Locus 4810

Sequence ID 2L_DroMel_CAF1
Location 13,733,539 – 13,733,681
Length 142
Max. P 0.917151
window7607 window7608

overview

Window 7

Location 13,733,539 – 13,733,642
Length 103
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 87.58
Mean single sequence MFE -33.46
Consensus MFE -26.70
Energy contribution -27.26
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -2.01
Structure conservation index 0.80
SVM decision value 1.11
SVM RNA-class probability 0.917151
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13733539 103 - 22407834
AGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUGCCAGCUCCUGGCCCCCAGGAUC---CACCUCCCCGCACCCAACGGUCUGGCCCACUUCUU---
(((((.((.(((((.((.((.......)).)))).))))))))))(((((.((((((...))))))..---.......(((.......))).))))).........--- ( -31.30)
>DroSec_CAF1 90846 103 - 1
AGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUGCCAGCUCCUGGCCCCUAGGAGC---CACCUCCCCGUACCCAACGGGUUGGCCCACUUUUU---
(((((.((.(((((.((.((.......)).)))).))))))))))((((((((((((...))))))))---......(((((.....))))).)))).........--- ( -38.40)
>DroSim_CAF1 88643 106 - 1
AGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUUCCAGCUCCUGGCCCCCAGGAUC---CACCUCCCCGCACCCAACGGGCUGGCCCACUUUUUUUU
((((....))))....(((((......((((...(((((((.....)))))))..))))...))))).---..((..((((.......))))..))............. ( -33.10)
>DroEre_CAF1 91140 98 - 1
AGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUGCCAGCUCCUGGCUC-CAGGAUC---CAGCUCCCUCCACCCAACGGGUUGGCCCACU-------
((((....))))...............(((..(((((((((.((.....))(((((....-))))).)---))))))......((....))))..)))....------- ( -35.10)
>DroYak_CAF1 91522 109 - 1
AGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUGCCAGCUCCUGGAUCCCAGUAUCUUGCACCUUUCUCCACCCAAUGGGUUAGCUCACUCUUUUUU
((((....))))...............((((((((((((((.....)))))))((((...))))................(((.....))))))))))........... ( -29.40)
>consensus
AGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUGCCAGCUCCUGGCCCCCAGGAUC___CACCUCCCCGCACCCAACGGGUUGGCCCACUUUUU___
(((((.((.(((((.((.((.......)).)))).))))))))))(((((((((((.....)))))............(((.......)))))))))............ (-26.70 = -27.26 +   0.56)

alignment

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secondary structure

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dotplot

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Window 8

Location 13,733,567 – 13,733,681
Length 114
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 94.79
Mean single sequence MFE -40.06
Consensus MFE -35.28
Energy contribution -35.12
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -1.40
Structure conservation index 0.88
SVM decision value 0.71
SVM RNA-class probability 0.830223
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13733567 114 - 22407834
CCUCCCGUUCCGGAGUGUCGCUUAAUAGCCAGCGGGCUAAGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUGCCAGCUCCUGGCCCCCAGGAUC---CACCUCC
...........(((((((.(((...(((((....))))))))))))..........((((......((((...(((((((.....)))))))..))))...))))))---)...... ( -39.00)
>DroSec_CAF1 90874 114 - 1
CCUCCCGUUCCGGAGUGUCGCUUAAUAGCCAGCGGGCUAAGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUGCCAGCUCCUGGCCCCUAGGAGC---CACCUCC
...........((((.((.((((....(((((.(((((.(((((.((.(((((.((.((.......)).)))).))))))))))...))))))))))......))))---.)))))) ( -42.90)
>DroSim_CAF1 88674 114 - 1
CCUCCCGUUCCGGAGUGUCGCUUAAUAGCCAGCGGGCUAAGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUUCCAGCUCCUGGCCCCCAGGAUC---CACCUCC
...........(((((((.(((...(((((....))))))))))))..........((((......((((...(((((((.....)))))))..))))...))))))---)...... ( -38.30)
>DroEre_CAF1 91164 113 - 1
UCUCCCGUUCCGGAGUGUCGCUUAAUAGCCAGCGGGCUAAGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUGCCAGCUCCUGGCUC-CAGGAUC---CAGCUCC
..(((......)))((((.(((...(((((....))))))))))))(.((((...(((((......((((...(((((((.....)))))))..)))).-.))))).---)))).). ( -40.90)
>DroYak_CAF1 91553 117 - 1
UCUCCCGUUCCGGAGUGUCGCUUAAUAGCCAGCGGGCUAAGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUGCCAGCUCCUGGAUCCCAGUAUCUUGCACCUUU
..(((......)))((((.(((...(((((....))))))))))))((((.((.((.((.......)).))))(((((((.....)))))))((((...))))......)))).... ( -39.20)
>consensus
CCUCCCGUUCCGGAGUGUCGCUUAAUAGCCAGCGGGCUAAGCACACGUGCUGUACAUCCUUAAUUUGGCUGACGAGCUGGUGCUGCCAGCUCCUGGCCCCCAGGAUC___CACCUCC
.((((......)))).((((((...(((((....)))))((((....))))...............))).)))(((((((.....)))))))(((.....))).............. (-35.28 = -35.12 +  -0.16)

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 11:27:55 2006