Locus 5790

Sequence ID 2L_DroMel_CAF1
Location 16,402,276 – 16,402,387
Length 111
Max. P 0.974836
window9180 window9181

overview

Window 0

Location 16,402,276 – 16,402,370
Length 94
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 80.53
Mean single sequence MFE -21.42
Consensus MFE -11.93
Energy contribution -12.67
Covariance contribution 0.75
Combinations/Pair 1.07
Mean z-score -2.02
Structure conservation index 0.56
SVM decision value 0.03
SVM RNA-class probability 0.549223
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16402276 94 - 22407834
GUAGUCUUCGCCAACUUAAAAAAAAAAAAACUCCACCGAAGGCAACGCAAAUGGCAAUUUAAGUCAUUUUGUUUGCCGUUU-UUUGCGUUCGAUU
...(((((((..........................)))))))((((((((((((((..((((....)))).)))))))..-.)))))))..... ( -22.27)
>DroSec_CAF1 26727 90 - 1
GUAGUCCUCGCCAACUUCAAAA--AAAUAACUCCACCGAAGGCAACGCAAAUGGCAAUUUAAGUCAUUUUGUUUGCG--UU-UUUGCGUUCGAUU
......................--............((((.((((((((((((((.......))))).....)))))--).-..))).))))... ( -18.20)
>DroEre_CAF1 22712 82 - 1
------------AAAUCAAAAAAAAAAAAAACCCACCGAAGGCAGCGCAAAUGGCAAUUUAAGUCAUUUUGUUGCCGCUUU-UUUGAGUGCGAUU
------------.((((.......................(((((((.(((((((.......))))))))))))))((((.-...))))..)))) ( -20.50)
>DroYak_CAF1 27528 91 - 1
GAAGGCCUCGCCAAGUCAAA----AAAUAACUCCACCGAAGGCAGCGCAAAUGGCAAUUUAAGUCAUUUUGUUGCCGCUUUUUUUGCGUUCGAUU
...(((...)))........----............(((((((((((.(((((((.......))))))))))))))((.......)).))))... ( -24.70)
>consensus
GUAGUCCUCGCCAACUCAAAAA__AAAAAACUCCACCGAAGGCAACGCAAAUGGCAAUUUAAGUCAUUUUGUUGCCGCUUU_UUUGCGUUCGAUU
........................................(((((((.(((((((.......))))))))))))))................... (-11.93 = -12.67 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 16,402,293 – 16,402,387
Length 94
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 76.90
Mean single sequence MFE -16.00
Consensus MFE -11.93
Energy contribution -12.67
Covariance contribution 0.75
Combinations/Pair 1.07
Mean z-score -2.05
Structure conservation index 0.75
SVM decision value 1.74
SVM RNA-class probability 0.974836
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16402293 94 - 22407834
CACUCCCCAAAAACC-CCGUAGUCUUCGCCAACUUAAAAAAAAAAAAACUCCACCGAAGGCAACGCAAAUGGCAAUUUAAGUCAUUUUGUUUGCC
..........((((.-.(((.(((((((..........................))))))).))).(((((((.......))))))).))))... ( -14.37)
>DroSec_CAF1 26742 93 - 1
CACUCCCCAAAAACCCCCGUAGUCCUCGCCAACUUCAAAA--AAAUAACUCCACCGAAGGCAACGCAAAUGGCAAUUUAAGUCAUUUUGUUUGCG
................................((((....--.............))))((((.(((((((((.......)))).))))))))). ( -11.93)
>DroEre_CAF1 22729 79 - 1
GCCAACUUAAAAAA----------------AAAUCAAAAAAAAAAAAAACCCACCGAAGGCAGCGCAAAUGGCAAUUUAAGUCAUUUUGUUGCCG
..............----------------............................(((((((.(((((((.......)))))))))))))). ( -17.30)
>DroYak_CAF1 27546 91 - 1
CACUCCCCGAAAAACCCCGAAGGCCUCGCCAAGUCAAA----AAAUAACUCCACCGAAGGCAGCGCAAAUGGCAAUUUAAGUCAUUUUGUUGCCG
..................((.(((...)))...))...----................(((((((.(((((((.......)))))))))))))). ( -20.40)
>consensus
CACUCCCCAAAAAAC_CCGUAGUCCUCGCCAACUCAAAAA__AAAAAACUCCACCGAAGGCAACGCAAAUGGCAAUUUAAGUCAUUUUGUUGCCG
..........................................................(((((((.(((((((.......)))))))))))))). (-11.93 = -12.67 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:57 2006