Locus 2319

Sequence ID	X_DroMel_CAF1
Location	6,249,839 – 6,249,959
Length	120
Max. P	0.782222

overview

Window 8

Location	6,249,839 – 6,249,959
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	95.50
Mean single sequence MFE	-29.48
Consensus MFE	-24.33
Energy contribution	-24.14
Covariance contribution	-0.19
Combinations/Pair	1.04
Mean z-score	-2.03
Structure conservation index	0.83
SVM decision value	0.30
SVM RNA-class probability	0.676677
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6249839 120 + 22224390
UCGCAGCGAAUUGUUUAUGCAGCUGCCACUGCUUCAAACUAGUUGGCAUUAAUAUAACUGUAUAGAUAUAGCCAUAGCUGCUCACAUUCCCCAAUGUUUUUGCGGCGCAAAUUUUGCGAA
(((((((....(((((((((((.((((((((........))).))))).........)))))))))))..))....(((((..(((((....)))))....)))))........))))). ( -34.20)
>DroSec_CAF1 16616 117 + 1
UCGCAGCGAAUUGUUUAUGCAGCUGCCACUGCUUCAAACUAGUUAGCAUUAAUAUAACUGUAUAGAUAUAGCCAUAGCUGCUCACUUUUCCCAAUGUUUUUG---CGCAAAUUUUGCGAA
((((((.(((..((....(((((((...(((..((....((((((.........))))))....))..)))...)))))))..))..)))....(((.....---.)))....)))))). ( -24.90)
>DroEre_CAF1 11287 117 + 1
UCGCAGCGAAUUGUUUAUGCAGCUGCCACUGCUUCAAACUAGUUAGCAUUAAUAUAACUGUAUAGAUAUUGCCAUAGCUGCUCACUUUUCGCAAUGUUUUUG---CGCAAAUUUUGCGAA
((((((((((..((....(((((((.....((.((....((((((.........))))))....))....))..)))))))..))..)))))..(((.....---.))).....))))). ( -28.60)
>DroYak_CAF1 23755 117 + 1
UCGCAGCGAAUUGUUUAUGCAGCUGCCACUGCUUCAAACUAGUUAGCAUUAAUAUAACUGUAUAGAUAUUGCUAUAGCUGCUCACUUUUCGCAAUGGUUUUG---CGCAAAUUUUGCGAA
((((((((((..((....(((((((..((((........))))(((((.((.((((....))))..)).))))))))))))..))..)))))..(((.....---).)).....))))). ( -30.20)
>consensus
UCGCAGCGAAUUGUUUAUGCAGCUGCCACUGCUUCAAACUAGUUAGCAUUAAUAUAACUGUAUAGAUAUAGCCAUAGCUGCUCACUUUUCCCAAUGUUUUUG___CGCAAAUUUUGCGAA
..(((((....(((((((((((.......((((...........)))).........)))))))))))........)))))........................((((.....)))).. (-24.33 = -24.14 +  -0.19)

alignment

secondary structure

dotplot

Window 9

Location	6,249,839 – 6,249,959
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.50
Mean single sequence MFE	-29.83
Consensus MFE	-26.26
Energy contribution	-26.70
Covariance contribution	0.44
Combinations/Pair	1.08
Mean z-score	-1.87
Structure conservation index	0.88
SVM decision value	0.56
SVM RNA-class probability	0.782222
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6249839 120 - 22224390
UUCGCAAAAUUUGCGCCGCAAAAACAUUGGGGAAUGUGAGCAGCUAUGGCUAUAUCUAUACAGUUAUAUUAAUGCCAACUAGUUUGAAGCAGUGGCAGCUGCAUAAACAAUUCGCUGCGA
.(((((...(((((...)))))......(.(((.(((..((((((((((((.((....)).)))))))....(((((.((.((.....))))))))))))))....))).))).)))))) ( -32.30)
>DroSec_CAF1 16616 117 - 1
UUCGCAAAAUUUGCG---CAAAAACAUUGGGAAAAGUGAGCAGCUAUGGCUAUAUCUAUACAGUUAUAUUAAUGCUAACUAGUUUGAAGCAGUGGCAGCUGCAUAAACAAUUCGCUGCGA
.(((((......(((---......((((......)))).((((((((((((.((....)).)))))))....(((((.((.((.....))))))))))))))..........)))))))) ( -26.70)
>DroEre_CAF1 11287 117 - 1
UUCGCAAAAUUUGCG---CAAAAACAUUGCGAAAAGUGAGCAGCUAUGGCAAUAUCUAUACAGUUAUAUUAAUGCUAACUAGUUUGAAGCAGUGGCAGCUGCAUAAACAAUUCGCUGCGA
(((((((..(((...---...)))..)))))))......(((((..(((((.((..((((....)))).)).)))))....(((((..(((((....))))).))))).....))))).. ( -30.40)
>DroYak_CAF1 23755 117 - 1
UUCGCAAAAUUUGCG---CAAAACCAUUGCGAAAAGUGAGCAGCUAUAGCAAUAUCUAUACAGUUAUAUUAAUGCUAACUAGUUUGAAGCAGUGGCAGCUGCAUAAACAAUUCGCUGCGA
.((((....(((.((---(((.....))))).)))))))(((((..(((((.((..((((....)))).)).)))))....(((((..(((((....))))).))))).....))))).. ( -29.90)
>consensus
UUCGCAAAAUUUGCG___CAAAAACAUUGCGAAAAGUGAGCAGCUAUGGCAAUAUCUAUACAGUUAUAUUAAUGCUAACUAGUUUGAAGCAGUGGCAGCUGCAUAAACAAUUCGCUGCGA
(((((((..((((.....))))....)))))))......(((((..(((((.((..((((....)))).)).)))))....(((((..(((((....))))).))))).....))))).. (-26.26 = -26.70 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:28 2006