Locus 5427

Sequence ID dm3.chr2R
Location 20,236,350 – 20,236,454
Length 104
Max. P 0.999456
window7446 window7447

overview

Window 6

Location 20,236,350 – 20,236,454
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.26
Shannon entropy 0.45033
G+C content 0.43534
Mean single sequence MFE -35.36
Consensus MFE -15.78
Energy contribution -16.14
Covariance contribution 0.36
Combinations/Pair 1.23
Mean z-score -4.13
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.91
SVM RNA-class probability 0.999456
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20236350 104 + 21146708
UAUGAUCCACUGGGCUUCGCCUUCUGGCUUUUACUUGCCACUAGCGUAAA---------GUACAG-----GCUAGUUAACGAAGUUCCA-U-AGACCACACCAAAAUGAAUGGACCACUU
..((.((((.(((((((((....(((((((.(((((..(......)..))---------))).))-----)))))....))))).))))-.-......((......))..)))).))... ( -26.50, z-score =  -1.61, R)
>droSim1.chr2R 18695550 104 + 19596830
UAUGGUCCACGGAGCUUCGCACUCUGGCUUUUACUUUCCAAUAGCGCUUA---------UUGGAG-----GCUAGUUAACGAAGUUCCA-U-AGACCACACCAAAAUGAUUGAACCACUU
..(((((...(((((((((....((((((.......((((((((...)))---------))))))-----)))))....))))))))).-.-.)))))...................... ( -33.91, z-score =  -4.42, R)
>droSec1.super_23 115305 104 + 989336
UAUGGUCCACUGGGCUUCGCAAUCUGGCCUUUACUUUCCAAUAGCGUAAA---------GUAGAG-----GCUAGUUAACGAAGUUCCA-U-AGACCACACCAAAAUAAUUGAACCACUU
..(((((...(((((((((....((((((((((((((.(......).)))---------))))))-----)))))....))))).))))-.-.)))))...................... ( -37.40, z-score =  -5.66, R)
>droYak2.chr2R 20204496 112 + 21139217
UAUGGUCCACCGGGCUUUGUAUUCUGGCGCUUACUUUACAAAAGU-UAAA----UGAUUGUAGAGUAACUGCUAGCUUACAAAGUUCAAAUGGAACCCCUCCAAAAUGACU---CCCUUU
...((((....((((((((((..((((((.(((((((((((....-....----...))))))))))).))))))..))))))))))...((((.....))))....))))---...... ( -38.10, z-score =  -5.29, R)
>droEre2.scaffold_4845 21602492 118 + 22589142
UGUGGUCCACUGGGCUUUGUAUUCUGGCUCUUACUUUCCAAACGCAUAGAACGGCGAUUGUAGAGUAACUGCCAGCUUGCGAAGUUCCA-UUAGAACACUCCGAAGUGAUUGAACCUUU-
...(((.((.(((((((((((..(((((..(((((((.(((.(((........))).))).)))))))..)))))..))))))).))))-......((((....))))..)).)))...- ( -40.90, z-score =  -3.65, R)
>consensus
UAUGGUCCACUGGGCUUCGCAUUCUGGCUUUUACUUUCCAAUAGCGUAAA_________GUAGAG_____GCUAGUUAACGAAGUUCCA_U_AGACCACACCAAAAUGAUUGAACCACUU
..(((((....((((((((....(((((.....((((........................)))).....)))))....))))))))......)))))...................... (-15.78 = -16.14 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,236,350 – 20,236,454
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.26
Shannon entropy 0.45033
G+C content 0.43534
Mean single sequence MFE -34.02
Consensus MFE -13.65
Energy contribution -13.61
Covariance contribution -0.04
Combinations/Pair 1.40
Mean z-score -2.51
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.07
SVM RNA-class probability 0.885673
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20236350 104 - 21146708
AAGUGGUCCAUUCAUUUUGGUGUGGUCU-A-UGGAACUUCGUUAACUAGC-----CUGUAC---------UUUACGCUAGUGGCAAGUAAAAGCCAGAAGGCGAAGCCCAGUGGAUCAUA
..(((((((((((((......))))...-.-(((..(((((((.((((((-----.((...---------..)).))))))(((........)))....))))))).)))))))))))). ( -33.80, z-score =  -2.23, R)
>droSim1.chr2R 18695550 104 - 19596830
AAGUGGUUCAAUCAUUUUGGUGUGGUCU-A-UGGAACUUCGUUAACUAGC-----CUCCAA---------UAAGCGCUAUUGGAAAGUAAAAGCCAGAGUGCGAAGCUCCGUGGACCAUA
(((((((...)))))))...((((((((-(-((((.((((((...((.((-----.(((((---------((.....)))))))........)).))...)))))).))))))))))))) ( -36.50, z-score =  -3.75, R)
>droSec1.super_23 115305 104 - 989336
AAGUGGUUCAAUUAUUUUGGUGUGGUCU-A-UGGAACUUCGUUAACUAGC-----CUCUAC---------UUUACGCUAUUGGAAAGUAAAGGCCAGAUUGCGAAGCCCAGUGGACCAUA
.......((((.....))))((((((((-(-(((..((((((...((.((-----((.(((---------(((.((....)).)))))).)))).))...)))))).))).))))))))) ( -34.60, z-score =  -2.97, R)
>droYak2.chr2R 20204496 112 - 21139217
AAAGGG---AGUCAUUUUGGAGGGGUUCCAUUUGAACUUUGUAAGCUAGCAGUUACUCUACAAUCA----UUUA-ACUUUUGUAAAGUAAGCGCCAGAAUACAAAGCCCGGUGGACCAUA
...(((---..(((...(((((...)))))..))).(((((((..((.((..(((((.(((((...----....-....))))).)))))..)).))..))))))))))((....))... ( -29.90, z-score =  -1.51, R)
>droEre2.scaffold_4845 21602492 118 - 22589142
-AAAGGUUCAAUCACUUCGGAGUGUUCUAA-UGGAACUUCGCAAGCUGGCAGUUACUCUACAAUCGCCGUUCUAUGCGUUUGGAAAGUAAGAGCCAGAAUACAAAGCCCAGUGGACCACA
-...((((((....(((((((((.(((...-.))))))))).)))(((((..(((((...(((.(((........))).)))...)))))..)))))..............))))))... ( -35.30, z-score =  -2.10, R)
>consensus
AAGUGGUUCAAUCAUUUUGGUGUGGUCU_A_UGGAACUUCGUUAACUAGC_____CUCUAC_________UUUACGCUAUUGGAAAGUAAAAGCCAGAAUGCGAAGCCCAGUGGACCAUA
.....................(((((((...(((..((((((...((.((..........................................)).))...)))))).)))..))))))). (-13.65 = -13.61 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:48:07 2011