Locus 3245

Sequence ID 2L_DroMel_CAF1
Location 9,340,423 – 9,340,517
Length 94
Max. P 0.658464
window5154

overview

Window 4

Location 9,340,423 – 9,340,517
Length 94
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 78.13
Mean single sequence MFE -26.77
Consensus MFE -17.52
Energy contribution -18.35
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -1.35
Structure conservation index 0.65
SVM decision value 0.26
SVM RNA-class probability 0.658464
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9340423 94 - 22407834
AUCCUU-UGA--UUCGAAG-------GCUAUAGACUUACAGUAGCCAAUCGACGGCUAUGAUGAGGGACACAUCCUUCGGCUCCAAGCCCACUGUGUCCAGCAC
...(((-((.--..)))))-------(((.....((((..((((((.......))))))..))))(((((((......(((.....)))...)))))))))).. ( -30.70)
>DroPse_CAF1 10374 94 - 1
---C-----A--CAGGAAGGACAUGGACCUAGGACUUACAGUAGCCAAUCGACAGCUAUGAUGAGGGACACAUCCUUCGGCUCCAGGCCCACAGUGUCCAGCAC
---.-----.--......((((((((.(((.(((((....(((((.........)))))...((((((....)))))))).)))))).)))...)))))..... ( -28.20)
>DroGri_CAF1 13034 102 - 1
CAUCUAGCAACAGUCAAAG--UGUUGAAUUAGUACUUACAGCAGCCAAUCGACAGCGAUGAUCAGUGAGACAUCCUUGGGCUCCAGGCCAACCGUGUCCAGUAC
.......(((((.......--))))).....(((((....((.....((((....)))).....))(.(((((..((((.(....).))))..))))))))))) ( -20.00)
>DroSec_CAF1 9204 94 - 1
AUCCUU-UGA--UUCAAAA-------UCUUCCGACUUACAGUAGCCAAUCGACGGCUAUGAUGAGGGACACAUCCUUCGGCUCCAAGCCCACUGUGUCCAGCAC
......-...--.......-------........((((..((((((.......))))))..))))(((((((......(((.....)))...)))))))..... ( -26.00)
>DroYak_CAF1 9619 95 - 1
AUCCUUUCAA--UUCGAAG-------GCUUCCGACUUACAGUAGCCAAUCGACGGCUAUGAUGAGGGACACAUCCUUCGGCUCCAAGCCCACCGUGUCCAGCAC
...((((...--...))))-------(((.....((((..((((((.......))))))..))))((((((.......(((.....)))....))))))))).. ( -27.50)
>DroPer_CAF1 10179 94 - 1
---C-----A--CAGGAAGGACAUGGACCUAGGACUUACAGUAGCCAAUCGACAGCUAUGAUGAGGGACACAUCCUUCGGCUCCAGGCCCACAGUGUCCAGCAC
---.-----.--......((((((((.(((.(((((....(((((.........)))))...((((((....)))))))).)))))).)))...)))))..... ( -28.20)
>consensus
AUCCUU___A__UUCGAAG_______ACUUAGGACUUACAGUAGCCAAUCGACAGCUAUGAUGAGGGACACAUCCUUCGGCUCCAAGCCCACAGUGUCCAGCAC
..................................((((..(((((.........)))))..))))((((((.......(((.....)))....))))))..... (-17.52 = -18.35 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:52 2006