Locus 14620

Sequence ID dm3.chrX
Location 14,416,331 – 14,416,423
Length 92
Max. P 0.999717
window20131 window20132

overview

Window 1

Location 14,416,331 – 14,416,423
Length 92
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 71.41
Shannon entropy 0.50386
G+C content 0.49325
Mean single sequence MFE -22.38
Consensus MFE -16.15
Energy contribution -17.10
Covariance contribution 0.95
Combinations/Pair 1.17
Mean z-score -3.46
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.24
SVM RNA-class probability 0.999717
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14416331 92 + 22422827
-----------CUAUCACUGCAUUGCCCCCCUUUUUUCCAGACCACCU-UUUUCGUGUUCUACACCCCUGCACGUGUCAAGUGUGCCAUGCAGUGAACUUUUUG
-----------...(((((((((.((.............(((.(((..-.....))).)))........((((.......)))))).)))))))))........ ( -23.30, z-score =  -4.57, R)
>droSim1.chrX 11103511 90 + 17042790
-----------CUAUCACUGCAUUGCCCCCCCUUUU-CCAGACCACCU-UUUUCAUGU-CUACACCCCUGCACGUGUCAAGUGUGCCAUGCAGUGAACUUUUUG
-----------...(((((((((.((..........-..((((.....-.......))-))........((((.......)))))).)))))))))........ ( -21.40, z-score =  -3.99, R)
>droSec1.super_20 1012595 91 + 1148123
-----------CUAUCACUGCAUUGCCCCCGCUUUU-CCAGACCACCU-UUUUCAUGUUCUACACCCCUGCACGUGUCAAGUGUGCCAUGCAGUGAACUUUUUG
-----------...(((((((((.((...(((((..-..(((.((...-......)).)))((((........)))).))))).)).)))))))))........ ( -21.20, z-score =  -3.29, R)
>droYak2.chrX 8657188 79 + 21770863
-------UUCACUAUCACUGCAUCGCCCCCU------------------UUUUCGUGUACUACACCCAUGCACGUGUCAAGUGUGCCAUGCAGUGAACUUUUUG
-------.......(((((((((.((.(.((------------------(...((((((.........))))))....))).).)).)))))))))........ ( -23.60, z-score =  -4.32, R)
>droEre2.scaffold_4690 6206638 75 - 18748788
-----------CCAUCACUGCAUUGCCCCCC------------------UUUUCGUGUUCUACACCCCUGCACGUGUCAAGUGUGCCGUGCAGUGAACUUUUUG
-----------...(((((((((.((.....------------------.....(((.....)))....((((.......)))))).)))))))))........ ( -22.10, z-score =  -4.10, R)
>droAna3.scaffold_13248 2144450 104 + 4840945
CAUCCAUUGCAUCGUCUUUGAGUUAGUCCUGUCUCUUUCAUUCGGCUUGGUGUUGUCUCUUUCCCACUGGCACGUGUCAAGUGCGACAAGCAAUGAACUUUUUG
....((((((........((((..((......))..)))).(((((((((..(((((...........)))).)..)))))).)))...))))))......... ( -22.70, z-score =  -0.51, R)
>consensus
___________CUAUCACUGCAUUGCCCCCC_UUUU_CCAGACCACCU_UUUUCGUGUUCUACACCCCUGCACGUGUCAAGUGUGCCAUGCAGUGAACUUUUUG
..............(((((((((.((............................(((.....)))....((((.......)))))).)))))))))........ (-16.15 = -17.10 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,416,331 – 14,416,423
Length 92
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 71.41
Shannon entropy 0.50386
G+C content 0.49325
Mean single sequence MFE -24.10
Consensus MFE -15.26
Energy contribution -16.32
Covariance contribution 1.06
Combinations/Pair 1.16
Mean z-score -1.94
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.25
SVM RNA-class probability 0.986837
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14416331 92 - 22422827
CAAAAAGUUCACUGCAUGGCACACUUGACACGUGCAGGGGUGUAGAACACGAAAA-AGGUGGUCUGGAAAAAAGGGGGGCAAUGCAGUGAUAG-----------
........(((((((((.((...(((.((((........))))(((.(((.....-..))).))).......)))...)).)))))))))...----------- ( -25.80, z-score =  -2.68, R)
>droSim1.chrX 11103511 90 - 17042790
CAAAAAGUUCACUGCAUGGCACACUUGACACGUGCAGGGGUGUAG-ACAUGAAAA-AGGUGGUCUGG-AAAAGGGGGGGCAAUGCAGUGAUAG-----------
........(((((((((.((...(((.((((........))))((-((.......-.....))))..-....)))...)).)))))))))...----------- ( -23.70, z-score =  -1.76, R)
>droSec1.super_20 1012595 91 - 1148123
CAAAAAGUUCACUGCAUGGCACACUUGACACGUGCAGGGGUGUAGAACAUGAAAA-AGGUGGUCUGG-AAAAGCGGGGGCAAUGCAGUGAUAG-----------
........(((((((((.((((.((((.(....))))).))))............-...((.(((.(-.....).))).)))))))))))...----------- ( -25.20, z-score =  -1.94, R)
>droYak2.chrX 8657188 79 - 21770863
CAAAAAGUUCACUGCAUGGCACACUUGACACGUGCAUGGGUGUAGUACACGAAAA------------------AGGGGGCGAUGCAGUGAUAGUGAA-------
........(((((((((.((...(((....((((.((.......)).))))...)------------------))...)).))))))))).......------- ( -25.00, z-score =  -2.51, R)
>droEre2.scaffold_4690 6206638 75 + 18748788
CAAAAAGUUCACUGCACGGCACACUUGACACGUGCAGGGGUGUAGAACACGAAAA------------------GGGGGGCAAUGCAGUGAUGG-----------
........((((((((..((...((((.(....))))).(((.....))).....------------------.....))..))))))))...----------- ( -21.10, z-score =  -1.79, R)
>droAna3.scaffold_13248 2144450 104 - 4840945
CAAAAAGUUCAUUGCUUGUCGCACUUGACACGUGCCAGUGGGAAAGAGACAACACCAAGCCGAAUGAAAGAGACAGGACUAACUCAAAGACGAUGCAAUGGAUG
......((((((((((((((..........((.((...(((.............))).)))).......(((..........)))...))))).))))))))). ( -23.82, z-score =  -0.97, R)
>consensus
CAAAAAGUUCACUGCAUGGCACACUUGACACGUGCAGGGGUGUAGAACACGAAAA_AGGUGGUCUGG_AAAA_GGGGGGCAAUGCAGUGAUAG___________
........(((((((((.((...((((.(....))))).(((.....)))............................)).))))))))).............. (-15.26 = -16.32 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:43:36 2011