Locus 7818

Sequence ID 2L_DroMel_CAF1
Location 22,133,959 – 22,134,107
Length 148
Max. P 0.968972
window12528 window12529 window12530

overview

Window 8

Location 22,133,959 – 22,134,051
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 88.33
Mean single sequence MFE -37.58
Consensus MFE -33.38
Energy contribution -33.22
Covariance contribution -0.16
Combinations/Pair 1.24
Mean z-score -1.84
Structure conservation index 0.89
SVM decision value 0.97
SVM RNA-class probability 0.892862
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22133959 92 - 22407834
GUUAGGAUGCCACUGCGUGGUGGCAUCUUGGGCAGUGGCGGCUUGCCAGUCACCUUUUGCAGAGUUGAGGUCUUGCCCAGCUGUUCCUGUUG
..((((((((((((....))))))))))))(((((..((((((.((.((..(((((..........))))))).))..))))))..))))). ( -39.50)
>DroSec_CAF1 6147 91 - 1
GUUAGGAUGC-ACUUCGUUGUGGCAUCUUGGGCAGUGGCGGCUUGCCAGUCACCCUUUGCAGAGUUGAGGUCUUGCCCAGCUGUUCCUGUUG
..((((((((-((......)).))))))))(((((..((((((.((.((....((((.((...)).)))).)).))..))))))..))))). ( -31.10)
>DroSim_CAF1 6530 92 - 1
GUUAGGAUGCCACUUCGUGGUGGCAUCUUGGGCAGUGGCGGCUUGCCAGUCACCCUUUGCAGAGUUGAGGUCUUGCCCAGCUGUUCCUGUUG
..((((((((((((....))))))))))))(((((..((((((.((.((....((((.((...)).)))).)).))..))))))..))))). ( -38.90)
>DroEre_CAF1 7713 92 - 1
GCCAGGAUGCCACUGCGUGGUGGAAUUUUGGGCAGUGGCGGCUUGCCAGUCACCCUUUGCAGAGUUGAGGUCUUGACCAGCUGUUCCUGUUG
.(((((((.(((((....))))).)))))))((((..((((((.....((((.((((.((...)).))))...)))).))))))..)))).. ( -33.60)
>DroYak_CAF1 6813 92 - 1
GCCAGGAUGCCACUACGUGGUGGCAUCUUGGGCAGUGGCGGCUUGCCAGUCACCCUUUGCAGGGUUGAGGUCUUGACCAGCUGUUCCUGAGG
.(((((((((((((....))))))))))))).(((..((((((......(((((((....)))).)))(((....)))))))))..)))... ( -46.00)
>DroAna_CAF1 22155 92 - 1
GCCAGGCUGCCACUUCGGGGAGGCUGCUUGGGCAACGGCGGCUUACCAGUCACCUUCUGCAGUGUGGAGGUUUUCGCCAGCUGUUCUGGCUG
.(((.(((((..(....)((((((((((..(....))))))))).))...........))))).)))........(((((.....))))).. ( -36.40)
>consensus
GCCAGGAUGCCACUUCGUGGUGGCAUCUUGGGCAGUGGCGGCUUGCCAGUCACCCUUUGCAGAGUUGAGGUCUUGCCCAGCUGUUCCUGUUG
.(((((((((((((....)))))))))))))((((..((((((.(.(((....((((.((...)).))))..))).).))))))..)))).. (-33.38 = -33.22 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 9

Location 22,134,011 – 22,134,107
Length 96
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 79.00
Mean single sequence MFE -35.63
Consensus MFE -20.59
Energy contribution -22.26
Covariance contribution 1.67
Combinations/Pair 1.12
Mean z-score -1.80
Structure conservation index 0.58
SVM decision value 0.33
SVM RNA-class probability 0.692852
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22134011 96 + 22407834
CGCCACUGCCCAAGAUGCCACCACGCAGUGGCAUCCUAACGCAUGCGCCUCAGGAAACGACCGGUGAAACUGU---C------A--AUUGCCAUCGC-ACCGAGGCGU
......(((....((((((((......)))))))).....))).(((((((.(....)....((((....((.---(------.--...).))...)-)))))))))) ( -35.10)
>DroSec_CAF1 6199 95 + 1
CGCCACUGCCCAAGAUGCCACAACGAAGU-GCAUCCUAACGCAUGCGCCUCAGGAAACGACUGGUGAAACUGU---C------A--GUUGCCACCGC-ACCGAGGCGU
......(((....(((((.((......))-))))).....))).(((((((.(....)....((((.(((...---.------.--)))..))))..-...))))))) ( -30.40)
>DroSim_CAF1 6582 96 + 1
CGCCACUGCCCAAGAUGCCACCACGAAGUGGCAUCCUAACGCAUGCGCCUCAGGAAACGACUGGUGAAACUGU---C------A--GUUGCCACCGC-ACCGAGGCGU
......(((....((((((((......)))))))).....))).(((((((.(....)....((((.(((...---.------.--)))..))))..-...))))))) ( -37.00)
>DroEre_CAF1 7765 96 + 1
CGCCACUGCCCAAAAUUCCACCACGCAGUGGCAUCCUGGCGCAUGCGCCUCAGGAAACAACCAGUGAAGCCGU---C------A--AUCUCCAUCGU-GCCGUGGCGU
.((((((((...............)))))))).((((((((....))))..))))...............(((---(------(--..(........-)...))))). ( -29.46)
>DroYak_CAF1 6865 96 + 1
CGCCACUGCCCAAGAUGCCACCACGUAGUGGCAUCCUGGCGCAUGCGCCUCCGGAAACGACUGGUGAAGCCGU---C------A--AUUUCCAUCGC-GCCAUGGCGU
(((((.((((((.((((((((......)))))))).))).))).((((....(((((.(((.((.....))))---)------.--.)))))...))-))..))))). ( -44.00)
>DroAna_CAF1 22207 108 + 1
CGCCGUUGCCCAAGCAGCCUCCCCGAAGUGGCAGCCUGGCGCAUGCGCCUCACGGAACAGCUCAGGGUGCCGUUGCCGUACCCAGUGUUGCCAGUGAAAGCGAAGCAA
((((((((((((.((.(((.(......).))).)).))).))).)))..((((((..((((.(.((((((.......)))))).).)))))).))))..)))...... ( -37.80)
>consensus
CGCCACUGCCCAAGAUGCCACCACGAAGUGGCAUCCUAACGCAUGCGCCUCAGGAAACGACUGGUGAAACCGU___C______A__AUUGCCAUCGC_ACCGAGGCGU
.((...(((....((((((((......)))))))).....))).))(((((.(....)...(((((.........................))))).....))))).. (-20.59 = -22.26 +   1.67)

