Locus 7233

Sequence ID 2L_DroMel_CAF1
Location 20,271,136 – 20,271,235
Length 99
Max. P 0.995819
window11573 window11574

overview

Window 3

Location 20,271,136 – 20,271,235
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.67
Mean single sequence MFE -40.62
Consensus MFE -34.10
Energy contribution -34.50
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.22
Structure conservation index 0.84
SVM decision value 2.22
SVM RNA-class probability 0.990538
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20271136 99 + 22407834
CCG---------------------ACUGCCGGCAACUGGCCAUGGCUAUAAGCCAACUGGCCAUUUUGUCAGCUGCGCUGCGUUGCAGCAGCCGUCGCAUGUUAAUAUCUGCCCCUGCAU
.((---------------------((.((.(((((.((((((((((.....))))..))))))..))))).((((((......)))))).)).))))............(((....))). ( -37.70)
>DroSec_CAF1 21980 113 + 1
CCGACUAC-------CGACUGCCGACUGCCGGCAACUGGCCAUGGCUAUAAGCCAACUGGCCAUUUUGUCAGAUGCGCUGCGUUGCAGCAGCCGUCGCAUGUUAAUAUCUGCCCCUGCAU
........-------.((((((((.....)))))..((((((((((.....))))..))))))....))).((((.(((((......)))))))))(((.((........))...))).. ( -42.40)
>DroSim_CAF1 20845 113 + 1
CCGACUGC-------CGACUACCGACUGCCGGCAACUGGCCAUGGCUAUAAGCCAACUGGCCAUUUUGUCAGAUGCGCUGCGUUGCAGCAGCCGUCGCAUGUUAAUAUCUGCCCCUGCAU
..((((((-------((.(........).)))))..((((((((((.....))))..))))))....))).((((.(((((......)))))))))(((.((........))...))).. ( -42.50)
>DroEre_CAF1 2215 120 + 1
CCGACUGCCAACUGCCGACUACCGAAUGCCGGCAACUGGCCAUGGCUAUAAGCCAACUGGCCAUUUUGUCAGCUGCGCUGCGUUGCAGCAGCCGUCGCACGUUAAUAUCUGCCCCUGCAU
..(((.......(((((.(........).)))))..((((((((((.....))))..))))))....))).((((((......)))))).((.(..(((.((....)).)))..).)).. ( -40.40)
>DroYak_CAF1 2207 113 + 1
CCGACUGC-------CGACUACCGACUGCCGGCAACUGGCCAUGGCCAUAAGCCAACUGGCCAUUUUGUCAGCUGCGCUGCGUUGCAGCAGCCGUCGCAUGUUAAUAUCUGCCCCUGCAU
..((((((-------.(((....(...((.(((((.((((((((((.....))))..))))))..))))).))..)(((((......))))).)))))).)))......(((....))). ( -40.10)
>consensus
CCGACUGC_______CGACUACCGACUGCCGGCAACUGGCCAUGGCUAUAAGCCAACUGGCCAUUUUGUCAGCUGCGCUGCGUUGCAGCAGCCGUCGCAUGUUAAUAUCUGCCCCUGCAU
..........................(((.((((..((((((((((.....))))..))))))........((.(((((((......)))).))).))...........))))...))). (-34.10 = -34.50 +   0.40)

alignment

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secondary structure

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dotplot

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Window 4

Location 20,271,136 – 20,271,235
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.67
Mean single sequence MFE -47.84
Consensus MFE -38.92
Energy contribution -39.52
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.71
Structure conservation index 0.81
SVM decision value 2.62
SVM RNA-class probability 0.995819
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20271136 99 - 22407834
AUGCAGGGGCAGAUAUUAACAUGCGACGGCUGCUGCAACGCAGCGCAGCUGACAAAAUGGCCAGUUGGCUUAUAGCCAUGGCCAGUUGCCGGCAGU---------------------CGG
.((((.(............).)))).((((((((((((((((((...)))).)....((((((..((((.....)))))))))))))).)))))))---------------------)). ( -42.90)
>DroSec_CAF1 21980 113 - 1
AUGCAGGGGCAGAUAUUAACAUGCGACGGCUGCUGCAACGCAGCGCAUCUGACAAAAUGGCCAGUUGGCUUAUAGCCAUGGCCAGUUGCCGGCAGUCGGCAGUCG-------GUAGUCGG
((((.(..(((..........)))..).(((((......)))))))))(((((....((((((..((((.....))))))))))..(((((((........))))-------)))))))) ( -46.20)
>DroSim_CAF1 20845 113 - 1
AUGCAGGGGCAGAUAUUAACAUGCGACGGCUGCUGCAACGCAGCGCAUCUGACAAAAUGGCCAGUUGGCUUAUAGCCAUGGCCAGUUGCCGGCAGUCGGUAGUCG-------GCAGUCGG
((((.(..(((..........)))..).(((((......)))))))))(((((....((((((..((((.....))))))))))..(((((((........))))-------)))))))) ( -48.20)
>DroEre_CAF1 2215 120 - 1
AUGCAGGGGCAGAUAUUAACGUGCGACGGCUGCUGCAACGCAGCGCAGCUGACAAAAUGGCCAGUUGGCUUAUAGCCAUGGCCAGUUGCCGGCAUUCGGUAGUCGGCAGUUGGCAGUCGG
.((((.(............).)))).((((((((((...)))))...((..((....((((((..((((.....))))))))))..(((((((........)))))))))..))))))). ( -53.20)
>DroYak_CAF1 2207 113 - 1
AUGCAGGGGCAGAUAUUAACAUGCGACGGCUGCUGCAACGCAGCGCAGCUGACAAAAUGGCCAGUUGGCUUAUGGCCAUGGCCAGUUGCCGGCAGUCGGUAGUCG-------GCAGUCGG
.(((....)))............((((.((.(((((...))))))).((((((....((((((..((((.....))))))))))..(((((.....)))))))))-------)).)))). ( -48.70)
>consensus
AUGCAGGGGCAGAUAUUAACAUGCGACGGCUGCUGCAACGCAGCGCAGCUGACAAAAUGGCCAGUUGGCUUAUAGCCAUGGCCAGUUGCCGGCAGUCGGUAGUCG_______GCAGUCGG
.((((.(............).)))).(((((((((((((((((.....))).)....((((((..((((.....)))))))))))))).)))))))))...................... (-38.92 = -39.52 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:03 2006