Locus 8165

Sequence ID X_DroMel_CAF1
Location 20,320,778 – 20,320,887
Length 109
Max. P 0.718423
window13415 window13416

overview

Window 5

Location 20,320,778 – 20,320,887
Length 109
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 84.88
Mean single sequence MFE -26.73
Consensus MFE -19.14
Energy contribution -19.36
Covariance contribution 0.23
Combinations/Pair 1.08
Mean z-score -2.15
Structure conservation index 0.72
SVM decision value 0.39
SVM RNA-class probability 0.718423
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20320778 109 + 22224390
GCGCGACAAUUUUCAUUUGGGCCUGUGCAAAAAA--ACCACAAAUACAGAGUAAAAAUCUUUAUUUCAUGCACGUUGCAUUUUGCACUCCAAU----UGUUGUUGCCGCUUCAGC
((((((((((......(((((...((((((((..--.....(((((.(((.......))).)))))..(((.....)))))))))))))))).----.))))))).)))...... ( -28.40)
>DroEre_CAF1 44129 106 + 1
GCGCGACAAUUUU-AUUUGUGCCUGUGCAAAAAAAAAAAAC--------AGUGAAUAUCUUAAUUUCAUGCACGUUGCAUUUUGCAUUCAAAUUUGUUGUUGUUGCCGCUUCUGC
((((((((((...-(((((.....((((((((.........--------.(((((.........)))))((.....)).)))))))).))))).....))))))).)))...... ( -25.30)
>DroYak_CAF1 44042 114 + 1
GGGCGACAAUUUU-AUUUGUGCCUGUGCAAAAAAAAACAACAAAAACAUAGUGAAUAUCUUAAUUUCAUGCACGUUGCAUUUUGCAUUCCAAUUUGUUGUUGUUGCCGCUUCUGC
.(((((((((..(-(....((...((((((((..................(((((.........)))))((.....)).))))))))..))...))..)))))))))((....)) ( -26.50)
>consensus
GCGCGACAAUUUU_AUUUGUGCCUGUGCAAAAAAAAACAACAAA_ACA_AGUGAAUAUCUUAAUUUCAUGCACGUUGCAUUUUGCAUUCCAAUUUGUUGUUGUUGCCGCUUCUGC
(.((((((((.........((...((((((((..................(((((.........)))))((.....)).)))))))).))........)))))))))........ (-19.14 = -19.36 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,320,778 – 20,320,887
Length 109
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 84.88
Mean single sequence MFE -26.80
Consensus MFE -18.66
Energy contribution -18.99
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.70
SVM decision value 0.17
SVM RNA-class probability 0.617605
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20320778 109 - 22224390
GCUGAAGCGGCAACAACA----AUUGGAGUGCAAAAUGCAACGUGCAUGAAAUAAAGAUUUUUACUCUGUAUUUGUGGU--UUUUUUGCACAGGCCCAAAUGAAAAUUGUCGCGC
......(((((((...((----.((((.(((((((((((.....)))).(((((.(((.......))).))))).....--...)))))))....)))).))....))))))).. ( -27.50)
>DroEre_CAF1 44129 106 - 1
GCAGAAGCGGCAACAACAACAAAUUUGAAUGCAAAAUGCAACGUGCAUGAAAUUAAGAUAUUCACU--------GUUUUUUUUUUUUGCACAGGCACAAAU-AAAAUUGUCGCGC
......(((((((..........((((....)))).(((...(((((.((((..((((((.....)--------)))))..)))).)))))..))).....-....))))))).. ( -25.50)
>DroYak_CAF1 44042 114 - 1
GCAGAAGCGGCAACAACAACAAAUUGGAAUGCAAAAUGCAACGUGCAUGAAAUUAAGAUAUUCACUAUGUUUUUGUUGUUUUUUUUUGCACAGGCACAAAU-AAAAUUGUCGCCC
(((((((.((((((((.((((.....((((((...((((.....))))........).)))))....)))).))))))))..)))))))...(((((((..-....)))).))). ( -27.40)
>consensus
GCAGAAGCGGCAACAACAACAAAUUGGAAUGCAAAAUGCAACGUGCAUGAAAUUAAGAUAUUCACU_UGU_UUUGUUGUUUUUUUUUGCACAGGCACAAAU_AAAAUUGUCGCGC
......(((((((................(((.....)))..(((((.((((....(((...............)))....)))).)))))...............))))))).. (-18.66 = -18.99 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:22 2006