Locus 14525

Sequence ID dm3.chrX
Location 13,887,506 – 13,887,563
Length 57
Max. P 0.997813
window19995 window19996

overview

Window 5

Location 13,887,506 – 13,887,563
Length 57
Sequences 7
Columns 58
Reading direction forward
Mean pairwise identity 76.18
Shannon entropy 0.47369
G+C content 0.47156
Mean single sequence MFE -19.77
Consensus MFE -12.96
Energy contribution -12.63
Covariance contribution -0.34
Combinations/Pair 1.65
Mean z-score -2.64
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.18
SVM RNA-class probability 0.997813
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13887506 57 + 22422827
CAGAACAAA-UUCUGAUUGGAGAUGUUGCUAAAGUUCCUUCCUUUGGCAACAUGCUGC
(((((....-)))))...(.((((((((((((((.......)))))))))))).)).) ( -18.70, z-score =  -3.24, R)
>droSim1.chrX 10690153 55 + 17042790
CAGAGCAAA-UUCUGAUUGGAGAUGUUGCUAAAGUU--UUCCUUUGGCAACGUGCUGC
...(((...-((((....))))((((((((((((..--...))))))))))))))).. ( -18.40, z-score =  -2.79, R)
>droSec1.super_20 528518 54 + 1148123
CAGAGCAA--UUCUGAUUGGAGAUGUUGCUAAAGUU--UUCCUUUGGCAACGUGCUGC
...(((..--((((....))))((((((((((((..--...))))))))))))))).. ( -18.40, z-score =  -2.81, R)
>droYak2.chrX 8181400 56 + 21770863
CAGAGCAAAAUUCUGAUUGGAGAUGUUGCCAAAGUU--UUCCUUUGGCAACAUGCUGC
...(((....((((....))))((((((((((((..--...))))))))))))))).. ( -21.10, z-score =  -3.57, R)
>droEre2.scaffold_4690 5746531 55 - 18748788
CAGAGCAAA-UUCUGAUUGGAGAUGUUGCCAAAGUU--UUCCUUUGGCAACAUGCUGC
...(((...-((((....))))((((((((((((..--...))))))))))))))).. ( -21.10, z-score =  -3.56, R)
>droAna3.scaffold_13047 1416307 55 + 1816235
GAGCGCAUC-UUCGGGCCGUGAAUGUUGCGAAGCUU--CUCGUUUGGCAACAUUUUGU
..(((..((-....)).)))(((((((((.((((..--...)))).)))))))))... ( -17.70, z-score =  -1.38, R)
>droVir3.scaffold_12970 10146478 56 - 11907090
GAGUGCAGAGUGUCUGUUGGGGCGA--GCGAGCGCGCGCUCCUUUGGCAACAUGUUGC
....((((.((((.(((..(((.((--(((......))))))))..))))))).)))) ( -23.00, z-score =  -1.16, R)
>consensus
CAGAGCAAA_UUCUGAUUGGAGAUGUUGCUAAAGUU__UUCCUUUGGCAACAUGCUGC
(((((.....)))))...(.((((((((((((((.......)))))))))))).)).) (-12.96 = -12.63 +  -0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 13,887,506 – 13,887,563
Length 57
Sequences 7
Columns 58
Reading direction reverse
Mean pairwise identity 76.18
Shannon entropy 0.47369
G+C content 0.47156
Mean single sequence MFE -15.20
Consensus MFE -7.99
Energy contribution -8.11
Covariance contribution 0.13
Combinations/Pair 1.40
Mean z-score -2.17
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.77
SVM RNA-class probability 0.966905
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13887506 57 - 22422827
GCAGCAUGUUGCCAAAGGAAGGAACUUUAGCAACAUCUCCAAUCAGAA-UUUGUUCUG
(.((.(((((((.((((.......)))).))))))))).)...(((((-....))))) ( -15.00, z-score =  -1.99, R)
>droSim1.chrX 10690153 55 - 17042790
GCAGCACGUUGCCAAAGGAA--AACUUUAGCAACAUCUCCAAUCAGAA-UUUGCUCUG
..((((.(((((.((((...--..)))).))))).(((......))).-..))))... ( -13.10, z-score =  -2.23, R)
>droSec1.super_20 528518 54 - 1148123
GCAGCACGUUGCCAAAGGAA--AACUUUAGCAACAUCUCCAAUCAGAA--UUGCUCUG
..((((.(((((.((((...--..)))).))))).(((......))).--.))))... ( -13.10, z-score =  -2.33, R)
>droYak2.chrX 8181400 56 - 21770863
GCAGCAUGUUGCCAAAGGAA--AACUUUGGCAACAUCUCCAAUCAGAAUUUUGCUCUG
(.((.((((((((((((...--..)))))))))))))).)...((((.......)))) ( -20.50, z-score =  -4.19, R)
>droEre2.scaffold_4690 5746531 55 + 18748788
GCAGCAUGUUGCCAAAGGAA--AACUUUGGCAACAUCUCCAAUCAGAA-UUUGCUCUG
(.((.((((((((((((...--..)))))))))))))).)...((((.-.....)))) ( -21.00, z-score =  -4.43, R)
>droAna3.scaffold_13047 1416307 55 - 1816235
ACAAAAUGUUGCCAAACGAG--AAGCUUCGCAACAUUCACGGCCCGAA-GAUGCGCUC
....((((((((.((.(...--..).)).))))))))...(((.(...-...).))). (  -8.50, z-score =   0.75, R)
>droVir3.scaffold_12970 10146478 56 + 11907090
GCAACAUGUUGCCAAAGGAGCGCGCGCUCGC--UCGCCCCAACAGACACUCUGCACUC
((((....))))....((.(((.((....))--.))).))..(((.....)))..... ( -15.20, z-score =  -0.74, R)
>consensus
GCAGCAUGUUGCCAAAGGAA__AACUUUAGCAACAUCUCCAAUCAGAA_UUUGCUCUG
(((....(((((.((((.......)))).))))).(((......)))....))).... ( -7.99 =  -8.11 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:41:45 2011