Locus 6027

Sequence ID 3L_DroMel_CAF1
Location 16,071,103 – 16,071,214
Length 111
Max. P 0.991131
window9647 window9648

overview

Window 7

Location 16,071,103 – 16,071,214
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.00
Mean single sequence MFE -21.35
Consensus MFE -19.32
Energy contribution -19.96
Covariance contribution 0.64
Combinations/Pair 1.05
Mean z-score -2.28
Structure conservation index 0.91
SVM decision value 2.25
SVM RNA-class probability 0.991131
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16071103 111 + 23771897
UUGAAUAAUGUCCCAGCAAAUUCGCGUGGUACAAUGCAUUCAAUGCAAAAUGUACCAGGUGAGUGCAAAC-AAACUGAAAUAUAUCUUAGAACUCAAUAACUACU------UA--UAUAU
((((...........(((...((((.(((((((.(((((...)))))...))))))).)))).)))....-...((((........))))...))))........------..--..... ( -25.50)
>DroSec_CAF1 1 111 + 1
-------AUGUCCCAGCAAAUUCGCGUGGUACAAUGCAUUCAAUGCAAAAUGUACCAGGUGAGUGCAAAAAAAAUUUAAAUAUUUCUUAGAACUCACUAACUACUACUACUAC--UAAAU
-------........(((...((((.(((((((.(((((...)))))...))))))).)))).)))....................((((......)))).............--..... ( -23.40)
>DroSim_CAF1 6156 117 + 1
UUGAAAAAUGUCCCCGCAAAUUCGUGUGGUACAAUGCAUUCAAUGCAAAAUGUACCAGGUGAGUGCAAAA-AAACUAAAAUAUAUCCUAGAACUCACUAACUACUACUACUAC--UAAAU
..............(((......)))(((((((.(((((...)))))...)))))))(((((((......-....................)))))))...............--..... ( -20.47)
>DroEre_CAF1 1 104 + 1
-------AUGUCCCAGCAAAUUCGCGUGGUACAAUGCAUUCAAUGCAAAAUGUACCAGGUUAGCGCAUAA--A-CUCCAUUAAACAUCAGAACUCAUCAACUACU------UACAUACAU
-------........((......((.(((((((.(((((...)))))...))))))).))....))....--.-...............................------......... ( -16.20)
>DroYak_CAF1 6234 106 + 1
UUGAAAAAUGCCCCAGCAAAUUCGCGUGGUACAAUGCAUCCAAUGCAAAAUGUACCAGGUAAGCGCACAA--AUCUCAAGUAAUCCUUAGAACUCAAUAGCUACU------UAA------
..(((...(((....)))..)))((.(((((((.(((((...)))))...))))))).)).(((......--.(((.(((.....))))))........)))...------...------ ( -21.16)
>consensus
UUGAA_AAUGUCCCAGCAAAUUCGCGUGGUACAAUGCAUUCAAUGCAAAAUGUACCAGGUGAGUGCAAAA_AAACUCAAAUAUAUCUUAGAACUCAAUAACUACU______UA__UAAAU
...............((..((((((.(((((((.(((((...)))))...))))))).))))))))...................................................... (-19.32 = -19.96 +   0.64)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,071,103 – 16,071,214
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.00
Mean single sequence MFE -26.44
Consensus MFE -18.10
Energy contribution -17.82
Covariance contribution -0.28
Combinations/Pair 1.12
Mean z-score -1.48
Structure conservation index 0.68
SVM decision value 0.12
SVM RNA-class probability 0.594514
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16071103 111 - 23771897
AUAUA--UA------AGUAGUUAUUGAGUUCUAAGAUAUAUUUCAGUUU-GUUUGCACUCACCUGGUACAUUUUGCAUUGAAUGCAUUGUACCACGCGAAUUUGCUGGGACAUUAUUCAA
.((((--(.------..(((..........)))..)))))(..((((..-((((((.......(((((((...(((((...))))).))))))).))))))..))))..).......... ( -26.90)
>DroSec_CAF1 1 111 - 1
AUUUA--GUAGUAGUAGUAGUUAGUGAGUUCUAAGAAAUAUUUAAAUUUUUUUUGCACUCACCUGGUACAUUUUGCAUUGAAUGCAUUGUACCACGCGAAUUUGCUGGGACAU-------
.....--((..((((((..((..((((((.(.(((((((......)))))))..).)))))).(((((((...(((((...))))).))))))).))....))))))..))..------- ( -29.00)
>DroSim_CAF1 6156 117 - 1
AUUUA--GUAGUAGUAGUAGUUAGUGAGUUCUAGGAUAUAUUUUAGUUU-UUUUGCACUCACCUGGUACAUUUUGCAUUGAAUGCAUUGUACCACACGAAUUUGCGGGGACAUUUUUCAA
.....--((((.....((.....((((((.(.(((((........))))-)...).)))))).(((((((...(((((...))))).))))))).))....))))(....)......... ( -24.80)
>DroEre_CAF1 1 104 - 1
AUGUAUGUA------AGUAGUUGAUGAGUUCUGAUGUUUAAUGGAG-U--UUAUGCGCUAACCUGGUACAUUUUGCAUUGAAUGCAUUGUACCACGCGAAUUUGCUGGGACAU-------
((((..(((------(((.....((((..(((..........))).-.--))))(((......(((((((...(((((...))))).))))))))))..))))))....))))------- ( -23.70)
>DroYak_CAF1 6234 106 - 1
------UUA------AGUAGCUAUUGAGUUCUAAGGAUUACUUGAGAU--UUGUGCGCUUACCUGGUACAUUUUGCAUUGGAUGCAUUGUACCACGCGAAUUUGCUGGGGCAUUUUUCAA
------.((------(((.((...(((((..((((.....))))..))--))).)))))))..(((((((...(((((...))))).)))))))...(((..(((....)))...))).. ( -27.80)
>consensus
AUUUA__UA______AGUAGUUAGUGAGUUCUAAGAUAUAUUUGAGUUU_UUUUGCACUCACCUGGUACAUUUUGCAUUGAAUGCAUUGUACCACGCGAAUUUGCUGGGACAUU_UUCAA
...................(((..(((((.(.......................).)))))(((((((((...(((((...))))).))))))).(((....))).)))))......... (-18.10 = -17.82 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:17 2006