Locus 2275

Sequence ID dm3.chr2L
Location 17,547,086 – 17,547,179
Length 93
Max. P 0.988229
window3136 window3137

overview

Window 6

Location 17,547,086 – 17,547,179
Length 93
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 72.27
Shannon entropy 0.54568
G+C content 0.40051
Mean single sequence MFE -24.15
Consensus MFE -14.89
Energy contribution -13.90
Covariance contribution -0.99
Combinations/Pair 1.57
Mean z-score -1.79
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.31
SVM RNA-class probability 0.988229
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 17547086 93 + 23011544
ACUUUUUGGCUGACUUAUGCAGAAAGUUACCUGAGUCAUCAGGUAACCUCAACUGUGAUGCU-CACUGAAAAGGCAGAUGAUUGCUUUGAUUCG
.(((((..(.(((.....((((...(((((((((....))))))))).....)))).....)-)))..)))))((((....))))......... ( -26.00, z-score =  -1.94, R)
>droSim1.chr2L 17251237 93 + 22036055
ACUUUUUGGCUGACUUAUGCAGAAAGUUACCUGAGUCAUCAGGUAACCUCAACUGUAAUGCU-CACUGAAAAGGCAGAUGAUUGCUUUGCUUCG
.(((((..(.(((....(((((...(((((((((....))))))))).....)))))....)-)))..)))))(((((.......))))).... ( -28.70, z-score =  -2.87, R)
>droSec1.super_7 1188517 93 + 3727775
ACUUUUUGGCUGACUUAUGCAGAAAGUUACCUGAGUCAUCAGGUAACCUCAACUGUAAUGCU-CACUGAAAAGGCAGAUGAUUGCUUUGCUUCG
.(((((..(.(((....(((((...(((((((((....))))))))).....)))))....)-)))..)))))(((((.......))))).... ( -28.70, z-score =  -2.87, R)
>droYak2.chr2R 17588153 92 - 21139217
ACUUUUUGGCUGACUUUUGCAGAAAGUUACCUGACUCAUCAGGUAAGCUCAACGGCAUUGCU-CGCCGAAAAGGUUGAUGAUGGCUUUGCUUC-
.(((((((((.((.(..(((....((((((((((....)))))).)))).....)))..).)-))))))))))....................- ( -26.80, z-score =  -1.42, R)
>droEre2.scaffold_4845 15888520 79 - 22589142
ACUUUUUGGCUGACUUUUGCAGAAAGUUACCUGACUCAUCAGGUAACCUCAAC-----UGUU-C-------AGGUGGAUGAUGGUUUUGCCU--
.......(((.((((...((((...(((((((((....))))))))).....)-----)))(-(-------(......))).))))..))).-- ( -21.40, z-score =  -1.14, R)
>droWil1.scaffold_180764 958502 93 + 3949147
AAGUAGUUUUUGA-UUAAAAAUAAAAUCAUUUUAGAAAUUGAGAAAAAACUAUAGGAACAAUAUUCUGUAAGGGCAUGCCAUAGUCAUGUUUAG
..(((((((((..-((((...((((.....))))....))))..))))))))).((((.....))))....((((((((....).))))))).. ( -13.30, z-score =  -0.50, R)
>consensus
ACUUUUUGGCUGACUUAUGCAGAAAGUUACCUGAGUCAUCAGGUAACCUCAACUGUAAUGCU_CACUGAAAAGGCAGAUGAUUGCUUUGCUUCG
.(((((((.(........))))))))((((((((....)))))))).........................(((((((.......))))))).. (-14.89 = -13.90 +  -0.99)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 17,547,086 – 17,547,179
Length 93
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 72.27
Shannon entropy 0.54568
G+C content 0.40051
Mean single sequence MFE -20.57
Consensus MFE -10.94
Energy contribution -11.75
Covariance contribution 0.81
Combinations/Pair 1.21
Mean z-score -1.33
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.87
SVM RNA-class probability 0.840150
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 17547086 93 - 23011544
CGAAUCAAAGCAAUCAUCUGCCUUUUCAGUG-AGCAUCACAGUUGAGGUUACCUGAUGACUCAGGUAACUUUCUGCAUAAGUCAGCCAAAAAGU
.........(((......)))(((((..((.-.((....(((..((((((((((((....))))))))))))))).....))..))..))))). ( -22.70, z-score =  -1.44, R)
>droSim1.chr2L 17251237 93 - 22036055
CGAAGCAAAGCAAUCAUCUGCCUUUUCAGUG-AGCAUUACAGUUGAGGUUACCUGAUGACUCAGGUAACUUUCUGCAUAAGUCAGCCAAAAAGU
....((...((..(((.(((......)))))-)))....(((..((((((((((((....))))))))))))))).........))........ ( -22.90, z-score =  -1.16, R)
>droSec1.super_7 1188517 93 - 3727775
CGAAGCAAAGCAAUCAUCUGCCUUUUCAGUG-AGCAUUACAGUUGAGGUUACCUGAUGACUCAGGUAACUUUCUGCAUAAGUCAGCCAAAAAGU
....((...((..(((.(((......)))))-)))....(((..((((((((((((....))))))))))))))).........))........ ( -22.90, z-score =  -1.16, R)
>droYak2.chr2R 17588153 92 + 21139217
-GAAGCAAAGCCAUCAUCAACCUUUUCGGCG-AGCAAUGCCGUUGAGCUUACCUGAUGAGUCAGGUAACUUUCUGCAAAAGUCAGCCAAAAAGU
-....................(((((.(((.-.((..(((.(..(((.((((((((....))))))))))).).)))...))..))).))))). ( -24.40, z-score =  -1.64, R)
>droEre2.scaffold_4845 15888520 79 + 22589142
--AGGCAAAACCAUCAUCCACCU-------G-AACA-----GUUGAGGUUACCUGAUGAGUCAGGUAACUUUCUGCAAAAGUCAGCCAAAAAGU
--.(((.......(((......)-------)-).((-----(..((((((((((((....))))))))))))))).........)))....... ( -23.20, z-score =  -2.96, R)
>droWil1.scaffold_180764 958502 93 - 3949147
CUAAACAUGACUAUGGCAUGCCCUUACAGAAUAUUGUUCCUAUAGUUUUUUCUCAAUUUCUAAAAUGAUUUUAUUUUUAA-UCAAAAACUACUU
........((((((((...((..............))..))))))))..................(((((........))-))).......... (  -7.34, z-score =   0.40, R)
>consensus
CGAAGCAAAGCAAUCAUCUGCCUUUUCAGUG_AGCAUUACAGUUGAGGUUACCUGAUGACUCAGGUAACUUUCUGCAUAAGUCAGCCAAAAAGU
.........................................((.((((((((((((....))))))))))))..)).................. (-10.94 = -11.75 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:48:11 2011