Locus 13587

Sequence ID dm3.chrX
Location 7,614,099 – 7,614,153
Length 54
Max. P 0.827818
window18703 window18704

overview

Window 3

Location 7,614,099 – 7,614,153
Length 54
Sequences 8
Columns 67
Reading direction forward
Mean pairwise identity 83.65
Shannon entropy 0.29016
G+C content 0.32549
Mean single sequence MFE -10.00
Consensus MFE -7.76
Energy contribution -8.01
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.30
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.13
SVM RNA-class probability 0.559311
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 7614099 54 + 22422827
---------AUUAUGAUUUUUUUUUCACAUUUCACUCGAGCGUUGAUUGAAAUGUUGAGCGAA----
---------..............(((((((((((.((((...)))).))))))).))))....---- ( -10.40, z-score =  -1.10, R)
>droSim1.chrX 6087309 53 + 17042790
---------AUUAUGAUUUUUUUU-CACAUUUCACUCGAGCGUUGAUUGAAAUGUUGAGCGAA----
---------.............((-(((((((((.((((...)))).))))))).))))....---- ( -10.40, z-score =  -1.10, R)
>droSec1.super_24 819140 51 + 912625
---------AUUAUGAUUUUUUC---ACAUUUCACUCGAGCGUUGAUUGAAAUGUUGAGCGAA----
---------.......(((.(((---((((((((.((((...)))).))))))).)))).)))---- ( -10.50, z-score =  -1.10, R)
>droEre2.scaffold_4690 16533574 52 + 18748788
---------AUUAUGAUUUUUUU--CACAUUUCACUCGAGCGUUGAUUGAAAUGUUGAGCGAA----
---------............((--(((((((((.((((...)))).))))))).))))....---- ( -10.40, z-score =  -1.08, R)
>droAna3.scaffold_13117 443337 56 + 5790199
---------AUUAUCAUUUUUUCA--ACAUUUCACUCGAGCGUUGAUUGAAAUGUUCGCCGAGCGCA
---------..............(--((((((((.((((...)))).))))))))).((.....)). ( -10.40, z-score =  -0.56, R)
>dp4.chrXL_group1e 11632363 53 + 12523060
---------AUUAUUAUUUUUUUC-CACAUUUCACUCGAGCGUUGAUUGAAAUGUUCAACGAA----
---------...............-.((((((((.((((...)))).))))))))........---- (  -8.80, z-score =  -1.69, R)
>droPer1.super_14 1088968 53 + 2168203
---------AUUAUUAUUUUUUUC-CACAUUUCACUCGAGCGUUGAUUGAAAUGUUCAACGAA----
---------...............-.((((((((.((((...)))).))))))))........---- (  -8.80, z-score =  -1.69, R)
>droGri2.scaffold_14853 1800079 61 - 10151454
AUUAUCCUUGCCUUUAUUUUUUUC--AAUUUUCACUCGAGCGUUGAUUGAAAUGUUCAACGAA----
....((.(((....((((((..((--(((.(((....))).)))))..))))))..))).)).---- ( -10.30, z-score =  -2.14, R)
>consensus
_________AUUAUGAUUUUUUUC_CACAUUUCACUCGAGCGUUGAUUGAAAUGUUCAGCGAA____
..........................((((((((.((((...)))).))))))))............ ( -7.76 =  -8.01 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 7,614,099 – 7,614,153
Length 54
Sequences 8
Columns 67
Reading direction reverse
Mean pairwise identity 83.65
Shannon entropy 0.29016
G+C content 0.32549
Mean single sequence MFE -8.98
Consensus MFE -7.31
Energy contribution -7.56
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.82
SVM RNA-class probability 0.827818
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 7614099 54 - 22422827
----UUCGCUCAACAUUUCAAUCAACGCUCGAGUGAAAUGUGAAAAAAAAAUCAUAAU---------
----.....(((.(((((((.((.......)).))))))))))...............--------- (  -9.10, z-score =  -2.30, R)
>droSim1.chrX 6087309 53 - 17042790
----UUCGCUCAACAUUUCAAUCAACGCUCGAGUGAAAUGUG-AAAAAAAAUCAUAAU---------
----.....(((.(((((((.((.......)).)))))))))-)..............--------- (  -9.10, z-score =  -2.25, R)
>droSec1.super_24 819140 51 - 912625
----UUCGCUCAACAUUUCAAUCAACGCUCGAGUGAAAUGU---GAAAAAAUCAUAAU---------
----.....(((.(((((((.((.......)).))))))))---))............--------- (  -9.10, z-score =  -2.09, R)
>droEre2.scaffold_4690 16533574 52 - 18748788
----UUCGCUCAACAUUUCAAUCAACGCUCGAGUGAAAUGUG--AAAAAAAUCAUAAU---------
----.....(((.(((((((.((.......)).)))))))))--).............--------- (  -9.10, z-score =  -2.17, R)
>droAna3.scaffold_13117 443337 56 - 5790199
UGCGCUCGGCGAACAUUUCAAUCAACGCUCGAGUGAAAUGU--UGAAAAAAUGAUAAU---------
..(((((((((..............))).))))))......--...............--------- ( -11.64, z-score =  -0.92, R)
>dp4.chrXL_group1e 11632363 53 - 12523060
----UUCGUUGAACAUUUCAAUCAACGCUCGAGUGAAAUGUG-GAAAAAAAUAAUAAU---------
----........((((((((.((.......)).)))))))).-...............--------- (  -8.50, z-score =  -1.29, R)
>droPer1.super_14 1088968 53 - 2168203
----UUCGUUGAACAUUUCAAUCAACGCUCGAGUGAAAUGUG-GAAAAAAAUAAUAAU---------
----........((((((((.((.......)).)))))))).-...............--------- (  -8.50, z-score =  -1.29, R)
>droGri2.scaffold_14853 1800079 61 + 10151454
----UUCGUUGAACAUUUCAAUCAACGCUCGAGUGAAAAUU--GAAAAAAAUAAAGGCAAGGAUAAU
----.((.(((....(((((((...(((....)))...)))--))))..........))).)).... (  -6.84, z-score =  -0.14, R)
>consensus
____UUCGCUCAACAUUUCAAUCAACGCUCGAGUGAAAUGUG_GAAAAAAAUCAUAAU_________
............((((((((.((.......)).)))))))).......................... ( -7.31 =  -7.56 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:24:07 2011