Locus 7661

Sequence ID 3L_DroMel_CAF1
Location 20,571,770 – 20,572,007
Length 237
Max. P 0.781474
window12451 window12452

overview

Window 1

Location 20,571,770 – 20,571,887
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.73
Mean single sequence MFE -48.20
Consensus MFE -31.38
Energy contribution -34.04
Covariance contribution 2.66
Combinations/Pair 1.11
Mean z-score -1.89
Structure conservation index 0.65
SVM decision value 0.41
SVM RNA-class probability 0.723449
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20571770 117 - 23771897
CUCCUGGCAACCAGGAGGCCCCGGGGCUCCACCACCUCCACCAGGCGGGUUACCAGCGCCUCCCGGGGGAUU---GUUUAAUCGAUGUGGCCCGUUGCCGGGAUCAAUGUCAGUUGGUUU
.((((((((((..((((.((....)))))).((((((((...(((((.........)))))...)))))(((---(......)))).)))...))))))))))(((((....)))))... ( -46.90)
>DroSec_CAF1 16713 117 - 1
CUCCUGGCAACCAGGAGGCCCCGGGACUCCGCCACCUCCACCACCCGGGUUGCCAGCGCCUCCCGGGGGAUU---GUUUAAUCGAUGUGGCCCGUUGCCGGGAUCAAUGUCAGUUGGUUU
.((((((((((..((((.((...)).))))(((((.....((.((((((..((....))..))))))))(((---(......)))))))))..))))))))))(((((....)))))... ( -53.50)
>DroAna_CAF1 38291 99 - 1
CUCCUGGCAACCGGGGG---------------CAACU------CCUUGGUUUCCCUGGGCUCCCGGGGGAUUGUUGUUUAAUCGAUGUGUGCCGUUGCUGGGAUCAAAGUCUUUUGGCUU
.(((..(((((.((((.---------------...))------))..(((..((((((....))))))(((((.....))))).......))))))))..)))...(((((....))))) ( -43.50)
>DroSim_CAF1 10209 117 - 1
CUCCUGGCAACCAGGAGGCCCCGGGACUCCGCCACCUCCACCAGCCGGGUUGCCAGCGCCUCCCGGGGGAUU---GUUUAAUCGAUGUGGCCCGUUGCCGGGAUCAAUGUCAGUUGGUUU
.((((((((((..((((.((...)).))))(((((.((..((..(((((..((....))..)))))))((((---....)))))).)))))..))))))))))(((((....)))))... ( -49.90)
>DroEre_CAF1 9978 117 - 1
CUCCUGGCAACCAGGAGGCCCCUGGACUCCGCCACCUGCGCCACCCUGGUUGCCAGCACCAGCUUGGGGAUU---GUUUAAUCGAUGUGGCCCGUUGCCGGGAUCAAUGUCAGUUGGCUU
...((((((((((((.((((..(((......)))...).)))..))))))))))))..((((((....((((---....))))(((((((((((....)))).)).)))))))))))... ( -47.20)
>consensus
CUCCUGGCAACCAGGAGGCCCCGGGACUCCGCCACCUCCACCACCCGGGUUGCCAGCGCCUCCCGGGGGAUU___GUUUAAUCGAUGUGGCCCGUUGCCGGGAUCAAUGUCAGUUGGUUU
.((((((((((..((((.((...)).))))(((((........((((((..((....))..)))))).((((.......))))...)))))..))))))))))(((((....)))))... (-31.38 = -34.04 +   2.66)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,571,887 – 20,572,007
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.58
Mean single sequence MFE -44.76
Consensus MFE -37.24
Energy contribution -38.12
Covariance contribution 0.88
Combinations/Pair 1.05
Mean z-score -1.55
Structure conservation index 0.83
SVM decision value 0.56
SVM RNA-class probability 0.781474
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20571887 120 - 23771897
CAGGACACUGGCACUUCCCAUGCCACUAAUGCUCUCGAUUUGACUCGCACCGUCGUUGAACCAAAUGUCCGGGGUAUGGGGAUUCUUGGGCGUAUCGCUCAGAUAGCCGGAUGUGUCCUC
.(((((((((((..((((((((((.....(((..((.....))...)))(((.((((......))))..)))))))))))))...(((((((...)))))))...))))...))))))). ( -45.60)
>DroSec_CAF1 16830 120 - 1
CAGGACACUGGCACUUCCCAUGCCACUAAUGCUCUCGAUUUGACUCGCACCGUCGUUGAACCAAAUGUCCGGAGUGUGGGGAUUCUUGGGCGUAUCGCUCAGAUAGCCGGAUGUGUCCUC
.(((((((((((..(((((((((......(((..((.....))...)))(((.((((......))))..))).)))))))))...(((((((...)))))))...))))...))))))). ( -40.40)
>DroAna_CAF1 38390 120 - 1
CAGGACACUGGCGCUUCCCAAGCCACUGACGCUCUCGAUUUGGCUCGCACCGUCGUUGAACCAAAUGUCGGGCGUGUGCGGAUUCUUGGGCGUGUCGCUAAGAUAGCCGGAAGUGUCCUC
.(((((((((((((..((((((...(((((((.((((((((((.(((.((....))))).))))..)))))).)))).)))...)))))).)))))((((...))))....)))))))). ( -49.20)
>DroSim_CAF1 10326 120 - 1
CAGGACACUGGCACUUCCCAUGCCACUAAUGCUCUCGAUUUGACUCGCACCGUCGUUGAACCAAAUGUCCGGGGUGUGGGGAUUCUUGGGCGUAUCGCUCAGAUAGCCGGAUGUGUCCUC
.(((((((((((..((((((((((.....(((..((.....))...)))(((.((((......))))..)))))))))))))...(((((((...)))))))...))))...))))))). ( -44.60)
>DroEre_CAF1 10095 120 - 1
CAGGACACUGGCACUACCCAUGCCACUAAUGCUCUCGAUUUGACUGGCCCCGUCGUUGAACCAAAUGUCCGGGGUAUGGGGAUUCUUGGGCGUAUCGCUCAGAUAGCCGGAUGUGUCCUC
.(((((((((((....((((((((......(((.((.....))..))).(((.((((......))))..))))))))))).....(((((((...)))))))...))))...))))))). ( -44.00)
>consensus
CAGGACACUGGCACUUCCCAUGCCACUAAUGCUCUCGAUUUGACUCGCACCGUCGUUGAACCAAAUGUCCGGGGUGUGGGGAUUCUUGGGCGUAUCGCUCAGAUAGCCGGAUGUGUCCUC
.(((((((((((..((((((((((..........(((((..(((.......)))))))).((........))))))))))))...(((((((...)))))))...))))...))))))). (-37.24 = -38.12 +   0.88)

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 12:53:04 2006