Locus 5064

Sequence ID 3L_DroMel_CAF1
Location 13,878,388 – 13,878,500
Length 112
Max. P 0.800785
window8026

overview

Window 6

Location 13,878,388 – 13,878,500
Length 112
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 75.26
Mean single sequence MFE -25.65
Consensus MFE -11.53
Energy contribution -12.45
Covariance contribution 0.92
Combinations/Pair 1.28
Mean z-score -2.08
Structure conservation index 0.45
SVM decision value 0.62
SVM RNA-class probability 0.800785
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13878388 112 + 23771897
AAAUGAUUUAA---AGCCAUUUAUUCGGCAGUAAAUCAAGUUUUAAUGGC--CAUUGAUUUAUUGCCUGCAAGCUGAGAAUUUGACUCAAUACUACCAAUUAU-UAUGGUGCAUCAGC
...((((....---.(((((......((((((((((((((((.....)))--..))))))))))))).......((((.......))))..............-.)))))..)))).. ( -25.40)
>DroPse_CAF1 42856 104 + 1
GUAUGAUUUAUUCGAGUGC--UUUUUGGUGGUAAAUCAUCUUGGAAGAGGCUCUUUGAUUUAUUU-AUGCAAACA-----CUC-AGCCUGCACUUAUCGAUAGAUUUCAUGCA-----
((((((((((((.((((((--...((((((((((((((....(((......))).))))))))..-.......))-----).)-))...))))))...))))))..)))))).----- ( -25.20)
>DroSec_CAF1 39612 112 + 1
AAAUGAUUUAA---AGCCAUUUAUUUGGUAGUAAAUCAAAUUAUAAUGGA--CAUUGAUUUAUUGCCUGCAAGCUGAGAAUUUGACUCAAUACUACCAAUUAU-UUUGGUACAUCAGC
(((((......---...)))))....(((((((((((((...........--..))))))))))))).....(((((((.......)).....((((((....-.))))))..))))) ( -23.92)
>DroSim_CAF1 30961 112 + 1
AAAUGAUUUAA---AGCCAUUUAUUUGGUAGUAAAUCAAAUUAUAAUGGG--CAUUGAUUUAUUGCCUGCAAGCUGAGAAUUUGACUCAAUACUACCAAUUAU-UUUGGUCCAUCAGC
...((((....---.((((..((.(((((((((..............(((--((.........)))))......((((.......)))).))))))))).)).-..))))..)))).. ( -26.40)
>DroEre_CAF1 47078 112 + 1
AAAUGAUUUAA---AGCCAUUUAUUCGGUAGUAAAUCAAGUUAUAAUGGA--CAUGGAUUCACUGCCUGCAAGCUGAAAAUCCGAUUCAAUACUUCCAGAUAU-UUAUCUGCAUCGGC
...........---.(((........((((((.((((..(((......))--)...)))).))))))((((.(.((((.(((.((.........))..))).)-))).)))))..))) ( -22.00)
>DroYak_CAF1 42102 112 + 1
AAAUGAUUUAA---GGCCAUUUAUUCGGUAGUAAAUCAAGUUAUAAUGGA--CAUUGAUUUAUUGCCUGCAUGCUGAAUAUUUGACCCAAUACUCUUAGAUAU-UAUCGUGCAUCGGU
...........---.(((........((((((((((((((((......))--).)))))))))))))((((((...(((((((((..........))))))))-)..))))))..))) ( -31.00)
>consensus
AAAUGAUUUAA___AGCCAUUUAUUCGGUAGUAAAUCAAGUUAUAAUGGA__CAUUGAUUUAUUGCCUGCAAGCUGAGAAUUUGACUCAAUACUACCAAAUAU_UUUGGUGCAUCAGC
..........................(((((((((((((...............))))))))))))).....(((((....................................))))) (-11.53 = -12.45 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:06 2006