Locus 5580

Sequence ID 3L_DroMel_CAF1
Location 15,309,921 – 15,310,032
Length 111
Max. P 0.846328
window8825 window8826

overview

Window 5

Location 15,309,921 – 15,310,032
Length 111
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 77.20
Mean single sequence MFE -22.25
Consensus MFE -16.52
Energy contribution -16.50
Covariance contribution -0.02
Combinations/Pair 1.19
Mean z-score -1.31
Structure conservation index 0.74
SVM decision value 0.77
SVM RNA-class probability 0.846328
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15309921 111 + 23771897
UGUGUUUGAAUGCACUUUGAGUGCAUUUCGCGAGCCACUUGAUGCAACCGCAAGCAAUUCAUAUUCAUAUGAAAAGUACUCAACAAUCA-CCAC------ACGGACUGAGAAAAAAGC
.((((..((((((((.....))))))))...(((..((((..(((....))).....((((((....)))))))))).)))........-..))------))................ ( -22.70)
>DroPse_CAF1 44758 84 + 1
UGUUUUUGAAUGCACUUUGAGUGCAUUUCGCGUACCACUUAAUGCAACCGCAAGCCAUUCAUAUUCAUAUGAAAAGUACUCGAA----------------------------------
........(((((((.....)))))))(((.((((.......(((....))).....((((((....))))))..)))).))).---------------------------------- ( -20.40)
>DroEre_CAF1 41755 116 + 1
UGUGUUUGAAUGCACUUUGAGUGCAUUUCGCGAGCCACUUGAUGCAACCGCAAGCAAUUCAUAUUCAUAUGCAAAGUACUCAACAAUCA-CCACACUGACACGGACUGAGAAA-AAUC
.(((((.((((((((.....))))))))...(((..((((..(((....))).(((.............))).)))).)))........-.......)))))...........-.... ( -21.72)
>DroYak_CAF1 39368 111 + 1
UGUGUUUGAAUGCACUUUGAGUGCAUUUCGCGAGCCACUUGAUGCAACCGCAAGCAAUUCAUAUUCAUAUGGAAAGUACUCAACAAUCA-CCGC------ACGGACUGAGAAAAAAGC
.((((.(((.((....((((((((.(((((((.((........))...)))........((((....)))))))))))))))))).)))-..))------))................ ( -22.70)
>DroAna_CAF1 39915 112 + 1
UGUGUUUGAAUGCAUUUGGAGUGCAUUUCACGUGCCACUUGAUGCAACCGCAAGCAAUUCAUAUUCAUACGAAAGGUACUCCACAAACAAACAA------AUGCACAGUGAAUAAAAU
((((((((..((....((((((((.((((..(((.....((((((........)))..)))....)))..)))).))))))))....))..)))------)))))............. ( -25.60)
>DroPer_CAF1 43530 84 + 1
UGUUUUUGAAUGCACUUUGAGUGCAUUUCGCGUACCACUUAAUGCAACCGCAAGCCAUUCAUAUUCAUAUGAAAAGUACUCGAA----------------------------------
........(((((((.....)))))))(((.((((.......(((....))).....((((((....))))))..)))).))).---------------------------------- ( -20.40)
>consensus
UGUGUUUGAAUGCACUUUGAGUGCAUUUCGCGAGCCACUUGAUGCAACCGCAAGCAAUUCAUAUUCAUAUGAAAAGUACUCAACAAUCA_CCAC______ACGGACUGAGAAA_AA_C
.((((......)))).((((((((..................(((....))).....((((((....))))))..))))))))................................... (-16.52 = -16.50 +  -0.02)

alignment

Postscript

secondary structure

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dotplot

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Window 6

Location 15,309,921 – 15,310,032
Length 111
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 77.20
Mean single sequence MFE -25.43
Consensus MFE -19.43
Energy contribution -19.77
Covariance contribution 0.33
Combinations/Pair 1.12
Mean z-score -1.09
Structure conservation index 0.76
SVM decision value 0.50
SVM RNA-class probability 0.760854
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15309921 111 - 23771897
GCUUUUUUCUCAGUCCGU------GUGG-UGAUUGUUGAGUACUUUUCAUAUGAAUAUGAAUUGCUUGCGGUUGCAUCAAGUGGCUCGCGAAAUGCACUCAAAGUGCAUUCAAACACA
................((------((..-(((.((((((((....((((((....))))))..(((((((((..(.....)..)).)))))...)))))))....))).))).)))). ( -29.10)
>DroPse_CAF1 44758 84 - 1
----------------------------------UUCGAGUACUUUUCAUAUGAAUAUGAAUGGCUUGCGGUUGCAUUAAGUGGUACGCGAAAUGCACUCAAAGUGCAUUCAAAAACA
----------------------------------.(((.(((((.((((((....))))))..((((((....)))...)))))))).)))(((((((.....)))))))........ ( -21.00)
>DroEre_CAF1 41755 116 - 1
GAUU-UUUCUCAGUCCGUGUCAGUGUGG-UGAUUGUUGAGUACUUUGCAUAUGAAUAUGAAUUGCUUGCGGUUGCAUCAAGUGGCUCGCGAAAUGCACUCAAAGUGCAUUCAAACACA
....-.....((((.((((((((((..(-..(((....)))...)..))).)).))))).)))).(((((((..(.....)..)).)))))(((((((.....)))))))........ ( -27.30)
>DroYak_CAF1 39368 111 - 1
GCUUUUUUCUCAGUCCGU------GCGG-UGAUUGUUGAGUACUUUCCAUAUGAAUAUGAAUUGCUUGCGGUUGCAUCAAGUGGCUCGCGAAAUGCACUCAAAGUGCAUUCAAACACA
................((------(...-(((.((((((((......((((....))))....(((((((((..(.....)..)).)))))...)))))))....))).)))..))). ( -24.70)
>DroAna_CAF1 39915 112 - 1
AUUUUAUUCACUGUGCAU------UUGUUUGUUUGUGGAGUACCUUUCGUAUGAAUAUGAAUUGCUUGCGGUUGCAUCAAGUGGCACGUGAAAUGCACUCCAAAUGCAUUCAAACACA
............(((..(------(((..(((...((((((....((((((....))))))..(((..((((..(.....)..)).))..)...))))))))...)))..))))))). ( -29.50)
>DroPer_CAF1 43530 84 - 1
----------------------------------UUCGAGUACUUUUCAUAUGAAUAUGAAUGGCUUGCGGUUGCAUUAAGUGGUACGCGAAAUGCACUCAAAGUGCAUUCAAAAACA
----------------------------------.(((.(((((.((((((....))))))..((((((....)))...)))))))).)))(((((((.....)))))))........ ( -21.00)
>consensus
G_UU_UUUCUCAGUCCGU______GUGG_UGAUUGUUGAGUACUUUUCAUAUGAAUAUGAAUUGCUUGCGGUUGCAUCAAGUGGCACGCGAAAUGCACUCAAAGUGCAUUCAAACACA
.....................................(((((...((((((....)))))).)))))(((((..(.....)..)).)))(((.(((((.....))))))))....... (-19.43 = -19.77 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:55 2006