Locus 2117

Sequence ID	2R_DroMel_CAF1
Location	7,929,657 – 7,929,753
Length	96
Max. P	0.932739

overview

Window 7

Location	7,929,657 – 7,929,753
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	91.61
Mean single sequence MFE	-16.96
Consensus MFE	-12.68
Energy contribution	-12.88
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.71
Structure conservation index	0.75
SVM decision value	0.09
SVM RNA-class probability	0.577296
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7929657 96 + 20766785
AUCGGCAACUGCAACUGCAUAUCCAUCUGCAACUUCAUCUCCAUUAGAAACUCCAUCACCAGCAGAAAUAGCAAAUGCACGCUCUCCCAUGGAGGC
...(....)((((..(((.(((...(((((...............................))))).))))))..)))).((.((((...)))))) ( -17.08)
>DroSec_CAF1 3757 96 + 1
AUCGGCAACUGCAACUGCAUCUCCAUCUGCAACUUCAUCUCCAUUAGAAACUCCAUCUCCAGCAGAAAUAGCAAAUGCACGCUCUCCCAUGGAGGC
...(((..((((...((((........))))......(((.....))).............)))).....((....))..)))((((...)))).. ( -16.50)
>DroSim_CAF1 3746 96 + 1
AUCGGCAACUGCAACUGCAUCUCCAUCUGCAACUUCAUCUCCAUUAGAAACUCCAUCUCCAGCAGAAAUAGCAAAUGCACGCUCUCCCAUGGAGGC
...(((..((((...((((........))))......(((.....))).............)))).....((....))..)))((((...)))).. ( -16.50)
>DroEre_CAF1 3620 90 + 1
AC------CUGCAACUGCAUCUCCAGCUGCAACUCCAUCUCCAUUAGAAACUCCAUCUCUAUCAGAAAUAGCAAAUGCACGCUCUCUCAUGGAGGC
..------.((((.(((......))).))))......(((((((.(((.......(((.....)))....((....))......))).))))))). ( -18.90)
>DroYak_CAF1 3712 90 + 1
AC------CUGCAACUGCAUCUCCAUCUGCAACUCCGUCUCCAUUAGAAACUCCAUCUCUAUCAGAAAUAGCAAAUGCACGCUCUCCCAUGGAGGC
..------.((((..((......))..)))).....((((((((..((.......(((.....)))....((....))......))..)))))))) ( -15.80)
>consensus
AUCGGCAACUGCAACUGCAUCUCCAUCUGCAACUUCAUCUCCAUUAGAAACUCCAUCUCCAGCAGAAAUAGCAAAUGCACGCUCUCCCAUGGAGGC
.........((((..((......))..))))......(((((((..((.......(((.....)))....((....))......))..))))))). (-12.68 = -12.88 +   0.20)

alignment

secondary structure

dotplot

Window 8

Location	7,929,657 – 7,929,753
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	91.61
Mean single sequence MFE	-28.52
Consensus MFE	-24.98
Energy contribution	-25.02
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.59
Structure conservation index	0.88
SVM decision value	1.22
SVM RNA-class probability	0.932739
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7929657 96 - 20766785
GCCUCCAUGGGAGAGCGUGCAUUUGCUAUUUCUGCUGGUGAUGGAGUUUCUAAUGGAGAUGAAGUUGCAGAUGGAUAUGCAGUUGCAGUUGCCGAU
((((((...)))).)).((((.(((((((((((((....(((...(((((.....)))))...))))))))..)))).)))).))))......... ( -26.70)
>DroSec_CAF1 3757 96 - 1
GCCUCCAUGGGAGAGCGUGCAUUUGCUAUUUCUGCUGGAGAUGGAGUUUCUAAUGGAGAUGAAGUUGCAGAUGGAGAUGCAGUUGCAGUUGCCGAU
((((((...)))).)).((((.((((.((((((((((..(((...(((((.....)))))...))).))).))))))))))).))))......... ( -29.40)
>DroSim_CAF1 3746 96 - 1
GCCUCCAUGGGAGAGCGUGCAUUUGCUAUUUCUGCUGGAGAUGGAGUUUCUAAUGGAGAUGAAGUUGCAGAUGGAGAUGCAGUUGCAGUUGCCGAU
((((((...)))).)).((((.((((.((((((((((..(((...(((((.....)))))...))).))).))))))))))).))))......... ( -29.40)
>DroEre_CAF1 3620 90 - 1
GCCUCCAUGAGAGAGCGUGCAUUUGCUAUUUCUGAUAGAGAUGGAGUUUCUAAUGGAGAUGGAGUUGCAGCUGGAGAUGCAGUUGCAG------GU
..((((((((((.((((......)))).))))...(((((((...)))))))))))))......(((((((((......)))))))))------.. ( -30.20)
>DroYak_CAF1 3712 90 - 1
GCCUCCAUGGGAGAGCGUGCAUUUGCUAUUUCUGAUAGAGAUGGAGUUUCUAAUGGAGACGGAGUUGCAGAUGGAGAUGCAGUUGCAG------GU
((((((...)))).)).((((.((((.((((((......(((...(((((.....)))))...)))......)))))))))).)))).------.. ( -26.90)
>consensus
GCCUCCAUGGGAGAGCGUGCAUUUGCUAUUUCUGCUGGAGAUGGAGUUUCUAAUGGAGAUGAAGUUGCAGAUGGAGAUGCAGUUGCAGUUGCCGAU
(((((.....))).)).((((.((((.(((((((...(..((...(((((.....)))))...))..)...))))))))))).))))......... (-24.98 = -25.02 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:45 2006