Locus 3678

Sequence ID 3R_DroMel_CAF1
Location 9,974,411 – 9,974,526
Length 115
Max. P 0.705624
window5901

overview

Window 1

Location 9,974,411 – 9,974,526
Length 115
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 73.40
Mean single sequence MFE -38.76
Consensus MFE -20.10
Energy contribution -17.58
Covariance contribution -2.52
Combinations/Pair 1.53
Mean z-score -1.68
Structure conservation index 0.52
SVM decision value 0.36
SVM RNA-class probability 0.705624
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9974411 115 + 27905053
UUCCUUUCAUUGUCCUUUAGGCCAUCGUCUCCGACAAAGCCACCUUUGGGUGGUCUAGGUCUUUUGUCCUUGCCCUCCUGCGGAUUCCAGGGACGGACCAGAGUACCCUUCUUCU
.........(((((....((((....))))..)))))..........(((((.(((.(((((...(((((((...(((...)))...))))))))))))))).)))))....... ( -36.40)
>DroPse_CAF1 60190 112 + 1
UUGCGCUGGGCGUCGGUUAGGCCAUCGGGUCCGACGACAGGACC---GGUUUGCUUGCCUUUCGGAGCCUUGCCGUCUGCCGGGUUCCAGGGCUUGCUGAGAGCUCCCGACUUUU
..((.....))(((((...(((..((((((((.......)))))---.....((..(((((..(((((((.((.....)).))))))))))))..)))))..))).))))).... ( -45.90)
>DroSec_CAF1 56918 115 + 1
UUCCUUUCGCUCUCCUUUAGACCAUCGUCUCCGACAAAGCCACCUUUGGGUGGUCUAGGUCUUUUGUCCUUGCCCUCCUGCGGAUUCCAGGGACGGACCAGUGUACCCUUCUUCU
.......((((.(((...(((((...(((...)))...((((((....))))))...)))))...(((((((...(((...)))...))))))))))..))))............ ( -34.50)
>DroEre_CAF1 61138 115 + 1
UUCCUUUCAUGGUCUUUUAGACCAUCGGCGCCGACAAAUCCACCUUUGGGUCGUUUAGGUCUCUUGUCCUUGCCCUCCUGCGGAUUCCAGGGGCGGACGAGAGUGCCCUUCUUCU
........((((((.....)))))).(((((.(((....(.(((....))).).....)))((((((((..((((..(((.(....)))))))))))))))))))))........ ( -40.00)
>DroYak_CAF1 59630 115 + 1
UUCCUUUCACUGUCUUUCAGGCCAUCGGCUCCGACAAAUCCUCCCUUGGGUCUCUUAGGUCUCUUGUCUUUGCCCUCCUGCGGAUUCCAGGGACGGACGAGAGUGCCCUUCUUCU
...(((((..((((.....((((...))))..))))..((((((((.((((((..((((.................)))).)))))).))))).))).)))))............ ( -29.83)
>DroPer_CAF1 60733 112 + 1
UUGCGCUGGGCGUCGGUUAGGCCAUCGGGUCCGACGACAGGACC---GGUUUGCUUGCCUUUCGGAGCCUUGCCGUCUGCCGGGUUCCAGGGCUUGCUGAGAGCUCCCGACUUUU
..((.....))(((((...(((..((((((((.......)))))---.....((..(((((..(((((((.((.....)).))))))))))))..)))))..))).))))).... ( -45.90)
>consensus
UUCCUUUCACUGUCCUUUAGGCCAUCGGCUCCGACAAAACCACCUUUGGGUCGCUUAGGUCUCUUGUCCUUGCCCUCCUGCGGAUUCCAGGGACGGACGAGAGUACCCUUCUUCU
..............(((.((((..(((....)))......((((....)))))))))))(((((((((((((...(((...)))...)))))))))..))))............. (-20.10 = -17.58 +  -2.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:09 2006