Locus 1759

Sequence ID	2R_DroMel_CAF1
Location	6,597,650 – 6,597,742
Length	92
Max. P	0.938670

overview

Window 9

Location	6,597,650 – 6,597,742
Length	92
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	78.13
Mean single sequence MFE	-13.98
Consensus MFE	-10.23
Energy contribution	-10.53
Covariance contribution	0.31
Combinations/Pair	1.12
Mean z-score	-1.53
Structure conservation index	0.73
SVM decision value	0.90
SVM RNA-class probability	0.878574
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6597650 92 + 20766785
UUUUUUAGCUUUACGUAAAUUGCGUAAAUUGUGUGCAUUUUAUUACGCUACACUUCAUGCUGUCACGCCCCCCCCCCCCC-AA-------ACUCC---ACUAC
.....(((((((((((.....)))))))..((((((..........)).)))).....))))..................-..-------.....---..... ( -13.10)
>DroGri_CAF1 107154 83 + 1
UUUUUUUACGUUACGUAAAUUGCGUAAAUUGUGUGCAUUUUAUUAUGCUACACUUCUUGCUGCCACGCAU-------CUU----------CCACC---AUUUU
....(((((((..........)))))))..((((((((......)))).))))....(((......))).-------...----------.....---..... ( -14.60)
>DroEre_CAF1 149403 83 + 1
UUUUUUAGCUUUACGUAAAUUGCGUAAAUUGUGUGCAUUUUAUUACGCUACACUUCACGCUGUCACGCC----------CCCA-------ACUCC---GCUGC
.....(((((((((((.....)))))))..((((((..........)).)))).....)))).......----------....-------.....---..... ( -13.40)
>DroYak_CAF1 156552 86 + 1
UUUUUUAGCUUUACGUAAAUUGCGUAAAUUGUGUGCAUUUUAUUACGCUACACUUCAUGCUGUCACGCCC-------CCCCCA-------AUUCC---CCUGC
.....(((((((((((.....)))))))..((((((..........)).)))).....))))........-------......-------.....---..... ( -13.10)
>DroMoj_CAF1 117160 83 + 1
UUUUUUAACGUUACGUAAAUUGCGUAAAUUGUGUGCAUUUUAUUAUGUUACACUUUAUGUCUCCACGACU-------CUU----------GCACC---GUUUC
......((((((((((.....))))))...((((((((......))).))))).....(((.....))).-------...----------....)---))).. ( -13.50)
>DroAna_CAF1 163409 95 + 1
UUUUUUAGCUUUACGUAAAUUGCGUAAAUUGUGUGCAUUUUAUUACGCUACACUUCAUGCUGUCACGCCC-------CCC-AUUUCCAGGCAUCCACAACUUU
.....(((((((((((.....)))))))..((((((..........)).)))).....))))....(((.-------...-.......)))............ ( -16.20)
>consensus
UUUUUUAGCUUUACGUAAAUUGCGUAAAUUGUGUGCAUUUUAUUACGCUACACUUCAUGCUGUCACGCCC_______CCC__A_______ACUCC___ACUUC
.....((((.((((((.....))))))...((((((..........)).)))).....))))......................................... (-10.23 = -10.53 +   0.31)

alignment

secondary structure

dotplot

Window 0

Location	6,597,650 – 6,597,742
Length	92
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	78.13
Mean single sequence MFE	-19.17
Consensus MFE	-12.63
Energy contribution	-12.72
Covariance contribution	0.08
Combinations/Pair	1.15
Mean z-score	-2.05
Structure conservation index	0.66
SVM decision value	1.29
SVM RNA-class probability	0.938670
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6597650 92 - 20766785
GUAGU---GGAGU-------UU-GGGGGGGGGGGGGCGUGACAGCAUGAAGUGUAGCGUAAUAAAAUGCACACAAUUUACGCAAUUUACGUAAAGCUAAAAAA
.....---..(((-------((-...(.(..((..(((((((.....)..((((.((((......))))))))...))))))..))..).).)))))...... ( -19.10)
>DroGri_CAF1 107154 83 - 1
AAAAU---GGUGG----------AAG-------AUGCGUGGCAGCAAGAAGUGUAGCAUAAUAAAAUGCACACAAUUUACGCAAUUUACGUAACGUAAAAAAA
....(---(((((----------(..-------.(((......)))....((((.((((......))))))))..))))).)).((((((...)))))).... ( -17.10)
>DroEre_CAF1 149403 83 - 1
GCAGC---GGAGU-------UGGG----------GGCGUGACAGCGUGAAGUGUAGCGUAAUAAAAUGCACACAAUUUACGCAAUUUACGUAAAGCUAAAAAA
.....---..(((-------(...----------.((((((..(((((((((((.((((......))))))))..)))))))...))))))..))))...... ( -24.00)
>DroYak_CAF1 156552 86 - 1
GCAGG---GGAAU-------UGGGGG-------GGGCGUGACAGCAUGAAGUGUAGCGUAAUAAAAUGCACACAAUUUACGCAAUUUACGUAAAGCUAAAAAA
(((.(---..(((-------((.(..-------((((......)).....((((.((((......))))))))..))..).)))))..).)...))....... ( -16.80)
>DroMoj_CAF1 117160 83 - 1
GAAAC---GGUGC----------AAG-------AGUCGUGGAGACAUAAAGUGUAACAUAAUAAAAUGCACACAAUUUACGCAAUUUACGUAACGUUAAAAAA
..(((---(((((----------(..-------.((..((...((((...))))..))..))....))))).....(((((.......)))))))))...... ( -15.10)
>DroAna_CAF1 163409 95 - 1
AAAGUUGUGGAUGCCUGGAAAU-GGG-------GGGCGUGACAGCAUGAAGUGUAGCGUAAUAAAAUGCACACAAUUUACGCAAUUUACGUAAAGCUAAAAAA
...((..((..(.(((......-)))-------.).))..))(((.....((((.((((......))))))))..((((((.......)))))))))...... ( -22.90)
>consensus
GAAGU___GGAGU_______U__GGG_______GGGCGUGACAGCAUGAAGUGUAGCGUAAUAAAAUGCACACAAUUUACGCAAUUUACGUAAAGCUAAAAAA
...................................((((((..((.((((((((.((((......))))))))..)))).))...))))))............ (-12.63 = -12.72 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:30 2006