Locus 8173

Sequence ID X_DroMel_CAF1
Location 20,331,342 – 20,331,432
Length 90
Max. P 0.643934
window13424 window13425

overview

Window 4

Location 20,331,342 – 20,331,432
Length 90
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 77.26
Mean single sequence MFE -31.15
Consensus MFE -19.61
Energy contribution -20.24
Covariance contribution 0.63
Combinations/Pair 1.09
Mean z-score -1.66
Structure conservation index 0.63
SVM decision value 0.05
SVM RNA-class probability 0.559526
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20331342 90 + 22224390
UUUGGCGGGAGCCGAAAUCGAACAGCUGUCGUGCCACAGAAG--------UGGACACAAUGCGUCAAGCUGGGACGCUCUAGUAAAAGUGACCUGCGG-------
((((((....))))))........((.((((((((((....)--------))).)))...(((((.......)))))............)))..))..------- ( -30.90)
>DroSec_CAF1 32560 71 + 1
-------------------GAACAGCUGUCGUGCCACAGAAG--------UGGACACAAUGCGUCAAGCUGGGACGCUCUAGUAAGAGUGACCUGCGG-------
-------------------((...((....(((((((....)--------))).)))...)).))..((.(((.((((((....)))))).)))))..------- ( -24.60)
>DroEre_CAF1 9013 105 + 1
UUUGGCGGGAGCCAAAAGCGAACAGCUGUCGUGCCACAGAAGUGGCCAAGUGGACACAAUGCGUCAAGCUGCGACGCUCUAGUAAGAGUGACCUGCGGAGGUGCA
((((((....)))))).((...((((((.((((((((....)))))...((....))...))).).)))))...((((((....))))))((((....)))))). ( -39.00)
>DroYak_CAF1 8908 85 + 1
UUUGGCGGGAGCCAAGAUCGAACAGCUGUCGUGCCACAGAGG--------UGGACACAAUGCGUCAAGCUGCGACGCUCUAGUAAGAGUGACC------------
((((((....)))))).(((..((((((.((((((((....)--------))).).....))).).))))))))((((((....))))))...------------ ( -30.10)
>consensus
UUUGGCGGGAGCCAAAAUCGAACAGCUGUCGUGCCACAGAAG________UGGACACAAUGCGUCAAGCUGCGACGCUCUAGUAAGAGUGACCUGCGG_______
((((((....))))))........((.(((((((((..............))).)))...(((((.......)))))............)))..))......... (-19.61 = -20.24 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,331,342 – 20,331,432
Length 90
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 77.26
Mean single sequence MFE -28.45
Consensus MFE -17.77
Energy contribution -18.15
Covariance contribution 0.38
Combinations/Pair 1.05
Mean z-score -1.74
Structure conservation index 0.62
SVM decision value 0.23
SVM RNA-class probability 0.643934
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20331342 90 - 22224390
-------CCGCAGGUCACUUUUACUAGAGCGUCCCAGCUUGACGCAUUGUGUCCA--------CUUCUGUGGCACGACAGCUGUUCGAUUUCGGCUCCCGCCAAA
-------..((..(((............(((((.......)))))...(((.(((--------(....))))))))))(((((........)))))...)).... ( -27.20)
>DroSec_CAF1 32560 71 - 1
-------CCGCAGGUCACUCUUACUAGAGCGUCCCAGCUUGACGCAUUGUGUCCA--------CUUCUGUGGCACGACAGCUGUUC-------------------
-------..(((((((............(((((.......)))))...(((.(((--------(....))))))))))..))))..------------------- ( -22.60)
>DroEre_CAF1 9013 105 - 1
UGCACCUCCGCAGGUCACUCUUACUAGAGCGUCGCAGCUUGACGCAUUGUGUCCACUUGGCCACUUCUGUGGCACGACAGCUGUUCGCUUUUGGCUCCCGCCAAA
((.((((....)))))).........(((((..((((((.(((((...)))))...((((((((....))))).))).)))))).)))))(((((....))))). ( -36.20)
>DroYak_CAF1 8908 85 - 1
------------GGUCACUCUUACUAGAGCGUCGCAGCUUGACGCAUUGUGUCCA--------CCUCUGUGGCACGACAGCUGUUCGAUCUUGGCUCCCGCCAAA
------------((((.((((....))))....((((((.(.....(((((.(((--------(....))))))))))))))))..))))(((((....))))). ( -27.80)
>consensus
_______CCGCAGGUCACUCUUACUAGAGCGUCCCAGCUUGACGCAUUGUGUCCA________CUUCUGUGGCACGACAGCUGUUCGAUUUUGGCUCCCGCCAAA
............((.((((((....)))(((((.......)))))...))).))..............(..((......))..)......(((((....))))). (-17.77 = -18.15 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:30 2006