Locus 7668

Sequence ID dm3.chr3L
Location 16,387,520 – 16,387,665
Length 145
Max. P 0.995539
window10552 window10553

overview

Window 2

Location 16,387,520 – 16,387,615
Length 95
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 62.24
Shannon entropy 0.74008
G+C content 0.49735
Mean single sequence MFE -29.82
Consensus MFE -15.00
Energy contribution -15.87
Covariance contribution 0.87
Combinations/Pair 1.56
Mean z-score -0.71
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.03
SVM RNA-class probability 0.878199
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16387520 95 - 24543557
UGGAGUGCAACGGGUAUACUAGACCAUCCAGGUGGUAUGGUUCGCACAAUGGGUAGUCACAGUGAUAU-----------CAAUCGAGGAUUCUGGG-AAAAUAAGUA
.(((((.(....((((((((.(((.(((((.((((......))))....))))).)))..))).))))-----------)......).)))))...-.......... ( -20.70, z-score =   0.33, R)
>droSim1.chr3L 15731437 106 - 22553184
UGGAGUGCAACGGGUGUGCUAGACCAUCCAGGUGGUAUGGUACGCACAAUGGGGAGUCAAAGCGAUUUGGUUGCU-GGAUAUUCAGGGAUUCUGGGAAAAAAAAGUA
.(((((.(.....((((((((.(((((....))))).))))))))....((((..(((..((((((...))))))-.))).)))).).))))).............. ( -29.70, z-score =  -1.52, R)
>droSec1.super_0 8481826 105 - 21120651
AGGAGUGCAACGGGUGUGCCAGACCAUCCAGGUGGUAUGGUACGCACAAUGGGGAGUCACAGUGAUUUGGUGGCC-UGAUAUUCAGGGAUUCUGGG-AAAAUAAGUA
.....(((.....((((((((.(((((....))))).)))))))).......((((((.(((....)))....((-((.....))))))))))...-.......))) ( -32.70, z-score =  -1.04, R)
>droYak2.chr3L_random 20677 105 - 4797643
UGGAGUGCUAGGGGUGUACUAGACCACCCAGGGGGUAUGCUACGAUCAGUAGAAAGUCACACUGCUUUGGGUUCU-UGAUGGUCAGGGAUUGUUGG-AAGUAGAGUG
....(((((..(((((........)))))....))))).((((.....)))).....(((.(((((((.((((((-((.....)))))))...).)-)))))).))) ( -31.40, z-score =  -0.37, R)
>droEre2.scaffold_4784 18633558 106 - 25762168
UGGAGUGCCAGGGGCGUGCUAGGCCACCCAGGUGGUUUGGUACGAACAGUAGGAAGUCGUACUGCUUUGAGUUGUGUGAUGCUCGGGGAUGCUUGC-AAGCAUCGUU
..(((((((((((.(((((((((((((....)))))))))))))..(((((.(....).)))))))))).))........))))...((((((...-.))))))... ( -41.80, z-score =  -1.93, R)
>droAna3.scaffold_13337 14368996 95 + 23293914
UGGAGUGCGCGGGGUAUGCCAGAUACUAUGUUUUUCCAGGUGUACACAGGUGGGGGGGAAAAGUCUACCAAUAGGAGCAUAUUGGAGGAUAACUA------------
(((.((((.....)))).))).........(((..(((..((....))..)))..)))....((((.((((((......)))))).)))).....------------ ( -22.60, z-score =   0.27, R)
>consensus
UGGAGUGCAACGGGUGUGCUAGACCAUCCAGGUGGUAUGGUACGCACAAUGGGGAGUCACAGUGAUUUGGGUGCU_UGAUAUUCAGGGAUUCUGGG_AAAAAAAGUA
.(((((.(...(.((((((((.(((((....))))).)))))))).)......(((((.....)))))..................).))))).............. (-15.00 = -15.87 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,387,615 – 16,387,665
Length 50
Sequences 5
Columns 50
Reading direction reverse
Mean pairwise identity 95.20
Shannon entropy 0.08663
G+C content 0.59200
Mean single sequence MFE -23.84
Consensus MFE -22.80
Energy contribution -23.00
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.98
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.81
SVM RNA-class probability 0.995539
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16387615 50 - 24543557
ACACAGCGCCCGCCAUUCAUUGUGGUGGGAGUUGUGGUACCCGUUGUGUG
.((((((.((((((((.....)))))))).)))))).............. ( -23.90, z-score =  -3.40, R)
>droSim1.chr3L 15731543 50 - 22553184
ACACAGCGCCCGCCAUUCAUUGUGGUGGGAGUUGUGGUACCCGGUGUGUG
.((((((.((((((((.....)))))))).)))))).............. ( -23.90, z-score =  -2.78, R)
>droSec1.super_0 8481931 50 - 21120651
ACACAGCGCCCGCCAUUCAUUGUGGUGGGAGUUGUGGUACCCGGUGUGUG
.((((((.((((((((.....)))))))).)))))).............. ( -23.90, z-score =  -2.78, R)
>droYak2.chr3L_random 20782 50 - 4797643
ACACAGCGCCCGCCAUUCAUUGUGGUGGGAGUUGUGGUACCCGGUGUAUG
.((((((.((((((((.....)))))))).))))))((((.....)))). ( -24.60, z-score =  -3.34, R)
>droAna3.scaffold_13337 14369091 50 + 23293914
ACACAGCGGCCGCCAUUCAUUGUGGUGGGAGUUGUGGUACCUCGUGGGUG
.((((((..(((((((.....)))))))..)))))).((((.....)))) ( -22.90, z-score =  -2.60, R)
>consensus
ACACAGCGCCCGCCAUUCAUUGUGGUGGGAGUUGUGGUACCCGGUGUGUG
.((((((.((((((((.....)))))))).)))))).............. (-22.80 = -23.00 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:31:12 2011