Locus 8745

Sequence ID	3R_DroMel_CAF1
Location	23,346,689 – 23,346,781
Length	92
Max. P	0.989791

overview

Window 9

Location	23,346,689 – 23,346,781
Length	92
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	74.53
Mean single sequence MFE	-22.28
Consensus MFE	-12.66
Energy contribution	-12.47
Covariance contribution	-0.19
Combinations/Pair	1.15
Mean z-score	-1.98
Structure conservation index	0.57
SVM decision value	1.33
SVM RNA-class probability	0.943224
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23346689 92 + 27905053
GAACUACAAGCUGCAGGUGGAGCUGCUGCAGGAGAAGCUGCAGCGCAGGUGAGCAGAUCAGGAAUAAAUUUGUUAAAAAAAAUUAAA---UGCAA
........((((.(....).))))(((((((......)))))))(((..(((((((((.........)))))).........)))..---))).. ( -23.30)
>DroGri_CAF1 17585 85 + 1
GAACUACAAGUUGCAGGUGGAGUUGCUUCAGGAGAAACUGCGACGCAGGUCUGUGGCACA---CC----UUUAUAAAUAGCUUCAAA---UUAAU
((((((.....((.(((((....((((.((((.....((((...)))).)))).))))))---))----).))....))).)))...---..... ( -19.70)
>DroSec_CAF1 16365 92 + 1
GAACUACAAGCUGCAGGUGGAGCUGCUGCAGGAGAAGCUGCAACGCAGGUGAGCAGACCAGGAAUAAAUUUGUUAAUAAAAAUUAAA---UGCAA
...........((((..(((..(((((((((......))))..((....))))))).)))......(((((........)))))...---)))). ( -18.30)
>DroEre_CAF1 4328 81 + 1
GAACUACAAGCUGCAGGUGGAGCUGCUGCAGGAGAAACUGCAGCGCAGGUGAGCAGAUCAGGAAUA-------UAACCAAAAUGAA-------GA
..........((.((..(((.((.(((((((......)))))))))...(((.....)))......-------...)))...)).)-------). ( -21.90)
>DroYak_CAF1 17475 88 + 1
GAACUACAAGCUGCAGGUGGAGCUGCUGCAGGAGAAACUGCAGCGCAGGUAAGCACAUCGAAAAUA-------UAAAAAAUAUUAACCAUAGCAA
.........((((..((((.....(((((((......)))))))((......)).))))...((((-------(.....))))).....)))).. ( -23.40)
>DroMoj_CAF1 17524 86 + 1
GAACUACAAGCUGCAAGUGGAGCUGCUGCAGGAGAAGCUGCGUCGCAGGUUUGUGGAGCA--CAU----UUUAUAAUUAGAUAUAAG---UGCAA
...(((((((((....(((..((.(((........))).))..))).))))))))).(((--(..----.(((((......))))))---))).. ( -27.10)
>consensus
GAACUACAAGCUGCAGGUGGAGCUGCUGCAGGAGAAACUGCAGCGCAGGUGAGCAGAUCAGGAAUA___UU__UAAAAAAAAUUAAA___UGCAA
...((((.........))))..(((((((((......)))))..))))............................................... (-12.66 = -12.47 +  -0.19)

alignment

secondary structure

dotplot

Window 0

Location	23,346,689 – 23,346,781
Length	92
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	74.53
Mean single sequence MFE	-20.12
Consensus MFE	-13.67
Energy contribution	-14.50
Covariance contribution	0.83
Combinations/Pair	1.06
Mean z-score	-2.28
Structure conservation index	0.68
SVM decision value	2.18
SVM RNA-class probability	0.989791
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23346689 92 - 27905053
UUGCA---UUUAAUUUUUUUUAACAAAUUUAUUCCUGAUCUGCUCACCUGCGCUGCAGCUUCUCCUGCAGCAGCUCCACCUGCAGCUUGUAGUUC
.....---............................((.((((....(((((((((((......)))))))((......))))))...)))).)) ( -20.10)
>DroGri_CAF1 17585 85 - 1
AUUAA---UUUGAAGCUAUUUAUAAA----GG---UGUGCCACAGACCUGCGUCGCAGUUUCUCCUGAAGCAACUCCACCUGCAACUUGUAGUUC
.....---.....((((((......(----((---(((((.((........)).)))(((((....))))).....))))).......)))))). ( -18.62)
>DroSec_CAF1 16365 92 - 1
UUGCA---UUUAAUUUUUAUUAACAAAUUUAUUCCUGGUCUGCUCACCUGCGUUGCAGCUUCUCCUGCAGCAGCUCCACCUGCAGCUUGUAGUUC
(((((---.(((((....))))).............((.((((......(((((((((......))))))).)).......)))))))))))... ( -18.92)
>DroEre_CAF1 4328 81 - 1
UC-------UUCAUUUUGGUUA-------UAUUCCUGAUCUGCUCACCUGCGCUGCAGUUUCUCCUGCAGCAGCUCCACCUGCAGCUUGUAGUUC
..-------........((...-------....)).((.((((....(((((((((((......)))))))((......))))))...)))).)) ( -20.50)
>DroYak_CAF1 17475 88 - 1
UUGCUAUGGUUAAUAUUUUUUA-------UAUUUUCGAUGUGCUUACCUGCGCUGCAGUUUCUCCUGCAGCAGCUCCACCUGCAGCUUGUAGUUC
..(((((.(..(((((.....)-------))))..).))).))....(((((((((((......)))))))((((.(....).)))).))))... ( -24.30)
>DroMoj_CAF1 17524 86 - 1
UUGCA---CUUAUAUCUAAUUAUAAA----AUG--UGCUCCACAAACCUGCGACGCAGCUUCUCCUGCAGCAGCUCCACUUGCAGCUUGUAGUUC
..(((---((((((......))))).----..)--))).........((((((.((((......)))).((.((.......)).))))))))... ( -18.30)
>consensus
UUGCA___UUUAAUUUUUUUUA__AA___UAUUCCUGAUCUGCUCACCUGCGCUGCAGCUUCUCCUGCAGCAGCUCCACCUGCAGCUUGUAGUUC
...............................................(((((((((((......)))))))((((.(....).)))).))))... (-13.67 = -14.50 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:45 2006