Locus 7305

Sequence ID 2L_DroMel_CAF1
Location 20,460,012 – 20,460,172
Length 160
Max. P 0.994072
window11697 window11698 window11699

overview

Window 7

Location 20,460,012 – 20,460,132
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.75
Mean single sequence MFE -30.54
Consensus MFE -23.02
Energy contribution -23.30
Covariance contribution 0.28
Combinations/Pair 1.07
Mean z-score -1.72
Structure conservation index 0.75
SVM decision value 0.28
SVM RNA-class probability 0.664107
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20460012 120 + 22407834
AUGGCCCCAUGGCUCCAUGGAUCCAUGGAUCCAGGACUCCAGAGCUCCACUGACUUUGCCCUUUUGUUUGCUUUAGUUCUGUCUUGCACUUUGCAUACAAAGUACCAUUAACUACUGGCA
.(((..((((((.((....)).))))))..)))(((((....)).)))........((((...((((.(((...(((.(......).)))..))).))))((((........)))))))) ( -32.50)
>DroSec_CAF1 13004 120 + 1
AUGGCCCUAUGGCCCCAUGGCUCCAUGGAACCAGGACUCCAGAGCUCCACCGACUUUGCCCCUUUGUUUGCUUUAGUUCUGUCUUGCACUUUGCAUACAAAGUACCAUUAACUACUGGCA
..((((....))))(((((....)))))..((((.....(((((.((....)))))))...((((((.(((...(((.(......).)))..))).))))))............)))).. ( -33.10)
>DroSim_CAF1 14817 120 + 1
AUGGCCCGAUGGCCCCAUGGCUCCAUGGAACCAGGACUCCAGAGCUCCACCGACUUUGCCCUUUUGUUUGCUUUAGUUCUGUCUUGCACUUUGCAUACAAAGUACCAUUAACUACUGGCA
..((((....))))(((((....)))))..((((.....(((((.((....)))))))...((((((.(((...(((.(......).)))..))).))))))............)))).. ( -30.90)
>DroEre_CAF1 15371 112 + 1
CUUUUCCGAUGGCUCCAGGGCUCCAGGGCUCCAGGA--------CUCCACCGACUUUGCCCUUUUGCUUGCUUUAGUUCUGUCUUGCACUUUGCAUACAAAGUGCCAUUAACUACUGGCA
......((.(((.(((.(((((....))).)).)))--------..))).))................((((.(((((..((...((((((((....)))))))).)).)))))..)))) ( -29.50)
>DroYak_CAF1 13294 120 + 1
CAUUUCCGAUGGCUCCAUGGCUCCAUGGCUCUAGGACUCCAGUUCUCCACCGACUUUGCCCUUUUGUUUGCUUUAGUUCUGUCUUGCACUUUGCAUACAAAGUACCAUUAACUACUGGCA
......((.(((..(((((....)))))....(((((....)))))))).))....((((...((((.(((...(((.(......).)))..))).))))((((........)))))))) ( -26.70)
>consensus
AUGGCCCGAUGGCUCCAUGGCUCCAUGGAUCCAGGACUCCAGAGCUCCACCGACUUUGCCCUUUUGUUUGCUUUAGUUCUGUCUUGCACUUUGCAUACAAAGUACCAUUAACUACUGGCA
.........(((..(((((....)))))..)))(((.........)))........((((...((((.(((...(((.(......).)))..))).))))((((........)))))))) (-23.02 = -23.30 +   0.28)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,460,012 – 20,460,132
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.75
Mean single sequence MFE -39.58
Consensus MFE -31.58
Energy contribution -32.74
Covariance contribution 1.16
Combinations/Pair 1.09
Mean z-score -2.79
Structure conservation index 0.80
SVM decision value 2.45
SVM RNA-class probability 0.994072
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20460012 120 - 22407834
UGCCAGUAGUUAAUGGUACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAACAAAAGGGCAAAGUCAGUGGAGCUCUGGAGUCCUGGAUCCAUGGAUCCAUGGAGCCAUGGGGCCAU
((((..(((((....((((((((....)))))))).......))))).............))))......((((..((((((..(((((((((....)))))).))).))).))).)))) ( -40.96)
>DroSec_CAF1 13004 120 - 1
UGCCAGUAGUUAAUGGUACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAACAAAGGGGCAAAGUCGGUGGAGCUCUGGAGUCCUGGUUCCAUGGAGCCAUGGGGCCAUAGGGCCAU
(((...(((((....((((((((....)))))))).......)))))..)))......(((((............))))).(.((((((((((((((....)))))))))..)))))).. ( -41.50)
>DroSim_CAF1 14817 120 - 1
UGCCAGUAGUUAAUGGUACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAACAAAAGGGCAAAGUCGGUGGAGCUCUGGAGUCCUGGUUCCAUGGAGCCAUGGGGCCAUCGGGCCAU
