Locus 610

Sequence ID 2R_DroMel_CAF1
Location 3,101,852 – 3,102,012
Length 160
Max. P 0.931517
window1099 window1100

overview

Window 9

Location 3,101,852 – 3,101,972
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.89
Mean single sequence MFE -40.65
Consensus MFE -30.27
Energy contribution -31.95
Covariance contribution 1.68
Combinations/Pair 1.18
Mean z-score -2.30
Structure conservation index 0.74
SVM decision value 1.21
SVM RNA-class probability 0.931517
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3101852 120 - 20766785
AGUUGCCAAGGGCUGCCACUUUGUCGUAUUUGGCAGGGUGGCAGCUCUGUCGCACAUCAAUGGUUAAACCGGUUCACCAAUCACACAUAUUUACCGGUUUAAUUUCGGCCGACAGCUGUU
.((((((.((((((((((((((((((....)))))))))))))))))).............((((((((((((...................))))))))))))..)).))))....... ( -50.81)
>DroSec_CAF1 16489 120 - 1
AGUUGCCAGUGGCUGCCACACUGUCGGAUUUCGCAGGGUGGCAGCUCUGUUUCACAUCAAUGGUUGAACCGGUUCGGCAAUCGCACAUAUUUACCGGUUUAAUUUCGGCCGACAGCUGUU
(((((.(((.(((((((((.(((.((.....))))).))))))))))))...........(((((((((((((...((....))........))))))......))))))).)))))... ( -44.10)
>DroSim_CAF1 23209 120 - 1
AGUUGCCAGUGGGUGCCACACUGUCGUAUUUAGCAGGGUGGCAGCUCUGUCUCACAUCAAUGGUUGAACCGGUUCGGCAAUCGCACAUAUUUACCGGUUUAAUUUCGGCCGACAGCUGUU
.((((((.(((((((((((.((((........)))).)))))).......)))))......((((((((((((...((....))........))))))))))))..)).))))....... ( -40.31)
>DroEre_CAF1 16669 117 - 1
AGUUUGCAGUGGCUGCCACACUAUCGUAUUUCGCAGGGUGGCAGCUCUGU--CACAUCGGUUUUUAAACCGGUUCACUAAUCGCACAUAUUUUCCGGUUACA-GUUGCCCGACGGCUGUU
.((..((((.(((((((((.((..((.....))..)))))))))))))))--.))(((((((....)))))))....((((((...........))))))((-((((.....)))))).. ( -36.10)
>DroYak_CAF1 16706 118 - 1
AGUUUCCAUUAGCUGCCACCAUAUCGGAUUUCGCAGGGUGGCAGCUCUGU--CACAUCGAUUAUUAAACCGGUUCGCCAAUCGCACAUAUUUACCGGAUAAAUGUAGACUGCCAGCUGUU
(((((.((((((((((((((....((.....))...))))))))))....--................(((((...................)))))...)))).))))).......... ( -31.91)
>consensus
AGUUGCCAGUGGCUGCCACACUGUCGUAUUUCGCAGGGUGGCAGCUCUGU__CACAUCAAUGGUUAAACCGGUUCGCCAAUCGCACAUAUUUACCGGUUUAAUUUCGGCCGACAGCUGUU
(((((.(((.(((((((((.((((........)))).))))))))))))............((((((((((((...................))))))))))))........)))))... (-30.27 = -31.95 +   1.68)

alignment

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secondary structure

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dotplot

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Window 0

Location 3,101,892 – 3,102,012
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.72
Mean single sequence MFE -42.24
Consensus MFE -28.66
Energy contribution -28.94
Covariance contribution 0.28
Combinations/Pair 1.26
Mean z-score -2.25
Structure conservation index 0.68
SVM decision value 0.75
SVM RNA-class probability 0.839604
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3101892 120 - 20766785
ACGACGAAAUACCGAAAUUGGGGAGAAAAUGCCAGUGGUGAGUUGCCAAGGGCUGCCACUUUGUCGUAUUUGGCAGGGUGGCAGCUCUGUCGCACAUCAAUGGUUAAACCGGUUCACCAA
....((......))...((((.(((.....((((.(((((...(((..((((((((((((((((((....))))))))))))))))))...)))))))).))))........))).)))) ( -48.62)
>DroSec_CAF1 16529 120 - 1
ACGGCGAAAAACCGAAAUUGGGGAGAAAAUGCCAGUGGUGAGUUGCCAGUGGCUGCCACACUGUCGGAUUUCGCAGGGUGGCAGCUCUGUUUCACAUCAAUGGUUGAACCGGUUCGGCAA
..(.(((...((((((((.(((........((((.((((.....)))).))))((((((.(((.((.....))))).)))))).))).)))))........((.....)))))))).).. ( -44.20)
>DroSim_CAF1 23249 120 - 1
ACGGCGAAAAACCGAAAUUGGGGAGAAAAUGCCAGUGGUGAGUUGCCAGUGGGUGCCACACUGUCGUAUUUAGCAGGGUGGCAGCUCUGUCUCACAUCAAUGGUUGAACCGGUUCGGCAA
..(.(((...(((...(((((.((((.....(((.((((.....)))).))).((((((.((((........)))).))))))......))))...)))))((.....)))))))).).. ( -41.40)
>DroEre_CAF1 16708 118 - 1
ACGAUGAAAUACCGAAUUUGUGGAGAACACGCCUGUGGUGAGUUUGCAGUGGCUGCCACACUAUCGUAUUUCGCAGGGUGGCAGCUCUGU--CACAUCGGUUUUUAAACCGGUUCACUAA
.((...(((.(((((...((((..((((.((((...)))).))))((((.(((((((((.((..((.....))..)))))))))))))))--))))))))).)))....))......... ( -39.80)
>DroYak_CAF1 16746 118 - 1
ACGGUGAAAUACCGAAUUUAGGUAGAACAAGCUCGUGGUGAGUUUCCAUUAGCUGCCACCAUAUCGGAUUUCGCAGGGUGGCAGCUCUGU--CACAUCGAUUAUUAAACCGGUUCGCCAA
..((((((.((((.......))))........(((..((((.....((..((((((((((....((.....))...)))))))))).)))--)))..)))............)))))).. ( -37.20)
>consensus
ACGGCGAAAUACCGAAAUUGGGGAGAAAAUGCCAGUGGUGAGUUGCCAGUGGCUGCCACACUGUCGUAUUUCGCAGGGUGGCAGCUCUGU__CACAUCAAUGGUUAAACCGGUUCGCCAA
..(.(((...((((...((((.(......).))))(((((.(....(((.(((((((((.((((........)))).))))))))))))...).)))))..........))))))).).. (-28.66 = -28.94 +   0.28)

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 09:42:47 2006