Locus 6382

Sequence ID 3R_DroMel_CAF1
Location 16,753,484 – 16,753,620
Length 136
Max. P 0.780065
window10398 window10399

overview

Window 8

Location 16,753,484 – 16,753,592
Length 108
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 91.81
Mean single sequence MFE -27.33
Consensus MFE -25.35
Energy contribution -25.13
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.82
Structure conservation index 0.93
SVM decision value 0.55
SVM RNA-class probability 0.780065
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16753484 108 + 27905053
AAUGUGGAGAUUUCUAAGGGUGCGUAGAUAUGGUAAUGGGUAUCUCACAGUCGGGACACUCGACUGUACCAUCCUUUUAUGUGUUUUUCUUCUU-------UUUAUUCAAGCUUC
((((..((((.....(((((..((((((.((((((.((((...))))((((((((...))))))))))))))...))))))..)))))..))))-------..))))........ ( -28.30)
>DroSec_CAF1 55938 112 + 1
AAUGCGGAGAUUUCUAAGGGUGCGUAGAUAUGGUAAUGGGUAUCUCACAGUCGGAACACUCGACUGUACCAUCCUUUUAUGU--UUUCCUUCUUUUUAUU-UUUAUUUAAGCUUC
...(((((((.....(((((((.((((((((........)))))).((((((((.....)))))))))))))))))......--)))))......(((..-......)))))... ( -28.00)
>DroSim_CAF1 49353 113 + 1
AAUGUGGAGAUUUCUAAGGGUGCGUAGAUAUGGUAAUGGGUAUCUUACAGUCGGAACACUCGACUGUACCAUCCUUUUAUGU--UUUUCUUCUUUUUAUUUUUUAUUUAAGCUUC
.....(((((...(.(((((((.((((((((........)))))).((((((((.....)))))))))))))))))....).--...)))))....................... ( -25.70)
>consensus
AAUGUGGAGAUUUCUAAGGGUGCGUAGAUAUGGUAAUGGGUAUCUCACAGUCGGAACACUCGACUGUACCAUCCUUUUAUGU__UUUUCUUCUUUUUAUU_UUUAUUUAAGCUUC
.....(((((...(.(((((((.((((((((........)))))).((((((((.....)))))))))))))))))....)...))))).......................... (-25.35 = -25.13 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 16,753,524 – 16,753,620
Length 96
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 91.50
Mean single sequence MFE -18.13
Consensus MFE -14.70
Energy contribution -14.48
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -2.33
Structure conservation index 0.81
SVM decision value 0.36
SVM RNA-class probability 0.703472
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16753524 96 + 27905053
UAUCUCACAGUCGGGACACUCGACUGUACCAUCCUUUUAUGUGUUUUUCUUCUU-------UUUAUUCAAGCUUCCAUAACCCGGUGAAGGACACAACUAACA
......(((((((((...)))))))))............((((((((((.((..-------.((((..........))))...)).))))))))))....... ( -21.30)
>DroSec_CAF1 55978 100 + 1
UAUCUCACAGUCGGAACACUCGACUGUACCAUCCUUUUAUGU--UUUCCUUCUUUUUAUU-UUUAUUUAAGCUUCCAUAACCCGGUGAAGGACACAACUAACA
......((((((((.....))))))))............(((--..((((((..((((..-......))))...((.......)).)))))).)))....... ( -17.30)
>DroSim_CAF1 49393 101 + 1
UAUCUUACAGUCGGAACACUCGACUGUACCAUCCUUUUAUGU--UUUUCUUCUUUUUAUUUUUUAUUUAAGCUUCCAUAACCCGGUGAAGGACACAACUAACA
.....(((((((((.....)))))))))...........(((--(((((..(((..((.....))...)))...((.......)).))))))))......... ( -15.80)
>consensus
UAUCUCACAGUCGGAACACUCGACUGUACCAUCCUUUUAUGU__UUUUCUUCUUUUUAUU_UUUAUUUAAGCUUCCAUAACCCGGUGAAGGACACAACUAACA
......((((((((.....))))))))............(((....((((((..................................)))))).)))....... (-14.70 = -14.48 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:03 2006