Locus 4726

Sequence ID X_DroMel_CAF1
Location 12,281,516 – 12,281,614
Length 98
Max. P 0.953048
window7750 window7751

overview

Window 0

Location 12,281,516 – 12,281,614
Length 98
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 65.10
Mean single sequence MFE -39.67
Consensus MFE -17.98
Energy contribution -22.23
Covariance contribution 4.25
Combinations/Pair 1.21
Mean z-score -2.22
Structure conservation index 0.45
SVM decision value 1.43
SVM RNA-class probability 0.953048
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12281516 98 + 22224390
GGUCACCAAGGCUGGUAGCUCCAAUGCCACAACGGUGC--UGGAUUCAUCCAAUUCCAGCGGCUCAAAUGCCGGAACACU-GAGUGUUCCCAGUGCUGGUA
.(..((((....))))..)((((..(((.....)))..--))))...........((((((((......)))(((((((.-..)))))))....))))).. ( -35.80)
>DroPse_CAF1 43227 88 + 1
--CCAGCAAGAGAAGAACUGACGAGGCCG-AUGGAACGAC----ACCGGCUGCCGCU----GCU-GGGGGCAGCAGCAGUACAGUCACCUCAGCGGCGAC-
--...((..(((..((.((((((.(((((-.((......)----).)))))..)(((----(((-(....))))))).)).)))))..)))....))...- ( -32.70)
>DroSec_CAF1 26790 98 + 1
GGCCACCAAGGGUGGUAGCUCCAAUGCCACAACGGUGC--UGGAUUCGCCCAGUUCCAGCGGCUCAAAUGCCGGAACACU-GGGUGUUCCCAGUGCUGGUA
.((((((...)))))).((......)).....(((..(--(((...((((((((.....((((......))))....)))-)))))...))))..)))... ( -44.70)
>DroEre_CAF1 24500 97 + 1
GGUCACCAAGGGUGGUAGCUCCAGUGCCGCAACGGUGC--UGGAUUCGCCCAGUUCCAGCGGCUCGAAUGCCGGAACACU-CAGUGUUCCCAGUGGUGGU-
..((((((.((((((....(((((..(((...)))..)--)))).)))))).........(((......)))(((((((.-..)))))))...)))))).- ( -45.50)
>consensus
GGCCACCAAGGGUGGUAGCUCCAAUGCCACAACGGUGC__UGGAUUCGCCCAGUUCCAGCGGCUCAAAUGCCGGAACACU_CAGUGUUCCCAGUGCUGGU_
.........((((((....((((.((((.....))))...)))).))))))....((((((((......)))(((((((....)))))))....))))).. (-17.98 = -22.23 +   4.25)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 12,281,516 – 12,281,614
Length 98
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 65.10
Mean single sequence MFE -39.80
Consensus MFE -14.76
Energy contribution -17.82
Covariance contribution 3.06
Combinations/Pair 1.17
Mean z-score -2.29
Structure conservation index 0.37
SVM decision value 0.08
SVM RNA-class probability 0.572261
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12281516 98 - 22224390
UACCAGCACUGGGAACACUC-AGUGUUCCGGCAUUUGAGCCGCUGGAAUUGGAUGAAUCCA--GCACCGUUGUGGCAUUGGAGCUACCAGCCUUGGUGACC
..(((((....(((((((..-.)))))))(((......))))))))..(((((....))))--)(((((....(((..(((.....)))))).)))))... ( -39.20)
>DroPse_CAF1 43227 88 - 1
-GUCGCCGCUGAGGUGACUGUACUGCUGCUGCCCCC-AGC----AGCGGCAGCCGGU----GUCGUUCCAU-CGGCCUCGUCAGUUCUUCUCUUGCUGG--
-....((((.((((.(((((.(((((((((((....-.))----)))))))((((((----(......)))-))))...)))))))..))))..)).))-- ( -39.40)
>DroSec_CAF1 26790 98 - 1
UACCAGCACUGGGAACACCC-AGUGUUCCGGCAUUUGAGCCGCUGGAACUGGGCGAAUCCA--GCACCGUUGUGGCAUUGGAGCUACCACCCUUGGUGGCC
.....((((((((....)))-)))))((((((......)))((((.(((.((((.......--)).))))).))))...)))(((((((....))))))). ( -42.60)
>DroEre_CAF1 24500 97 - 1
-ACCACCACUGGGAACACUG-AGUGUUCCGGCAUUCGAGCCGCUGGAACUGGGCGAAUCCA--GCACCGUUGCGGCACUGGAGCUACCACCCUUGGUGACC
-..(((((..(((.....((-.((((((((((......)))((((.(((.((((.......--)).))))).))))...))))).))))))).)))))... ( -38.00)
>consensus
_ACCACCACUGGGAACACUC_AGUGUUCCGGCAUUCGAGCCGCUGGAACUGGGCGAAUCCA__GCACCGUUGCGGCAUUGGAGCUACCACCCUUGGUGACC
..(((((....(((((((....)))))))(((......))))))))...(((.....((((.....((.....))...))))....)))............ (-14.76 = -17.82 +   3.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:53 2006