Locus 3718

Sequence ID 3R_DroMel_CAF1
Location 10,100,018 – 10,100,114
Length 96
Max. P 0.936281
window5955 window5956

overview

Window 5

Location 10,100,018 – 10,100,114
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 81.32
Mean single sequence MFE -33.38
Consensus MFE -23.84
Energy contribution -25.42
Covariance contribution 1.57
Combinations/Pair 1.16
Mean z-score -2.18
Structure conservation index 0.71
SVM decision value 0.84
SVM RNA-class probability 0.864278
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10100018 96 + 27905053
UAAAUGUUGCCUGCUGGUUGUCUGCCUGGAAUUGCAGACGAGGUUGCCUCAGGACAAAGUUUCCAGCUGCACUACUAUUUGGCUUCAAGGUGCCAA
.......(((..(((((..((((((........))))))((((...))))............))))).))).......(((((........))))) ( -30.40)
>DroVir_CAF1 13634 81 + 1
CAAAUGAUCCGCUC---UUAUCCGUUUGGAAUUGCAGCCGCGGCUGGCGCAGCACAAAGCU------------GCUGUUUACCUUCGCGGUGGCAA
.......((((..(---......)..)))).((((.(((((((..((.((((((......)------------)))))...)).))))))).)))) ( -28.30)
>DroSec_CAF1 9317 96 + 1
UGAAUGGUGCCUGCUGGUUGUCUGCCUGGAAUUGCAGACGAGGUUGCCUCAAAACAAAGUUUCCAGCUGCACUACUAUUUGGCUUCAGGGUGCCAA
....((((((..(((((..((((((........))))))((((...))))............))))).))))))....(((((........))))) ( -35.80)
>DroSim_CAF1 5506 96 + 1
UGAAUGGUGCCUGCUGGUUGUCUGCCUGGAAUUGCAGACGAGGUUGCCUCAAAACAAAGUUUCCAGCUGCACUACUAUUUGGCUUCAGGGUGCCAA
....((((((..(((((..((((((........))))))((((...))))............))))).))))))....(((((........))))) ( -35.80)
>DroEre_CAF1 9360 96 + 1
UAAAUGGUGCCGGCUGGGUGUCUGCCUGGAAUUGCAGACGAGGUUGCCUCAGUACAAAAUUUCCAGCUGCACUGCUAUUUGGCUUCAGGUUGCCAA
.....(((((.(((((((.((((((........))))))((((...))))...........)))))))))))).....(((((........))))) ( -37.00)
>DroYak_CAF1 9369 96 + 1
UAAAUGGUGCCUGCUGGGUGUCUGCCUGGAAUUGCAGACGUGGUUGCCUCAGAACAAAAUUUCCAGCUGCACUGCUACUGGGCUUCAGGGUGCCAA
....(((..((((((.(((((((((........))))))(..((((.....(((......)))))))..)......))).)))....)))..))). ( -33.00)
>consensus
UAAAUGGUGCCUGCUGGUUGUCUGCCUGGAAUUGCAGACGAGGUUGCCUCAGAACAAAGUUUCCAGCUGCACUACUAUUUGGCUUCAGGGUGCCAA
....((((((..(((((..((((((........))))))(((.....)))............))))).))))))....(((((........))))) (-23.84 = -25.42 +   1.57)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,100,018 – 10,100,114
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 81.32
Mean single sequence MFE -31.85
Consensus MFE -24.66
Energy contribution -25.70
Covariance contribution 1.04
Combinations/Pair 1.22
Mean z-score -2.66
Structure conservation index 0.77
SVM decision value 1.25
SVM RNA-class probability 0.936281
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10100018 96 - 27905053
UUGGCACCUUGAAGCCAAAUAGUAGUGCAGCUGGAAACUUUGUCCUGAGGCAACCUCGUCUGCAAUUCCAGGCAGACAACCAGCAGGCAACAUUUA
(((((........))))).......(((.(((((............((((...))))((((((........))))))..)))))..)))....... ( -32.00)
>DroVir_CAF1 13634 81 - 1
UUGCCACCGCGAAGGUAAACAGC------------AGCUUUGUGCUGCGCCAGCCGCGGCUGCAAUUCCAAACGGAUAA---GAGCGGAUCAUUUG
......((((...........((------------((((.((.((((...)))))).))))))...(((....)))...---..))))........ ( -26.00)
>DroSec_CAF1 9317 96 - 1
UUGGCACCCUGAAGCCAAAUAGUAGUGCAGCUGGAAACUUUGUUUUGAGGCAACCUCGUCUGCAAUUCCAGGCAGACAACCAGCAGGCACCAUUCA
(((((........)))))......((((.(((((............((((...))))((((((........))))))..)))))..))))...... ( -34.70)
>DroSim_CAF1 5506 96 - 1
UUGGCACCCUGAAGCCAAAUAGUAGUGCAGCUGGAAACUUUGUUUUGAGGCAACCUCGUCUGCAAUUCCAGGCAGACAACCAGCAGGCACCAUUCA
(((((........)))))......((((.(((((............((((...))))((((((........))))))..)))))..))))...... ( -34.70)
>DroEre_CAF1 9360 96 - 1
UUGGCAACCUGAAGCCAAAUAGCAGUGCAGCUGGAAAUUUUGUACUGAGGCAACCUCGUCUGCAAUUCCAGGCAGACACCCAGCCGGCACCAUUUA
(((((........)))))......((((.(((((............((((...))))((((((........))))))..)))))..))))...... ( -34.50)
>DroYak_CAF1 9369 96 - 1
UUGGCACCCUGAAGCCCAGUAGCAGUGCAGCUGGAAAUUUUGUUCUGAGGCAACCACGUCUGCAAUUCCAGGCAGACACCCAGCAGGCACCAUUUA
..(((........)))........((((.(((((...........((.(....))).((((((........))))))..)))))..))))...... ( -29.20)
>consensus
UUGGCACCCUGAAGCCAAAUAGCAGUGCAGCUGGAAACUUUGUUCUGAGGCAACCUCGUCUGCAAUUCCAGGCAGACAACCAGCAGGCACCAUUUA
(((((........)))))......((((.(((((............(((.....)))((((((........))))))..)))))..))))...... (-24.66 = -25.70 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:16 2006