Locus 6809

Sequence ID	3L_DroMel_CAF1
Location	18,293,636 – 18,293,755
Length	119
Max. P	0.708247

overview

Window 4

Location	18,293,636 – 18,293,755
Length	119
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	78.95
Mean single sequence MFE	-33.40
Consensus MFE	-20.41
Energy contribution	-19.33
Covariance contribution	-1.08
Combinations/Pair	1.21
Mean z-score	-1.67
Structure conservation index	0.61
SVM decision value	0.37
SVM RNA-class probability	0.708247
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18293636 119 - 23771897
UUUUCCAGGUGCUUGAGAAUGUGCGGUGCACAACGCGUGAUAAUGUUAAAUCAACAUUAUUUAGGCACCCAUGCAUGCGUAAUGCGUCUCGAAAUUGCAUCCAAGUCGAUGGAAAAG-UG
(((((((((((((((((((((((((........))).((((........))))))))).)))))))))).((((((.....)))))).((((..(((....))).))))))))))).-.. ( -36.40)
>DroPse_CAF1 92978 97 - 1
--CUCCCGGCGGUCCUG-----CCAGUGCACGACGCGUGAUAAUGUUAAAUCAACAUUAUUUAGGCAGCCAUGCAUGCGUAAUGCGUCUCGAAAUUGCACCCUG----------------
--.....((((....))-----)).(((((.((((((((((((((((.....)))))))))((.(((((...)).))).))))))))).......)))))....---------------- ( -29.20)
>DroEre_CAF1 74429 120 - 1
UUUUCCAGGUGCUCGAGAACGUGCGGUGCACAACGCGUGAUAAUGUUAAAUCAACAUUAUUUAGGCACCCAUGCAUGCGUAAUGCGUCUCGAAAUUGCAACCAAGUCGAUGGACAAGGUG
....((.(((((((((((..(((.(((((((.....))(((((((((.....)))))))))...))))))))((((.....)))).))))))....)).)))..(((....)))..)).. ( -36.10)
>DroYak_CAF1 83674 120 - 1
UUCUCCAGGUGCUUGAGAAUGUGCGGUGCACAACGCGUGAUAAUGUUAAAUCAACAUUAUUUAGGCACCCAUGCAUGCGUAAUGCGUCUCGAAAUUGCAACCAAGUCGAUGGACAAAAUG
...((((((((((((((((((((((........))).((((........))))))))).)))))))))).((((((.....)))))).((((..(((....))).))))))))....... ( -33.50)
>DroAna_CAF1 75682 119 - 1
UGUUUCCAGUGUAAGAGCAUAUGAGGUGCACGGCGCGUGAUAAUGUUAAAUCAACAUUAUUUAGGCAGCCAUGCAUGCGUAAUGUGUCUCGAAAUUGCAACCAAGUUGGUGCAUUAA-UG
.(((((..((((....))))..((((..((..(((((((((((((((.....)))))))))...(((....)))))))))..))..)))))))))((((.((.....))))))....-.. ( -36.00)
>DroPer_CAF1 94076 97 - 1
--CUCCCGGCGGUCCUG-----CCAGUGCACGACGCGUGAUAAUGUUAAAUCAACAUUAUUUAGGCAGCCAUGCAUGCGUAAUGCGUCUCGAAAUUGCACCCUG----------------
--.....((((....))-----)).(((((.((((((((((((((((.....)))))))))((.(((((...)).))).))))))))).......)))))....---------------- ( -29.20)
>consensus
UUCUCCAGGUGCUCGAGAAUGUGCGGUGCACAACGCGUGAUAAUGUUAAAUCAACAUUAUUUAGGCACCCAUGCAUGCGUAAUGCGUCUCGAAAUUGCAACCAAGUCGAUGGA_AA__UG
........((((..........))((((((..(((((((((((((((.....)))))))))...(((....)))))))))..)))).)).......))...................... (-20.41 = -19.33 +  -1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:23 2006