Locus 3222

Sequence ID 2L_DroMel_CAF1
Location 9,222,828 – 9,222,922
Length 94
Max. P 0.777935
window5117 window5118

overview

Window 7

Location 9,222,828 – 9,222,922
Length 94
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 81.53
Mean single sequence MFE -25.18
Consensus MFE -22.60
Energy contribution -22.05
Covariance contribution -0.55
Combinations/Pair 1.22
Mean z-score -1.34
Structure conservation index 0.90
SVM decision value 0.27
SVM RNA-class probability 0.662988
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9222828 94 + 22407834
-------------------CUUAUUUUGGCCAGUGCACUUAGCGGUGACAUAUUUCCGCAAUAUCACCGCAGGCCAAGCACAAAGCACCAGCCGGACAACUUUUCAUUAAAGA
-------------------.....((((((..((((.....(((((((..((((.....)))))))))))..((...)).....))))..))))))...((((.....)))). ( -25.80)
>DroSec_CAF1 52927 113 + 1
CAUAUGCACAUUAUCUACUCUAAUUUUGGCCAGUGUACUUAGCGGUGACAUAUUUCCGCAAUAUCACCGCAGGCCAAGCACAAAGCACCAGCCGGACAACUUUUCAUUAAAGA
.....((..................((((((((....))..(((((((..((((.....))))))))))).))))))((.....))....)).......((((.....)))). ( -24.20)
>DroSim_CAF1 54813 113 + 1
CAUAUGCAUAGUAUCUACUCUAAUUUUGGCCAGUGUACUUAGCGGUGACAUAUUUCCGCAAUAUCACCGCAGGCCAAGCACAAAGCACCAGCCGGACAACUUUUCAUUAAAGA
....(((.(((........)))..(((((((((....))..(((((((..((((.....))))))))))).)))))))......)))((....))....((((.....)))). ( -25.60)
>DroEre_CAF1 59426 112 + 1
UACAUGCACCGAGUGCACUUUCGUUUUGGCCAGUGUAA-GAGCGGUGACAUAUUUCCGCAAUAUCACCGCAGGCCAAGCACAAAGCACCAGCCGGACAACUUUUCAUUAAAGA
........(((.((((((....)).((((((..(....-).(((((((..((((.....))))))))))).))))))))))...((....)))))....((((.....)))). ( -28.10)
>DroYak_CAF1 58129 112 + 1
UAAAUGCACAGAAUGCACUUUAGUUUUGGCCAGUGUAA-GAGCGGUGACAUAUUUCCGCAAUAUCACCGCAGGCCAAGCACAAAGCGCCAGCCGGACAACUUUUCAUUAAAGA
....((((.....))))(((((((((((((........-..(((((((..((((.....))))))))))).(((...((.....))))).)))))).........))))))). ( -28.10)
>DroAna_CAF1 54502 91 + 1
--------------------UCCUUUCUCUCAGUGCAU-UGGCGGUGACAUAUUUCCGCA-UAUUGCCGCAGGCCAAGCACAAAGCACCAAACGGACAACUUUUCAUUAAAGA
--------------------............((((.(-(((((....)........((.-.......))..)))))))))......((....))....((((.....)))). ( -19.30)
>consensus
_A_AUGCACAG_AU__ACUCUAAUUUUGGCCAGUGUAC_UAGCGGUGACAUAUUUCCGCAAUAUCACCGCAGGCCAAGCACAAAGCACCAGCCGGACAACUUUUCAUUAAAGA
........................((((((..((((.....(((((((..((((.....)))))))))))..((...)).....))))..))))))...((((.....)))). (-22.60 = -22.05 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 9,222,828 – 9,222,922
Length 94
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 81.53
Mean single sequence MFE -33.18
Consensus MFE -23.71
Energy contribution -24.43
Covariance contribution 0.72
Combinations/Pair 1.10
Mean z-score -1.86
Structure conservation index 0.71
SVM decision value 0.55
SVM RNA-class probability 0.777935
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9222828 94 - 22407834
UCUUUAAUGAAAAGUUGUCCGGCUGGUGCUUUGUGCUUGGCCUGCGGUGAUAUUGCGGAAAUAUGUCACCGCUAAGUGCACUGGCCAAAAUAAG-------------------
....................(((..((((.....(((((((....((((((((.........)))))))))))))))))))..)))........------------------- ( -32.40)
>DroSec_CAF1 52927 113 - 1
UCUUUAAUGAAAAGUUGUCCGGCUGGUGCUUUGUGCUUGGCCUGCGGUGAUAUUGCGGAAAUAUGUCACCGCUAAGUACACUGGCCAAAAUUAGAGUAGAUAAUGUGCAUAUG
......(((....((((((.......(((((((...((((((.((((((((((.........))))))))))..((....))))))))...)))))))))))))...)))... ( -33.71)
>DroSim_CAF1 54813 113 - 1
UCUUUAAUGAAAAGUUGUCCGGCUGGUGCUUUGUGCUUGGCCUGCGGUGAUAUUGCGGAAAUAUGUCACCGCUAAGUACACUGGCCAAAAUUAGAGUAGAUACUAUGCAUAUG
.....................((((((((((((...((((((.((((((((((.........))))))))))..((....))))))))...))))))....)))).))..... ( -32.30)
>DroEre_CAF1 59426 112 - 1
UCUUUAAUGAAAAGUUGUCCGGCUGGUGCUUUGUGCUUGGCCUGCGGUGAUAUUGCGGAAAUAUGUCACCGCUC-UUACACUGGCCAAAACGAAAGUGCACUCGGUGCAUGUA
............((((....)))).(..((..((((((((((.((((((((((.........))))))))))..-.......)))))).((....))))))..))..)..... ( -38.30)
>DroYak_CAF1 58129 112 - 1
UCUUUAAUGAAAAGUUGUCCGGCUGGCGCUUUGUGCUUGGCCUGCGGUGAUAUUGCGGAAAUAUGUCACCGCUC-UUACACUGGCCAAAACUAAAGUGCAUUCUGUGCAUUUA
...............((..(((...(((((((((..((((((.((((((((((.........))))))))))..-.......)))))).)).)))))))...)))..)).... ( -39.10)
>DroAna_CAF1 54502 91 - 1
UCUUUAAUGAAAAGUUGUCCGUUUGGUGCUUUGUGCUUGGCCUGCGGCAAUA-UGCGGAAAUAUGUCACCGCCA-AUGCACUGAGAGAAAGGA--------------------
(((((.....(((((...((....)).)))))(((((((((..(.((((.((-(......))))))).).))))-).))))..))))).....-------------------- ( -23.30)
>consensus
UCUUUAAUGAAAAGUUGUCCGGCUGGUGCUUUGUGCUUGGCCUGCGGUGAUAUUGCGGAAAUAUGUCACCGCUA_GUACACUGGCCAAAAUUAGAGU__AU_CUGUGCAU_U_
..............(((.(((((..(.((.....)))..))).((((((((((.........))))))))))..........)).)))......................... (-23.71 = -24.43 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:18 2006