Locus 4061

Sequence ID 2L_DroMel_CAF1
Location 11,747,466 – 11,747,571
Length 105
Max. P 0.985146
window6400 window6401

overview

Window 0

Location 11,747,466 – 11,747,571
Length 105
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 81.55
Mean single sequence MFE -28.96
Consensus MFE -17.58
Energy contribution -18.78
Covariance contribution 1.20
Combinations/Pair 1.17
Mean z-score -1.89
Structure conservation index 0.61
SVM decision value 0.23
SVM RNA-class probability 0.644730
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11747466 105 + 22407834
UCAGUUCAGCGAGAACUCUGAGGCAGUCAGCUAUGAACAUGUCCUUGAGACAUGUAAGAGAACUGAGAGCGGCACUCGAAAAAAAA-AGUUGGGAAAAACCAUUUG------
((((((((((..((.(((....).)))).)))....(((((((.....)))))))....)))))))(((.....))).........-...(((......)))....------ ( -25.00)
>DroSec_CAF1 5919 104 + 1
UCA-----GUGAGAACUCCGAGGCAGUCAGCUAUGAACAUGUCCUUGAGACAUGUAAGAGAACUGAGUGCAGCACUCGGAAAA--A-AAUUGGGAACAACCAUUUGAAUUUG
(((-----(.......(((((((((.((((((....(((((((.....)))))))...))..)))).)))....))))))...--.-...(((......))).))))..... ( -29.50)
>DroSim_CAF1 4779 109 + 1
UCAGUUCAGCGAGAACUCCGAAGCAGUCAGCUAUGAACAUGUCCUUGAGACAUGUAAGAGAACUGAGUGCAGCACUCGGAAAA--A-AUUUGGGAACAACCAUUUGAAUUUG
..(((((((.......(((((.(((.((((((....(((((((.....)))))))...))..)))).))).....)))))...--.-...(((......))).))))))).. ( -28.70)
>DroEre_CAF1 12831 102 + 1
UCAGUUCAGCGAGAACUCCGAGGCAGUCAGCUGUGAACAUGUCCUUGAGACAUGUA-GAGAACUGAGUGC---ACUCAGAGAA--A-AAUUGGUAGCAACUGCUA---UCAG
...............(((.((((((.((((.(.(..(((((((.....))))))).-.).).)))).)))---.))).)))..--.-...(((((((....))))---))). ( -35.40)
>DroYak_CAF1 5891 110 + 1
UCAGUUCAGCGAGAAGUCCGAGGCAGUCAGCUGUGAACAUGUCCUUGAGACAUGUAAGAGAAUUCAGUGCAACACUCAAAAAA--ACUAUUGAAAGCGACUUUUAGAAUUGG
.((((((....(((((((....((((....))))..(((((((.....)))))))....(..(((((((..............--..)))))))..)))))))).)))))). ( -26.19)
>consensus
UCAGUUCAGCGAGAACUCCGAGGCAGUCAGCUAUGAACAUGUCCUUGAGACAUGUAAGAGAACUGAGUGCAGCACUCGGAAAA__A_AAUUGGGAACAACCAUUUGAAUUUG
................(((((((((.((((......(((((((.....))))))).......)))).)))....))))))..........(((......))).......... (-17.58 = -18.78 +   1.20)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,747,466 – 11,747,571
Length 105
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 81.55
Mean single sequence MFE -28.68
Consensus MFE -22.46
Energy contribution -22.78
Covariance contribution 0.32
Combinations/Pair 1.17
Mean z-score -2.50
Structure conservation index 0.78
SVM decision value 2.00
SVM RNA-class probability 0.985146
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11747466 105 - 22407834
------CAAAUGGUUUUUCCCAACU-UUUUUUUUCGAGUGCCGCUCUCAGUUCUCUUACAUGUCUCAAGGACAUGUUCAUAGCUGACUGCCUCAGAGUUCUCGCUGAACUGA
------....(((......)))...-.........(((....((..((((((.....(((((((.....)))))))....))))))..)))))..(((((.....))))).. ( -26.00)
>DroSec_CAF1 5919 104 - 1
CAAAUUCAAAUGGUUGUUCCCAAUU-U--UUUUCCGAGUGCUGCACUCAGUUCUCUUACAUGUCUCAAGGACAUGUUCAUAGCUGACUGCCUCGGAGUUCUCAC-----UGA
..........(((......)))...-.--..(((((((....(((.((((((.....(((((((.....)))))))....)))))).)))))))))).......-----... ( -29.70)
>DroSim_CAF1 4779 109 - 1
CAAAUUCAAAUGGUUGUUCCCAAAU-U--UUUUCCGAGUGCUGCACUCAGUUCUCUUACAUGUCUCAAGGACAUGUUCAUAGCUGACUGCUUCGGAGUUCUCGCUGAACUGA
..........(((......)))...-.--...((((((....(((.((((((.....(((((((.....)))))))....)))))).)))))))))((((.....))))... ( -30.60)
>DroEre_CAF1 12831 102 - 1
CUGA---UAGCAGUUGCUACCAAUU-U--UUCUCUGAGU---GCACUCAGUUCUC-UACAUGUCUCAAGGACAUGUUCACAGCUGACUGCCUCGGAGUUCUCGCUGAACUGA
.((.---((((....)))).))...-.--...((((((.---(((.((((((...-.(((((((.....)))))))....)))))).)))))))))((((.....))))... ( -36.80)
>DroYak_CAF1 5891 110 - 1
CCAAUUCUAAAAGUCGCUUUCAAUAGU--UUUUUUGAGUGUUGCACUGAAUUCUCUUACAUGUCUCAAGGACAUGUUCACAGCUGACUGCCUCGGACUUCUCGCUGAACUGA
.((.(((...((((((((......)))--.....((((.((..(((((.........(((((((.....)))))))...))).))...)))))))))))......))).)). ( -20.30)
>consensus
CAAAUUCAAAUGGUUGUUCCCAAUU_U__UUUUCCGAGUGCUGCACUCAGUUCUCUUACAUGUCUCAAGGACAUGUUCAUAGCUGACUGCCUCGGAGUUCUCGCUGAACUGA
...............................(((((((....(((.((((((.....(((((((.....)))))))....)))))).))))))))))............... (-22.46 = -22.78 +   0.32)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:21 2006