Locus 8746

Sequence ID 3L_DroMel_CAF1
Location 22,852,770 – 22,852,865
Length 95
Max. P 0.999720
window14320 window14321

overview

Window 0

Location 22,852,770 – 22,852,865
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 92.95
Mean single sequence MFE -38.54
Consensus MFE -34.00
Energy contribution -35.24
Covariance contribution 1.24
Combinations/Pair 1.03
Mean z-score -1.86
Structure conservation index 0.88
SVM decision value 2.13
SVM RNA-class probability 0.988664
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22852770 95 + 23771897
GUCUCUUGCCAGUGCUGUAUUUUUAAUGAGCACCAGUGCAGGAGGCGCCGUGCCCAAGCUUCCGCUGCUGCCUGGUGCUUGGUGCCUGCUGGCUG
.......((((((...(((((......(((((((((.((((..((((....((....))...)))).))))))))))))))))))..)))))).. ( -40.40)
>DroSec_CAF1 40969 95 + 1
GUCUCCUGCCAGUGCUGUAUUUUUAAUGAGCACCAGUGCAGGAGGCGCCGUGCCCGAGCUUCCGCUGCUGCCUGGUGCCUGGUGCCUGCUGGCUG
((((((((((.(((((.(((.....))))))))..).)))))))))((((.(((((.((..........)).))).)).))))(((....))).. ( -38.90)
>DroSim_CAF1 42193 95 + 1
GUCUCCUGCCAGUGCUGUAUUUUUAAUGAGCACCAGUGCAGGAGGCGCCGUGCCCGAGCUUCCGCUGCUGCCUGGUGCCUGGUGCCUGCUGGCUG
((((((((((.(((((.(((.....))))))))..).)))))))))((((.(((((.((..........)).))).)).))))(((....))).. ( -38.90)
>DroEre_CAF1 45878 90 + 1
GUCUCCUGCCAGUGCUGUAUUUUUAAUGAGCACCAGUGCAGGAGGCGCCUUGCUCCAGCUUCCGCUGCUGCCUGGUGCUCGGUGCCUGCU-----
...(((((((.(((((.(((.....))))))))..).))))))((((((..((.((((.....((....)))))).))..))))))....----- ( -37.00)
>DroYak_CAF1 43001 95 + 1
GUCUCCUGCCAGUGCUGUAUUUUUAAUGAGCAACAGUGCAAGAGGCGCCUUGCUUUAGCUUCCGCUGCUGCCUGGUGCUUGGUGCCUGCUGGCUG
.......(((((((((.(((.....))))))).(((.(((..(((((((..((..((((....))))..))..)))))))..))))))))))).. ( -37.50)
>consensus
GUCUCCUGCCAGUGCUGUAUUUUUAAUGAGCACCAGUGCAGGAGGCGCCGUGCCCGAGCUUCCGCUGCUGCCUGGUGCUUGGUGCCUGCUGGCUG
.......((((((...(((((......(((((((((.((((..((((....((....))...)))).))))))))))))))))))..)))))).. (-34.00 = -35.24 +   1.24)

alignment

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secondary structure

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dotplot

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Window 1

Location 22,852,770 – 22,852,865
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 92.95
Mean single sequence MFE -37.28
Consensus MFE -32.82
Energy contribution -33.70
Covariance contribution 0.88
Combinations/Pair 1.04
Mean z-score -2.77
Structure conservation index 0.88
SVM decision value 3.94
SVM RNA-class probability 0.999720
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22852770 95 - 23771897
CAGCCAGCAGGCACCAAGCACCAGGCAGCAGCGGAAGCUUGGGCACGGCGCCUCCUGCACUGGUGCUCAUUAAAAAUACAGCACUGGCAAGAGAC
..(((((..(....).((((((((((((.(((....))).((((.....)))).)))).))))))))................)))))....... ( -38.20)
>DroSec_CAF1 40969 95 - 1
CAGCCAGCAGGCACCAGGCACCAGGCAGCAGCGGAAGCUCGGGCACGGCGCCUCCUGCACUGGUGCUCAUUAAAAAUACAGCACUGGCAGGAGAC
..(((....)))....(((.((..((...(((....)))...))..)).)))((((((...((((((............)))))).))))))... ( -39.30)
>DroSim_CAF1 42193 95 - 1
CAGCCAGCAGGCACCAGGCACCAGGCAGCAGCGGAAGCUCGGGCACGGCGCCUCCUGCACUGGUGCUCAUUAAAAAUACAGCACUGGCAGGAGAC
..(((....)))....(((.((..((...(((....)))...))..)).)))((((((...((((((............)))))).))))))... ( -39.30)
>DroEre_CAF1 45878 90 - 1
-----AGCAGGCACCGAGCACCAGGCAGCAGCGGAAGCUGGAGCAAGGCGCCUCCUGCACUGGUGCUCAUUAAAAAUACAGCACUGGCAGGAGAC
-----........(((((((((((((((((((....))))((((.....).))))))).)))))))))............((....)).)).... ( -37.70)
>DroYak_CAF1 43001 95 - 1
CAGCCAGCAGGCACCAAGCACCAGGCAGCAGCGGAAGCUAAAGCAAGGCGCCUCUUGCACUGUUGCUCAUUAAAAAUACAGCACUGGCAGGAGAC
..(((....))).....((.((..((...(((....)))...))..)).))(((((((..(((((.............)))))...))))))).. ( -31.92)
>consensus
CAGCCAGCAGGCACCAAGCACCAGGCAGCAGCGGAAGCUCGGGCACGGCGCCUCCUGCACUGGUGCUCAUUAAAAAUACAGCACUGGCAGGAGAC
..(((....))).....((.((..((...(((....)))...))..)).))(((((((...((((((............)))))).))))))).. (-32.82 = -33.70 +   0.88)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:38 2006