Locus 2997

Sequence ID dm3.chr2R
Location 989,688 – 989,766
Length 78
Max. P 0.986088
window4111 window4112

overview

Window 1

Location 989,688 – 989,766
Length 78
Sequences 3
Columns 83
Reading direction forward
Mean pairwise identity 58.23
Shannon entropy 0.58532
G+C content 0.42189
Mean single sequence MFE -21.50
Consensus MFE -11.36
Energy contribution -10.37
Covariance contribution -0.99
Combinations/Pair 1.50
Mean z-score -1.59
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.75
SVM RNA-class probability 0.965102
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 989688 78 + 21146708
AUCGCAGUGUUUCCUCAUAUAUUUACCUCUGGCUAUAAUGGCAAUAUCGUCAGCAUAGCCU-----UGGCAAAGUAUACCUCU
.................(((((((.((...((((((..((((......))))..)))))).-----.))..)))))))..... ( -18.30, z-score =  -2.03, R)
>droPer1.super_249 10324 83 - 33068
UGAGCUGAGGGUCGAUGGGCAAACACCCGUAAUAAGUAUGCUUAUGUCGUCCACAUAAGCUGUUAUUAUUGGGGCCUUCCUUU
......(((((((.(((((......)))))(((((....((((((((.....)))))))).....)))))..))))))).... ( -26.40, z-score =  -1.83, R)
>dp4.Unknown_group_44 872 83 + 19881
GAAGCUGAGGGUUGAUGAACAUACACCUGUAAUAAGUAUGCUUAUGUCAUCCGCAUAAGCUGUUAUUAUUGAGGCGUUCCUUU
......(((((((....)))..((.(((.((((((....((((((((.....)))))))).....))))))))).)).)))). ( -19.80, z-score =  -0.93, R)
>consensus
AAAGCUGAGGGUCGAUGAACAUACACCUGUAAUAAGUAUGCUUAUGUCGUCCGCAUAAGCUGUUAUUAUUGAGGCAUUCCUUU
..........................((.((((((....((((((((.....)))))))).....)))))).))......... (-11.36 = -10.37 +  -0.99)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 989,688 – 989,766
Length 78
Sequences 3
Columns 83
Reading direction reverse
Mean pairwise identity 58.23
Shannon entropy 0.58532
G+C content 0.42189
Mean single sequence MFE -18.73
Consensus MFE -13.35
Energy contribution -12.25
Covariance contribution -1.10
Combinations/Pair 1.53
Mean z-score -1.34
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.22
SVM RNA-class probability 0.986088
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 989688 78 - 21146708
AGAGGUAUACUUUGCCA-----AGGCUAUGCUGACGAUAUUGCCAUUAUAGCCAGAGGUAAAUAUAUGAGGAAACACUGCGAU
....(((((.((((((.-----.(((((((.((.((....)).)).)))))))...)))))))))))..(....)........ ( -19.30, z-score =  -1.77, R)
>droPer1.super_249 10324 83 + 33068
AAAGGAAGGCCCCAAUAAUAACAGCUUAUGUGGACGACAUAAGCAUACUUAUUACGGGUGUUUGCCCAUCGACCCUCAGCUCA
...((.(((((((..((((((..((((((((.....))))))))....)))))).))).))))..))................ ( -20.40, z-score =  -1.07, R)
>dp4.Unknown_group_44 872 83 - 19881
AAAGGAACGCCUCAAUAAUAACAGCUUAUGCGGAUGACAUAAGCAUACUUAUUACAGGUGUAUGUUCAUCAACCCUCAGCUUC
..(((.((((((...((((((..(((((((.......)))))))....)))))).)))))).((.....))..)))....... ( -16.50, z-score =  -1.18, R)
>consensus
AAAGGAACGCCUCAAUAAUAACAGCUUAUGCGGACGACAUAAGCAUACUUAUUACAGGUGUAUGUACAUCGACCCUCAGCUAA
....((((((((...........(((((((.......)))))))...........)))))))).................... (-13.35 = -12.25 +  -1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:01:42 2011