Locus 260

Sequence ID X_DroMel_CAF1
Location 865,693 – 865,836
Length 143
Max. P 0.989140
window391 window392 window393

overview

Window 1

Location 865,693 – 865,810
Length 117
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 87.18
Mean single sequence MFE -40.07
Consensus MFE -37.87
Energy contribution -38.43
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -2.22
Structure conservation index 0.95
SVM decision value 1.73
SVM RNA-class probability 0.974226
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 865693 117 + 22224390
AUUCAUGAGACCUUAUCUCACCUAAAGCCCACUUAUUUUCUCCCUCUGCAUUCCCAUUCCCGAUGGAGCCUUGGCGUCAUUUCGGCGACGGCGGCUAAGUGGGCGUGGGACUGCGUC
.....(((((.....)))))...........................(((.((((((.((((....((((..(.((((........)))).)))))...)))).)))))).)))... ( -37.80)
>DroEre_CAF1 72126 116 + 1
UUUACUGAGAACUUAUUUCA-CUACAGCCCUAUUAUUUUCUUCCUCUGCAAUCCCAUUCCCGAUGGAGCCUUGUCGUCAUUUCGGCGACGGUGGCUAAGUGGUCGUGGGACUGCGUC
.....(((((.....)))))-..........................(((.((((((..(((....((((((((((((.....)))))))).))))...)))..)))))).)))... ( -37.00)
>DroYak_CAF1 68294 117 + 1
UUUGCUGAGUCCUUGUUUCAACAACAGCCGUACUGUUUUCUCCCUCUGCACUCCCAUUCCCGAUGGAGCCUUGUCGCCAUUUCGGCGACGGUGGCUAAGUGGGCGUGGGACUGCGUC
...((((.....((((....))))))))...................(((.((((((.((((....((((((((((((.....)))))))).))))...)))).)))))).)))... ( -45.40)
>consensus
UUUACUGAGACCUUAUUUCA_CUACAGCCCUAUUAUUUUCUCCCUCUGCAAUCCCAUUCCCGAUGGAGCCUUGUCGUCAUUUCGGCGACGGUGGCUAAGUGGGCGUGGGACUGCGUC
.....(((((.....)))))...........................(((.((((((.((((....((((((((((((.....)))))))).))))...)))).)))))).)))... (-37.87 = -38.43 +   0.56) 

alignment

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secondary structure

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dotplot

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Window 2

Location 865,733 – 865,836
Length 103
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 81.31
Mean single sequence MFE -46.50
Consensus MFE -39.41
Energy contribution -39.97
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -2.56
Structure conservation index 0.85
SVM decision value 2.15
SVM RNA-class probability 0.989140
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 865733 103 + 22224390
UCCCUCUGCAUUCCCAUUCCCGAUGGAGCCUUGGCGUCAUUUCGGCGACGGCGGCUAAGUGGGCGUGGGACUGCGUCUAGGCCCAAAACUCCAGGACUCUAGG--------------
..(((..(((.((((((.((((....((((..(.((((........)))).)))))...)))).)))))).)))((((.((.........)).))))...)))-------------- ( -39.40)
>DroEre_CAF1 72165 117 + 1
UUCCUCUGCAAUCCCAUUCCCGAUGGAGCCUUGUCGUCAUUUCGGCGACGGUGGCUAAGUGGUCGUGGGACUGCGUCUAUGCCCAGGACUCCUGGACUCCGGGACUCCUGCACUCCC
.......(((.((((((..(((....((((((((((((.....)))))))).))))...)))..)))))).))).........(((((.((((((...)))))).)))))....... ( -51.50)
>DroYak_CAF1 68334 98 + 1
UCCCUCUGCACUCCCAUUCCCGAUGGAGCCUUGUCGCCAUUUCGGCGACGGUGGCUAAGUGGGCGUGGGACUGCGUCUAGGCCCAGAACUCCAGGGCU-------------------
.......(((.((((((.((((....((((((((((((.....)))))))).))))...)))).)))))).))).....(((((.........)))))------------------- ( -48.60)
>consensus
UCCCUCUGCAAUCCCAUUCCCGAUGGAGCCUUGUCGUCAUUUCGGCGACGGUGGCUAAGUGGGCGUGGGACUGCGUCUAGGCCCAGAACUCCAGGACUC__GG______________
.......(((.((((((.((((....((((((((((((.....)))))))).))))...)))).)))))).)))((((.((.........)).)))).................... (-39.41 = -39.97 +   0.56) 

alignment

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secondary structure

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dotplot

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Window 3

Location 865,733 – 865,836
Length 103
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 81.31
Mean single sequence MFE -43.13
Consensus MFE -32.25
Energy contribution -31.70
Covariance contribution -0.55
Combinations/Pair 1.15
Mean z-score -1.67
Structure conservation index 0.75
SVM decision value 0.32
SVM RNA-class probability 0.687643
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 865733 103 - 22224390
--------------CCUAGAGUCCUGGAGUUUUGGGCCUAGACGCAGUCCCACGCCCACUUAGCCGCCGUCGCCGAAAUGACGCCAAGGCUCCAUCGGGAAUGGGAAUGCAGAGGGA
--------------.((((.((((.........))))))))..(((.(((((..(((....((((..(((((......)))))....)))).....)))..))))).)))....... ( -38.70)
>DroEre_CAF1 72165 117 - 1
GGGAGUGCAGGAGUCCCGGAGUCCAGGAGUCCUGGGCAUAGACGCAGUCCCACGACCACUUAGCCACCGUCGCCGAAAUGACGACAAGGCUCCAUCGGGAAUGGGAUUGCAGAGGAA
....((.(((((.(((.((...)).))).))))).))......(((((((((...((....((((..(((((......)))))....)))).....))...)))))))))....... ( -46.20)
>DroYak_CAF1 68334 98 - 1
-------------------AGCCCUGGAGUUCUGGGCCUAGACGCAGUCCCACGCCCACUUAGCCACCGUCGCCGAAAUGGCGACAAGGCUCCAUCGGGAAUGGGAGUGCAGAGGGA
-------------------..((((...((.(((....)))))(((.(((((..(((....((((...((((((.....))))))..)))).....)))..))))).)))..)))). ( -44.50)
>consensus
______________CC__GAGUCCUGGAGUUCUGGGCCUAGACGCAGUCCCACGCCCACUUAGCCACCGUCGCCGAAAUGACGACAAGGCUCCAUCGGGAAUGGGAAUGCAGAGGGA
....................((((.((...)).))))......(((.(((((..(((....((((..(((((......)))))....)))).....)))..))))).)))....... (-32.25 = -31.70 +  -0.55) 

alignment

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secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:12 2006