Locus 2713

Sequence ID 2R_DroMel_CAF1
Location 9,520,494 – 9,520,653
Length 159
Max. P 0.887462
window4489 window4490

overview

Window 9

Location 9,520,494 – 9,520,613
Length 119
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 94.28
Mean single sequence MFE -46.23
Consensus MFE -40.96
Energy contribution -41.03
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -1.97
Structure conservation index 0.89
SVM decision value 0.95
SVM RNA-class probability 0.887462
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9520494 119 - 20766785
GGGCGCCACUGUUGUUGUUCCAUGCCACCAGCAAUGCGGCGCUCAGAAAGGCCAGCCUGCUGGUACAGUGGUAAAAUGCUUAAGUGGCAAGUGCCCCACCAGCGGGAUACACCCCUU-CA
(((((((.(.(((((((...........)))))))).))))))).(((.((....(((((((((...(.((((...((((.....))))..))))).)))))))))......)).))-). ( -47.80)
>DroSec_CAF1 17134 119 - 1
GGGCGCCACUGUUGUUGUUCCAUGCCACCAGCGAUGCGGCGCUCAGAAGAGCCAGCCUGCUGGUACAGUGGUAAAAUGCUAAAGUGGCAAGUGCCCCACCGGCGGGAUACUCCCCUU-CA
(((.((((((...((..((((((...(((((((....(((((((....))))..))))))))))...)))).))...))...)))))).((((.(((......))).)))).)))..-.. ( -47.60)
>DroSim_CAF1 17470 119 - 1
GGGCGCCACUGUUGUUGUUCCAUGCCACCAGCGAUGCGGCGCACAGAAAAGCCAGCCUGGUGGUACAGUGGUAAAAUGCUAAAGUGGCAAGUGCCCCACCGGCGGGAUACUCCCCUU-CA
(((.((((((...((..((((((((((((((....(((((..........))).))))))))))...)))).))...))...)))))).((((.(((......))).)))).)))..-.. ( -46.00)
>DroEre_CAF1 16965 120 - 1
GGGCGCCACUGUUGUUGUUCCAUGCCACCAGCGAUGCGGCGCUCAGAAAAUCCAGCCUGCUGGUACAGUGGUAAAAUGCUAAAGUGGCAAGUGCCCCACCAGCGGGAUACACAACAUACA
(((((((.(.(((((((...........)))))))).)))))))...........(((((((((...(.((((...((((.....))))..))))).))))))))).............. ( -43.50)
>consensus
GGGCGCCACUGUUGUUGUUCCAUGCCACCAGCGAUGCGGCGCUCAGAAAAGCCAGCCUGCUGGUACAGUGGUAAAAUGCUAAAGUGGCAAGUGCCCCACCAGCGGGAUACACCCCUU_CA
(((((((.(.(((((((...........)))))))).)))))))...........(((((((((...(.((((...((((.....))))..))))).))))))))).............. (-40.96 = -41.03 +   0.06)

alignment

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secondary structure

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dotplot

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Window 0

Location 9,520,533 – 9,520,653
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.00
Mean single sequence MFE -40.18
Consensus MFE -35.46
Energy contribution -35.50
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.28
Structure conservation index 0.88
SVM decision value 0.04
SVM RNA-class probability 0.555914
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9520533 120 - 20766785
ACAUGCAACAUUAUCGUCCAUGCUGCUGCAACAUUGCAGAGGGCGCCACUGUUGUUGUUCCAUGCCACCAGCAAUGCGGCGCUCAGAAAGGCCAGCCUGCUGGUACAGUGGUAAAAUGCU
....(((........((((...((((.........)))).))))((((((((....((.....)).(((((((..(((((.((.....))))).)).)))))))))))))))....))). ( -41.90)
>DroSec_CAF1 17173 120 - 1
ACAUGCAACAUUAUCGUCCAUGCUGCUGCAACAUUGCAGAGGGCGCCACUGUUGUUGUUCCAUGCCACCAGCGAUGCGGCGCUCAGAAGAGCCAGCCUGCUGGUACAGUGGUAAAAUGCU
....(((........((((...((((.........)))).))))((((((((....((.....)).(((((((....(((((((....))))..))))))))))))))))))....))). ( -42.90)
>DroSim_CAF1 17509 120 - 1
ACAUGCAACAUUAUCGUCCAUGCUGCUGCAACAUUGCAGAGGGCGCCACUGUUGUUGUUCCAUGCCACCAGCGAUGCGGCGCACAGAAAAGCCAGCCUGGUGGUACAGUGGUAAAAUGCU
....(((........((((...((((.........)))).))))((((((((...........((((((((....(((((..........))).))))))))))))))))))....))). ( -43.00)
>DroEre_CAF1 17005 120 - 1
ACAUGCAACAUUAUCGUCGAUGCUGCUGCAACAUUGCAGAGGGCGCCACUGUUGUUGUUCCAUGCCACCAGCGAUGCGGCGCUCAGAAAAUCCAGCCUGCUGGUACAGUGGUAAAAUGCU
....(((...((((((..(......(((((....))))).(((((((.(.(((((((...........)))))))).))))))).......((((....))))..)..))))))..))). ( -36.50)
>DroYak_CAF1 16962 120 - 1
ACAUGCAACAUUAUCGUCGAUGCUGCUGCAACAUUGCAGAGGGCGCCACUGUUGUUGUUCCAUGCCACCAGCGAUGCGGCGCUCAGAAAAUCCAGCCUGCCGGUACAGUGGUAAAAUGCU
...(((.((..(((((.((..(((((((((....))))).(((((((.(.(((((((...........)))))))).)))))))........)))).)).)))))..)).)))....... ( -36.60)
>consensus
ACAUGCAACAUUAUCGUCCAUGCUGCUGCAACAUUGCAGAGGGCGCCACUGUUGUUGUUCCAUGCCACCAGCGAUGCGGCGCUCAGAAAAGCCAGCCUGCUGGUACAGUGGUAAAAUGCU
....(((...((((((.....(((((((((....))))).(((((((.(.(((((((...........)))))))).)))))))........))))(((......)))))))))..))). (-35.46 = -35.50 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:28 2006