Locus 1474

Sequence ID 2L_DroMel_CAF1
Location 3,925,148 – 3,925,277
Length 129
Max. P 0.999946
window2397 window2398

overview

Window 7

Location 3,925,148 – 3,925,244
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 89.31
Mean single sequence MFE -31.04
Consensus MFE -28.76
Energy contribution -29.78
Covariance contribution 1.02
Combinations/Pair 1.06
Mean z-score -3.09
Structure conservation index 0.93
SVM decision value 4.75
SVM RNA-class probability 0.999946
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3925148 96 + 22407834
CUCGAAUCUCGAGACGUGCUGACUUUACUGGGAUGUGAUUGUGAUUGGGAUUUGGGAAUCGGAUUGGUAUUGGUACUGGUACUGGUACUGGUCUGU
((((((((((((....(((.....((((......))))..))).))))))))))))...(((((..((((..(((....)))..))))..))))). ( -35.20)
>DroSec_CAF1 58462 96 + 1
CUCGAAUCUCGAGACGUGCUGACUUUACCGGGAUGUGAUUGUGAUUGGGAUUUGGGAAUCGGAUUGGUAUUGGUACUGGUACUGGUACUGGUCUGU
((((((((((((.((((.(((.......))).))))........))))))))))))...(((((..((((..(((....)))..))))..))))). ( -36.80)
>DroSim_CAF1 57271 96 + 1
CUCGAAUCUCGAGACGUGCUGACUUUACCGGGAUGUGAUUGUGAUUGGGAUUUGGGAAUCGGAUUGGUAUUGGUACUGGUACUGGUACUGGUCUGU
((((((((((((.((((.(((.......))).))))........))))))))))))...(((((..((((..(((....)))..))))..))))). ( -36.80)
>DroEre_CAF1 57908 90 + 1
CUCGAAUCUCGAGACGUGCUGACUUUACUGGGAUGUGAUUGUGAUUGGGAUUUGGGAAUCGGAUUGGUAUUGCUAUU------GGUAUUGGUCUGU
((((((((((((....(((.....((((......))))..))).))))))))))))...(((((..(((((......------)))))..))))). ( -26.70)
>DroYak_CAF1 60036 78 + 1
CUCGAAUCUCGAGACGUGCUGACUUUACUGGGAUGUGAUUGUGAUUGGGAUUUGGGAAUCGGAUUGG------------------UAUUGGUCUGU
((((((((((((....(((.....((((......))))..))).))))))))))))...((((((..------------------....)))))). ( -19.70)
>consensus
CUCGAAUCUCGAGACGUGCUGACUUUACUGGGAUGUGAUUGUGAUUGGGAUUUGGGAAUCGGAUUGGUAUUGGUACUGGUACUGGUACUGGUCUGU
((((((((((((.((((.(((.......))).))))........))))))))))))...(((((..(((((((((....)))))))))..))))). (-28.76 = -29.78 +   1.02)

alignment

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secondary structure

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dotplot

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Window 8

Location 3,925,175 – 3,925,277
Length 102
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 98.04
Mean single sequence MFE -37.40
Consensus MFE -37.11
Energy contribution -36.67
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -3.12
Structure conservation index 0.99
SVM decision value 2.26
SVM RNA-class probability 0.991235
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3925175 102 + 22407834
CUGGGAUGUGAUUGUGAUUGGGAUUUGGGAAUCGGAUUGGUAUUGGUACUGGUACUGGUACUGGUCUGUUCUCGUGGCUCGCUUCCAGCGAAUGUUUGGCUG
((((((.((((..((.((........(((((.(((((..((((..(((....)))..))))..)))))))))))).)))))))))))).............. ( -35.00)
>DroSec_CAF1 58489 102 + 1
CCGGGAUGUGAUUGUGAUUGGGAUUUGGGAAUCGGAUUGGUAUUGGUACUGGUACUGGUACUGGUCUGUUCCCGUGGCUCGCUUCCAGCGAAUGUUUGGCUG
(((((...((.(((..(.((((...((((((.(((((..((((..(((....)))..))))..)))))))))))...)))).)..)))))....)))))... ( -38.60)
>DroSim_CAF1 57298 102 + 1
CCGGGAUGUGAUUGUGAUUGGGAUUUGGGAAUCGGAUUGGUAUUGGUACUGGUACUGGUACUGGUCUGUUCUCGUGGCUCGCUUGCAGCGAAUGUUUGGCUG
(((((...((.(((..(.((((...((((((.(((((..((((..(((....)))..))))..)))))))))))...)))).)..)))))....)))))... ( -38.60)
>consensus
CCGGGAUGUGAUUGUGAUUGGGAUUUGGGAAUCGGAUUGGUAUUGGUACUGGUACUGGUACUGGUCUGUUCUCGUGGCUCGCUUCCAGCGAAUGUUUGGCUG
((..(...((.(((..(.((((...((((((.(((((..((((..(((....)))..))))..)))))))))))...)))).)..)))))....)..))... (-37.11 = -36.67 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:33 2006