Locus 52

Sequence ID 2L_DroMel_CAF1
Location 213,287 – 213,387
Length 100
Max. P 0.638669
window74 window75

overview

Window 4

Location 213,287 – 213,387
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.38
Mean single sequence MFE -38.09
Consensus MFE -25.80
Energy contribution -24.75
Covariance contribution -1.05
Combinations/Pair 1.42
Mean z-score -1.33
Structure conservation index 0.68
SVM decision value 0.22
SVM RNA-class probability 0.638669
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 213287 100 + 22407834
CCAUUGCCUGUGCAGCCAUUUCAGCUAAAAAGGCCUGUGGGAAAUCGCUGGACAUGCCAGGAAUUUGUGGUAAUUGAGCUGCCGCUG------CUGUCGCAGCUGC--------------
((((..((((.(((.(((.....(((.....)))..((((....)))))))...))))))).....))))......((((((.((..------..)).))))))..-------------- ( -31.90)
>DroSec_CAF1 5585 100 + 1
CCAUUGCCUGUGCAGCCAUUUCAGCUAAAAAUGCCUGGGGGAAAUCGCUGGACAUGCCAGGAAUUUGUGGUAAUUGAGCUGCCGCUG------CUGCAGCGGCUGC--------------
((((..((((.(((.....((((((........((....)).....))))))..))))))).....)))).......((.(((((((------...))))))).))-------------- ( -34.22)
>DroSim_CAF1 5573 100 + 1
CCAUUGCCUGUGCAGCCAUUUCAGCUAAAAAUGCCUGGGGGAAAUCGCUGGACAUGCCAGGAAUUUGUGGUAAUUGAGCUGCCGCUG------CUGCAGCGGCUGC--------------
((((..((((.(((.....((((((........((....)).....))))))..))))))).....)))).......((.(((((((------...))))))).))-------------- ( -34.22)
>DroEre_CAF1 5878 100 + 1
CCAUUGCCUGUGCAGCCAUUUCGGCUAAAAAGGCCUGUGAGAAAUCACUGGACAUCCCAGGAAUUUGUGGUAAUUGAGCUGCUGCUG------CUGCCGCAGCUGC--------------
((((..((((...((((.....)))).....(.((.((((....)))).)).)....)))).....))))......((((((.((..------..)).))))))..-------------- ( -35.50)
>DroYak_CAF1 7633 97 + 1
CCAUUGCCUGUGCAGCCAUUUCAGCCAAAAAGGCCUGAGAGAAGUCACU---------AGGAAUUUGUGGCAAUUGAGCUGCCGCAGCAGCCGCAGCCGCAGCUGC--------------
...((((.((((((((((((((((((.....)).))))))...(((((.---------........)))))...)).)))).))))))))..(((((....)))))-------------- ( -35.60)
>DroMoj_CAF1 6059 114 + 1
CCAUUGCCUGGGCGGCCAUCUCGGCGAGAAGUGCCUGAGAGAAGUCACUGGACAUGCCUGGGAUCUGAGGCAUUUGGGCAGCUGCGG------CUGCGGCUGCUGCGGCGGCAGCUGCUG
(((.(((((.((...((.((((((((.....)))).))))...(((....))).......))..)).)))))..)))((((((((.(------((((((...))))))).)))))))).. ( -57.10)
>consensus
CCAUUGCCUGUGCAGCCAUUUCAGCUAAAAAGGCCUGAGAGAAAUCACUGGACAUGCCAGGAAUUUGUGGUAAUUGAGCUGCCGCUG______CUGCCGCAGCUGC______________
(.((((((...((((...((((((((.....)).))))))....((.((((.....))))))..)))))))))).)((((((.((..........)).))))))................ (-25.80 = -24.75 +  -1.05)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 213,287 – 213,387
Length 100
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.38
Mean single sequence MFE -35.25
Consensus MFE -21.99
Energy contribution -23.10
Covariance contribution 1.11
Combinations/Pair 1.19
Mean z-score -1.48
Structure conservation index 0.62
SVM decision value 0.11
SVM RNA-class probability 0.589936
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 213287 100 - 22407834
--------------GCAGCUGCGACAG------CAGCGGCAGCUCAAUUACCACAAAUUCCUGGCAUGUCCAGCGAUUUCCCACAGGCCUUUUUAGCUGAAAUGGCUGCACAGGCAAUGG
--------------((.(((((....)------)))).))...................((..((.(((.((((.(((((.....(((.......)))))))).)))).))).))...)) ( -30.70)
>DroSec_CAF1 5585 100 - 1
--------------GCAGCCGCUGCAG------CAGCGGCAGCUCAAUUACCACAAAUUCCUGGCAUGUCCAGCGAUUUCCCCCAGGCAUUUUUAGCUGAAAUGGCUGCACAGGCAAUGG
--------------((.(((((((...------))))))).))................((..((.(((.((((.(((((.....(((.......)))))))).)))).))).))...)) ( -33.40)
>DroSim_CAF1 5573 100 - 1
--------------GCAGCCGCUGCAG------CAGCGGCAGCUCAAUUACCACAAAUUCCUGGCAUGUCCAGCGAUUUCCCCCAGGCAUUUUUAGCUGAAAUGGCUGCACAGGCAAUGG
--------------((.(((((((...------))))))).))................((..((.(((.((((.(((((.....(((.......)))))))).)))).))).))...)) ( -33.40)
>DroEre_CAF1 5878 100 - 1
--------------GCAGCUGCGGCAG------CAGCAGCAGCUCAAUUACCACAAAUUCCUGGGAUGUCCAGUGAUUUCUCACAGGCCUUUUUAGCCGAAAUGGCUGCACAGGCAAUGG
--------------(.((((((.((..------..)).))))))).....(((.((((..((((.....))))..)))).......((((.(.(((((.....))))).).))))..))) ( -33.10)
>DroYak_CAF1 7633 97 - 1
--------------GCAGCUGCGGCUGCGGCUGCUGCGGCAGCUCAAUUGCCACAAAUUCCU---------AGUGACUUCUCUCAGGCCUUUUUGGCUGAAAUGGCUGCACAGGCAAUGG
--------------((((((((....))))))))(((.((((((.....((((.(((..(((---------((.(....).)).)))..))).))))......))))))....))).... ( -37.40)
>DroMoj_CAF1 6059 114 - 1
CAGCAGCUGCCGCCGCAGCAGCCGCAG------CCGCAGCUGCCCAAAUGCCUCAGAUCCCAGGCAUGUCCAGUGACUUCUCUCAGGCACUUCUCGCCGAGAUGGCCGCCCAGGCAAUGG
..((((((((.((.((.......)).)------).))))))))(((.((((((........))))))(((..(((.((..((((.(((.......))))))).)).)))...)))..))) ( -43.50)
>consensus
______________GCAGCUGCGGCAG______CAGCGGCAGCUCAAUUACCACAAAUUCCUGGCAUGUCCAGCGAUUUCCCACAGGCAUUUUUAGCUGAAAUGGCUGCACAGGCAAUGG
..............((.(((((.............))))).))................((..((.(((.((((.(((((.....(((.......)))))))).)))).))).))...)) (-21.99 = -23.10 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:24:22 2006