Locus 1321

Sequence ID 3L_DroMel_CAF1
Location 3,841,462 – 3,841,570
Length 108
Max. P 0.689244
window2064

overview

Window 4

Location 3,841,462 – 3,841,570
Length 108
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 84.99
Mean single sequence MFE -44.43
Consensus MFE -34.72
Energy contribution -33.87
Covariance contribution -0.86
Combinations/Pair 1.19
Mean z-score -2.12
Structure conservation index 0.78
SVM decision value 0.32
SVM RNA-class probability 0.689244
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3841462 108 + 23771897
----CUCUCUUC-----CAGACUGAGCUGCGUUCCUGCGCAGCGUGCGGGGAACCCAUCUCGGAUCGGUUCUUCCUGGAGGUCGGCGGCUGCUCCUGGCACGCCCACUGCCUCCGCU
----........-----........(((((((....)))))))..((((((((((.(((...))).))))))))..((((((.(((((((......))).))))....)))))))). ( -46.40)
>DroPse_CAF1 47840 113 + 1
----CUCUCUUCUUUUUCAGACUGAGCUGCGUUCCUGCGCAGCGUGUGGCGAACCAAUCUCGGAUCGAUUCUUUCUCGAGGUUGGCGGCUGCUCGUGGCACGCCCAUUGCCUGAGAU
----.((((...........((...(((((((....)))))))..))(((((.(((((((((((.........)).))))))))).((((((.....))).)))..))))).)))). ( -45.10)
>DroGri_CAF1 45206 104 + 1
------U--UUG-----CAGACUGAGCUGCGUUCCUGCGCAGCGUGCGGCGAACCAAUCUCGGAUCGAUUUUUUCUCGAGGUUGGCGGCUGCUCGUGGCACGCGCAUUGCCUCCGAU
------.--..(-----(((.....(((((((....)))))))(((((((...(((((((((((.........)).)))))))))..))(((.....)))))))).))))....... ( -41.60)
>DroWil_CAF1 65194 112 + 1
UUUUCUAUUUUG-----CAGACUGAGCUGCGUUCCUGCGCAGCGUGCGGCGAACCAAUCUCGGAUAGGUUUUUUCUAGAGGUUGGAGGCUGCUCGUGGCAUGCCCAUUGCCUGAGAU
.((((......(-----((......(((((((....))))))).)))(((((.(((((((((((.........))).)))))))).((((((.....))).)))..))))).)))). ( -41.90)
>DroAna_CAF1 40837 108 + 1
----UUUUGUUC-----CAGACUGAGCUGCGUUCUUGCGCAGCGUGUGGGGAGCCAAUCUCGGAUCGGUUUUUCCUCGAGGUGGGCGGCUGCUCCUGGCACGCCCACUGUCUCAGGU
----....((((-----(..((...(((((((....)))))))..))..)))))..((((.((((.((.....))....(((((((((((......))).)))))))))))).)))) ( -46.50)
>DroPer_CAF1 46015 113 + 1
----CUCUCUUCUUUUUCAGACUGAGCUGCGUUCCUGCGCAGCGUGUGGCGAACCAAUCUCGGAUCGAUUCUUUCUCGAGGUUGGCGGCUGCUCGUGGCACGCCCAUUGCCUGAGAU
----.((((...........((...(((((((....)))))))..))(((((.(((((((((((.........)).))))))))).((((((.....))).)))..))))).)))). ( -45.10)
>consensus
____CUCUCUUC_____CAGACUGAGCUGCGUUCCUGCGCAGCGUGCGGCGAACCAAUCUCGGAUCGAUUCUUUCUCGAGGUUGGCGGCUGCUCGUGGCACGCCCAUUGCCUCAGAU
.................(((.....(((((((....)))))))((((.((((.((((((((((...((.....)))))))))))).(....))))).)))).....)))........ (-34.72 = -33.87 +  -0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:44 2006