Locus 1205

Sequence ID 3L_DroMel_CAF1
Location 3,432,642 – 3,432,736
Length 94
Max. P 0.767606
window1896

overview

Window 6

Location 3,432,642 – 3,432,736
Length 94
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 82.36
Mean single sequence MFE -26.62
Consensus MFE -18.83
Energy contribution -18.67
Covariance contribution -0.16
Combinations/Pair 1.29
Mean z-score -2.10
Structure conservation index 0.71
SVM decision value 0.52
SVM RNA-class probability 0.767606
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3432642 94 + 23771897
AGAGAGCAGUCGUC-GAUUCGAUUGCAUGUAAAGCGGAAAA---------C-----GGGUGCAAACGGAAGUGAUAGCCGAAUGCCCCCAUUU--GUGCACUCAAAAAA-CC---
.(((.(((((((..-....))))))).......(((.(((.---------.-----(((.(((..(((.........)))..))))))..)))--.))).)))......-..--- ( -29.90)
>DroSec_CAF1 47983 94 + 1
AGAGAGCAGUCGUC-GAUUCGAUUGCAUGUAAAGCGGAAAA---------C-----GGGUGCAAACGGAAGUGAUAGCCGAAUGCCCCCAUUU--GUGCACUCAAAAAA-CC---
.(((.(((((((..-....))))))).......(((.(((.---------.-----(((.(((..(((.........)))..))))))..)))--.))).)))......-..--- ( -29.90)
>DroSim_CAF1 37141 94 + 1
AGAGAGCAGUCGUC-GAUUCGAUUGCAUGUAAAGCGGAAAA---------C-----GGGUGCAAACGGAAGUGAUAGCCGAAUGCCCCCAUUU--GUGCACUCAAAAAA-CC---
.(((.(((((((..-....))))))).......(((.(((.---------.-----(((.(((..(((.........)))..))))))..)))--.))).)))......-..--- ( -29.90)
>DroEre_CAF1 49913 95 + 1
AAAUAGCAGUCGUCGGAUUCGAUUGCAUGUAAAACGAAAAA---------C-----GGGUGCAAACGGUAGUAAUAGCCAAAUGCCCCCAUUU--GUGCACUCAAAAAA-CC---
.....(((((((.......)))))))...............---------.-----(((((((...(.((....)).)((((((....)))))--))))))))......-..--- ( -24.60)
>DroYak_CAF1 47208 91 + 1
UGAGAGCAGUC----GAUUCGAUUGCAUGUAAAACGGAAAA---------C-----GGGUGCAAACGGAAGUGAUAGCCAAAUGCCCCCAAUU--GUGCACUCAAAAAA-CC---
((((.((((((----(...))))))).((((...((.....---------)-----)(((....((....))....)))..............--.)))))))).....-..--- ( -23.00)
>DroAna_CAF1 78094 113 + 1
CGAGGGGAAAU-GC-GAUUCGAUUGCAUGUAAAGCGGAAAAAUGAACAAACGGAAAAGGGGCGAACGGAAGUGAUAGCAAAGUGCCUCCACUUUGAUGCACUUCAAAAAAAAAUU
((.......((-((-(((...)))))))......))...............................((((((....(((((((....)))))))...))))))........... ( -22.42)
>consensus
AGAGAGCAGUCGUC_GAUUCGAUUGCAUGUAAAGCGGAAAA_________C_____GGGUGCAAACGGAAGUGAUAGCCAAAUGCCCCCAUUU__GUGCACUCAAAAAA_CC___
.....(((((((.......)))))))..............................(((((((.((....)).......(((((....)))))...)))))))............ (-18.83 = -18.67 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:07 2006