Locus 6019

Sequence ID 2R_DroMel_CAF1
Location 18,920,276 – 18,920,370
Length 94
Max. P 0.964562
window9652

overview

Window 2

Location 18,920,276 – 18,920,370
Length 94
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 72.84
Mean single sequence MFE -41.08
Consensus MFE -24.71
Energy contribution -25.47
Covariance contribution 0.76
Combinations/Pair 1.36
Mean z-score -1.90
Structure conservation index 0.60
SVM decision value 1.57
SVM RNA-class probability 0.964562
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18920276 94 - 20766785
CUGCAGCAAUCCUUGGGCGCCCUGGGCGGUGGCG------GUCAGCAGCCAGCAGCUGCAGCUGCAGUUGCAGGUGCU-CAGGCCAAUGCGCACAACCACU
.(((.(((...((((((((((...(((....((.------....)).))).((((((((....)))))))).))))))-))))....))))))........ ( -43.30)
>DroSec_CAF1 19475 100 - 1
CUGCAGCAAUCCUUGGGCGCCCUGGGCGGAGGAGCAGUUCCUCAGCAGCCAGCAGCUGCAGCUGCUGUUGCAGGUGCC-CAGGCCAACGCCCACAACCACU
.............((((((.((((((((((((((...)))))).(((((.((((((....)))))))))))...))))-))))....))))))........ ( -50.50)
>DroSim_CAF1 22550 100 - 1
CUGCAGCAAUCCUUGGGCGCCCUGGGCGGAGGAGCAGUUCCUCAGCAGCCAGCAGCUGCAGCUGCAGUUGCAGGUGCA-CAGGCCAAUGCCCACAACCACU
.............((((((.(((((((.((((((...))))))....))).(((.(((((((....))))))).))).-))))....))))))........ ( -43.60)
>DroEre_CAF1 20832 100 - 1
CUGCAGCAAUCCCUGGGCGCCCUGACCGGAGGAGUAGUUCCUCAGCCCGCACCAGCUGCAGUUGCAGCUGCAGGUGGC-CAGGUCAACGCCCAGCAUGGGU
........(((((((((((...(((((.((((((...)))))).(.((((..(((((((....)))))))...)))).-).))))).)))))))...)))) ( -48.50)
>DroYak_CAF1 20704 100 - 1
CUGCAGCAAUCCUUGGGCGCACUGACCGGAGGAGCAGCUCAUCAGCAGCCAGCGGCUGCCGUUGCAGUGGCAGGUGCC-CAGGCCAACGACCAUAUUCACU
...........(((((((((.(((.(((.....(((((......((((((...)))))).)))))..)))))))))))-)))).................. ( -35.50)
>DroAna_CAF1 20581 87 - 1
UUGCAGCAAUCACUUGGCGCCCUUACAGGUGGAGC---UCCCCAACAACCCCAA---ACCGUGUCUUCGGCGGGUUACAAAGGCUAGCCUGCA--------
.(((((...(((((((.........))))))).((---(..((...(((((...---.(((......))).))))).....))..))))))))-------- ( -25.10)
>consensus
CUGCAGCAAUCCUUGGGCGCCCUGACCGGAGGAGCAGUUCCUCAGCAGCCAGCAGCUGCAGCUGCAGUUGCAGGUGCC_CAGGCCAACGCCCACAACCACU
.............((((((.((((....(((((.....)))))........(((.(((((((....))))))).)))..))))....))))))........ (-24.71 = -25.47 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:33 2006