Locus 8196

Sequence ID	3R_DroMel_CAF1
Location	22,022,430 – 22,022,520
Length	90
Max. P	0.999867

overview

Window 7

Location	22,022,430 – 22,022,520
Length	90
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	91.10
Mean single sequence MFE	-26.36
Consensus MFE	-23.26
Energy contribution	-23.46
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-3.07
Structure conservation index	0.88
SVM decision value	4.31
SVM RNA-class probability	0.999867
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22022430 90 + 27905053
UUU-GG------UAUGUGUGCGUGUGUGUUUAAUUACACAUUACGUAUACGCCACAUUUGACGCAUUGUGGCUGCUGUACUGUGGCUUGUAUAUUUU
...-((------((.((((((((((((((......))))).)))))))))((((((..........))))))))))((((........))))..... ( -29.50)
>DroSec_CAF1 20669 89 + 1
UUUGGG------UAUGUGUGCUUG--UGUUUAAUUACACAUUACGUAUACGCCACAUUUGACGCAUUGUGGCUGUUGUACUGUGGCUUGUAUAUUUU
.....(------((((((((..((--(((......))))).)))))))))((((((..((((((......)).))))...))))))........... ( -24.60)
>DroSim_CAF1 12726 89 + 1
UUUUGG------UAUGUGUGCGUG--UGUUUAAUUACACAUUACGUAUACGCCACAUUUGACGCAUUGUGGCUGCUGUACUGUGGCUUGUAUAUUUU
....((------((.(((((((((--(((......))))...))))))))((((((..........))))))))))((((........))))..... ( -25.10)
>DroEre_CAF1 14508 88 + 1
GU-ACG------UUUGUGUGCGUG--UGUUUAAUUACACAUUACGUAUACGCCACAUUUGACGCAUUGUGGCUACUGUACUGUGGCUUGUAUAUUUU
((-((.------...(((((((((--(((......))))...))))))))((((((..........))))))....))))................. ( -25.80)
>DroYak_CAF1 21906 94 + 1
GU-ACUUACAUAUGUGUGUGCGUG--UGUUUAAUUACACAUUACGUAUACGCCACAUUUGACGCAUUGUGGCUGCUGUACUGUGGCUUGUAUAUUUU
((-((...((((.(((((((((((--(((......))))...))))))))((((((..........))))))......))))))....))))..... ( -26.80)
>consensus
UUUAGG______UAUGUGUGCGUG__UGUUUAAUUACACAUUACGUAUACGCCACAUUUGACGCAUUGUGGCUGCUGUACUGUGGCUUGUAUAUUUU
...............(((((((((..(((......)))...)))))))))((((((..........))))))...(((((........))))).... (-23.26 = -23.46 +   0.20)

alignment

secondary structure

dotplot

Window 8

Location	22,022,430 – 22,022,520
Length	90
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	91.10
Mean single sequence MFE	-20.13
Consensus MFE	-16.98
Energy contribution	-17.02
Covariance contribution	0.04
Combinations/Pair	1.05
Mean z-score	-3.40
Structure conservation index	0.84
SVM decision value	3.87
SVM RNA-class probability	0.999674
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22022430 90 - 27905053
AAAAUAUACAAGCCACAGUACAGCAGCCACAAUGCGUCAAAUGUGGCGUAUACGUAAUGUGUAAUUAAACACACACGCACACAUA------CC-AAA
....(((((..((((((.....(((.......)))......)))))))))))(((..(((((......))))).)))........------..-... ( -21.00)
>DroSec_CAF1 20669 89 - 1
AAAAUAUACAAGCCACAGUACAACAGCCACAAUGCGUCAAAUGUGGCGUAUACGUAAUGUGUAAUUAAACA--CAAGCACACAUA------CCCAAA
....(((((..((((((........((......))......))))))))))).(((.(((((..((.....--.))..)))))))------)..... ( -17.74)
>DroSim_CAF1 12726 89 - 1
AAAAUAUACAAGCCACAGUACAGCAGCCACAAUGCGUCAAAUGUGGCGUAUACGUAAUGUGUAAUUAAACA--CACGCACACAUA------CCAAAA
....(((((..((((((.....(((.......)))......))))))))))).((..(((((......)))--)).)).......------...... ( -20.00)
>DroEre_CAF1 14508 88 - 1
AAAAUAUACAAGCCACAGUACAGUAGCCACAAUGCGUCAAAUGUGGCGUAUACGUAAUGUGUAAUUAAACA--CACGCACACAAA------CGU-AC
...........((((((.....(((.......)))......))))))...(((((..(((((.........--...)))))...)------)))-). ( -19.30)
>DroYak_CAF1 21906 94 - 1
AAAAUAUACAAGCCACAGUACAGCAGCCACAAUGCGUCAAAUGUGGCGUAUACGUAAUGUGUAAUUAAACA--CACGCACACACAUAUGUAAGU-AC
......(((..((((((.....(((.......)))......))))))...((((((.(((((.........--.......))))))))))).))-). ( -22.59)
>consensus
AAAAUAUACAAGCCACAGUACAGCAGCCACAAUGCGUCAAAUGUGGCGUAUACGUAAUGUGUAAUUAAACA__CACGCACACAUA______CCUAAA
....(((((..((((((.....(((.......)))......))))))))))).....(((((..............)))))................ (-16.98 = -17.02 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:00 2006