Locus 4045

Sequence ID 2L_DroMel_CAF1
Location 11,722,672 – 11,722,817
Length 145
Max. P 0.998757
window6371 window6372

overview

Window 1

Location 11,722,672 – 11,722,777
Length 105
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.44
Mean single sequence MFE -30.88
Consensus MFE -21.04
Energy contribution -20.82
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.47
Structure conservation index 0.68
SVM decision value -0.05
SVM RNA-class probability 0.509998
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11722672 105 + 22407834
GGUCAUAUUCU---------UUUUUCU------CAGCCGGCCUGUGCUGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUU
(((...((((.---------.......------...(((((....))))).(((((....)))))))))...)))(((((((...((.((.(((((....))))).)).))..))))))) ( -28.50)
>DroPse_CAF1 171129 114 + 1
CCUCGCAUCCUGGCUUUUUUUUUUGGGGGGGGGGGGAA------GGCCGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUU
....((..((((((((((((((((.....)))))))))------)))))))(((((....))))).......)).(((((((...((.((.(((((....))))).)).))..))))))) ( -37.30)
>DroEre_CAF1 199949 104 + 1
GGUCGUAUUCU---------UU-UUUU------CAGCCGGCCUUUGCUGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUU
(((...((((.---------..-....------...(((((....))))).(((((....)))))))))...)))(((((((...((.((.(((((....))))).)).))..))))))) ( -28.50)
>DroYak_CAF1 173967 105 + 1
GGUCGUAUUCU---------UUUUUUU------CAGCCAGCCCGUGCUGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUU
(((...((((.---------.......------...(((((....))))).(((((....)))))))))...)))(((((((...((.((.(((((....))))).)).))..))))))) ( -29.20)
>DroAna_CAF1 179966 102 + 1
GCUCAUAUUCU---------UUUUGGU------UG---UGCCUGCGCUGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUU
(((...(((((---------....(.(------(.---(((((.....)))))...)).)....)))))..))).(((((((...((.((.(((((....))))).)).))..))))))) ( -30.20)
>DroPer_CAF1 174916 108 + 1
CCUCGCAUCCUGGCUUUUUUUUUUUUU------GGGCA------GGCCGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUU
....((..((((((((.(((.......------))).)------)))))))(((((....))))).......)).(((((((...((.((.(((((....))))).)).))..))))))) ( -31.60)
>consensus
GCUCGUAUUCU_________UUUUUUU______CAGCC_GCCUGUGCUGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUU
.............................................(((((((.....(((((........)))))..........((.((.(((((....))))).)).))))))))).. (-21.04 = -20.82 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 2

Location 11,722,697 – 11,722,817
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 96.38
Mean single sequence MFE -37.07
Consensus MFE -35.53
Energy contribution -35.70
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 0.96
SVM decision value 3.21
SVM RNA-class probability 0.998757
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11722697 120 + 22407834
CCUGUGCUGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUUACAGCAGCCGCAACAUGAAAAACAGAAGUGCCCGCCCCUG
.....((.(((((.....(((((.((......((((((((((...((.((.(((((....))))).)).))..))))))..))))..))))))).((.....))....)))))))..... ( -36.50)
>DroPse_CAF1 171167 116 + 1
----GGCCGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUUACAGCAGCCGCAACAUGAAAAACAGAAGUGCCCGCCCCUG
----(((.(((((.....(((((.((......((((((((((...((.((.(((((....))))).)).))..))))))..))))..))))))).((.....))....)))))))).... ( -39.80)
>DroSec_CAF1 182089 120 + 1
CCUGUGCUGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCAAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUUACAGCAGCCGCAACAUGAAAAACAGAAGUGCCCGCCCCUG
........((((......(((((((......((((((.(((..........(((((....)))))....))).))))))..))))))).(((...((.....))....)))..))))... ( -33.34)
>DroSim_CAF1 174308 120 + 1
CCUGUGCUGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUUACAGCAGCCGCAACAUGAAAAACAGAAGUGCCCGCCCUUG
.....((.(((((.....(((((.((......((((((((((...((.((.(((((....))))).)).))..))))))..))))..))))))).((.....))....)))))))..... ( -36.50)
>DroEre_CAF1 199973 120 + 1
CCUUUGCUGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUUACAGCAGCCGCAACAUGAAAAACAGAAGUGCCCGCCCAUG
.....((.(((((.....(((((.((......((((((((((...((.((.(((((....))))).)).))..))))))..))))..))))))).((.....))....)))))))..... ( -36.50)
>DroPer_CAF1 174948 116 + 1
----GGCCGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUUACAGCAGCCGCAACAUGAAAAACAGAAGUGCCCGCCCCUG
----(((.(((((.....(((((.((......((((((((((...((.((.(((((....))))).)).))..))))))..))))..))))))).((.....))....)))))))).... ( -39.80)
>consensus
CCUGUGCUGGGCAAUAAAGUUGUUGGAAUUUAGCUGAACCGAAAAUAGUUUAUGGCGGAAGUCAUUAAGUGGCUCGGUUUACAGCAGCCGCAACAUGAAAAACAGAAGUGCCCGCCCCUG
.....((.(((((.....(((((.((......((((((((((...((.((.(((((....))))).)).))..))))))..))))..))))))).((.....))....)))))))..... (-35.53 = -35.70 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:54 2006