Locus 33

Sequence ID	X_DroMel_CAF1
Location	131,007 – 131,111
Length	104
Max. P	0.999137

overview

Window 9

Location	131,007 – 131,111
Length	104
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	90.94
Mean single sequence MFE	-42.10
Consensus MFE	-37.64
Energy contribution	-38.36
Covariance contribution	0.72
Combinations/Pair	1.11
Mean z-score	-2.38
Structure conservation index	0.89
SVM decision value	3.39
SVM RNA-class probability	0.999137
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 131007 104 + 22224390
UCUGGGAAGUGUUGCCGGCACUUUGCAGCUGGCCGC------CGCUGGUUGCUGUUAUUGUAGUCACGUUGAGGCCGCUUCCCAAAGUGCUGCUCCCGGCAGAAGUUCCU
...(((((.(.((((((((((((((.(((.((((.(------.((((..(((.......)))..)).)).).)))))))...))))))))......)))))).).))))) ( -42.50)
>DroSec_CAF1 3162 104 + 1
UCUGGGAACUGUUGCCGGCACUUUGCAGCUGGCCGC------CGCUGGUUGCUGUUAUUGUAGUCACGUUGAGACCGCUUCCCAAAGUGCUGCUCCCGGCAGAAGUUCCU
...(((((((.(((((((......(((((..((...------.))..))))).......((((.(((.(((.((.....)).))).)))))))..))))))).))))))) ( -44.20)
>DroSim_CAF1 2926 104 + 1
UCUGGGAACUGUUGCCGGCACUUUGCAGCUGGCCGC------CGCUGGUUGCUGUUAUUGUAGUCACGUUGAGACCGCUUCCCAAAGUGCUGCUCCCGGCAGAAGUUCCU
...(((((((.(((((((......(((((..((...------.))..))))).......((((.(((.(((.((.....)).))).)))))))..))))))).))))))) ( -44.20)
>DroEre_CAF1 2903 110 + 1
UCUGGGAACUGUUGCCGGCACUUUGCAGCUGGCCUCCACCCCCUCCAGUCGCUGUUAUUGUAGUCACGUUGAGACCGCUUCCUAAGGUGCUGCUUCCGGCAGAAGUUCCU
...(((((((.(((((((......((.(((((............))))).)).......((((.(((.(((.((.....)).))).)))))))..))))))).))))))) ( -38.80)
>DroYak_CAF1 2979 110 + 1
UCUGGGAACUGUUCCCGGCACUUUGCAGCUGACCUCCUCCCCCGCCGGUCGCUGUUAUUGUAGUCACGUUGAGACCGCUCCCCAACGUGCUGCUCCCGGCAGAAGUUCCU
...(((((((....((((......(((((.((((..(......)..)))))))))....((((.(((((((.(........))))))))))))..))))....))))))) ( -40.80)
>consensus
UCUGGGAACUGUUGCCGGCACUUUGCAGCUGGCCGC______CGCUGGUUGCUGUUAUUGUAGUCACGUUGAGACCGCUUCCCAAAGUGCUGCUCCCGGCAGAAGUUCCU
...(((((((.(((((((......(((((((((..........))))))))).......((((.(((.(((.((.....)).))).)))))))..))))))).))))))) (-37.64 = -38.36 +   0.72)

alignment

secondary structure

dotplot

Window 0

Location	131,007 – 131,111
Length	104
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	90.94
Mean single sequence MFE	-39.88
Consensus MFE	-31.50
Energy contribution	-32.02
Covariance contribution	0.52
Combinations/Pair	1.06
Mean z-score	-2.02
Structure conservation index	0.79
SVM decision value	1.15
SVM RNA-class probability	0.922866
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 131007 104 - 22224390
AGGAACUUCUGCCGGGAGCAGCACUUUGGGAAGCGGCCUCAACGUGACUACAAUAACAGCAACCAGCG------GCGGCCAGCUGCAAAGUGCCGGCAACACUUCCCAGA
.((((....(((((......((((((((...(((((((((...((..........)).((.....)))------).)))).))).)))))))))))))....)))).... ( -33.70)
>DroSec_CAF1 3162 104 - 1
AGGAACUUCUGCCGGGAGCAGCACUUUGGGAAGCGGUCUCAACGUGACUACAAUAACAGCAACCAGCG------GCGGCCAGCUGCAAAGUGCCGGCAACAGUUCCCAGA
.((((((..((((((..(((((((.((((((.....)))))).))).))................(((------((.....)))))...)).))))))..)))))).... ( -39.90)
>DroSim_CAF1 2926 104 - 1
AGGAACUUCUGCCGGGAGCAGCACUUUGGGAAGCGGUCUCAACGUGACUACAAUAACAGCAACCAGCG------GCGGCCAGCUGCAAAGUGCCGGCAACAGUUCCCAGA
.((((((..((((((..(((((((.((((((.....)))))).))).))................(((------((.....)))))...)).))))))..)))))).... ( -39.90)
>DroEre_CAF1 2903 110 - 1
AGGAACUUCUGCCGGAAGCAGCACCUUAGGAAGCGGUCUCAACGUGACUACAAUAACAGCGACUGGAGGGGGUGGAGGCCAGCUGCAAAGUGCCGGCAACAGUUCCCAGA
.((((((..((((((..(((((.((((.((..((((((.......)))).........))..)).)))).(((....))).)))))......))))))..)))))).... ( -41.10)
>DroYak_CAF1 2979 110 - 1
AGGAACUUCUGCCGGGAGCAGCACGUUGGGGAGCGGUCUCAACGUGACUACAAUAACAGCGACCGGCGGGGGAGGAGGUCAGCUGCAAAGUGCCGGGAACAGUUCCCAGA
.....((((((((((..((((((((((((((.....)))))))))).)).........))..))))))))))....(((..(((....))))))((((.....))))... ( -44.80)
>consensus
AGGAACUUCUGCCGGGAGCAGCACUUUGGGAAGCGGUCUCAACGUGACUACAAUAACAGCAACCAGCG______GCGGCCAGCUGCAAAGUGCCGGCAACAGUUCCCAGA
.((((((..((((((..(((((((.((((((.....)))))).))).)).......((((..((............))...))))....)).))))))..)))))).... (-31.50 = -32.02 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:53 2006