Locus 1265

Sequence ID 3R_DroMel_CAF1
Location 3,780,108 – 3,780,228
Length 120
Max. P 0.980013
window2064 window2065

overview

Window 4

Location 3,780,108 – 3,780,228
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.91
Mean single sequence MFE -38.09
Consensus MFE -31.18
Energy contribution -32.78
Covariance contribution 1.60
Combinations/Pair 1.12
Mean z-score -2.24
Structure conservation index 0.82
SVM decision value 1.85
SVM RNA-class probability 0.980013
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3780108 120 + 27905053
CCUUUGGGCAGAUGCCUGCCAUAAAUCUGCAAGUGCUUUGCUCUGCCCAUUCCCAAAUUCCAGUUCGUUUCGAAUGCGCUCACUUCGCGCACUUGCAGUCGUAUUGUAUUUGCCGCAGGG
.((((((((((((((.....(((...((((((((((........((.(((((..((((........)))).))))).)).........))))))))))...))).))))))))).))))) ( -38.53)
>DroSec_CAF1 9626 120 + 1
CCUUUGGGCAGAUGCCUGCCAUAAAUCUGCAAGUGCUUUGCUCUGCCCAUUCCCAAAUUCCAGUUCGUUUCGAAUGUACUCACUUCGCGCACUUGCAGUCGUAUUGUAUCUGCCGCAGGG
.((((((((((((((.....(((...((((((((((........(..(((((..((((........)))).)))))..).........))))))))))...))).))))))))).))))) ( -38.23)
>DroSim_CAF1 13303 115 + 1
CCUUUGGGCAGAUGCCUGCCAUAAAUCUGCAAGUGCUUUGCUCUGCCCAUUCCCAAAUUCCAGUUCGUUUCGAAUGCACU-----CGCGCACUUGCAGUCGUAUUGUAUCUGCCGCAGGG
.((((((((((((((.....(((...((((((((((..........................(((((...)))))((...-----.))))))))))))...))).))))))))).))))) ( -40.00)
>DroEre_CAF1 2 112 + 1
----UGGGCAGAUGCCUGCCAUAAAUCUGGAAGUGCUUUGCUCUGCCCGUUCCCAAAUUCGAGUUCGUUUCGAAUGCACUCAUUUCGCGCACUUG---UGGUAU-AAAUCUGCCUCGGGG
----.(((((((.((((.(((......))).)).)).....)))))))...(((.....(((((.(((...(((((....))))).))).)))))---.((((.-.....))))..))). ( -34.50)
>DroYak_CAF1 13246 119 + 1
CCUUUGGGCAGAUGCCUGCCAUAAAUCUGCAAGUGCUUUGCUCUGCCCGUUCCUAAAUUCGAGUUCGCUUCAAACGUACUCAGUUCGCGCACUUGCAGUCGUAU-AAAUCUGCCUCGGGG
(((..((((((((...(((.......((((((((((...((...))..............((((.((.......)).)))).......))))))))))..))).-..))))))))..))) ( -39.20)
>consensus
CCUUUGGGCAGAUGCCUGCCAUAAAUCUGCAAGUGCUUUGCUCUGCCCAUUCCCAAAUUCCAGUUCGUUUCGAAUGCACUCACUUCGCGCACUUGCAGUCGUAUUGUAUCUGCCGCAGGG
.((((((((((((((.....(((...((((((((((..........................(((((...)))))((.........))))))))))))...))).))))))))).))))) (-31.18 = -32.78 +   1.60)

alignment

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secondary structure

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dotplot

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Window 5

Location 3,780,108 – 3,780,228
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.91
Mean single sequence MFE -37.58
Consensus MFE -29.49
Energy contribution -30.33
Covariance contribution 0.84
Combinations/Pair 1.10
Mean z-score -1.68
Structure conservation index 0.78
SVM decision value 0.47
SVM RNA-class probability 0.747449
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3780108 120 - 27905053
CCCUGCGGCAAAUACAAUACGACUGCAAGUGCGCGAAGUGAGCGCAUUCGAAACGAACUGGAAUUUGGGAAUGGGCAGAGCAAAGCACUUGCAGAUUUAUGGCAGGCAUCUGCCCAAAGG
.(((..................((((((((((.....((..((.(((((....((((......)))).))))).))...))...))))))))))......(((((....)))))...))) ( -37.00)
>DroSec_CAF1 9626 120 - 1
CCCUGCGGCAGAUACAAUACGACUGCAAGUGCGCGAAGUGAGUACAUUCGAAACGAACUGGAAUUUGGGAAUGGGCAGAGCAAAGCACUUGCAGAUUUAUGGCAGGCAUCUGCCCAAAGG
.(((..(((((((.(.(((...((((((((((.....((..(..(((((....((((......)))).)))))..)...))...))))))))))...))).....).)))))))...))) ( -37.60)
>DroSim_CAF1 13303 115 - 1
CCCUGCGGCAGAUACAAUACGACUGCAAGUGCGCG-----AGUGCAUUCGAAACGAACUGGAAUUUGGGAAUGGGCAGAGCAAAGCACUUGCAGAUUUAUGGCAGGCAUCUGCCCAAAGG
.(((..(((((((.(.(((...((((((((((((.-----.((.(((((....((((......)))).))))).))...))...))))))))))...))).....).)))))))...))) ( -39.80)
>DroEre_CAF1 2 112 - 1
CCCCGAGGCAGAUUU-AUACCA---CAAGUGCGCGAAAUGAGUGCAUUCGAAACGAACUCGAAUUUGGGAACGGGCAGAGCAAAGCACUUCCAGAUUUAUGGCAGGCAUCUGCCCA----
.((((((........-......---...((((((.......))))))((((.......)))).))))))...(((((((.....((.((.(((......))).)))).))))))).---- ( -36.60)
>DroYak_CAF1 13246 119 - 1
CCCCGAGGCAGAUUU-AUACGACUGCAAGUGCGCGAACUGAGUACGUUUGAAGCGAACUCGAAUUUAGGAACGGGCAGAGCAAAGCACUUGCAGAUUUAUGGCAGGCAUCUGCCCAAAGG
..((..(((((((((-(((...((((((((((..(..(((....(((((((..((....))..))...)))))..)))..)...))))))))))...))))).....)))))))....)) ( -36.90)
>consensus
CCCUGCGGCAGAUACAAUACGACUGCAAGUGCGCGAAGUGAGUGCAUUCGAAACGAACUGGAAUUUGGGAAUGGGCAGAGCAAAGCACUUGCAGAUUUAUGGCAGGCAUCUGCCCAAAGG
....(.(((((((.........((((((((((.........((.(((((....((((......)))).))))).))........)))))))))).......(....)))))))))..... (-29.49 = -30.33 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:05 2006