Locus 3732

Sequence ID 2L_DroMel_CAF1
Location 10,869,018 – 10,869,131
Length 113
Max. P 0.806196
window5879 window5880

overview

Window 9

Location 10,869,018 – 10,869,131
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.54
Mean single sequence MFE -19.54
Consensus MFE -10.33
Energy contribution -10.57
Covariance contribution 0.24
Combinations/Pair 1.08
Mean z-score -1.87
Structure conservation index 0.53
SVM decision value 0.30
SVM RNA-class probability 0.678556
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10869018 113 + 22407834
UCGGUUCCU-----GUUUGUUUGCAAACAUUUUUAAAAUUGUUUGCUGUAAUUUGUUUCCGGACCCAGACAGCAACAAAAACCAAAA--AAAAAAACCUUAAAAAAAGGGAAUAUAUACA
..((((..(-----(((((....)))))).........(((((.(((((.....(((....)))....)))))))))).))))....--.......((((.....))))........... ( -22.50)
>DroSim_CAF1 16174 104 + 1
UCGGUUCCU-----GUUUGUUUGCAAACAUUUUUUAAAUUGUUUGCUGUAAUUUGUUUCCGGACCCAGACAGCAACAAAAACCCAAA--AA----A----AAAAGAACGGAA-AAAUACA
((.((((.(-----(((((....)))))).........(((((.(((((.....(((....)))....)))))))))).........--..----.----....)))).)).-....... ( -21.80)
>DroEre_CAF1 16183 99 + 1
UCGGUUCCU-----GUUUGUUUGCAAACAUUUUUUAAAUUGUUUGCUGUAAUUUGUUUCCGGACCCAGACAACAACAAAAACCAAAA--ACACA--------AAAAA------CGAAAAC
..((((..(-----(((((((((((((((..........)))))))........(((....)))..)))))..))))..))))....--.....--------.....------....... ( -16.40)
>DroWil_CAF1 20150 111 + 1
UCCGUUCCUGUUUUGUUUGUUUGCAAACAUUUUUUAAAUUGUUUGCCGUAAUUUGUUUCCGGGCCAAAAAACGGGCAAAAACAACAA--CAAC--A----AUAACAAGAGAA-ACAUACA
...((...((((((.((((((.(((((((..........))))))).((...((((((....(((........)))..))))))..)--)...--.----..)))))).)))-))).)). ( -22.80)
>DroYak_CAF1 16214 101 + 1
UCGGUUCCU-----GUUUGUUUGCAAACAUUUUUUAAAUUGUUUGCUGUAAUUUGUUUCCGCACCCACACAACAAGAAAAACCAUAAAAAACCA--------AAAAA------AAAUUUU
..((((...-----.((((((.(((((((..........)))))))(((....(((....)))...))).))))))...))))...........--------.....------....... ( -14.20)
>consensus
UCGGUUCCU_____GUUUGUUUGCAAACAUUUUUUAAAUUGUUUGCUGUAAUUUGUUUCCGGACCCAGACAACAACAAAAACCAAAA__AAACA_A____A_AAAAA__GAA_AAAUACA
..((.(((..............(((((((..........)))))))..............))).))...................................................... (-10.33 = -10.57 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 10,869,018 – 10,869,131
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.54
Mean single sequence MFE -24.38
Consensus MFE -14.90
Energy contribution -14.58
Covariance contribution -0.32
Combinations/Pair 1.06
Mean z-score -1.85
Structure conservation index 0.61
SVM decision value 0.63
SVM RNA-class probability 0.806196
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10869018 113 - 22407834
UGUAUAUAUUCCCUUUUUUUAAGGUUUUUUU--UUUUGGUUUUUGUUGCUGUCUGGGUCCGGAAACAAAUUACAGCAAACAAUUUUAAAAAUGUUUGCAAACAAAC-----AGGAACCGA
...........((((.....)))).......--..((((((((((((....((((....))))...........(((((((.((....)).))))))).....)))-----))))))))) ( -25.80)
>DroSim_CAF1 16174 104 - 1
UGUAUUU-UUCCGUUCUUUU----U----UU--UUUGGGUUUUUGUUGCUGUCUGGGUCCGGAAACAAAUUACAGCAAACAAUUUAAAAAAUGUUUGCAAACAAAC-----AGGAACCGA
.......-.((.(((((...----(----((--((((((((....(((((((..(....)(....).....)))))))..)))))))))))((((((....)))))-----)))))).)) ( -23.50)
>DroEre_CAF1 16183 99 - 1
GUUUUCG------UUUUU--------UGUGU--UUUUGGUUUUUGUUGUUGUCUGGGUCCGGAAACAAAUUACAGCAAACAAUUUAAAAAAUGUUUGCAAACAAAC-----AGGAACCGA
.......------.....--------.....--..(((((((((((((((.((((....))))...........(((((((.((....)).))))))).))).)))-----))))))))) ( -24.80)
>DroWil_CAF1 20150 111 - 1
UGUAUGU-UUCUCUUGUUAU----U--GUUG--UUGUUGUUUUUGCCCGUUUUUUGGCCCGGAAACAAAUUACGGCAAACAAUUUAAAAAAUGUUUGCAAACAAACAAAACAGGAACGGA
.......-...(((((((.(----(--((((--(..(((((((((.(((.....)))..)))))))))...))))))).............((((((....)))))).)))))))..... ( -27.10)
>DroYak_CAF1 16214 101 - 1
AAAAUUU------UUUUU--------UGGUUUUUUAUGGUUUUUCUUGUUGUGUGGGUGCGGAAACAAAUUACAGCAAACAAUUUAAAAAAUGUUUGCAAACAAAC-----AGGAACCGA
.......------.....--------..........((((...(((((((.(((((....(....)...)))))(((((((.((....)).))))))).....)))-----)))))))). ( -20.70)
>consensus
UGUAUUU_UUC__UUUUU_U____U_UGUUU__UUUUGGUUUUUGUUGCUGUCUGGGUCCGGAAACAAAUUACAGCAAACAAUUUAAAAAAUGUUUGCAAACAAAC_____AGGAACCGA
.....................................(((((((................(....)........(((((((.((....)).))))))).............))))))).. (-14.90 = -14.58 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:42 2006