Locus 9873

Sequence ID 3R_DroMel_CAF1
Location 26,318,450 – 26,318,561
Length 111
Max. P 0.826151
window15752 window15753

overview

Window 2

Location 26,318,450 – 26,318,561
Length 111
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 76.40
Mean single sequence MFE -40.20
Consensus MFE -21.57
Energy contribution -21.93
Covariance contribution 0.37
Combinations/Pair 1.29
Mean z-score -1.92
Structure conservation index 0.54
SVM decision value 0.70
SVM RNA-class probability 0.826151
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26318450 111 + 27905053
UCUUUGGAGCCAAUAACCUGAUGCAAUUGCACCACCAGUGGGUCCAGGUGGAGCUCCUCCAACUUAAAUGGUGCGUAGCCCAAGCGACUCUUCCUUAAGCGACACCUAAGA
.....((((((....(((((.(((....)))(((....)))...))))).).))))).....((((...(((((((.((....))((....)).....))).)))))))). ( -30.70)
>DroPse_CAF1 37302 111 + 1
UCCCGCUGGCUGACCAUGUCGUGCACCUGCACAAUGGGAGGAUCUGCAUGCAGCUCCUCCAGCUUGAAGGGAGCGUAGUCGAAGCGCCUCCUUUGCAGGCGGCAGCGAAGA
...(((((.(....(((...((((....)))).)))((((((.(((....))).)))))).(((((((((((((((.......))).))))))).)))))).))))).... ( -50.70)
>DroSim_CAF1 45188 111 + 1
UCAUUGGAGCCAAUAACCUGAUGCAGUUGCACCACUAGAGGGUCCAGGUGUAGCUCCUCCAACUUAAAAGGAGCGUAGCCCAAGCGACUCUUCCUUAAGCGACACCUAAGA
.....(((.((..((...((.(((....))).)).))..)).)))((((((.((((((..........))))))...((..(((.((....)))))..)).)))))).... ( -31.00)
>DroEre_CAF1 48325 111 + 1
UCUUUGGAGCCAAUCACCUGGUGCAGCUGCACCACUGGGGGAUCCAGGUGCAGCUCCUCCAACUUAAAGGGAGCGUAACCCAAGCGACUCCUCCAAAGGCGACACCUGAGA
((((.((.(((.......((((((....)))))).((((((((((.(((...((((((..........))))))...)))...).)).)))))))..)))....)).)))) ( -42.30)
>DroYak_CAF1 44026 111 + 1
UCCUUGGCGCCAAUCACCUGAUGCAGUUGCACCAGCAGCGGAUCCAGGUGCAGCUCCUCCAACUUAAAAGGAGCGUAGCCCAAGCGACUCUUUCUAAGGCGACAUCUGAGA
..((..(((((...((((((((.(.(((((....)))))).)).))))))..((((((..........))))))((.((....)).)).........))))....)..)). ( -35.80)
>DroPer_CAF1 37152 111 + 1
UCCCGCUGGCUGACCAUGUCGUGCACCUGCACAAUGGGAGGAUCUGCAUGCAGCUCCUCCAGCUUGAAGGGAGCGUAGUCGAAGCGCCUCCUUUGCAGGCGGCAGCGAAGA
...(((((.(....(((...((((....)))).)))((((((.(((....))).)))))).(((((((((((((((.......))).))))))).)))))).))))).... ( -50.70)
>consensus
UCCUUGGAGCCAAUCACCUGAUGCAGCUGCACCACCAGAGGAUCCAGGUGCAGCUCCUCCAACUUAAAGGGAGCGUAGCCCAAGCGACUCCUCCUAAGGCGACACCUAAGA
.....(((((....((((((.(((....)))((......))...))))))..))))).....((((..((((((((.......))).)))))...))))............ (-21.57 = -21.93 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 26,318,450 – 26,318,561
Length 111
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 76.40
Mean single sequence MFE -43.48
Consensus MFE -22.90
Energy contribution -21.13
Covariance contribution -1.77
Combinations/Pair 1.39
Mean z-score -1.90
Structure conservation index 0.53
SVM decision value 0.58
SVM RNA-class probability 0.788916
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26318450 111 - 27905053
UCUUAGGUGUCGCUUAAGGAAGAGUCGCUUGGGCUACGCACCAUUUAAGUUGGAGGAGCUCCACCUGGACCCACUGGUGGUGCAAUUGCAUCAGGUUAUUGGCUCCAAAGA
((((.(((((.(((((((((....)).)))))))...)))))............((((((..((((((..(((....)))(((....)))))))))....)))))).)))) ( -38.20)
>DroPse_CAF1 37302 111 - 1
UCUUCGCUGCCGCCUGCAAAGGAGGCGCUUCGACUACGCUCCCUUCAAGCUGGAGGAGCUGCAUGCAGAUCCUCCCAUUGUGCAGGUGCACGACAUGGUCAGCCAGCGGGA
..(((((((.((((((((((((..(((.........)))..))))(((...((((((.(((....))).))))))..)))))))))))...(((...)))...))))))). ( -46.40)
>DroSim_CAF1 45188 111 - 1
UCUUAGGUGUCGCUUAAGGAAGAGUCGCUUGGGCUACGCUCCUUUUAAGUUGGAGGAGCUACACCUGGACCCUCUAGUGGUGCAACUGCAUCAGGUUAUUGGCUCCAAUGA
....((((((.(((((((((....)).)))))))...((((((((......)))))))).))))))(((.((..(((((((((....))))))..)))..)).)))..... ( -41.10)
>DroEre_CAF1 48325 111 - 1
UCUCAGGUGUCGCCUUUGGAGGAGUCGCUUGGGUUACGCUCCCUUUAAGUUGGAGGAGCUGCACCUGGAUCCCCCAGUGGUGCAGCUGCACCAGGUGAUUGGCUCCAAAGA
.............((((((((.((((((((((((....((((.........)))).((((((((((((.....)))..))))))))))).))))))))))..)))))))). ( -48.80)
>DroYak_CAF1 44026 111 - 1
UCUCAGAUGUCGCCUUAGAAAGAGUCGCUUGGGCUACGCUCCUUUUAAGUUGGAGGAGCUGCACCUGGAUCCGCUGCUGGUGCAACUGCAUCAGGUGAUUGGCGCCAAGGA
.......((.((((........((((((((((((...((((((((......))))))))((((((.((........))))))))...)).)))))))))))))).)).... ( -40.00)
>DroPer_CAF1 37152 111 - 1
UCUUCGCUGCCGCCUGCAAAGGAGGCGCUUCGACUACGCUCCCUUCAAGCUGGAGGAGCUGCAUGCAGAUCCUCCCAUUGUGCAGGUGCACGACAUGGUCAGCCAGCGGGA
..(((((((.((((((((((((..(((.........)))..))))(((...((((((.(((....))).))))))..)))))))))))...(((...)))...))))))). ( -46.40)
>consensus
UCUUAGGUGUCGCCUAAGAAAGAGUCGCUUGGGCUACGCUCCCUUUAAGUUGGAGGAGCUGCACCUGGAUCCUCCAGUGGUGCAACUGCACCAGGUGAUUGGCUCCAAGGA
.....(((....(((....))).)))..(((((((..(((((.(((.....))))))))..((((.((.....))..((((((....))))))))))...))).))))... (-22.90 = -21.13 +  -1.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:43:58 2006