Locus 5171

Sequence ID dm3.chr2R
Location 18,292,415 – 18,292,537
Length 122
Max. P 0.971228
window7097 window7098

overview

Window 7

Location 18,292,415 – 18,292,531
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.21
Shannon entropy 0.48630
G+C content 0.34842
Mean single sequence MFE -24.40
Consensus MFE -14.39
Energy contribution -15.71
Covariance contribution 1.32
Combinations/Pair 1.23
Mean z-score -1.70
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.44
SVM RNA-class probability 0.938099
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 18292415 116 + 21146708
---GGAUUCAUU-GGCAGUAGAAGAACUGCAAUGAUUCACUGAUAUGUUUGGGAAUCAGUUACACGGAAUUAGUAUAUCCACAAAAGUUCCCCAAAUAUUAAUUGAUUCACAAACAUUAC
---.((.(((((-(.((((......)))))))))).))......(((((((.((((((((((...((((((.((......))...))))))........)))))))))).)))))))... ( -30.90, z-score =  -3.50, R)
>droSim1.chr2R 16892194 116 + 19596830
---GGAUUCAUU-GGCAGUAAAAGAACUGCAAUGAAUCACUGAGAUCUUUGGGAAUUAGUUAUACGGAAUAAGUAUCCCCACAAAAGUCCCCCAAAUGUUAAGUGAUUCAAAGAUAUUAC
---.........-.(((((......)))))..(((((((((..(((.((((((............(((.......)))............)))))).))).))))))))).......... ( -28.15, z-score =  -2.41, R)
>droSec1.super_9 1600437 100 + 3197100
--------------------AAGGAACUGCAAUGAAUCACUGAGAUGUUUGGGUAUUAGUUAUACGGAAUAAGUAUCCCCACAAAAGUCCCCCAAAUGUUAAGUGAUUCAAAGAUAUUAC
--------------------............(((((((((..((((((((((............(((.......)))............)))))))))).))))))))).......... ( -24.35, z-score =  -2.55, R)
>droYak2.chr2R 18042089 111 + 21139217
---AGAUUCAUUCGAAAGUAAAAGAACUGGCAUGAAUCAUUGGGAUGUUUGGGAAUUAGUUAUACGGAAUUAGUAUCUCC---AGGUUCUUCCAAAUAUUAAGUGAUUCACAAAUAU---
---..........(..(((......)))..).(((((((((..((((((((((((((.(..((((.......))))..).---.)))))..))))))))).))))))))).......--- ( -24.70, z-score =  -1.50, R)
>droEre2.scaffold_4845 12432864 114 + 22589142
AGAACUUCCAUUUGAAAGUAAGGGAACUGUUGUGAAGCAUUAAGUUAUUCGUAAACAAGUUAUCCGGAAUUAGUAUCCCC---AGGUUACCCCAAAUAUUAAGUGAAUCACAAAGAU---
........(((((((......(((((((.(((((((((.....))..)))))))...))))....(((.......)))..---......)))......)))))))............--- ( -13.90, z-score =   1.47, R)
>consensus
___AGAUUCAUU_GAAAGUAAAAGAACUGCAAUGAAUCACUGAGAUGUUUGGGAAUUAGUUAUACGGAAUUAGUAUCCCCACAAAAGUCCCCCAAAUAUUAAGUGAUUCACAAAUAUUAC
................................(((((((((..((((((((((............(((.......)))............)))))))))).))))))))).......... (-14.39 = -15.71 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,292,418 – 18,292,537
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 71.14
Shannon entropy 0.50334
G+C content 0.34470
Mean single sequence MFE -24.18
Consensus MFE -14.39
Energy contribution -15.71
Covariance contribution 1.32
Combinations/Pair 1.23
Mean z-score -1.80
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.85
SVM RNA-class probability 0.971228
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 18292418 119 + 21146708
-UUCAUUGGCAGUAGAAGAACUGCAAUGAUUCACUGAUAUGUUUGGGAAUCAGUUACACGGAAUUAGUAUAUCCACAAAAGUUCCCCAAAUAUUAAUUGAUUCACAAACAUUACUCAUAG
-.((((((.((((......)))))))))).....(((.(((((((.((((((((((...((((((.((......))...))))))........)))))))))).)))))))...)))... ( -29.80, z-score =  -3.44, R)
>droSim1.chr2R 16892197 119 + 19596830
-UUCAUUGGCAGUAAAAGAACUGCAAUGAAUCACUGAGAUCUUUGGGAAUUAGUUAUACGGAAUAAGUAUCCCCACAAAAGUCCCCCAAAUGUUAAGUGAUUCAAAGAUAUUACUCAUAG
-.......(((((......)))))..(((((((((..(((.((((((............(((.......)))............)))))).))).)))))))))................ ( -28.15, z-score =  -2.60, R)
>droSec1.super_9 1600437 106 + 3197100
--------------AAGGAACUGCAAUGAAUCACUGAGAUGUUUGGGUAUUAGUUAUACGGAAUAAGUAUCCCCACAAAAGUCCCCCAAAUGUUAAGUGAUUCAAAGAUAUUACUCAUAG
--------------............(((((((((..((((((((((............(((.......)))............)))))))))).)))))))))................ ( -24.35, z-score =  -2.04, R)
>droYak2.chr2R 18042092 108 + 21139217
UUCAUUCGAAAGUAAAAGAACUGGCAUGAAUCAUUGGGAUGUUUGGGAAUUAGUUAUACGGAAUUAGUAUCUCCA---GGUUCUUCCAAAUAUUAAGUGAUUCACAAAUAU---------
.......(..(((......)))..).(((((((((..((((((((((((((.(..((((.......))))..)..---)))))..))))))))).))))))))).......--------- ( -24.70, z-score =  -1.86, R)
>droEre2.scaffold_4845 12432870 108 + 22589142
UCCAUUUGAAAGUAAGGGAACUGUUGUGAAGCAUUAAGUUAUUCGUAAACAAGUUAUCCGGAAUUAGUAUCCCCA---GGUUACCCCAAAUAUUAAGUGAAUCACAAAGAU---------
..(((((((......(((((((.(((((((((.....))..)))))))...))))....(((.......)))...---.....)))......)))))))............--------- ( -13.90, z-score =   0.93, R)
>consensus
_UCAAUUGAAAGUAAAAGAACUGCAAUGAAUCACUGAGAUGUUUGGGAAUUAGUUAUACGGAAUUAGUAUCCCCACAAAAGUCCCCCAAAUAUUAAGUGAUUCACAAAUAUUACUCAUAG
..........................(((((((((..((((((((((............(((.......)))............)))))))))).)))))))))................ (-14.39 = -15.71 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:43:13 2011