Locus 11707

Sequence ID dm3.chr3R
Location 23,243,663 – 23,243,782
Length 119
Max. P 0.994641
window16082 window16083

overview

Window 2

Location 23,243,663 – 23,243,782
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.65
Shannon entropy 0.09712
G+C content 0.43196
Mean single sequence MFE -32.70
Consensus MFE -29.96
Energy contribution -30.96
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.46
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.00
SVM RNA-class probability 0.978713
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23243663 119 + 27905053
AUAUUCCUGCAUUUUAAACAGUUU-CUAUUGUCUGGGCAAAUCCUAAUGACGAGCGCAGACCAUAACGAGCAAGACUUCCCUUCAAAAAUUUGAGGGGAAACCAGCAGCUCGUUACAGCU
........((..............-.....(((((.((...((.....))...)).)))))..((((((((.....((((((((((....)))))))))).......))))))))..)). ( -34.80, z-score =  -3.11, R)
>droSim1.chr3R 22977108 119 + 27517382
AUAUUCCUGCAUUUUAAACAGUUU-CUAUUGUCUGGGCAAAUCCUAAUGACGAGCGCAGACCAUAACGAGCAAGACUUCCCUUCAAUAAUUUGAGGGGAAAGCAGCAGCUCGUUACAGCU
........((..............-.....(((((.((...((.....))...)).)))))..((((((((..(..((((((((((....))))))))))..)....))))))))..)). ( -36.40, z-score =  -3.25, R)
>droSec1.super_13 1987354 119 + 2104621
AUAUUCCUGCAUUUUAAACAGUUU-CUAUUGUCUGGGCAAAUCCUAAUGACGAGCGCAGACCAUAACGAGCAAGACUUCCCUUCAAUAAUUUGAGGGGAAACCAGCAGCUCGCUACAGCU
......((((..........((((-.(((.(((((.((...((.....))...)).))))).)))..)))).....((((((((((....))))))))))....))))...((....)). ( -33.20, z-score =  -2.48, R)
>droYak2.chr3R 5580917 120 - 28832112
AUAGUCGUGCAUUUUAAACAGUUUUCUAUUGUCUGGGCAAAUCCUAAUGACGAGCGCAGACCAUAACGAGCAAGAGUUCCCUUCAAUAAUUUGAGGGUAAACCAGCAGCUCGUUACUGCU
...(((((((.........((....)).(((((((((.....))))..))))))))).)))..((((((((....(((.(((((((....)))))))..))).....))))))))..... ( -32.00, z-score =  -1.76, R)
>droEre2.scaffold_4820 5681684 118 - 10470090
AUAUUCCCGCACUUUAAACAGUUUUCUAUUGUCUGG-CAAAUCCUAAUGACGAGUGCAGACCAUAACGAGCAAGACUUCCCUUCAAUAAUUCGAGGG-AAACCAGCAGCUCGUUACCGCU
........((((((.....((....))...(((.((-.....))....)))))))))......((((((((.....(((((((.........)))))-)).......))))))))..... ( -27.10, z-score =  -1.70, R)
>consensus
AUAUUCCUGCAUUUUAAACAGUUU_CUAUUGUCUGGGCAAAUCCUAAUGACGAGCGCAGACCAUAACGAGCAAGACUUCCCUUCAAUAAUUUGAGGGGAAACCAGCAGCUCGUUACAGCU
........((....................(((((.((...((.....))...)).)))))..((((((((.....((((((((((....)))))))))).......))))))))..)). (-29.96 = -30.96 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 23,243,663 – 23,243,782
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.65
Shannon entropy 0.09712
G+C content 0.43196
Mean single sequence MFE -39.68
Consensus MFE -35.52
Energy contribution -35.84
Covariance contribution 0.32
Combinations/Pair 1.09
Mean z-score -3.22
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.72
SVM RNA-class probability 0.994641
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23243663 119 - 27905053
AGCUGUAACGAGCUGCUGGUUUCCCCUCAAAUUUUUGAAGGGAAGUCUUGCUCGUUAUGGUCUGCGCUCGUCAUUAGGAUUUGCCCAGACAAUAG-AAACUGUUUAAAAUGCAGGAAUAU
....(((((((((....(..(((((.((((....)))).)))))..)..))))))))).(((((.((..(((.....)))..)).))))).....-...((((.......))))...... ( -41.10, z-score =  -3.60, R)
>droSim1.chr3R 22977108 119 - 27517382
AGCUGUAACGAGCUGCUGCUUUCCCCUCAAAUUAUUGAAGGGAAGUCUUGCUCGUUAUGGUCUGCGCUCGUCAUUAGGAUUUGCCCAGACAAUAG-AAACUGUUUAAAAUGCAGGAAUAU
....(((((((((....((((.(((.((((....)))).)))))))...))))))))).(((((.((..(((.....)))..)).))))).....-...((((.......))))...... ( -38.70, z-score =  -3.08, R)
>droSec1.super_13 1987354 119 - 2104621
AGCUGUAGCGAGCUGCUGGUUUCCCCUCAAAUUAUUGAAGGGAAGUCUUGCUCGUUAUGGUCUGCGCUCGUCAUUAGGAUUUGCCCAGACAAUAG-AAACUGUUUAAAAUGCAGGAAUAU
....(((((((((....(..(((((.((((....)))).)))))..)..))))))))).(((((.((..(((.....)))..)).))))).....-...((((.......))))...... ( -41.10, z-score =  -3.25, R)
>droYak2.chr3R 5580917 120 + 28832112
AGCAGUAACGAGCUGCUGGUUUACCCUCAAAUUAUUGAAGGGAACUCUUGCUCGUUAUGGUCUGCGCUCGUCAUUAGGAUUUGCCCAGACAAUAGAAAACUGUUUAAAAUGCACGACUAU
.((((((((((((....((((..(((((((....))).))))))))...))))))))).(((((.((..(((.....)))..)).)))))(((((....))))).....)))........ ( -36.40, z-score =  -2.79, R)
>droEre2.scaffold_4820 5681684 118 + 10470090
AGCGGUAACGAGCUGCUGGUUU-CCCUCGAAUUAUUGAAGGGAAGUCUUGCUCGUUAUGGUCUGCACUCGUCAUUAGGAUUUG-CCAGACAAUAGAAAACUGUUUAAAGUGCGGGAAUAU
.((.(((((((((....(..((-(((((((....))).))))))..)..))))))))).))(((((((.(((....((.....-)).)))(((((....)))))...)))))))...... ( -41.10, z-score =  -3.39, R)
>consensus
AGCUGUAACGAGCUGCUGGUUUCCCCUCAAAUUAUUGAAGGGAAGUCUUGCUCGUUAUGGUCUGCGCUCGUCAUUAGGAUUUGCCCAGACAAUAG_AAACUGUUUAAAAUGCAGGAAUAU
....(((((((((....(..(((((.((((....)))).)))))..)..))))))))).(((((.((..(((.....)))..)).))))).........((((.......))))...... (-35.52 = -35.84 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:48:01 2011