Locus 7348

Sequence ID 3R_DroMel_CAF1
Location 19,451,346 – 19,451,438
Length 92
Max. P 0.995810
window11881 window11882

overview

Window 1

Location 19,451,346 – 19,451,438
Length 92
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 84.83
Mean single sequence MFE -24.55
Consensus MFE -21.03
Energy contribution -21.42
Covariance contribution 0.39
Combinations/Pair 1.04
Mean z-score -1.79
Structure conservation index 0.86
SVM decision value 0.51
SVM RNA-class probability 0.765496
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19451346 92 + 27905053
CUUGCGCCUUGCUGCGUCAUUUUGAUGUUUUAUUACUCGACUUCCGCCAGCCACAGCAAAAUGGCGGCGGACCCUUCUAGUCCACCCACUUU--------------------
...((.....)).(((((.....)))))..........((((((((((.((((........)))))))))).......))))..........-------------------- ( -22.71)
>DroPse_CAF1 62644 89 + 1
CUUGCGCCUUGCUGCGUCAUUUUGAUGUUUUAUUACUUGACUUCCGCCGGCCGCAGCAAAAUGGCGCCGCAGC---AACCUCCUCCUCAUUA--------------------
...(((((((((((((.(.....((.(((.........))).)).....).))))))))...)))))......---................-------------------- ( -23.40)
>DroSec_CAF1 50608 92 + 1
CUUGCGCCUUGCUGCGUCUUUUUGAUGUUUUAUUACUCGACUUCCGCCAGCCGCAGCAAAAUGGCGGCGGACCCUUAAAGUCCACCCACUUU--------------------
.....(((((((((((.((....((.(((.........))).))....)).))))))))...)))((.((((.......)))).))......-------------------- ( -26.40)
>DroSim_CAF1 59598 92 + 1
CUUGCGCCUUGCUGCGUCAUUUUGAUGUUUUAUUACUCGACUUCCGCCAGCCGCAGCAAAAUGGCGGCGGACCCUUAAAGUCCACCCACUUU--------------------
.....(((((((((((.......((.(((.........))).)).......))))))))...)))((.((((.......)))).))......-------------------- ( -24.84)
>DroEre_CAF1 49737 101 + 1
CUUGCGCCUUGCUGCGUCAUUUUGAUGUUUUAUUACUCGACUUCCGCCAGCCACAGCAAAAUGGCGGCGGACCCUUUAAGUCCACCCACUUU-----------CGCCCACUU
...(((.......(((((.....)))))..........((((((((((.((((........)))))))))).......))))..........-----------)))...... ( -25.11)
>DroYak_CAF1 60521 112 + 1
CUUGCGCCUUGCUGCGUCAUUUUGAUGUUUUAUUACUCGACUUCCGCCAGCCGCAGCAAAAUGGCGGCGGACCCUUAAAGUCCACCCACUUUCAACCCACUCUCACCCACUU
.....(((((((((((.......((.(((.........))).)).......))))))))...)))((.((((.......)))).)).......................... ( -24.84)
>consensus
CUUGCGCCUUGCUGCGUCAUUUUGAUGUUUUAUUACUCGACUUCCGCCAGCCGCAGCAAAAUGGCGGCGGACCCUUAAAGUCCACCCACUUU____________________
.....(((((((((((.(.....((.(((.........))).)).....).))))))))...)))((.((((.......)))).)).......................... (-21.03 = -21.42 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 19,451,346 – 19,451,438
Length 92
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 84.83
Mean single sequence MFE -37.45
Consensus MFE -34.20
Energy contribution -34.53
Covariance contribution 0.33
Combinations/Pair 1.07
Mean z-score -4.03
Structure conservation index 0.91
SVM decision value 2.62
SVM RNA-class probability 0.995810
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19451346 92 - 27905053
--------------------AAAGUGGGUGGACUAGAAGGGUCCGCCGCCAUUUUGCUGUGGCUGGCGGAAGUCGAGUAAUAAAACAUCAAAAUGACGCAGCAAGGCGCAAG
--------------------...((.((((((((.....))))))))(((...((((((((((((((....))).))).......(((....))).)))))))))))))... ( -37.40)
>DroPse_CAF1 62644 89 - 1
--------------------UAAUGAGGAGGAGGUU---GCUGCGGCGCCAUUUUGCUGCGGCCGGCGGAAGUCAAGUAAUAAAACAUCAAAAUGACGCAGCAAGGCGCAAG
--------------------.........(.((...---.)).).(((((...((((((((...(((....)))...........(((....))).)))))))))))))... ( -29.90)
>DroSec_CAF1 50608 92 - 1
--------------------AAAGUGGGUGGACUUUAAGGGUCCGCCGCCAUUUUGCUGCGGCUGGCGGAAGUCGAGUAAUAAAACAUCAAAAAGACGCAGCAAGGCGCAAG
--------------------...((.((((((((.....))))))))(((...((((((((.(((((....)))((((......)).))....)).)))))))))))))... ( -38.50)
>DroSim_CAF1 59598 92 - 1
--------------------AAAGUGGGUGGACUUUAAGGGUCCGCCGCCAUUUUGCUGCGGCUGGCGGAAGUCGAGUAAUAAAACAUCAAAAUGACGCAGCAAGGCGCAAG
--------------------...((.((((((((.....))))))))(((...((((((((((((((....))).))).......(((....))).)))))))))))))... ( -39.30)
>DroEre_CAF1 49737 101 - 1
AAGUGGGCG-----------AAAGUGGGUGGACUUAAAGGGUCCGCCGCCAUUUUGCUGUGGCUGGCGGAAGUCGAGUAAUAAAACAUCAAAAUGACGCAGCAAGGCGCAAG
......((.-----------...)).((((((((.....))))))))(((...((((((((((((((....))).))).......(((....))).)))))))))))..... ( -39.80)
>DroYak_CAF1 60521 112 - 1
AAGUGGGUGAGAGUGGGUUGAAAGUGGGUGGACUUUAAGGGUCCGCCGCCAUUUUGCUGCGGCUGGCGGAAGUCGAGUAAUAAAACAUCAAAAUGACGCAGCAAGGCGCAAG
...((.((.(((((((..(....)..((((((((.....)))))))).)))))))((((((((((((....))).))).......(((....))).))))))...)).)).. ( -39.80)
>consensus
____________________AAAGUGGGUGGACUUUAAGGGUCCGCCGCCAUUUUGCUGCGGCUGGCGGAAGUCGAGUAAUAAAACAUCAAAAUGACGCAGCAAGGCGCAAG
..........................((((((((.....))))))))(((...((((((((((((((....))).))).........((.....)))))))))))))..... (-34.20 = -34.53 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:43 2006