Locus 1267

Sequence ID 3R_DroMel_CAF1
Location 3,781,744 – 3,781,848
Length 104
Max. P 0.998951
window2067

overview

Window 7

Location 3,781,744 – 3,781,848
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.87
Mean single sequence MFE -29.80
Consensus MFE -26.90
Energy contribution -26.46
Covariance contribution -0.44
Combinations/Pair 1.11
Mean z-score -2.36
Structure conservation index 0.90
SVM decision value 3.30
SVM RNA-class probability 0.998951
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3781744 104 - 27905053
UUUCGCGGAC--UCAUACAUUCUGGCCGAUUUUGUUUUCGAUUUCGUUUCAAAUGGCUCGUUUGCCGGCUUCCAGCUGG-----AGAGCGUAGUUUGCAUUUUAUUA---------UUUC
....((((((--((...((((.(((.(((..(((....)))..)))..)))))))((((.....(((((.....)))))-----.))))).))))))).........---------.... ( -29.40)
>DroSec_CAF1 11224 111 - 1
UUUCGCGGACAUACAUACAUUCUGGCCGAUUUUGUUUUCGAUUUCGUUUCAAAUGGCUCGUUUGCCGGCUUCCAGCUGGAGUGGAGAGCGUAGUUUGCAUUUUAUUA---------UUUC
....((((((.(((...((((.(((.(((..(((....)))..)))..)))))))((((.....(((((.....)))))......))))))))))))).........---------.... ( -31.40)
>DroSim_CAF1 14893 111 - 1
UUUCGCGAACAUACAUACAUUCUGGCCGAUUUUGUUUUCGAUUUCGUUUCAAAUGGCUCGUUUGCCGGCUUCCAGCUGGAGUGGAGAGCGUAGUUUGCAUUUUAUUA---------UUUC
....((((((.(((...((((.(((.(((..(((....)))..)))..)))))))((((.....(((((.....)))))......))))))))))))).........---------.... ( -31.80)
>DroEre_CAF1 1561 104 - 1
UUUUGCGGGC--UCAUACAUUCUGGCCGAUUUUGUUUUCGAUUUCGUUUCAAAUGGCUCGUUUGCCGGCUUCCAGCUGG-----AGAGCGUAGUUUGCAUUUUAUUA---------UUUC
...(((((((--((...((((.(((.(((..(((....)))..)))..)))))))((((.....(((((.....)))))-----.))))).))))))))........---------.... ( -29.30)
>DroYak_CAF1 14831 113 - 1
UUUUGCGAGC--UCAUACAUUCUGGUCGAUUUUGUUUUCGAUUUCGUUUCAAAUGGAUCGUUUGCCGGUUUCCAGCUGG-----AGAGCGUAGUUUGCAUUUUAUUAUUUUUGUUAUUUC
...(((((((--(....((((.(((.(((..(((....)))..)))..)))))))...((((..(((((.....)))))-----..)))).))))))))..................... ( -27.10)
>consensus
UUUCGCGGAC__UCAUACAUUCUGGCCGAUUUUGUUUUCGAUUUCGUUUCAAAUGGCUCGUUUGCCGGCUUCCAGCUGG_____AGAGCGUAGUUUGCAUUUUAUUA_________UUUC
....((((((.......((((.(((.(((..(((....)))..)))..)))))))((((.....(((((.....)))))......))))...))))))...................... (-26.90 = -26.46 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:08 2006