Locus 884

Sequence ID dm3.chr2L
Location 6,455,160 – 6,455,237
Length 77
Max. P 0.998059
window1195 window1196

overview

Window 5

Location 6,455,160 – 6,455,237
Length 77
Sequences 6
Columns 87
Reading direction forward
Mean pairwise identity 68.08
Shannon entropy 0.55622
G+C content 0.36599
Mean single sequence MFE -13.37
Consensus MFE -5.92
Energy contribution -6.39
Covariance contribution 0.47
Combinations/Pair 1.25
Mean z-score -1.69
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.87
SVM RNA-class probability 0.840608
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 6455160 77 + 23011544
UAUUUACACACGCACACACACGCACA-CGUACAUGCAGUGUGUAUUAUUCAAUUGGAUAAAGAAUCUAUCUCUAUCUC---------
....((((((((((.....(((....-)))...))).)))))))..........(((((.(((.....))).))))).--------- ( -16.10, z-score =  -2.79, R)
>droYak2.chr2L 15861946 72 - 22324452
--CAUUCACAAACACACACACACGUA-UGUACAUACAGUGUGUAUUAUUCAAUUGGAUAAAGAAUCG---UCUAUCUC---------
--.((((..........(((((((((-(....)))).)))))).((((((....)))))).))))..---........--------- ( -14.60, z-score =  -1.97, R)
>droEre2.scaffold_4929 15363549 73 + 26641161
--CAUUCAUACCCACACACACACUCACUGUACAUGCAGUGUGUAUUAUUCAAUUGGAUAAAGAAUAG---UCCAUCUC---------
--.((((..............((.((((((....)))))).)).((((((....)))))).))))..---........--------- ( -14.00, z-score =  -1.48, R)
>droSec1.super_5 4504341 69 + 5866729
--------UAUUUACACACGCACACA-CGUACAUGCCGUGUGUAUUAUUCAAUUGGAUAAAGAAUUUAUCUCUAUCUC---------
--------....((((((((((....-......)).))))))))..........(((((.(((.....))).))))).--------- ( -14.30, z-score =  -2.66, R)
>droSim1.chr2L 6241174 69 + 22036055
--------UAUUUACACACGCACACA-CGUACAUGCCGUGUGUAUUAUUCAAUUGGAUAAAGAAUUUAUCUCUAUCUC---------
--------....((((((((((....-......)).))))))))..........(((((.(((.....))).))))).--------- ( -14.30, z-score =  -2.66, R)
>droMoj3.scaffold_6540 14898127 84 + 34148556
-UAGCACACACACACGCACACGCAUA-CACAAAUGUAGCACAUAUUUAUAACUUGGCCAAAAAUUAU-UGUAGAGCUCAGUCACUUC
-..((..........((....)).((-((....))))))...........(((.((((((......)-))....))).)))...... (  -6.90, z-score =   1.43, R)
>consensus
____U_CACACACACACACACACACA_CGUACAUGCAGUGUGUAUUAUUCAAUUGGAUAAAGAAUAU_UCUCUAUCUC_________
.................((((((..............)))))).((((((....))))))........................... ( -5.92 =  -6.39 +   0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 6,455,160 – 6,455,237
Length 77
Sequences 6
Columns 87
Reading direction reverse
Mean pairwise identity 68.08
Shannon entropy 0.55622
G+C content 0.36599
Mean single sequence MFE -21.14
Consensus MFE -12.05
Energy contribution -10.67
Covariance contribution -1.38
Combinations/Pair 1.67
Mean z-score -2.48
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.25
SVM RNA-class probability 0.998059
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 6455160 77 - 23011544
---------GAGAUAGAGAUAGAUUCUUUAUCCAAUUGAAUAAUACACACUGCAUGUACG-UGUGCGUGUGUGUGCGUGUGUAAAUA
---------(.((((((((.....)))))))))..........(((((((((((..((((-....))))..)))).))))))).... ( -27.50, z-score =  -4.32, R)
>droYak2.chr2L 15861946 72 + 22324452
---------GAGAUAGA---CGAUUCUUUAUCCAAUUGAAUAAUACACACUGUAUGUACA-UACGUGUGUGUGUGUUUGUGAAUG--
---------...(((((---(.((((...........)))).(((((((((((((....)-)))).)))))))))))))).....-- ( -18.20, z-score =  -1.60, R)
>droEre2.scaffold_4929 15363549 73 - 26641161
---------GAGAUGGA---CUAUUCUUUAUCCAAUUGAAUAAUACACACUGCAUGUACAGUGAGUGUGUGUGUGGGUAUGAAUG--
---------........---.(((((..((((((........(((((((((.(((.....)))))))))))).)))))).)))))-- ( -20.60, z-score =  -1.91, R)
>droSec1.super_5 4504341 69 - 5866729
---------GAGAUAGAGAUAAAUUCUUUAUCCAAUUGAAUAAUACACACGGCAUGUACG-UGUGUGCGUGUGUAAAUA--------
---------(.((((((((.....)))))))))..........((((((((((((.....-.)))).))))))))....-------- ( -22.00, z-score =  -4.05, R)
>droSim1.chr2L 6241174 69 - 22036055
---------GAGAUAGAGAUAAAUUCUUUAUCCAAUUGAAUAAUACACACGGCAUGUACG-UGUGUGCGUGUGUAAAUA--------
---------(.((((((((.....)))))))))..........((((((((((((.....-.)))).))))))))....-------- ( -22.00, z-score =  -4.05, R)
>droMoj3.scaffold_6540 14898127 84 - 34148556
GAAGUGACUGAGCUCUACA-AUAAUUUUUGGCCAAGUUAUAAAUAUGUGCUACAUUUGUG-UAUGCGUGUGCGUGUGUGUGUGCUA-
...((((((..(((.....-.........)))..))))))......(..((((((.((..-((....))..)).))))).)..)..- ( -16.54, z-score =   1.05, R)
>consensus
_________GAGAUAGAGA_AAAUUCUUUAUCCAAUUGAAUAAUACACACUGCAUGUACG_UGUGUGUGUGUGUGAGUAUG_A____
.........(.((((((.........)))))))..........(((((((.(((((((...))))))))))))))............ (-12.05 = -10.67 +  -1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:21:20 2011