Locus 3971

Sequence ID 2L_DroMel_CAF1
Location 11,587,790 – 11,587,921
Length 131
Max. P 0.999738
window6260 window6261

overview

Window 0

Location 11,587,790 – 11,587,885
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 90.63
Mean single sequence MFE -30.78
Consensus MFE -27.32
Energy contribution -26.96
Covariance contribution -0.36
Combinations/Pair 1.25
Mean z-score -2.78
Structure conservation index 0.89
SVM decision value 3.98
SVM RNA-class probability 0.999738
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11587790 95 - 22407834
UUGAACCCUCAGCAAACCACGCGAGGUCGAAGUGCAUUUCUGCAAAGUGUCAUAAGGUGGAGGCCAGCUAACCUGGCUUCCACAAACAAGUUUCG
......((((.((.......)))))).(((((((((....))))............(((((((((((.....))))))))))).......))))) ( -31.60)
>DroSec_CAF1 42061 95 - 1
UUGAACUCUCAGCAAACCAUGCGAGGUGAAAGUGCAUUUCUGCAAAGUGUCAUAAGGUGGAGGCCAGCUAACCUGGCUUCUACCAACAAGUUUCG
..((((((((.(((.....))))))((((...((((....)))).....))))..((((((((((((.....))))))))))))....))))).. ( -33.80)
>DroSim_CAF1 44717 95 - 1
UUGAACUCUCAGCAAACCAUGCGAGGUCAAAGUGCAUUUCUGUAAAGUGUCAUAAGUUGGAGGCCAGCUAACAUGGCUUCUACCAACAAGUUUCG
((((.(.(((.(((.....))))))))))).((((((((.....))))).)))..(((((((((((.......))))))...)))))........ ( -23.50)
>DroEre_CAF1 72886 95 - 1
UUGAACUCUCAGCAAGCCACGCGAGGUCAAAGUGCAUUUCUGCACAGUGUCAUAAGGUGGAAGCCAGCUAACCUGGCUUUUACCAACAAGUUCCU
..((((((((.((.......)))))(.((..(((((....)))))..)).)....((((((((((((.....))))))))))))....))))).. ( -34.20)
>DroYak_CAF1 43718 95 - 1
UUGAACUCUCAGCAACCCACGCGAGGUCAAAGUGCAGUACUGCUAAGUGUCAUAAGGUAGAAGCCAGCUAACCUGGCUUUUACCAACAAGUUCCU
..((((((((.((.......)))))(.((....(((....)))....)).)....((((((((((((.....))))))))))))....))))).. ( -30.80)
>consensus
UUGAACUCUCAGCAAACCACGCGAGGUCAAAGUGCAUUUCUGCAAAGUGUCAUAAGGUGGAGGCCAGCUAACCUGGCUUCUACCAACAAGUUUCG
..((((.(((.((.......)))))(.((...((((....))))...)).)....((((((((((((.....)))))))))))).....)))).. (-27.32 = -26.96 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,587,805 – 11,587,921
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.50
Mean single sequence MFE -29.38
Consensus MFE -22.24
Energy contribution -22.40
Covariance contribution 0.16
Combinations/Pair 1.22
Mean z-score -1.75
Structure conservation index 0.76
SVM decision value 0.38
SVM RNA-class probability 0.712590
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11587805 116 - 22407834
----ACCUUUUGUACAAUUUAACCAUUUAAUCCCUUCCAUUUGAACCCUCAGCAAACCACGCGAGGUCGAAGUGCAUUUCUGCAAAGUGUCAUAAGGUGGAGGCCAGCUAACCUGGCUUC
----(((((.(((((........................(((((..((((.((.......))))))))))).((((....))))..))).)).))))).((((((((.....)))))))) ( -31.10)
>DroSec_CAF1 42076 120 - 1
CUUUACCUUUCGUACAAUUUAACCAUUUAAUCCCUUCCAUUUGAACUCUCAGCAAACCAUGCGAGGUGAAAGUGCAUUUCUGCAAAGUGUCAUAAGGUGGAGGCCAGCUAACCUGGCUUC
(((((((((..((((.......................((((..((.(((.(((.....))))))))..))))(((....)))...))).)..)))))))))(((((.....)))))... ( -29.20)
>DroSim_CAF1 44732 120 - 1
CGCUACAUUUCAUACAAUUUAACCAUUUAAUCCCUUCCAUUUGAACUCUCAGCAAACCAUGCGAGGUCAAAGUGCAUUUCUGUAAAGUGUCAUAAGUUGGAGGCCAGCUAACAUGGCUUC
..............(((((((..(((((...........(((((.(.(((.(((.....)))))))))))).((((....)))))))))...)))))))(((((((.......))))))) ( -24.90)
>DroEre_CAF1 72901 120 - 1
UUCUACCUUUCGUACAAUUUAGCAAUUUAAUCCCUUCCAUUUGAACUCUCAGCAAGCCACGCGAGGUCAAAGUGCAUUUCUGCACAGUGUCAUAAGGUGGAAGCCAGCUAACCUGGCUUU
(((((((((..((((........................(((((.(.(((.((.......)))))))))))(((((....))))).))).)..)))))))))(((((.....)))))... ( -33.60)
>DroYak_CAF1 43733 119 - 1
GUCUG-CUUUCGUACAAUAUUACACUUUAAUCCCUUCCAUUUGAACUCUCAGCAACCCACGCGAGGUCAAAGUGCAGUACUGCUAAGUGUCAUAAGGUAGAAGCCAGCUAACCUGGCUUU
.((((-(((........(((.((((((............(((((.(.(((.((.......)))))))))))..(((....))).)))))).))))))))))((((((.....)))))).. ( -28.10)
>consensus
CUCUACCUUUCGUACAAUUUAACCAUUUAAUCCCUUCCAUUUGAACUCUCAGCAAACCACGCGAGGUCAAAGUGCAUUUCUGCAAAGUGUCAUAAGGUGGAGGCCAGCUAACCUGGCUUC
...((((((...(((........................(((((..((((.((.......))))))))))).((((....))))..)))....))))))((((((((.....)))))))) (-22.24 = -22.40 +   0.16)

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 11:06:05 2006