Locus 2778

Sequence ID 2R_DroMel_CAF1
Location 9,717,675 – 9,717,792
Length 117
Max. P 0.569823
window4597

overview

Window 7

Location 9,717,675 – 9,717,792
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 77.08
Mean single sequence MFE -37.00
Consensus MFE -25.64
Energy contribution -26.42
Covariance contribution 0.78
Combinations/Pair 1.26
Mean z-score -1.04
Structure conservation index 0.69
SVM decision value 0.07
SVM RNA-class probability 0.569823
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9717675 117 - 20766785
AACCAGAAUCACGGACAAUCAACUCCGGGUGGCCUGUACGAGCAACCGCUGAAGCCCACGUACUCGCCCAGUUCCGUGGACUGCUACAGCAAUGCGGACAGCACGGAACAGAUCGAG
.....((.((..(((........)))((((((...((((((((....)))(.....).))))))))))).((((((((..((((..((....))..).))))))))))).))))... ( -37.30)
>DroVir_CAF1 33504 102 - 1
CCCCAUAAU---------------GUGGGCGGCCUGUACGAGCAGCCGCUAAAGCCCAGUUACUCGCCCAGCUCCGUGGACUGCUACAGCAAUGCGGACAGCACGGAGCAAAUUGAA
.........---------------.((((((((.(((....))))))((....))..........)))))((((((((..((((..((....))..).)))))))))))........ ( -38.60)
>DroEre_CAF1 28326 117 - 1
AGCCAGAAUCACGGCCAGUCAACUCCGGGCGGCCUCUACGAGCAGCCGCUGAAGCCCACGUAUUCGCCCAGUUCCGUGGACUGCUACAGCAAUGCGGAUAGCACGGAACAGAUUGAG
.(((........)))(((((......((((((((((...)))..)))((....))..........)))).((((((((..((((..((....))..).))))))))))).))))).. ( -40.60)
>DroMoj_CAF1 35250 102 - 1
CCCCAAAAU---------------GUGGGCGGGCUGUACGAGCAGCCAUUGAAGCCGAGCUACUCGCCCAGCUCCGUGGACUGCUACAGCAAUGCGGAUAGCACGGAGCAAAUCGAG
.........---------------.((((((((((((....)))))).....(((...)))...))))))((((((((..((((..((....))..).)))))))))))........ ( -41.60)
>DroAna_CAF1 32825 117 - 1
AACCAGAAUCCGAAUCAGGUCUCAGCGGGCGGCCUGUAUGAGCAGCCCCUGAAACCCACAUAUUCGCCCAGCUCCGUGGACUGCUACAGCAAUGCGGACAGUUCCGAGCAGAUCGAG
..........(((.((.(((.((((.((((.(((.....).)).)))))))).)))..............((((.(.(((((((..((....))..).))))))))))).))))).. ( -40.40)
>DroPer_CAF1 27571 111 - 1
CCCCAGAAUCCCAACCAGA--A--CCAG--AAUCAGUACGAGCAGCCGCUGAAGCCCACGUAUUCUCCGAGCUCCGUGGACUGCUACAGCAAUGCGGACAGCACUGAGCAGAUCGAG
...................--.--....--..(((((.(..(((...((((.((((((((..(((...)))...)))))...))).))))..))).....).))))).......... ( -23.50)
>consensus
ACCCAGAAUC_C___CAG___A__CCGGGCGGCCUGUACGAGCAGCCGCUGAAGCCCACGUACUCGCCCAGCUCCGUGGACUGCUACAGCAAUGCGGACAGCACGGAGCAGAUCGAG
..........................((((((...(((((.((..........))...))))))))))).((((((((..((((..((....))..).)))))))))))........ (-25.64 = -26.42 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:13 2006