Locus 14595

Sequence ID dm3.chrX
Location 14,282,771 – 14,282,966
Length 195
Max. P 0.966001
window20094 window20095

overview

Window 4

Location 14,282,771 – 14,282,874
Length 103
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 93.29
Shannon entropy 0.12238
G+C content 0.53552
Mean single sequence MFE -34.74
Consensus MFE -31.24
Energy contribution -31.16
Covariance contribution -0.08
Combinations/Pair 1.16
Mean z-score -1.29
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.11
SVM RNA-class probability 0.550086
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14282771 103 + 22422827
UCCCAGGAGCAUCGCAGUGAGCACGGAGCCUCUUCUGCUCACUUACUGUUUUACAUUUGAAUGGCUCGGCAGGUCUCCAAUCAGUCUCGCCUGGAGGCAUUCU
.....((((((....((((((((.((((...))))))))))))...))))))......(((((.((((((..(.((......)).)..)))..))).))))). ( -34.10, z-score =  -1.22, R)
>droSim1.chrX 10976317 98 + 17042790
UCCCAGGAGCAUCGCAGUGAGCA-GGAGC-UCUUCUGCUCACUUACUGUUU-ACAUU-GGAUGGCUCGGCAGGUCUCCAAUCAGUCUCGCCUGGAGGCAUUU-
..(((((........((((((((-(((..-..))))))))))).((((...-..(((-(((.((((.....))))))))))))))....)))))........- ( -36.20, z-score =  -1.62, R)
>droSec1.super_20 883613 102 + 1148123
UCCCAGGAGCAUCGCAGUGAGCGGGAGGC-UCUCCUGCUCACUUACUGUUUUACAUUUGAAUGGCUCGGCAGGUCUCCAAUCAGUCUCGCCUGGAGGCAUUCU
.....((((((....((((((((((((..-.))))))))))))...))))))......(((((.((((((..(.((......)).)..)))..))).))))). ( -40.10, z-score =  -2.29, R)
>droYak2.chrX 8523899 102 + 21770863
UCCCAGGAGCAUCGCAGCGAGCACGAGGCU-CUUCUGCUCACUUACUGUUUUACAUUUGAAUGGCUCGGCAGGUCUCCAAUCAGUCUCGCCUGGAGGCAUUCU
.....((((((....((.(((((.(((...-.)))))))).))...))))))......(((((.((((((..(.((......)).)..)))..))).))))). ( -29.50, z-score =   0.07, R)
>droEre2.scaffold_4690 6085600 103 - 18748788
UCCCAGGAGCAUCGCAGUGAGCAAGAGCCUUCUUCUGCUCACUUACUGUUUUACAUUUGAAUGGCUCGGCAGGUCUCCAAUCAGUCUCGCCUGGAGGCAUUCU
.....((((((....((((((((..((....))..))))))))...))))))......(((((.((((((..(.((......)).)..)))..))).))))). ( -33.80, z-score =  -1.40, R)
>consensus
UCCCAGGAGCAUCGCAGUGAGCACGAGGC_UCUUCUGCUCACUUACUGUUUUACAUUUGAAUGGCUCGGCAGGUCUCCAAUCAGUCUCGCCUGGAGGCAUUCU
.....((((((....((((((((.((((...))))))))))))...))))))......(((((.((((((..(.((......)).)..)))..))).))))). (-31.24 = -31.16 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,282,874 – 14,282,966
Length 92
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 82.21
Shannon entropy 0.29703
G+C content 0.47835
Mean single sequence MFE -27.37
Consensus MFE -18.08
Energy contribution -18.97
Covariance contribution 0.89
Combinations/Pair 1.15
Mean z-score -2.60
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.76
SVM RNA-class probability 0.966001
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14282874 92 - 22422827
---CAAUA---CAGAUCCUAUCGCAGACUGA--GGAGCGGA------AAACGGCGAGGAGA------------GUUCAUUGGGUGACGAUGACAGCAAAUUGCAUUAAAUGAACUAGA
---.....---....(((..((((...(((.--....))).------.....))))))).(------------(((((((..(((.((((........)))))))..))))))))... ( -21.90, z-score =  -1.84, R)
>droSim1.chrX 10976415 92 - 17042790
---CAAUA---CAUAUCCUAUCGCCGACUGG--GGAGCGGG------AAACGGCGAGGAGA------------GUUCAUUGGGUGACGAUGACAGCAAAUUGCAUUAAAUGAACUAGA
---.....---....(((..((((((.((.(--....).))------...))))))))).(------------(((((((..(((.((((........)))))))..))))))))... ( -28.90, z-score =  -3.53, R)
>droSec1.super_20 883715 92 - 1148123
---CAAUA---CAGAUCCUAUCGCCGACUGG--GGAGCGGG------AAACGGCGAGGAGA------------GUUCAUUGGGUGACGAUGACAGCAAAUUGCAUUAAAUGAACUAGA
---.....---....(((..((((((.((.(--....).))------...))))))))).(------------(((((((..(((.((((........)))))))..))))))))... ( -28.90, z-score =  -3.43, R)
>droYak2.chrX 8524001 94 - 21770863
---CAAUA---CAGAUCCUAUCGCCGACCGGGUGGAGCGGG------AAACGGCGAGGAGA------------GUUCAUUGGGUGACGAUGACAGCAAAUUGCAUUAAAUGAACUAGA
---.....---....((((.(((((.....))))).((.(.------...).)).)))).(------------(((((((..(((.((((........)))))))..))))))))... ( -30.50, z-score =  -3.20, R)
>droEre2.scaffold_4690 6085703 91 + 18748788
---CAAUA---CAGAUCCUAUCGCCGACUGC--GGAGCGGG------AAGCGGCGAGGAG-------------GUUCAUUGGGUGACGAUGACAGCAAAUUGCAUUAAAUGAACUAGA
---.....---....(((..((((((.((((--...)))).------...)))))))))(-------------(((((((..(((.((((........)))))))..))))))))... ( -31.20, z-score =  -3.46, R)
>droPer1.super_432 18861 118 + 20690
CAACAAUACACCAGAUCCUAUCGCUGGGCGCGGGGGGUAAGAAAAGCAAACAAAAGGAAGAAUGGAUACGGCGGUAAAUUUGGUGACGAUGACAGUAAAUUGCAUUAAAUGAACCAGA
..........(((..((((.((((.....))))...((.......)).......))))....))).......(((..((((((((.((((........))))))))))))..)))... ( -22.80, z-score =  -0.12, R)
>consensus
___CAAUA___CAGAUCCUAUCGCCGACUGG__GGAGCGGG______AAACGGCGAGGAGA____________GUUCAUUGGGUGACGAUGACAGCAAAUUGCAUUAAAUGAACUAGA
...............((((..(((((.(((.......)))..........)))))))))..............(((((((..(((.((((........)))))))..))))))).... (-18.08 = -18.97 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:43:06 2011