Locus 385

Sequence ID 2L_DroMel_CAF1
Location 1,201,984 – 1,202,088
Length 104
Max. P 0.774928
window608 window609

overview

Window 8

Location 1,201,984 – 1,202,088
Length 104
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 81.78
Mean single sequence MFE -33.20
Consensus MFE -21.39
Energy contribution -22.03
Covariance contribution 0.64
Combinations/Pair 1.31
Mean z-score -1.80
Structure conservation index 0.64
SVM decision value 0.20
SVM RNA-class probability 0.630186
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1201984 104 + 22407834
AUGCGAUU---UUCGCAAUAGACCCACCCCGUUUGUGACCGCAAUCACUCAGGCGUUUAAUAAUUGACUGCAUCUGCGGUCGAAUCCCAAUCGAAUCGGGGUGGGUG
.((((...---..))))....(((((((((((((((((.(((..........))).)))....((((((((....))))))))........)))).)))))))))). ( -42.50)
>DroSec_CAF1 16313 104 + 1
AUGCGAUU---UUCGCAAUGGACCCACCCCGUUUGUGACCGCAAUCACUCAGGCGUUUAAUAAUUGACUGCAUCUGCGGUCGAAUCCCAAUCGAAUCGUGGUGGGUA
.((((...---..))))....(((((((.(((((((((.(((..........))).)))....((((((((....))))))))........)))).)).))))))). ( -35.40)
>DroSim_CAF1 19034 104 + 1
AUGCGAUU---UUCGCAAUGGACCCACCCCGUUUGUGACCGCAAUCACUCAGGCGUUUAAUAAUUGACUCCAUCUGCGGUCGAAUCCCAAUCGAAUCGUGGUGGGUA
.((((...---..))))....(((((((.((((((((((((((........((.(((........))).))...)))))))).........)))).)).))))))). ( -34.00)
>DroEre_CAF1 18204 99 + 1
---CGAGU---UUCGCAGUAGACCCGCCCCUUU-GCGACCGCAAUCACUCAGGCGUUUAAUAAUUGACUGCAUCUGCGGUUCAAUCCC-AUCGAAUCGGGGUGGGCG
---.....---.........(.((((((((...-.(((.(((..........))).......(((((((((....)))).)))))...-.)))....))))))))). ( -30.70)
>DroYak_CAF1 18957 104 + 1
AUGCGAGU---UUCGCAAUAGAGCCACCCCUUUGGCGACCGCAAUCACUCAGGCGUUUAAUAAUUGACUGCAUCUGCGGUUCAAUCGCAAUCGAAUCGGGGUGGGUG
.((((...---..))))....(.(((((((((((((((.(((..........)))........((((((((....)))).))))))))...))))..))))))).). ( -34.00)
>DroPer_CAF1 31821 107 + 1
AUCUGUCUUGAAACGCACUGUACCCCUUCCUCUUCAGCCCGCAAUCACUCAACCGUUUAAUAAUUGACUGCAUCUGUAUUGGAUUCCAGAUCGAUCCAAGGGGAAGG
........................((((((((..(((...(((.(((.................))).)))..)))..(((((((.......))))))))))))))) ( -22.63)
>consensus
AUGCGAUU___UUCGCAAUAGACCCACCCCGUUUGUGACCGCAAUCACUCAGGCGUUUAAUAAUUGACUGCAUCUGCGGUCGAAUCCCAAUCGAAUCGGGGUGGGUG
.(((((......)))))....(((((((........(((((((((((.((((...........)))).)).)).)))))))...((......)).....))))))). (-21.39 = -22.03 +   0.64) 

alignment

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secondary structure

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dotplot

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Window 9

Location 1,201,984 – 1,202,088
Length 104
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 81.78
Mean single sequence MFE -35.18
Consensus MFE -24.49
Energy contribution -25.97
Covariance contribution 1.48
Combinations/Pair 1.30
Mean z-score -1.98
Structure conservation index 0.70
SVM decision value 0.54
SVM RNA-class probability 0.774928
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1201984 104 - 22407834
CACCCACCCCGAUUCGAUUGGGAUUCGACCGCAGAUGCAGUCAAUUAUUAAACGCCUGAGUGAUUGCGGUCACAAACGGGGUGGGUCUAUUGCGAA---AAUCGCAU
.((((((((((((((.....))))..((((((((...((.(((.............))).)).)))))))).....))))))))))....((((..---...)))). ( -43.72)
>DroSec_CAF1 16313 104 - 1
UACCCACCACGAUUCGAUUGGGAUUCGACCGCAGAUGCAGUCAAUUAUUAAACGCCUGAGUGAUUGCGGUCACAAACGGGGUGGGUCCAUUGCGAA---AAUCGCAU
.(((((((.((((((.....))))..((((((((...((.(((.............))).)).)))))))).....)).)))))))....((((..---...)))). ( -36.62)
>DroSim_CAF1 19034 104 - 1
UACCCACCACGAUUCGAUUGGGAUUCGACCGCAGAUGGAGUCAAUUAUUAAACGCCUGAGUGAUUGCGGUCACAAACGGGGUGGGUCCAUUGCGAA---AAUCGCAU
.(((((((.((((((.....))))..((((((((((...)))..........(((....)))..))))))).....)).)))))))....((((..---...)))). ( -33.90)
>DroEre_CAF1 18204 99 - 1
CGCCCACCCCGAUUCGAU-GGGAUUGAACCGCAGAUGCAGUCAAUUAUUAAACGCCUGAGUGAUUGCGGUCGC-AAAGGGGCGGGUCUACUGCGAA---ACUCG---
.((((.(((((((((...-.)))))((.((((((...((.(((.............))).)).))))))))..-...)))).))))..........---.....--- ( -31.02)
>DroYak_CAF1 18957 104 - 1
CACCCACCCCGAUUCGAUUGCGAUUGAACCGCAGAUGCAGUCAAUUAUUAAACGCCUGAGUGAUUGCGGUCGCCAAAGGGGUGGCUCUAUUGCGAA---ACUCGCAU
...(((((((....(((((((((((((...((....))..))))))......(((....)))...))))))).....)))))))......((((..---...)))). ( -36.60)
>DroPer_CAF1 31821 107 - 1
CCUUCCCCUUGGAUCGAUCUGGAAUCCAAUACAGAUGCAGUCAAUUAUUAAACGGUUGAGUGAUUGCGGGCUGAAGAGGAAGGGGUACAGUGCGUUUCAAGACAGAU
((((((.((((((((......).))))....(((.((((((((....((((....)))).))))))))..)))))).))))))..........(((....))).... ( -29.20)
>consensus
CACCCACCCCGAUUCGAUUGGGAUUCGACCGCAGAUGCAGUCAAUUAUUAAACGCCUGAGUGAUUGCGGUCACAAAAGGGGUGGGUCCAUUGCGAA___AAUCGCAU
.(((((((((((.((......)).)).(((((((...((.(((.............))).)).))))))).......)))))))))....(((((......))))). (-24.49 = -25.97 +   1.48) 

alignment

Postscript

secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:36 2006