Locus 481

Sequence ID 3R_DroMel_CAF1
Location 1,798,898 – 1,799,012
Length 114
Max. P 0.653557
window778

overview

Window 8

Location 1,798,898 – 1,799,012
Length 114
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 81.00
Mean single sequence MFE -41.42
Consensus MFE -29.37
Energy contribution -29.65
Covariance contribution 0.28
Combinations/Pair 1.17
Mean z-score -1.45
Structure conservation index 0.71
SVM decision value 0.25
SVM RNA-class probability 0.653557
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1798898 114 + 27905053
CAGCAGUGCGGCCGGGCACUUCAUUAACCCACGUUCUCGUCACGCUGCGCCGCAGCCGGCGGCAGGAUCAGCGCUCCGCUGAGCAGCGACAAGGCGAUUAAAA---GGACAGACGCA
..(((((((......)))))............(((((((((.(((((((((((.....)))))....((((((...))))))))))))....)))))......---))))....)). ( -44.50)
>DroVir_CAF1 127857 107 + 1
CAGCCGA---GUCGAGCACUUUAUUAACUCACGUUCUCGUCACGCUGCACCAACGCCGGCGACA---UCAGCGCAUCGCUGAGCAGCGACAAGACGAUUAACA---GGCAGGCUGC-
(((((((---((..(........)..))))..(((.(((((.((((((.....((....))...---((((((...))))))))))))....)))))..))).---....))))).- ( -39.60)
>DroPse_CAF1 98080 109 + 1
-AUCA---CAGCC-AGCACUUCAUUAACCCACGUUCUCGUCACGCUGCGCCGCAGCCGGUGGCAGCAUCAGCGGCUCGCUGAGCAGCGACAAGGCGAUUAAGA---GGACGGCUGCA
-....---(((((-....((((.((((((((((....)))..(((((((((((.....)))))....((((((...))))))))))))....)).).))))))---))..))))).. ( -42.20)
>DroWil_CAF1 109008 112 + 1
-----ACACCGCCGGGCACUUCAUUAACCCACGUUCUCGUCACGUUGAGCCGCAACUGGCGGCAUCAUGGGCGCCUCGCUGAGCAGCGACAAGGCGAUUAAGACAAGGCAGGCUGCA
-----.....(((..((.(((..(((((((((((.......))))((((((((.....))))).))).)))(((((((((....)))))...)))).))))...))))).))).... ( -39.40)
>DroYak_CAF1 108601 104 + 1
----------GCCGGGCACUUCAUUAACCCACGUUCUCGUCACGCUGCGCCGCAGCCGGCGGCAGGAUCAGCGCUCCGCUGAGCAGCGACAAGGCGAUUAAAA---GGACAGACGCA
----------((.(((...........)))..(((((((((.(((((((((((.....)))))....((((((...))))))))))))....)))))......---))))....)). ( -40.60)
>DroPer_CAF1 100691 109 + 1
-AUCA---CAGCC-AGCACUUCAUUAACCCACGUUCUCGUCACGCUGCGCCGCAGCCGGUGGCAGCAUCAGCGGCUCGCUGAGCAGCGACAAGGCGAUUAAGA---GGACGGCUGCA
-....---(((((-....((((.((((((((((....)))..(((((((((((.....)))))....((((((...))))))))))))....)).).))))))---))..))))).. ( -42.20)
>consensus
_A_CA___C_GCCGAGCACUUCAUUAACCCACGUUCUCGUCACGCUGCGCCGCAGCCGGCGGCAGCAUCAGCGCCUCGCUGAGCAGCGACAAGGCGAUUAAGA___GGACGGCUGCA
..........(((.................(((....)))..(((((((((((.....)))))....((((((...))))))))))))....)))...................... (-29.37 = -29.65 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:15 2006