Locus 7911

Sequence ID	X_DroMel_CAF1
Location	19,702,542 – 19,702,702
Length	160
Max. P	0.707946

overview

Window 2

Location	19,702,542 – 19,702,662
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	85.75
Mean single sequence MFE	-44.80
Consensus MFE	-31.66
Energy contribution	-33.22
Covariance contribution	1.56
Combinations/Pair	1.04
Mean z-score	-1.91
Structure conservation index	0.71
SVM decision value	0.37
SVM RNA-class probability	0.707946
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19702542 120 + 22224390
AUUCGGCGGCCAAGAAGCCGGCCAAGGAUCCAACGGGAUCAUCGGGCGUGUCCACAGCCACCACUGAGGGUGGUGCUGGAAAUGGAGGCGGAAAACAAACGACCUCCACCACGACAUCAU
...((((.........))))(((...(((((....)))))....)))(((((..((((.(((((.....)))))))))....((((((((.........)).))))))....)))))... ( -48.90)
>DroSec_CAF1 8990 120 + 1
AUUCGGCGGCCAAGAAGCCGGCCAAGGAUCCCACGGGUACAUCGAGCGCGUCAACAGCCGCCACUGAGAAUGAUGCUGAACAUGGAGGAGGAAAACCCACGACCUCCACCUCCACGUCAU
....(((((((........))))..((.....(((.((.......)).)))......))))).......((((((.......((((((.(((............))).)))))))))))) ( -35.31)
>DroSim_CAF1 8843 120 + 1
AUUCGGCGGCCAAGAAGCCGGCCAAGGAUCCCACGGGAUCAUCGGGCGCGUCCACAGCCACCACGGAGGGUGGUGCUGGAAAUGGAGGAGGAAAACCCACGACCUCCACCUCCACAUCAU
....((((((......))))(((...(((((....)))))....)))....)).((((.(((((.....)))))))))((..((((((.(((............))).))))))..)).. ( -49.20)
>DroEre_CAF1 9522 117 + 1
AUUCGGCGGCCAAGAAGCCGGCCAAGGAUCCCACAGGAUCGUCGGGAUCGCUCACAGCCGCCACCGAGGG---UGCUGGAAACGGAGGCGGAAAACCCACAACCUCCACCUCAACAUCCU
....((((((......)))(((..((((((((((......)).)))))).))....))))))...((((.---....(....)(((((..(........)..))))).))))........ ( -43.90)
>DroYak_CAF1 6287 120 + 1
ACACGGCGGCCAAGAAGCCGGCCAAGGAUCCCACAGGAUCAUCGGGAUCGGUCACAGCCGCCACUGAGGGUGGUGCUGGAAAUGGUGGCGGGAAACCAACGACCUCCACCUUAACAUCAA
....((((((......(((((((...(((((....)))))....)).)))))....))))))....(((((((..........(((.(.((....))..).))).)))))))........ ( -46.70)
>consensus
AUUCGGCGGCCAAGAAGCCGGCCAAGGAUCCCACGGGAUCAUCGGGCGCGUCCACAGCCGCCACUGAGGGUGGUGCUGGAAAUGGAGGCGGAAAACCCACGACCUCCACCUCAACAUCAU
....((((((......))).)))...(((((....)))))...((.........((((.(((((.....))))))))).....(((((..(........)..))))).)).......... (-31.66 = -33.22 +   1.56)

alignment

secondary structure

dotplot

Window 3

Location	19,702,582 – 19,702,702
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	79.86
Mean single sequence MFE	-39.67
Consensus MFE	-23.92
Energy contribution	-26.08
Covariance contribution	2.16
Combinations/Pair	1.04
Mean z-score	-1.71
Structure conservation index	0.60
SVM decision value	0.01
SVM RNA-class probability	0.536126
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19702582 120 + 22224390
AUCGGGCGUGUCCACAGCCACCACUGAGGGUGGUGCUGGAAAUGGAGGCGGAAAACAAACGACCUCCACCACGACAUCAUCCACAUCCUCGACAACCGCCCCGUCCGCAUCUGCAUCUGC
...(((((((((..(((......))).((((((((((((...((((((((.........)).))))))))).).))))))))........))))..))))).....((....))...... ( -42.50)
>DroSec_CAF1 9030 114 + 1
AUCGAGCGCGUCAACAGCCGCCACUGAGAAUGAUGCUGAACAUGGAGGAGGAAAACCCACGACCUCCACCUCCACGUCAUCCACAUCCUCGACAACCGACGCGUCCGCAUCUG------C
..((..((((((..(((......))).((..((((..((((.((((((.(((............))).)))))).))..))..)))).)).......))))))..))......------. ( -34.30)
>DroSim_CAF1 8883 114 + 1
AUCGGGCGCGUCCACAGCCACCACGGAGGGUGGUGCUGGAAAUGGAGGAGGAAAACCCACGACCUCCACCUCCACAUCAUCCACAUCCUCGGCAACCGCCGCGUCCGCAUCUG------C
..(((((((...............(((((((((((.((((..((((((.((.....))....))))))..))))))))))))...)))..(((....))))))))))......------. ( -47.70)
>DroEre_CAF1 9562 117 + 1
GUCGGGAUCGCUCACAGCCGCCACCGAGGG---UGCUGGAAACGGAGGCGGAAAACCCACAACCUCCACCUCAACAUCCUCCACUUCCUCGACAUCCGCCGCGUCCGCGUCCGCGUCCUC
(.(((((.(((..((.((.((...((((((---((..(((....((((.(((............))).))))....)))..)))..)))))......)).))))..)))))).)).)... ( -37.40)
>DroYak_CAF1 6327 112 + 1
AUCGGGAUCGGUCACAGCCGCCACUGAGGGUGGUGCUGGAAAUGGUGGCGGGAAACCAACGACCUCCACCUUAACAUCAACCACGUGCUCGACAUCCGCCGCAUCCGCUUCC--------
...((((.(((((.((((.(((((.....)))))))))))....(((((((....))..(((....(((...............))).)))......)))))..))).))))-------- ( -36.46)
>consensus
AUCGGGCGCGUCCACAGCCGCCACUGAGGGUGGUGCUGGAAAUGGAGGCGGAAAACCCACGACCUCCACCUCAACAUCAUCCACAUCCUCGACAACCGCCGCGUCCGCAUCUG______C
..((((((((....((((.(((((.....))))))))).....(((((..(........)..)))))................................))))))))............. (-23.92 = -26.08 +   2.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:39 2006