Locus 447

Sequence ID 2R_DroMel_CAF1
Location 2,569,694 – 2,569,800
Length 106
Max. P 0.999987
window856 window857

overview

Window 6

Location 2,569,694 – 2,569,800
Length 106
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 72.21
Mean single sequence MFE -37.80
Consensus MFE -25.77
Energy contribution -27.08
Covariance contribution 1.31
Combinations/Pair 1.22
Mean z-score -4.67
Structure conservation index 0.68
SVM decision value 5.35
SVM RNA-class probability 0.999984
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2569694 106 + 20766785
UUUGGUAAAGACUGGUUCCACUGUCACACAUAUGUUGCUGCUGCUCAUGUUUACGCGCAGUUAAAUAUUAAAUUGCGACAGUGAAAUCAGGCUUUGUUAGACAAC--------A-----
(((..(((((.((((((.(((((((.((...(((((...(((((.(........).)))))..))))).....)).))))))).)))))).)))))..)))....--------.----- ( -34.60)
>DroSec_CAF1 2978 86 + 1
UUUGGUAAAGCCUGGUUUCACUGCCACGCAUAUUUUGCUGCUACUCA--------------------UUAAAUUGGGACAGUGAAAUCAGGCUAUGGUAGACAGC--------A-----
((((.((.(((((((((((((((....(((.....))).....((((--------------------......)))).))))))))))))))).)).))))....--------.----- ( -33.00)
>DroSim_CAF1 2989 86 + 1
UUUGGUAAAGCCUGGUUUCACUGCCACGCAUAUUUUGCUGCUGCUCA--------------------UUAAAUUGGGACAGUGAAAUCAGGCUAUGAUAGACAGC--------A-----
........(((((((((((((((((..(((.....))).......((--------------------......)))).)))))))))))))))............--------.----- ( -30.80)
>DroEre_CAF1 2829 119 + 1
UUUGGUAUGGCUUGGUUCCACUGCCACACAUAUUUUGCUACUGCUUGUGUUUUCGCGCAGUUAAAAGUAAAAUUGCGGCAGUGAAAUCAGGCUAUGCUAGACAGCUGGACAGCAGGUCU
..(((((((((((((((.(((((((.((...(((((((((((((..(((....))))))))....)))))))))).))))))).)))))))))))))))(((.(((....)))..))). ( -52.80)
>consensus
UUUGGUAAAGCCUGGUUCCACUGCCACACAUAUUUUGCUGCUGCUCA____________________UUAAAUUGCGACAGUGAAAUCAGGCUAUGAUAGACAGC________A_____
(((((((((((((((((((((((((.((.............................................)).))))))))))))))))))))))))).................. (-25.77 = -27.08 +   1.31)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 2,569,694 – 2,569,800
Length 106
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 72.21
Mean single sequence MFE -30.38
Consensus MFE -23.58
Energy contribution -24.20
Covariance contribution 0.62
Combinations/Pair 1.24
Mean z-score -3.47
Structure conservation index 0.78
SVM decision value 5.46
SVM RNA-class probability 0.999987
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2569694 106 - 20766785
-----U--------GUUGUCUAACAAAGCCUGAUUUCACUGUCGCAAUUUAAUAUUUAACUGCGCGUAAACAUGAGCAGCAGCAACAUAUGUGUGACAGUGGAACCAGUCUUUACCAAA
-----.--------..........((((.(((.(((((((((((((.....((((....((((((..........)).))))....)))).))))))))))))).))).))))...... ( -32.50)
>DroSec_CAF1 2978 86 - 1
-----U--------GCUGUCUACCAUAGCCUGAUUUCACUGUCCCAAUUUAA--------------------UGAGUAGCAGCAAAAUAUGCGUGGCAGUGAAACCAGGCUUUACCAAA
-----.--------............((((((.((((((((((.((......--------------------))....(((........)))..)))))))))).))))))........ ( -25.90)
>DroSim_CAF1 2989 86 - 1
-----U--------GCUGUCUAUCAUAGCCUGAUUUCACUGUCCCAAUUUAA--------------------UGAGCAGCAGCAAAAUAUGCGUGGCAGUGAAACCAGGCUUUACCAAA
-----.--------............((((((.((((((((((.((......--------------------))....(((........)))..)))))))))).))))))........ ( -25.90)
>DroEre_CAF1 2829 119 - 1
AGACCUGCUGUCCAGCUGUCUAGCAUAGCCUGAUUUCACUGCCGCAAUUUUACUUUUAACUGCGCGAAAACACAAGCAGUAGCAAAAUAUGUGUGGCAGUGGAACCAAGCCAUACCAAA
((((..(((....))).))))......((.((.((((((((((((((((((.((....(((((............))))))).)))))...))))))))))))).)).))......... ( -37.20)
>consensus
_____U________GCUGUCUAACAUAGCCUGAUUUCACUGUCCCAAUUUAA____________________UGAGCAGCAGCAAAAUAUGCGUGGCAGUGAAACCAGGCUUUACCAAA
........................((((((((.((((((((((((...........................((.....))(((.....))))))))))))))).))))))))...... (-23.58 = -24.20 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:48 2006