Locus 3736

Sequence ID 2L_DroMel_CAF1
Location 10,884,477 – 10,884,576
Length 99
Max. P 0.679826
window5884 window5885

overview

Window 4

Location 10,884,477 – 10,884,576
Length 99
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 82.53
Mean single sequence MFE -25.47
Consensus MFE -17.79
Energy contribution -18.07
Covariance contribution 0.28
Combinations/Pair 1.05
Mean z-score -1.39
Structure conservation index 0.70
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10884477 99 + 22407834
UUGGGUUGCGUGCUCGCUUGUUUCGCUU-UUUGUAAUUUUCAAUUUAAGCAGCACAACGUGUUGCUCGC-CAAC----------------UUGCCACAUUGCCACACGGCUACACUA
..((((((((.((.(((((((...((((-.(((.......)))...))))...)))).)))..)).)).-))))----------------))........(((....)))....... ( -23.50)
>DroSec_CAF1 24229 100 + 1
UUGGGUUGCGUGCUCGCUUGUUUCGCUU-UUUGUAAUUUUCAAUUUAAGCAGCACAACGUGUUGCUCACCCAAC----------------UUGCCACAUUGCCACAUGGCUACACUU
((((((.(((.((......))..)))..-..................((((((((...)))))))).)))))).----------------..........(((....)))....... ( -24.50)
>DroSim_CAF1 24591 100 + 1
UUGGGUUGCGUGCUCGCUUGUUUCGCUU-UUUGUAAUUUUCAAUUUAAGCAGCACAACGUGUUGCUCACCCAAC----------------UUGCCACAUUGCCACAUGGCUACACUU
((((((.(((.((......))..)))..-..................((((((((...)))))))).)))))).----------------..........(((....)))....... ( -24.50)
>DroEre_CAF1 24596 112 + 1
UUGGGUUGCGUGCUGGCUUGUUUCGCUU-UUUGUAAUUUUCAAUUUGAGCAACACAACGUGUUGCUCGC-CAAU--G-CUGCUUGCCACAUUGCCACAUUGCCACACGGCUACACUA
.(((((.((((..((((.......((..-...))............(((((((((...)))))))))))-))..--)-).))..))).))..........(((....)))....... ( -31.40)
>DroYak_CAF1 24923 115 + 1
UUGGGUUGCGUGCCAGCUUGUUUCGCUU-UUUGUAAUUUUCAAUUUAAGCAGCACAACGUGUUGCUCGC-CAACUUGCCUCUUUGCCACAUUGCCACAUGGCCACAUGGCUACACUA
..((((((((.((..((((((...((((-.(((.......)))...))))...)))).))...)).)).-))))))........((((....(((....)))....))))....... ( -27.50)
>DroAna_CAF1 26655 92 + 1
CAUCGUUGCGUGCUGGUUUGUUUCGCUUUUUUGUAAUUUUCAAUUUAAGCUACACAACGUGUUGC-------------------------UUGCCACAUUGCCACAUGGCAACUGGU
((.(((((.(((((...(((..(..(......)..)....)))....))).)).)))))))....-------------------------..((((..(((((....))))).)))) ( -21.40)
>consensus
UUGGGUUGCGUGCUCGCUUGUUUCGCUU_UUUGUAAUUUUCAAUUUAAGCAGCACAACGUGUUGCUCGC_CAAC________________UUGCCACAUUGCCACAUGGCUACACUA
...(((.(((.((......))..))).....................((((((((...))))))))..........................))).....(((....)))....... (-17.79 = -18.07 +   0.28)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 10,884,477 – 10,884,576
Length 99
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 82.53
Mean single sequence MFE -28.60
Consensus MFE -18.74
Energy contribution -19.58
Covariance contribution 0.85
Combinations/Pair 1.07
Mean z-score -2.12
Structure conservation index 0.66
SVM decision value 0.30
SVM RNA-class probability 0.679826
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10884477 99 - 22407834
UAGUGUAGCCGUGUGGCAAUGUGGCAA----------------GUUG-GCGAGCAACACGUUGUGCUGCUUAAAUUGAAAAUUACAAA-AAGCGAAACAAGCGAGCACGCAACCCAA
..((((.((((..(....)..))))..----------------(((.-...))).))))((((((.(((((...(((.......))).-..((.......))))))))))))).... ( -26.10)
>DroSec_CAF1 24229 100 - 1
AAGUGUAGCCAUGUGGCAAUGUGGCAA----------------GUUGGGUGAGCAACACGUUGUGCUGCUUAAAUUGAAAAUUACAAA-AAGCGAAACAAGCGAGCACGCAACCCAA
.......(((((((....)))))))..----------------.(((((((.....)))((((((.(((((...(((.......))).-..((.......))))))))))))))))) ( -27.30)
>DroSim_CAF1 24591 100 - 1
AAGUGUAGCCAUGUGGCAAUGUGGCAA----------------GUUGGGUGAGCAACACGUUGUGCUGCUUAAAUUGAAAAUUACAAA-AAGCGAAACAAGCGAGCACGCAACCCAA
.......(((((((....)))))))..----------------.(((((((.....)))((((((.(((((...(((.......))).-..((.......))))))))))))))))) ( -27.30)
>DroEre_CAF1 24596 112 - 1
UAGUGUAGCCGUGUGGCAAUGUGGCAAUGUGGCAAGCAG-C--AUUG-GCGAGCAACACGUUGUGUUGCUCAAAUUGAAAAUUACAAA-AAGCGAAACAAGCCAGCACGCAACCCAA
..(.((.((.(((((((.....(.((((((.(....).)-)--))))-.)(((((((((...))))))))).................-...........)))).))))).)).).. ( -35.20)
>DroYak_CAF1 24923 115 - 1
UAGUGUAGCCAUGUGGCCAUGUGGCAAUGUGGCAAAGAGGCAAGUUG-GCGAGCAACACGUUGUGCUGCUUAAAUUGAAAAUUACAAA-AAGCGAAACAAGCUGGCACGCAACCCAA
..((((.(((((((.(((....))).)))))))..........((..-(((((((.(((...))).)))))...(((.......))).-...........))..))))))....... ( -33.20)
>DroAna_CAF1 26655 92 - 1
ACCAGUUGCCAUGUGGCAAUGUGGCAA-------------------------GCAACACGUUGUGUAGCUUAAAUUGAAAAUUACAAAAAAGCGAAACAAACCAGCACGCAACGAUG
.....(((((((((....)))))))))-------------------------......((((((((.((((...(((.......)))..))))(........)...))))))))... ( -22.50)
>consensus
AAGUGUAGCCAUGUGGCAAUGUGGCAA________________GUUG_GCGAGCAACACGUUGUGCUGCUUAAAUUGAAAAUUACAAA_AAGCGAAACAAGCGAGCACGCAACCCAA
..((((.((((..(....)..))))..................(((.....))).))))((((((.((((....(((.......)))....((.......)).)))))))))).... (-18.74 = -19.58 +   0.85)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:47 2006