Locus 14548

Sequence ID dm3.chrX
Location 13,998,680 – 13,998,763
Length 83
Max. P 0.788236
window20028 window20029

overview

Window 8

Location 13,998,680 – 13,998,763
Length 83
Sequences 11
Columns 83
Reading direction forward
Mean pairwise identity 93.49
Shannon entropy 0.15060
G+C content 0.56968
Mean single sequence MFE -30.32
Consensus MFE -27.68
Energy contribution -28.45
Covariance contribution 0.78
Combinations/Pair 1.10
Mean z-score -1.48
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.69
SVM RNA-class probability 0.788236
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13998680 83 + 22422827
AGCAGUCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCG
.((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......)))))))))))). ( -32.30, z-score =  -1.71, R)
>droSec1.super_20 617706 76 + 1148123
AGCAGUCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUACCUCUGGGAGCG-------GGAGCCUACCGGCUGCG
.((((((((((((....)))))((((..(((.((.....(((((.....))))).))))-------)..))))..))))))). ( -31.80, z-score =  -1.83, R)
>droYak2.chrX 8266661 83 + 21770863
AGCAGUCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCG
.((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......)))))))))))). ( -32.30, z-score =  -1.71, R)
>droEre2.scaffold_4690 5829054 83 - 18748788
AGCAGUCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCG
.((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......)))))))))))). ( -32.30, z-score =  -1.71, R)
>droAna3.scaffold_13047 1509218 83 + 1816235
AGCAGUCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCG
.((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......)))))))))))). ( -32.30, z-score =  -1.71, R)
>dp4.chrXL_group1e 6288586 77 - 12523060
AACAGUCGUGGCCGAGAGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCG------
....(((.(((((....))))).)))((((((.......))))))((((...))))(.(((((.......)))))).------ ( -24.90, z-score =  -1.12, R)
>droPer1.super_21 423796 83 - 1645244
AGCAGUCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGAUUGCG
.((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......)))))))))))). ( -30.60, z-score =  -1.78, R)
>droWil1.scaffold_180699 2076170 83 - 2593675
AGCAGUUGUGGCCGAGUGGUUAAGGCGUCUGACUUGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCAGCUGCG
.((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......)))))))))))). ( -30.20, z-score =  -1.90, R)
>droMoj3.scaffold_6496 15765523 83 + 26866924
AGCAGUCGUGGCCGAGUGGUUAAGGCGUCUGACUCGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCG
.((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......)))))))))))). ( -31.40, z-score =  -1.54, R)
>droGri2.scaffold_15245 13573130 80 + 18325388
AGCAGUCGUGGCCGAGUGGUUAAGGCGUCUGACUCGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCU---
.........(((((..........((((((((.......))))))((((...))))))(((((.......))))))))))--- ( -24.00, z-score =   0.32, R)
>anoGam1.chr3L 33597567 83 + 41284009
AGCAGUCGUGGCCGAGUGGUUAAGGCGUCUGACUCGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCG
.((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......)))))))))))). ( -31.40, z-score =  -1.54, R)
>consensus
AGCAGUCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCG
.((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......)))))))))))). (-27.68 = -28.45 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 13,998,680 – 13,998,763
Length 83
Sequences 11
Columns 83
Reading direction reverse
Mean pairwise identity 93.49
Shannon entropy 0.15060
G+C content 0.56968
Mean single sequence MFE -25.94
Consensus MFE -22.66
Energy contribution -23.58
Covariance contribution 0.93
Combinations/Pair 1.04
Mean z-score -1.39
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.14
SVM RNA-class probability 0.560994
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13998680 83 - 22422827
CGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGACUGCU
.((((.(((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)).)))). ( -27.02, z-score =  -1.36, R)
>droSec1.super_20 617706 76 - 1148123
CGCAGCCGGUAGGCUCC-------CGCUCCCAGAGGUAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGACUGCU
.((((.((...((((..-------.((.....(((((..((((((.....)))))).)))))....))..)))).)).)))). ( -25.90, z-score =  -1.45, R)
>droYak2.chrX 8266661 83 - 21770863
CGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGACUGCU
.((((.(((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)).)))). ( -27.02, z-score =  -1.36, R)
>droEre2.scaffold_4690 5829054 83 + 18748788
CGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGACUGCU
.((((.(((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)).)))). ( -27.02, z-score =  -1.36, R)
>droAna3.scaffold_13047 1509218 83 - 1816235
CGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGACUGCU
.((((.(((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)).)))). ( -27.02, z-score =  -1.36, R)
>dp4.chrXL_group1e 6288586 77 + 12523060
------CGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCUCUCGGCCACGACUGUU
------..(((((.......))))).....(((((((..((((((.....))))))..))))......(((....)))))).. ( -21.10, z-score =  -0.53, R)
>droPer1.super_21 423796 83 + 1645244
CGCAAUCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGACUGCU
.(((.((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..))).))). ( -26.02, z-score =  -1.55, R)
>droWil1.scaffold_180699 2076170 83 + 2593675
CGCAGCUGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCAAGUCAGACGCCUUAACCACUCGGCCACAACUGCU
.((((.(((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)).)))). ( -26.02, z-score =  -2.07, R)
>droMoj3.scaffold_6496 15765523 83 - 26866924
CGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCGAGUCAGACGCCUUAACCACUCGGCCACGACUGCU
.((((.(((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)).)))). ( -27.02, z-score =  -1.60, R)
>droGri2.scaffold_15245 13573130 80 - 18325388
---AGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCGAGUCAGACGCCUUAACCACUCGGCCACGACUGCU
---.(((((((((.......)))))........((((..((((((.....))))))..)))).......)))).......... ( -24.20, z-score =  -1.09, R)
>anoGam1.chr3L 33597567 83 - 41284009
CGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCGAGUCAGACGCCUUAACCACUCGGCCACGACUGCU
.((((.(((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)).)))). ( -27.02, z-score =  -1.60, R)
>consensus
CGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGACUGCU
.((((.(((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)).)))). (-22.66 = -23.58 +   0.93)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:42:11 2011