Locus 6424

Sequence ID 3L_DroMel_CAF1
Location 17,213,651 – 17,213,810
Length 159
Max. P 0.716046
window10286 window10287

overview

Window 6

Location 17,213,651 – 17,213,770
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.91
Mean single sequence MFE -26.49
Consensus MFE -20.42
Energy contribution -21.02
Covariance contribution 0.60
Combinations/Pair 1.11
Mean z-score -1.52
Structure conservation index 0.77
SVM decision value 0.06
SVM RNA-class probability 0.564849
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17213651 119 + 23771897
UAGUUGCUGUAAAAUGCUGCUGCUCUUAAUCACCAAACAGAAUGGUGUAGUU-UUUGUCAAGUUUGAUUUAAUGAACGACUUAAUUUCCUUAUAAAUCAAACUGCCUCCAGGGACACAAA
((((.((........)).))))........(((((.......)))))..(((-((((...(((((((((((...((.((.......)).)).))))))))))).....)))))))..... ( -23.60)
>DroSec_CAF1 97362 118 + 1
UUGUUGCUGUAAAAUG--GCUGCUCUUAAUCACCGAACAGAAUGGUGUAGUUUUUUGUCAAGUUUGAUUUAAUGAACGACUUAAUUCCGUAAUAAAUCAAACUGCCUACAGGGACACAAA
.((((.((((((((..--(((((.((...((........))..)).)))))..)))....(((((((((((....(((.........)))..)))))))))))...))))).)))).... ( -28.30)
>DroSim_CAF1 89840 118 + 1
UAGUUGCUGUAAAAUG--GCUGCUCUUAAUCACCGAACAGAAUGGUGUAGUUUUUUGUCAAGUUUGAUUUAAUGAACGACUUAAUUCCGUAAUAAAUCAAACUGCCUACAGGGACACAAA
..(((.((((((((..--(((((.((...((........))..)).)))))..)))....(((((((((((....(((.........)))..)))))))))))...))))).)))..... ( -27.90)
>DroEre_CAF1 100740 118 + 1
UAGUUGCUAAGACAUG--GCUGCUCUUAAUCACCAAACAGAAUGGUGUAGUUUUUUGUCAAGUUUGAUUUAAUGAACGACUUCAUUUCUUAAUAAAUCACACUGCCUCCAGGGGCACAAA
..........((((.(--(((((.((...((........))..)).))))))...)))).(((.((((((((((((....))))).......))))))).)))((((....))))..... ( -26.11)
>DroYak_CAF1 102940 118 + 1
UAGUUGCUGUAAAAUG--UCUGCUCUUAAUCACCAAACGGAGUGGUGUAGUUUUUUCGCAAGUUUGAUUUAAUGAACGACUUAAUUUCUUAAUAAAUCAAACUACUUGCAGGGACAUAAA
..(((.((((((....--..(((.......(((((.......)))))..........)))(((((((((((.(((.............))).)))))))))))..)))))).)))..... ( -26.55)
>consensus
UAGUUGCUGUAAAAUG__GCUGCUCUUAAUCACCAAACAGAAUGGUGUAGUUUUUUGUCAAGUUUGAUUUAAUGAACGACUUAAUUUCGUAAUAAAUCAAACUGCCUACAGGGACACAAA
..(((.(((((.......(((((.((...((........))..)).))))).........(((((((((((.....................)))))))))))...))))).)))..... (-20.42 = -21.02 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 17,213,691 – 17,213,810
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.08
Mean single sequence MFE -23.89
Consensus MFE -17.98
Energy contribution -18.42
Covariance contribution 0.44
Combinations/Pair 1.16
Mean z-score -1.78
Structure conservation index 0.75
SVM decision value 0.39
SVM RNA-class probability 0.716046
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17213691 119 + 23771897
AAUGGUGUAGUU-UUUGUCAAGUUUGAUUUAAUGAACGACUUAAUUUCCUUAUAAAUCAAACUGCCUCCAGGGACACAAACUUAAUUUAGCUUAAUUUAAGUUCAAAUCAUAUACCUUUU
...(((((((((-(.((((.(((((((((((...((.((.......)).)).))))))))))).((....)))))).))))...((((((((((...)))))).))))..)))))).... ( -25.10)
>DroSec_CAF1 97400 120 + 1
AAUGGUGUAGUUUUUUGUCAAGUUUGAUUUAAUGAACGACUUAAUUCCGUAAUAAAUCAAACUGCCUACAGGGACACAAACUUAAUCUAGCUUAAUUUAAGUUCAAAUCAUAAACCUUUU
...(((..(((((..((((.(((((((((((....(((.........)))..))))))))))).((....)))))).)))))......((((((...))))))..........))).... ( -21.10)
>DroSim_CAF1 89878 120 + 1
AAUGGUGUAGUUUUUUGUCAAGUUUGAUUUAAUGAACGACUUAAUUCCGUAAUAAAUCAAACUGCCUACAGGGACACAAACUUAAUCUAGCUUAAUUUAAGUUCAAAUCAUAAACCUUUU
...(((..(((((..((((.(((((((((((....(((.........)))..))))))))))).((....)))))).)))))......((((((...))))))..........))).... ( -21.10)
>DroEre_CAF1 100778 120 + 1
AAUGGUGUAGUUUUUUGUCAAGUUUGAUUUAAUGAACGACUUCAUUUCUUAAUAAAUCACACUGCCUCCAGGGGCACAAACUUAAUCUAGCUUGAUUAAAGUUCACCUUAUGCACCUGCU
...((((((....(((((..(((.((((((((((((....))))).......))))))).)))((((....))))))))).((((((......))))))...........)))))).... ( -27.41)
>DroYak_CAF1 102978 120 + 1
AGUGGUGUAGUUUUUUCGCAAGUUUGAUUUAAUGAACGACUUAAUUUCUUAAUAAAUCAAACUACUUGCAGGGACAUAAACCUAAUCUGGCUUGAUUAAAGUUCACCUCAUGUACCUCUU
.(.((((.(.(((..((((((((((((((((.(((.............))).))))))))...))))))(((........)))..........))..))).).)))).)........... ( -24.72)
>consensus
AAUGGUGUAGUUUUUUGUCAAGUUUGAUUUAAUGAACGACUUAAUUUCGUAAUAAAUCAAACUGCCUACAGGGACACAAACUUAAUCUAGCUUAAUUUAAGUUCAAAUCAUAAACCUUUU
...((((((((((..((((.(((((((((((.....................))))))))))).((....)))))).)))).......(((((.....))))).......)))))).... (-17.98 = -18.42 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:05 2006