Locus 1622

Sequence ID 3R_DroMel_CAF1
Location 4,712,562 – 4,712,662
Length 100
Max. P 0.742228
window2671

overview

Window 1

Location 4,712,562 – 4,712,662
Length 100
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 80.19
Mean single sequence MFE -23.46
Consensus MFE -18.88
Energy contribution -19.04
Covariance contribution 0.16
Combinations/Pair 1.18
Mean z-score -1.57
Structure conservation index 0.80
SVM decision value 0.45
SVM RNA-class probability 0.742228
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4712562 100 - 27905053
UCUUUGUU---UUUGGUAGUUUUCA-UUUGU------UAA--AGAGUUUCGCUUAGUGUACAAUCUGCAACCCUUGGAUGCUUUUGGCAAACAAUUUUGCGCACUCGGCGAC
((((((..---..(((......)))-.....------)))--)))...(((((.(((((.(((...(((.((...)).)))..)))(((((....)))))))))).))))). ( -26.40)
>DroSec_CAF1 57795 99 - 1
UGU----UUUAUUUUAUAGUUUUCA-UUUGU------UAU--AGAGUUUCGCUCAGUGUACAAUCUGCAACCCUCGGAUGCUUUUGGCAGCCCAUUUUGCGCACUCAGCGAC
...----...(((((((((......-....)------)))--))))).(((((.(((((.(((...(((.((...)).)))..)))((((......))))))))).))))). ( -23.30)
>DroSim_CAF1 61074 103 - 1
UCUUUUUUUUAUUUUAUAGUUUUCC-UUUGU------UAU--AGUAUUUCGCUCAGUGUACAAUCUGCAACCCUUGGAUGCUUUUGGCAACCCAUUUUGCGCACUCAGCGAC
.........................-.....------...--......(((((.(((((.(((...(((.((...)).)))..)))((((......))))))))).))))). ( -21.70)
>DroEre_CAF1 61402 106 - 1
GAU----UUCAUUUUAAUGUGUUUACUUUGUAAAUGCCAU--UGAAUUUCGUGCAGUGUACCAUCUGCAACCCUUGGAUGCUUUUGGCAACCCAUUUUGCGCACUCAGCGAC
...----.....((((((((((((((...))))))).)))--))))..((((..(((((..((...(((.((...)).)))...))((((......)))))))))..)))). ( -23.90)
>DroYak_CAF1 60349 108 - 1
GAU----UUUAUUUGGAAGUGUUCAGUUUGUAAAUAUUAUACAGAAUUUCGUGCAGUGCACAAUCUGCAACCCUUGGAUGCUUUUGCCAACCCAUUUUGCGCACUCAGCGAC
...----.....((((((((((((((((((((.......))))))......(((((........)))))....))))))))))...)))).........(((.....))).. ( -22.00)
>consensus
UAU____UUUAUUUUAUAGUUUUCA_UUUGU______UAU__AGAAUUUCGCUCAGUGUACAAUCUGCAACCCUUGGAUGCUUUUGGCAACCCAUUUUGCGCACUCAGCGAC
................................................(((((.(((((.(((...(((.((...)).)))..)))((((......))))))))).))))). (-18.88 = -19.04 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:04 2006