Locus 3473

Sequence ID	2R_DroMel_CAF1
Location	11,657,951 – 11,658,071
Length	120
Max. P	0.981218

overview

Window 7

Location	11,657,951 – 11,658,071
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	93.33
Mean single sequence MFE	-39.41
Consensus MFE	-34.20
Energy contribution	-34.70
Covariance contribution	0.50
Combinations/Pair	1.03
Mean z-score	-1.89
Structure conservation index	0.87
SVM decision value	0.81
SVM RNA-class probability	0.857689
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11657951 120 + 20766785
AAUACAUAGCCAGUGUGGCAACUCCCUGCAGCGCUGCCACCUGCCGACAACCAGCUGUUGCUCACAAGCUGAUGAAACUUUGCCGCAUUUGCAAGUGCAGAAGCGACUGGCUGUUUAUAC
.(((.((((((((((((((((.......((((((........)).((((((.....)))).))....))))........))))))).(((((....)))))....))))))))).))).. ( -40.26)
>DroSim_CAF1 2702 120 + 1
AAUACAUAGCCAGUGUGGCAACUCCGUGCGGCGCUGCCACCUGCCAAAAACCAGCUGUUGCUCACAAGCUGAUGAAACUUUGCCGCAUUUGCAAGUGCAGAAGCGACUGACUGUUUAUAC
.(((.((((.((((((((((.(.((....)).).))))))...........(((((((.....)).)))))............(((.(((((....))))).))))))).)))).))).. ( -35.60)
>DroEre_CAF1 2871 120 + 1
AAUACCAAGUCAGUGUGGCAACUCCCUGCGGCGCUGCCACCUGCCGACAGCCAGCUGUUGCUCACAAGCUGAUGAAACUUUGCCGCAUUUGCAAGUGCAGAAGCGACUGACUGUUUAUAC
.(((...((((((((((((((....((((((((........))))).))).(((((((.....)).)))))........))))))).(((((....)))))....)))))))...))).. ( -40.50)
>DroYak_CAF1 2911 120 + 1
ACUUCAAAGCCAGUAUGGCAACACCCUGCGGCGCUGCCACUUGCUGACAGCCAGCUGUUGCUCACAAGCUGAUGAAACUUUGCCGCAUUUGCAAGUGCAGAAGCGACUGGCUGUUUAUAC
.......(((((((...((.......((((((((((.((.....)).))))(((((((.....)).)))))..........))))))(((((....))))).)).)))))))........ ( -41.30)
>consensus
AAUACAAAGCCAGUGUGGCAACUCCCUGCGGCGCUGCCACCUGCCGACAACCAGCUGUUGCUCACAAGCUGAUGAAACUUUGCCGCAUUUGCAAGUGCAGAAGCGACUGACUGUUUAUAC
.......(((((((((((((.(.((....)).).))))))...........(((((((.....)).)))))............(((.(((((....))))).))))))))))........ (-34.20 = -34.70 +   0.50)

alignment

secondary structure

dotplot

Window 8

Location	11,657,951 – 11,658,071
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	93.33
Mean single sequence MFE	-45.08
Consensus MFE	-42.15
Energy contribution	-41.65
Covariance contribution	-0.50
Combinations/Pair	1.14
Mean z-score	-2.26
Structure conservation index	0.94
SVM decision value	1.88
SVM RNA-class probability	0.981218
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11657951 120 - 20766785
GUAUAAACAGCCAGUCGCUUCUGCACUUGCAAAUGCGGCAAAGUUUCAUCAGCUUGUGAGCAACAGCUGGUUGUCGGCAGGUGGCAGCGCUGCAGGGAGUUGCCACACUGGCUAUGUAUU
(((((...(((((((.....((((....((....))((((.......(((((((.((.....))))))))))))).))))((((((((.((....)).))))))))))))))).))))). ( -44.71)
>DroSim_CAF1 2702 120 - 1
GUAUAAACAGUCAGUCGCUUCUGCACUUGCAAAUGCGGCAAAGUUUCAUCAGCUUGUGAGCAACAGCUGGUUUUUGGCAGGUGGCAGCGCCGCACGGAGUUGCCACACUGGCUAUGUAUU
.((((..((((..(((((...(((....)))...)))))...(((..(((((((.((.....)))))))))....)))..((((((((.((....)).))))))))))))..)))).... ( -44.20)
>DroEre_CAF1 2871 120 - 1
GUAUAAACAGUCAGUCGCUUCUGCACUUGCAAAUGCGGCAAAGUUUCAUCAGCUUGUGAGCAACAGCUGGCUGUCGGCAGGUGGCAGCGCCGCAGGGAGUUGCCACACUGACUUGGUAUU
......((((((.(((((...(((....)))...)))))...........((((.((.....)))))))))))).(((((((((((((.((....)).)))))))).))).))....... ( -44.10)
>DroYak_CAF1 2911 120 - 1
GUAUAAACAGCCAGUCGCUUCUGCACUUGCAAAUGCGGCAAAGUUUCAUCAGCUUGUGAGCAACAGCUGGCUGUCAGCAAGUGGCAGCGCCGCAGGGUGUUGCCAUACUGGCUUUGAAGU
......((((((.(((((...(((....)))...)))))...........((((.((.....)))))))))))).(((..(((((((((((....)))))))))))....)))....... ( -47.30)
>consensus
GUAUAAACAGCCAGUCGCUUCUGCACUUGCAAAUGCGGCAAAGUUUCAUCAGCUUGUGAGCAACAGCUGGCUGUCGGCAGGUGGCAGCGCCGCAGGGAGUUGCCACACUGGCUAUGUAUU
........((((((((((...(((....)))...)))))...(((..(((((((.((.....)))))))))....)))..((((((((.((....)).))))))))..)))))....... (-42.15 = -41.65 +  -0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:26 2006