alignment

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secondary structure

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dotplot

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Window 0

Location 22,134,011 – 22,134,107
Length 96
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 79.00
Mean single sequence MFE -45.62
Consensus MFE -37.36
Energy contribution -36.62
Covariance contribution -0.74
Combinations/Pair 1.44
Mean z-score -2.60
Structure conservation index 0.82
SVM decision value 1.63
SVM RNA-class probability 0.968972
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22134011 96 - 22407834
ACGCCUCGGU-GCGAUGGCAAU--U------G---ACAGUUUCACCGGUCGUUUCCUGAGGCGCAUGCGUUAGGAUGCCACUGCGUGGUGGCAUCUUGGGCAGUGGCG
..(((((((.-(.((((((...--(------(---(.....)))...)))))).))))))))((.(((.(((((((((((((....))))))))))))))))...)). ( -46.70)
>DroSec_CAF1 6199 95 - 1
ACGCCUCGGU-GCGGUGGCAAC--U------G---ACAGUUUCACCAGUCGUUUCCUGAGGCGCAUGCGUUAGGAUGC-ACUUCGUUGUGGCAUCUUGGGCAGUGGCG
..(((((((.-(((((((.(((--.------.---...)))...))).))))...)))))))((.(((.(((((((((-((......)).))))))))))))...)). ( -37.50)
>DroSim_CAF1 6582 96 - 1
ACGCCUCGGU-GCGGUGGCAAC--U------G---ACAGUUUCACCAGUCGUUUCCUGAGGCGCAUGCGUUAGGAUGCCACUUCGUGGUGGCAUCUUGGGCAGUGGCG
..(((((((.-(((((((.(((--.------.---...)))...))).))))...)))))))((.(((.(((((((((((((....))))))))))))))))...)). ( -45.30)
>DroEre_CAF1 7765 96 - 1
ACGCCACGGC-ACGAUGGAGAU--U------G---ACGGCUUCACUGGUUGUUUCCUGAGGCGCAUGCGCCAGGAUGCCACUGCGUGGUGGAAUUUUGGGCAGUGGCG
.((((((.((-.(...((((((--.------.---.(((.....)))...))))))...)))...(((.(((((((.(((((....))))).)))))))))))))))) ( -40.90)
>DroYak_CAF1 6865 96 - 1
ACGCCAUGGC-GCGAUGGAAAU--U------G---ACGGCUUCACCAGUCGUUUCCGGAGGCGCAUGCGCCAGGAUGCCACUACGUGGUGGCAUCUUGGGCAGUGGCG
.((((((.((-((..(((((((--.------(---((((.....)).))))))))))...)))).(((.(((((((((((((....)))))))))))))))))))))) ( -55.20)
>DroAna_CAF1 22207 108 - 1
UUGCUUCGCUUUCACUGGCAACACUGGGUACGGCAACGGCACCCUGAGCUGUUCCGUGAGGCGCAUGCGCCAGGCUGCCACUUCGGGGAGGCUGCUUGGGCAACGGCG
..(((((((.((((.((....)).))))...((.((((((.......)))))))))))))))((.(((.((((((.(((.(....)...))).)))))))))...)). ( -48.10)
>consensus
ACGCCUCGGU_GCGAUGGCAAC__U______G___ACAGCUUCACCAGUCGUUUCCUGAGGCGCAUGCGCCAGGAUGCCACUUCGUGGUGGCAUCUUGGGCAGUGGCG
..(((((((..(((((((..........................))).))))...)))))))((.(((.(((((((((((((....))))))))))))))))...)). (-37.36 = -36.62 +  -0.74)

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 12:45:34 2006