Locus 3560

Sequence ID 3R_DroMel_CAF1
Location 9,639,761 – 9,639,864
Length 103
Max. P 0.549185
window5717

overview

Window 7

Location 9,639,761 – 9,639,864
Length 103
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 84.49
Mean single sequence MFE -49.40
Consensus MFE -35.75
Energy contribution -36.17
Covariance contribution 0.42
Combinations/Pair 1.07
Mean z-score -2.01
Structure conservation index 0.72
SVM decision value 0.03
SVM RNA-class probability 0.549185
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9639761 103 + 27905053
GAGCGCGCUGGUUGCGCGUUCGUGGCCGCGAGGAGACUUCCAGCUGCCGGCGGAGAAGAAAGCUGGGGAUCGGGGCUUCCCC-AAGCGAUCUUGGGGAGCCCUG
((((((((.....))))))))((..((....))..))((((((((..(.........)..))))))))..(((((((.((((-(((....)))))))))))))) ( -55.80)
>DroSec_CAF1 32457 103 + 1
GAGCGCGCUGGUUGCGCGUUCGUGGCCGCGAGGAGACUUCCAGCUGCCGGCGGAGGAGAAAGCUGGGGAUUGGGGCUUCCCC-AAGCGCUCUUGGGUAGCCCUG
((((((((.....))))))))((..((....))..))((((((((.((......))....))))))))...((((((..(((-(((....)))))).)))))). ( -53.60)
>DroSim_CAF1 34889 103 + 1
GAGCGCGCUGGUUGCGCGUUCGCGGCCGCGAGGAGACUUCCAGCUGCCGGCGGAGGAGAAAGCUGGGGAUUGGGGCUUUCCC-AAGCGCUCUUGGGUGGCCCUG
((((((((.....))))))))((....))(((....)))((((((.((......))....)))))).....((((((..(((-(((....)))))).)))))). ( -52.00)
>DroEre_CAF1 33405 97 + 1
GAGCGCGCUGGUUGCGCGUUCGUGGCCGCGAGGAGACUUCCAGCUGCCGGCGGAGGAGAAAGCUGGGGAUGGGGGCUUCCCC-GGGAG------CGGAGCCCUG
((((((((.....))))))))((..((....))..))((((((((.((......))....))))))))...((((((.((.(-....)------.)))))))). ( -49.20)
>DroYak_CAF1 33961 96 + 1
GAGCGCGCUGGUUGCGCGUUCGUGGCCGCGAGGAGACUUCCAGCUGCCGGCGGAGGAGAAAGCUGGCGAUUGGGGCUUCC-C-AUGAG------AGGAGCCCUG
((((((((.....))))))))..(((.(.(((....))).).)))((((((..........))))))....((((((((.-(-....)------.)))))))). ( -46.80)
>DroAna_CAF1 32101 84 + 1
GAGCGCGCUGGUUGCGCGUUCGCGGCCGCGAGGAGACUUCCAGCUGCCGGCGAAGAAGAAAGCUGGG------GGAUUCCCCUCACCGA--------------U
((((((((.....))))))))(((((.(.(((....))).).)))))(((.((...((....))(((------(....)))))).))).--------------. ( -39.00)
>consensus
GAGCGCGCUGGUUGCGCGUUCGUGGCCGCGAGGAGACUUCCAGCUGCCGGCGGAGGAGAAAGCUGGGGAUUGGGGCUUCCCC_AAGCG______GGGAGCCCUG
((((((((.....))))))))(((((.(.(((....))).).)))))((((..........))))......((((((....................)))))). (-35.75 = -36.17 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:11 2006