(((...(((((....((((((((....)))))))).......)))))..)))......(((((............))))).(.((((((((((((((....))))))))))..))))).. ( -41.50)
>DroEre_CAF1 15371 112 - 1
UGCCAGUAGUUAAUGGCACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAGCAAAAGGGCAAAGUCGGUGGAG--------UCCUGGAGCCCUGGAGCCCUGGAGCCAUCGGAAAAG
((((..(((((....((((((((....)))))))).......)))))..(....).....))))...(((((((..--------(((.((.((......)))).))).)))))))..... ( -37.80)
>DroYak_CAF1 13294 120 - 1
UGCCAGUAGUUAAUGGUACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAACAAAAGGGCAAAGUCGGUGGAGAACUGGAGUCCUAGAGCCAUGGAGCCAUGGAGCCAUCGGAAAUG
((((..(((((....((((((((....)))))))).......))))).............))))...(((((((....((((....))))..(((((....)))))..)))))))..... ( -36.16)
>consensus
UGCCAGUAGUUAAUGGUACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAACAAAAGGGCAAAGUCGGUGGAGCUCUGGAGUCCUGGAUCCAUGGAGCCAUGGAGCCAUCGGGCCAU
(((...(((((....((((((((....)))))))).......)))))..)))......(((((....((((.......)))).)))))((..(((((....)))))..)).......... (-31.58 = -32.74 +   1.16)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,460,052 – 20,460,172
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.00
Mean single sequence MFE -31.34
Consensus MFE -30.36
Energy contribution -30.24
Covariance contribution -0.12
Combinations/Pair 1.06
Mean z-score -1.45
Structure conservation index 0.97
SVM decision value 1.61
SVM RNA-class probability 0.967323
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20460052 120 - 22407834
CCGCCAACCCAUCAAAAGCUGCUGUUGUGUGAAAAAGUGAUGCCAGUAGUUAAUGGUACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAACAAAAGGGCAAAGUCAGUGGAGCUCU
((((...(((.(((..(((....)))...)))....((..(((...(((((....((((((((....)))))))).......)))))..))).))....)))........))))...... ( -27.60)
>DroSec_CAF1 13044 120 - 1
CCGCCAACCCAUCAAAAGCUGCUGUUGUGUGAAAAAGUGAUGCCAGUAGUUAAUGGUACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAACAAAGGGGCAAAGUCGGUGGAGCUCU
(((((..(((((((..((((((((..((((.(.....).))))))))))))..)))).((((((.(((..(((.(......).)))...))).))))))))).......)))))...... ( -32.00)
>DroSim_CAF1 14857 120 - 1
CCGCCAACCCAUCAAAAGCUGCUGUUGUGUGAAAAAGUGAUGCCAGUAGUUAAUGGUACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAACAAAAGGGCAAAGUCGGUGGAGCUCU
(((((..(((.(((..(((....)))...)))....((..(((...(((((....((((((((....)))))))).......)))))..))).))....))).......)))))...... ( -31.10)
>DroEre_CAF1 15407 116 - 1
CCGCCCACCCAUCAGAAGCUGCUGUUGUGUGAAAAAGUGAUGCCAGUAGUUAAUGGCACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAGCAAAAGGGCAAAGUCGGUGGAG----
((((((((.((.(((......))).)).))).......(((((...(((((....((((((((....)))))))).......)))))..))..((......))...))))))))..---- ( -34.60)
>DroYak_CAF1 13334 120 - 1
CCGCCAACCCAUCAGAAGCUGCUGUUGUGUGAAAAAGUGAUGCCAGUAGUUAAUGGUACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAACAAAAGGGCAAAGUCGGUGGAGAACU
(((((..(((..((..((((((((..((((.(.....).))))))))))))..))((((((((....))))))))........................))).......)))))...... ( -31.40)
>consensus
CCGCCAACCCAUCAAAAGCUGCUGUUGUGUGAAAAAGUGAUGCCAGUAGUUAAUGGUACUUUGUAUGCAAAGUGCAAGACAGAACUAAAGCAAACAAAAGGGCAAAGUCGGUGGAGCUCU
(((((..(((.(((..(((....)))...)))....((..(((...(((((....((((((((....)))))))).......)))))..))).))....))).......)))))...... (-30.36 = -30.24 +  -0.12)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:56 2006