Locus 7281

Sequence ID 3L_DroMel_CAF1
Location 19,495,136 – 19,495,303
Length 167
Max. P 0.669721
window11834 window11835

overview

Window 4

Location 19,495,136 – 19,495,226
Length 90
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 86.08
Mean single sequence MFE -36.68
Consensus MFE -25.58
Energy contribution -27.00
Covariance contribution 1.42
Combinations/Pair 1.12
Mean z-score -3.31
Structure conservation index 0.70
SVM decision value 0.29
SVM RNA-class probability 0.669721
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19495136 90 - 23771897
AUGGCAGCUUGAUGGCUGCCACUGCCACCAAGUGGCAGACAUCAGCCGCGGCGGACAGCUAAUUAAAUGCUGUCGAAAGGUGCGUUUA---GU
.((((((((....))))))))(((((((...))))))).((((.((....)).((((((.........))))))....))))......---.. ( -40.40)
>DroSec_CAF1 5893 90 - 1
AUGGCAGCUUGAUGGCUGCCACUGCCACUAAGUGGCAGACUUCAGACGCGGCGGACAGCUAAUUAAAUGCGGUCGAAAGGUGCGUUUA---GU
.((((((((....))))))))(((((((...))))))).....(((((((.(.(((.((.........)).)))....).))))))).---.. ( -38.90)
>DroSim_CAF1 6033 90 - 1
AUGGCAGCUUGAUGGCUGCCACUGCCACCAAGUGGCAGACUUCAGACGCGGCGGACAGCUAAUUAAAUGCGGUCGAAAGUUGCGUUUA---GU
.((((((((....))))))))(((((((...))))))).....(((((((((.(((.((.........)).)))....))))))))).---.. ( -40.90)
>DroEre_CAF1 6350 90 - 1
AUGGCAGUUUGAUGGCUGCCACUGCCACCAAGUGGCACACUUCAGCCGCGGCGGACAGCUAAUUAAAUGCGGUCGAAAGGUGCGUUUA---AU
.((((((((....))))))))(((((.((..(((((........))))))).)).)))...((((((((((.((....))))))))))---)) ( -35.40)
>DroYak_CAF1 6007 90 - 1
ACGGCAGCUUGAUGGCUGCCAGUGCCACCAAGUGGCAGACUUCAGCCGCGGCGGACAGCUAAUUAAAUGCGGUCGAAAGGUGCGUUGA---AU
..(((((((....)))))))..((((((...))))))...((((((.(((.(.(((.((.........)).)))....).))))))))---). ( -35.60)
>DroPer_CAF1 3542 89 - 1
AUGGCAGCUUGAGAGGUGCCACCAUACACAUGUGGCAGACCUCAGACUCUGCAGACAGCUAAUUAAAUGCGGUCACA----GCGAUUGAGGGA
.(((((.((....)).)))))(((((....)))))....((((((.(.(((..(((.((.........)).))).))----).).)))))).. ( -28.90)
>consensus
AUGGCAGCUUGAUGGCUGCCACUGCCACCAAGUGGCAGACUUCAGACGCGGCGGACAGCUAAUUAAAUGCGGUCGAAAGGUGCGUUUA___GU
..(((((((....))))))).(((((((...)))))))........((((.(.(((.((.........)).)))....).))))......... (-25.58 = -27.00 +   1.42)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 19,495,200 – 19,495,303
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.59
Mean single sequence MFE -36.67
Consensus MFE -25.45
Energy contribution -24.73
Covariance contribution -0.72
Combinations/Pair 1.25
Mean z-score -1.19
Structure conservation index 0.69
SVM decision value 0.19
SVM RNA-class probability 0.626059
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19495200 103 - 23771897
CCAUCUCC---AUCUGGGUGUUUUUAAUUGAUUUGGCCGGCAUGCGGUGUCAUUCGCGAGUCAGGGACAAUGUGGCACCGAUGGCAGCUUGAUGGCUGCCACUGCC--------------
.(((((..---....)))))..................((((..(((((((((((.(......).))....))))))))).((((((((....)))))))).))))-------------- ( -36.40)
>DroPse_CAF1 3754 93 - 1
-------------UUGGUGGUUUUUAAUUGAUUUACCCGGCAUGCGGUGUCAGCCGCAAGUCAGGGACAAUGUGGCAGCGAUGGCAGCUUGAGAGGUGCCACCAUA--------------
-------------.(((((((..............((((((.((((((....)))))).))).)))((.....(((.((....)).)))......)))))))))..-------------- ( -34.20)
>DroEre_CAF1 6414 103 - 1
CCAUCUCC---AUCUGGGUGUCUUUAAUUGAUUUGGCCGGCAUGCGGUGUCAUUCGCGAGUCAGGGACAAUGUGGCACCGAUGGCAGUUUGAUGGCUGCCACUGCC--------------
........---.....((((((.......)))...)))((((..(((((((((((.(......).))....))))))))).((((((((....)))))))).))))-------------- ( -34.50)
>DroYak_CAF1 6071 103 - 1
CCAUCUCC---GUCUGGGUGUUUUUAAUUGAUUUGGCCGGCAUGCGGUGUCAUUCGCGAGUCAGGGACAAUGUGGCACCGACGGCAGCUUGAUGGCUGCCAGUGCC--------------
.(((((..---....)))))..................(((((.(((((((((((.(......).))....)))))))))..(((((((....))))))).)))))-------------- ( -37.70)
>DroAna_CAF1 3312 120 - 1
CCCUCCACUGGCACUGGGUGUUUUUAAUUGAUUUGGCCGGCACGCGGUGUCAGCUGCAAGUCAGGGACAAUGUGGCAGCGAUGGCAACUUGAUGGCUGCCACUGCUCCGAAUAAAAUGCU
.......(((((((((.(((((.((((.....))))..))))).)))))))))..(((..((.((..((..((((((((.(((....)...)).))))))))))..))))......))). ( -43.10)
>DroPer_CAF1 3605 94 - 1
------------UCUGGUGGUUUUUAAUUGAUUUACCCGGCAUGCGGUGUCAGCCGCAAGUCAGGGACAAUGUGGCAGCGAUGGCAGCUUGAGAGGUGCCACCAUA--------------
------------..(((((((..............((((((.((((((....)))))).))).)))((.....(((.((....)).)))......)))))))))..-------------- ( -34.10)
>consensus
CCAUCUCC____UCUGGGUGUUUUUAAUUGAUUUGGCCGGCAUGCGGUGUCAGCCGCAAGUCAGGGACAAUGUGGCACCGAUGGCAGCUUGAUGGCUGCCACUGCC______________
................((((((....((((.((...(((((.(((((......))))).))).))))))))..))))))...((((.((....)).)))).................... (-25.45 = -24.73 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:00 2006