Locus 2942

Sequence ID 2L_DroMel_CAF1
Location 8,444,909 – 8,445,064
Length 155
Max. P 0.914732
window4669 window4670

overview

Window 9

Location 8,444,909 – 8,445,028
Length 119
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 79.44
Mean single sequence MFE -27.35
Consensus MFE -15.75
Energy contribution -15.12
Covariance contribution -0.63
Combinations/Pair 1.61
Mean z-score -2.05
Structure conservation index 0.58
SVM decision value 0.61
SVM RNA-class probability 0.799754
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8444909 119 - 22407834
GCUGAGGAUCAGAUUUAUAUUUCUUAUAGAUUUCCAUUUCUUCCGCACCCAUGGGUACCUGUCUACCCAUGAUCAUGCGUUCCAUUUCCUCCACAUCCUUGUCAAAGGCCCUUGACCUC
...(((((..(((((((((.....)))))))))..........((((..((((((((......))))))))....)))).......))))).........(((((......)))))... ( -29.50)
>DroSec_CAF1 4576 119 - 1
GCUGAGGAUCAGAUUUAUAUUUCUUAUAUAUUUCCAUUUCUUCCGCACUCAUGGGUACCUGUCUACCCAUGAUCAUGCGCUCCAUUUCCUCCACAUUCUUGUCAAAGGCCCUUGACCUC
...(((((...((..(((((.....)))))..)).........((((.(((((((((......)))))))))...)))).......))))).........(((((......)))))... ( -30.10)
>DroSim_CAF1 4131 119 - 1
GCUGAGGAUCAGAUUUAUAUUUCUUAUAGAUUUCCAUUUCUUCCGCACUCAUGGGUACCUGUCUACCCAUGAUCAUGCGCUCCAUUUCCUCCACAUUCUUGUCAAAGGCCCUUGACCUC
...(((((..(((((((((.....)))))))))..........((((.(((((((((......)))))))))...)))).......))))).........(((((......)))))... ( -31.30)
>DroEre_CAF1 4236 119 - 1
GCUGAGGGUCGCAUGUAUACUUCCUAAAGAUUUCAACUUCUUCCUCGCUUAUGGGUACCUGUCUAUUCAUGAUCAUGAGCUCCAUUUGCCCCACAUCCUUGUCGAAAGCCCUAGACCUC
.....(((((................((((........))))....((((..(((((..((....(((((....)))))...))..))))).(((....)))...))))....))))). ( -20.30)
>DroYak_CAF1 3985 119 - 1
GCUGAGGGUCAGAUUUAUAUUUCUUGAAGAUUUCCACUUCCUCCGCACUUGUGGGUACCUGUCUACCCAUGAUCAUGUGCUCCAUUUGCUCCACAUCUUUGUCAAAAGCACCAGACCUC
.....(((((...............((((.......))))....(((((..((((((......))))))..)....))))......((((..(((....)))....))))...))))). ( -26.00)
>DroAna_CAF1 3486 119 - 1
GGGUGGGAUCUGAAUCGUAUUUCUUAAAAAGCUGGAUCUCUUCAUCACUUUCGGGCACCUGCCUGCUCAUGAUCAUCUGGCCCAUGCUCUCCAGUUGUUUGUCCGAGAUACUCGAGUUU
.....(((..(((...(((((((.((((.(((((((.......((((....(((((....)))))....)))).....(((....))).))))))).))))...))))))))))..))) ( -26.90)
>consensus
GCUGAGGAUCAGAUUUAUAUUUCUUAAAGAUUUCCAUUUCUUCCGCACUCAUGGGUACCUGUCUACCCAUGAUCAUGCGCUCCAUUUCCUCCACAUCCUUGUCAAAGGCCCUUGACCUC
...((((.((.................................((((.(((((((((......)))))))))...)))).................((((....)))).....)))))) (-15.75 = -15.12 +  -0.63)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 8,444,948 – 8,445,064
Length 116
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 77.13
Mean single sequence MFE -31.36
Consensus MFE -21.98
Energy contribution -20.10
Covariance contribution -1.88
Combinations/Pair 1.68
Mean z-score -1.64
Structure conservation index 0.70
SVM decision value 1.10
SVM RNA-class probability 0.914732
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8444948 116 - 22407834
UGGGUUUGCCGGACGUUAGUAUCAGUAUGUUGUAGUGCUGAGGAUCAGAUUUAUAUUUCUUAUAGAUUUCCAUUUCUUCCGCACCCAUGGGUACCUGUCUACCCAUGAUCAUGCGU
.((((..((.(((........(((((((......)))))))(((...((((((((.....)))))))))))......)))))))))(((((((......))))))).......... ( -33.50)
>DroSec_CAF1 4615 116 - 1
UGGGUUUACCCGACGUUAGUAUCAGUAUGUUGUAGUGCUGAGGAUCAGAUUUAUAUUUCUUAUAUAUUUCCAUUUCUUCCGCACUCAUGGGUACCUGUCUACCCAUGAUCAUGCGC
.(((....))).............(((((.....((((.(((((...((..(((((.....)))))..))....))))).))))(((((((((......))))))))).))))).. ( -37.40)
>DroSim_CAF1 4170 116 - 1
UGGGUUUGCCGGACGUUAGUAUCAGUAUGUUGUAGUGCUGAGGAUCAGAUUUAUAUUUCUUAUAGAUUUCCAUUUCUUCCGCACUCAUGGGUACCUGUCUACCCAUGAUCAUGCGC
..((....))(((........(((((((......)))))))(((...((((((((.....)))))))))))......)))(((.(((((((((......)))))))))...))).. ( -35.30)
>DroEre_CAF1 4275 116 - 1
UGGGUUUGCCGAACGUUAGUAUCAGUACGUUGUAGUGCUGAGGGUCGCAUGUAUACUUCCUAAAGAUUUCAACUUCUUCCUCGCUUAUGGGUACCUGUCUAUUCAUGAUCAUGAGC
..((....))((.(((.(((((((((((......)))))))(((((.((((...........((((........)))).......)))).).))))...)))).))).))...... ( -22.27)
>DroWil_CAF1 5997 113 - 1
UUGGUUCUAUG---GCCAUGAUCAGUAUAUUAUAAUGCUGAGGAUCAAGUGCGUAUUCAUUAAGCAAAUCACGAUCCUCCUGUCUGUUGGGCCAUUCCCUGUUCAUUAUCAACUUG
..((....(((---(((....(((((((......)))))))(((((...(((.((.....)).)))......)))))............)))))).)).................. ( -27.00)
>DroYak_CAF1 4024 116 - 1
UGGGUUUGCCGACAUUAAGUAUCAGCACGUUGUAGUGCUGAGGGUCAGAUUUAUAUUUCUUGAAGAUUUCCACUUCCUCCGCACUUGUGGGUACCUGUCUACCCAUGAUCAUGUGC
((((((((((.((.....)).(((((((......))))))).)).))))))))........((((.......))))....(((((..((((((......))))))..)....)))) ( -32.70)
>consensus
UGGGUUUGCCGGACGUUAGUAUCAGUAUGUUGUAGUGCUGAGGAUCAGAUUUAUAUUUCUUAAAGAUUUCCAUUUCUUCCGCACUCAUGGGUACCUGUCUACCCAUGAUCAUGCGC
..((....))...........(((((((......)))))))......................................((((.(((((((((......)))))))))...)))). (-21.98 = -20.10 +  -1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:08 2006