Locus 1930

Sequence ID 3L_DroMel_CAF1
Location 5,385,669 – 5,385,823
Length 154
Max. P 0.648445
window3010 window3011

overview

Window 0

Location 5,385,669 – 5,385,783
Length 114
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 94.91
Mean single sequence MFE -28.43
Consensus MFE -24.36
Energy contribution -24.84
Covariance contribution 0.48
Combinations/Pair 1.09
Mean z-score -1.33
Structure conservation index 0.86
SVM decision value 0.24
SVM RNA-class probability 0.648445
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5385669 114 + 23771897
GUGCUUCAUUGAAGGCUGAGCAAACAGAAUCAAGUUCAGUCAAAUUGCUUUACUUUACCGCAGAUUUGUAGAGGAAAUCGCUGGGAGUAUCCCAAAGCAAUUUACAAUCUUGUC
..((...((((..((((((((............))))))))((((((((((.((((((.........)))))).........(((.....))))))))))))).))))...)). ( -29.90)
>DroSec_CAF1 34812 114 + 1
GUGCUUCAUUGGAGGCUGAGCAAACAGAAUCAAGUUCAGUCAAAUUGCUUUACUUUACCACAGAUUUGUAGAGGAAAUCGCUGGGAGUAUCCCAAAGCAAUUUACAAUCUUGUC
..((...((((..((((((((............))))))))((((((((((.((((((.........)))))).........(((.....))))))))))))).))))...)). ( -30.10)
>DroSim_CAF1 33054 114 + 1
GUGCUUCAUUGGAGGCUGAGCAAACAGAAUCAAGUUCAGUCAAAUUGCUUUACUUUGCCGCAGAUUUGUAGAGGAAAUCGCUGGGAGUAUCCCAAAGCAAUUUACAAUCUUGUC
..((...((((..((((((((............))))))))((((((((((.((((((.........)))))).........(((.....))))))))))))).))))...)). ( -30.10)
>DroEre_CAF1 34772 114 + 1
GUGCUUCAUUGGAGGCUGAGCAAACAGAAUCGAGUUCAGUCAAAUUGCUUUACUUUAGCGCAAAUUUGUAAAGCAAAUCGCAGGGAGUAUCCCAAAACAAUUUAUAAUCUUGUC
(((((((.(((((((((((((............))))))))...(((((((((..............))))))))).)).))))))))))........................ ( -28.24)
>DroYak_CAF1 33481 114 + 1
GUGCUUCAUUGGAGGCUGAGCAAACAGAAUCAAGUUCAGUCAAAUUGCUUUACUUUACCGCAGAUUUGCAAAGGAAAUCGCAGGGAGUAUCCGAAAACAAUUUACAAUCUUGUC
........(((((((((((((............)))))))).........((((((...((.(((((.(...).)))))))..))))))))))).................... ( -23.80)
>consensus
GUGCUUCAUUGGAGGCUGAGCAAACAGAAUCAAGUUCAGUCAAAUUGCUUUACUUUACCGCAGAUUUGUAGAGGAAAUCGCUGGGAGUAUCCCAAAGCAAUUUACAAUCUUGUC
..((...((((..((((((((............))))))))((((((((((.((((((.........)))))).........(((.....))))))))))))).))))...)). (-24.36 = -24.84 +   0.48)

alignment

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secondary structure

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dotplot

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Window 1

Location 5,385,709 – 5,385,823
Length 114
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 92.27
Mean single sequence MFE -24.43
Consensus MFE -18.82
Energy contribution -19.86
Covariance contribution 1.04
Combinations/Pair 1.09
Mean z-score -1.64
Structure conservation index 0.77
SVM decision value 0.19
SVM RNA-class probability 0.625957
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5385709 114 - 23771897
GCAAAUAAACCAAUCUACUAAGCGAUUGCCCCAAAAUGCUGACAAGAUUGUAAAUUGCUUUGGGAUACUCCCAGCGAUUUCCUCUACAAAUCUGCGGUAAAGUAAAGCAAUUUG
..........((((((....((((.((......)).))))....))))))((((((((((((((.....))).(((((((.......))))).))........))))))))))) ( -26.90)
>DroSec_CAF1 34852 114 - 1
ACAAAUAAACCAAUCUACUAAGCGAUUGCCCCCCAAUGCUGACAAGAUUGUAAAUUGCUUUGGGAUACUCCCAGCGAUUUCCUCUACAAAUCUGUGGUAAAGUAAAGCAAUUUG
..........((((((....(((.((((.....)))))))....))))))((((((((((((((.....)))....((((...(((((....)))))..))))))))))))))) ( -27.90)
>DroSim_CAF1 33094 114 - 1
GCAAAUAAACCAAUCAACUAAGCGAUUGCCCCCCAAUGCUGACAAGAUUGUAAAUUGCUUUGGGAUACUCCCAGCGAUUUCCUCUACAAAUCUGCGGCAAAGUAAAGCAAUUUG
((........(((((........)))))........(((((...(((((((((((((((..(((.....)))))))))).....))).))))).))))).......))...... ( -27.20)
>DroEre_CAF1 34812 112 - 1
GCAAAUAAACCAAUCAACUAAACGAUUGC--CCCAAUGCUGACAAGAUUAUAAAUUGUUUUGGGAUACUCCCUGCGAUUUGCUUUACAAAUUUGCGCUAAAGUAAAGCAAUUUG
(((.......(((((........))))).--(((((....(((((.........))))))))))........)))((.(((((((((..............))))))))).)). ( -22.74)
>DroYak_CAF1 33521 113 - 1
GCAAAUAAACCAAUCUACUAAACGAUUCC-CCCCAAUGCUGACAAGAUUGUAAAUUGUUUUCGGAUACUCCCUGCGAUUUCCUUUGCAAAUCUGCGGUAAAGUAAAGCAAUUUG
((...........(((...((((((((..-...((((.((....))))))..))))))))..)))((((..(((((((((.......))))).))))...))))..))...... ( -17.40)
>consensus
GCAAAUAAACCAAUCUACUAAGCGAUUGCCCCCCAAUGCUGACAAGAUUGUAAAUUGCUUUGGGAUACUCCCAGCGAUUUCCUCUACAAAUCUGCGGUAAAGUAAAGCAAUUUG
..........((((((....(((.((((.....)))))))....))))))((((((((((((((.....))).(((((((.......))))).))........))))))))))) (-18.82 = -19.86 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:15 2006