Locus 7446

Sequence ID 3L_DroMel_CAF1
Location 20,003,252 – 20,003,344
Length 92
Max. P 0.852707
window12098 window12099

overview

Window 8

Location 20,003,252 – 20,003,344
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.97
Mean single sequence MFE -29.45
Consensus MFE -21.50
Energy contribution -21.58
Covariance contribution 0.09
Combinations/Pair 1.14
Mean z-score -2.68
Structure conservation index 0.73
SVM decision value 0.79
SVM RNA-class probability 0.852707
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20003252 92 + 23771897
UUGGCCAGUU-------------------UG-CCUAGCCACC-------CAUUGUUGGCUUCAGCCUUGCUUACCCAACAUAAUAA-AGCUUGUUAGCGUAAUUGCUUAAUUGGCCAAGU
((((((((((-------------------..-...(((....-------...((((((....(((...)))...))))))......-.(((....)))......))).)))))))))).. ( -25.90)
>DroSec_CAF1 93612 99 + 1
UUGGCCAGUU-------------------UG-CCUGGCCACCCAUUACCCAUUGUUGGCUUCAGCCUUGCUUACCCAACAUAAUAA-AGCUUGUUAGCGUAAUUGCUUAAUUGGCCAAGU
((((((((((-------------------.(-(..((....))(((((....((((((....(((...)))...))))))......-.(((....)))))))).))..)))))))))).. ( -27.80)
>DroSim_CAF1 52539 99 + 1
UUGGCCAGUU-------------------UG-CCUGGCCACCCAUUACCCAUUGUUGGCUUCAGCCUUGCUUACCCAACAUAAUAA-AGCUUGUUAGCGUAAUUGCUUAAUUGGCCAAGU
((((((((((-------------------.(-(..((....))(((((....((((((....(((...)))...))))))......-.(((....)))))))).))..)))))))))).. ( -27.80)
>DroEre_CAF1 43974 91 + 1
UUGGCCAGU--------------------UG-ACUGCCCACC-------CAUUGUUGGCUUCAGCCUUGCUUGCCCAACAUAAUAA-AGCUUGUUAGCGUAAUUGCUUAAUUGGCCAAGU
(((((((((--------------------((-(..((.....-------...(((((((...(((...))).).))))))......-.(((....)))......)))))))))))))).. ( -27.10)
>DroYak_CAF1 49562 90 + 1
UUGGCCAGU--------------------UG-ACUAGCCACC-------CAUUGUUGGC-UCAGUCUUGCUUACCCAACAUAAUAA-AGCUUGUUAGCGUAAUUGCUUAAUUGGCCAAGU
(((((((((--------------------((-((((((((..-------......))))-).))))..(((((((.((((......-....)))).).))))..))..)))))))))).. ( -28.90)
>DroAna_CAF1 47983 115 + 1
UUGGCUAGUUCCUGGGUGGGUCACGGGAUUGACUUGGCCAU-----GGCCAUUGUUGGUUUCAGCCCGGCUUGCACAACAUAAUAAAAGCUUGUUAGCGUAAUUGCUUAAUUGGCCAGGA
((((((((((...((.(((((...(..((..((.((((...-----.))))..))..))..).))))).)).(((..((.((((((....))))))..))...)))..)))))))))).. ( -39.20)
>consensus
UUGGCCAGUU___________________UG_CCUGGCCACC_______CAUUGUUGGCUUCAGCCUUGCUUACCCAACAUAAUAA_AGCUUGUUAGCGUAAUUGCUUAAUUGGCCAAGU
((((((((((..........................................((((((....(((...)))...))))))........(((....)))..........)))))))))).. (-21.50 = -21.58 +   0.09)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,003,252 – 20,003,344
Length 92
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.97
Mean single sequence MFE -29.00
Consensus MFE -19.00
Energy contribution -19.78
Covariance contribution 0.78
Combinations/Pair 1.08
Mean z-score -2.42
Structure conservation index 0.66
SVM decision value 0.37
SVM RNA-class probability 0.708307
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20003252 92 - 23771897
ACUUGGCCAAUUAAGCAAUUACGCUAACAAGCU-UUAUUAUGUUGGGUAAGCAAGGCUGAAGCCAACAAUG-------GGUGGCUAGG-CA-------------------AACUGGCCAA
...((((((.....((..((((.((((((....-......))))))))))))...(((..(((((......-------..))))).))-).-------------------...)))))). ( -28.80)
>DroSec_CAF1 93612 99 - 1
ACUUGGCCAAUUAAGCAAUUACGCUAACAAGCU-UUAUUAUGUUGGGUAAGCAAGGCUGAAGCCAACAAUGGGUAAUGGGUGGCCAGG-CA-------------------AACUGGCCAA
.((..(((......((..((((.((((((....-......))))))))))))..(((....))).......)))...)).(((((((.-..-------------------..))))))). ( -31.20)
>DroSim_CAF1 52539 99 - 1
ACUUGGCCAAUUAAGCAAUUACGCUAACAAGCU-UUAUUAUGUUGGGUAAGCAAGGCUGAAGCCAACAAUGGGUAAUGGGUGGCCAGG-CA-------------------AACUGGCCAA
.((..(((......((..((((.((((((....-......))))))))))))..(((....))).......)))...)).(((((((.-..-------------------..))))))). ( -31.20)
>DroEre_CAF1 43974 91 - 1
ACUUGGCCAAUUAAGCAAUUACGCUAACAAGCU-UUAUUAUGUUGGGCAAGCAAGGCUGAAGCCAACAAUG-------GGUGGGCAGU-CA--------------------ACUGGCCAA
...((((((.............(((....(((.-.......))).)))......(((((..(((.......-------)))...))))-).--------------------..)))))). ( -25.60)
>DroYak_CAF1 49562 90 - 1
ACUUGGCCAAUUAAGCAAUUACGCUAACAAGCU-UUAUUAUGUUGGGUAAGCAAGACUGA-GCCAACAAUG-------GGUGGCUAGU-CA--------------------ACUGGCCAA
...((((((.....((..((((.((((((....-......))))))))))))..((((.(-((((......-------..))))))))-).--------------------..)))))). ( -30.20)
>DroAna_CAF1 47983 115 - 1
UCCUGGCCAAUUAAGCAAUUACGCUAACAAGCUUUUAUUAUGUUGUGCAAGCCGGGCUGAAACCAACAAUGGCC-----AUGGCCAAGUCAAUCCCGUGACCCACCCAGGAACUAGCCAA
(((((((....(((....))).(((((((...........))))).))..)))(((.((..........((((.-----...)))).((((......)))).)))))))))......... ( -27.00)
>consensus
ACUUGGCCAAUUAAGCAAUUACGCUAACAAGCU_UUAUUAUGUUGGGUAAGCAAGGCUGAAGCCAACAAUG_______GGUGGCCAGG_CA___________________AACUGGCCAA
.((((.((((((((....))).(((....))).........))))).))))...(((....)))................(((((((.........................))))))). (-19.00 = -19.78 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:18 2006