Locus 2662

Sequence ID 3R_DroMel_CAF1
Location 7,146,673 – 7,146,790
Length 117
Max. P 0.531112
window4322

overview

Window 2

Location 7,146,673 – 7,146,790
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.95
Mean single sequence MFE -17.25
Consensus MFE -10.54
Energy contribution -10.90
Covariance contribution 0.36
Combinations/Pair 1.22
Mean z-score -1.62
Structure conservation index 0.61
SVM decision value -0.00
SVM RNA-class probability 0.531112
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7146673 117 + 27905053
UUCAUUGUGUAAAUUAUUGCCGAAAAAAAUAAAAAGCCAAAAACGAGG---AGGGAAAAAAUCGCGUACGCCCGAAAGUAUGCAACAUAAUUAAAAAUCAAUGGCAUACAAACAGAUAAA
....((((((...(((((.........)))))...((((.........---...((.....))((((((........))))))..................))))))))))......... ( -17.70)
>DroVir_CAF1 107697 99 + 1
CUCAUUGUGUAAAUUAUUGCCGAAAAA-AGAAAUGGC-AAA-------------A------AUGCAGGCGCCCCAAAGUAUGCAACAUCAUUAAAAAUCAAUGGCACACAAACUGAUAAA
.(((((((((......((((((.....-.....))))-)).-------------.------.((((.((........)).)))).....................))))))..))).... ( -16.90)
>DroGri_CAF1 96905 101 + 1
CUCAUUGUGUGAAUUAUUGCCGAAAAA-AGAAGAGAA-AAA-----------GCG------AAGCGUGCGCCCCAAAGUAUGCAACAUAAUUAAAAAUCAAUGGCACACAAACUGAUAAA
.((((((((((.(((.((((.......-.........-...-----------)))------).((((((........))))))................)))..)))))))..))).... ( -17.91)
>DroSec_CAF1 79614 113 + 1
UUCAUUGUGUAAAUUAUUGCCGAAAAA----AAAAGCCAAAAACAAGG---AGGGAAAAAAUCGCGUACGCCCGAAAGUAUGCAACAUAAUUAAAAAUCAAUGGCAUACAAACAGAUAAA
....(((((........(((((.....----.....((........))---............((((((........))))))..................))))))))))......... ( -16.10)
>DroYak_CAF1 83009 115 + 1
UUCAUUGUGUAAAUUAUUGCCGAAAAA-AUAAAAGGCCAAAAACAAGG---AGGGAA-AAAUCGCGUGCGCCCGAAAGUAUGCAACAUAAUUAAAAAUCAAUGGCAUACAAACAGAUAAA
....((((((...(((((........)-))))...((((........(---(.....-...))((((((........))))))..................))))))))))......... ( -19.10)
>DroAna_CAF1 86621 116 + 1
CUCAUUGUGUAAAUUAUUGCCGAAAAA-UAAAAAUGGCAAAAACAAGGAAGAGGGAAAAAAUCACGCG---UCGAAAGUAUGCAACAUAAUUAAAAAUCAAUGGCAUACAAACAGAUAAA
...(((((((......((((((.....-......)))))).........................(((---((....).)))).)))))))............................. ( -15.80)
>consensus
CUCAUUGUGUAAAUUAUUGCCGAAAAA_AGAAAAGGCCAAAAACAAGG___AGGGAA_AAAUCGCGUGCGCCCGAAAGUAUGCAACAUAAUUAAAAAUCAAUGGCAUACAAACAGAUAAA
....(((((........(((((................................((.....))((((((........))))))..................))))))))))......... (-10.54 = -10.90 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:37 2006