 1
----UGAUUCAGUUUCUGAUUCAGACUCUGGUACUGUGGCUAAGGCUCA---UGCCUUAGCUUUCUCUGGCUUUCGCUUCUUACGCACGAGGUAGCCACUUGCCAAUUGAAUUCU
----.(((((((((((((...))))....((((....(((((((((...---.))))))))).....(((((...(((((........))))))))))..))))))))))))).. ( -36.00)
>DroEre_CAF1 26111 115 + 1
AUUCUGAUUCAGAUUCCGAUUCAAACUCUGAUGCUGUGGCUAAGGCCCAGGCUGCCUUGGCUUUCUCUAGCUUUGGCUUCUUACGCACGGCGUCACCACUUGCCAAUUGAAUGUU
..((((...))))...((((((((....(((((((((((.((((((....)).(((..((((......))))..)))..))))).))))))))))....)))..)))))...... ( -33.30)
>consensus
____UGAUUCAG_UUCUGAUUCAGACUCUGGUGCUGUGGCUAAGGCUCAGGCUGCCUUAGCUUUCUCUGGCUUUCGCUUCUUACGCACGGCGUAGCCACUUGCCAAUUGAAUGCU
..................((((((....((((((((((((((((((.......)))))))).......(((....))).......))))))...))))........))))))... (-23.92 = -23.93 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,365,514 – 1,365,613
Length 99
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 79.47
Mean single sequence MFE -30.03
Consensus MFE -23.45
Energy contribution -22.90
Covariance contribution -0.55
Combinations/Pair 1.17
Mean z-score -1.73
Structure conservation index 0.78
SVM decision value 0.87
SVM RNA-class probability 0.871158
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1365514 99 - 22224390
AGCAUUCAAUUGGCAAAUGGCUACACCGUGCGUAAGAAGCGAAAGCCAGAGAAAGCUAAGGCAGCCUGAGCCUUAGCCACAGCACCAGAGUCUGAAUCA----------------
.(.(((((..((((.....))))....((((.......((....))........((((((((.......))))))))....)))).......)))))).---------------- ( -28.50)
>DroSec_CAF1 25680 108 - 1
AGAAUUCAAUUGGCAAGUGGCUACCUCGUGCGUAAGAAGCGAAAGCCAGAGAAAGCUAAGGCA---UGAGCCUUAGCCACAGUACCAGAGUCUGAAUCAGAAACUGAAUCA----
.((.((((.((((...(((((((.(((((((.(.((..((....)).........)).).)))---))))...)))))))....))))..((((...))))...)))))).---- ( -31.80)
>DroEre_CAF1 26111 115 - 1
AACAUUCAAUUGGCAAGUGGUGACGCCGUGCGUAAGAAGCCAAAGCUAGAGAAAGCCAAGGCAGCCUGGGCCUUAGCCACAGCAUCAGAGUUUGAAUCGGAAUCUGAAUCAGAAU
...((((.....(((.(((....)))..)))....((.(((...(((......)))...))).((.(((((....))).)))).(((((.((((...)))).))))).)).)))) ( -29.80)
>consensus
AGCAUUCAAUUGGCAAGUGGCUACACCGUGCGUAAGAAGCGAAAGCCAGAGAAAGCUAAGGCAGCCUGAGCCUUAGCCACAGCACCAGAGUCUGAAUCAGAA_CUGAAUCA____
...(((((...(((....((.....))((((.......((....))........((((((((.......))))))))....))))....)))))))).................. (-23.45 = -22.90 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:10 2006