Locus 7712

Sequence ID X_DroMel_CAF1
Location 19,211,284 – 19,211,414
Length 130
Max. P 0.984744
window12647 window12648

overview

Window 7

Location 19,211,284 – 19,211,381
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.64
Mean single sequence MFE -28.34
Consensus MFE -16.54
Energy contribution -17.38
Covariance contribution 0.84
Combinations/Pair 1.19
Mean z-score -2.14
Structure conservation index 0.58
SVM decision value 1.98
SVM RNA-class probability 0.984744
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19211284 97 + 22224390
--------------------GCAUGGUUGACAUCUUUGUAAGUGCGAAGCUAUGCCAUCGACUGCUCCAGCUGCACACACAAAGAUGUGAGGCUGCUCAUUUACAAAAUGCA---UUCAA
--------------------((((..(((((((((((((..((((..((((..((........))...))))))))..))))))))))(((....))).....))).)))).---..... ( -31.30)
>DroSec_CAF1 32658 98 + 1
------------C---A-UCGCUUGCUUGACAUCUUUGUAAGUGCAAAGCUAUGCCAUCGAAUGCUCCAGCUGCAU--ACAAAGAUGUGAGGCUGCAAA-CUACAAAAUGCA---UUCAG
------------.---.-..((..((((.((((((((((..(((((..(((..((........))...))))))))--)))))))))).)))).))...-............---..... ( -30.40)
>DroSim_CAF1 7414 88 + 1
--------------------------UUGACAUCUUUGUAAGUGCAAAGCUAUGCCAUCGAAUGCUCCAGCUGCAU--ACAAAGAUGUGAGGCUGCAAA-CUACAAAAUGCA---UUCAA
--------------------------.(.((((((((((..(((((..(((..((........))...))))))))--)))))))))).)(..((((..-........))))---..).. ( -23.80)
>DroEre_CAF1 29774 110 + 1
AGGUGGUGAUCCC---A-CCCCAUGGCUGACAUCUUUGUAAGUGCCAAGCUAUGCCAUCAAGUGCUGCAGCUGCGG--ACAAAGAAGUGAUGCUUCAAA-CUGCAAAACGCA---UUCUA
.((.((((....)---)-)))).((((..(((....)))....))))((..((((..((...((((((....))))--.))..)).((..(((......-..)))..)))))---).)). ( -29.30)
>DroYak_CAF1 30570 111 + 1
------UGGUUAACCAACCCCUUUGGCUGACAUCUUUGCAAGUGCGAAGUUAUCGAAUGAGAUGCUGUGGCUGCAG--ACAAAGAAGUGAUGCUUCAAA-CUACAAAAUGCAUCAUUCAA
------..((((.((((.....)))).))))..((((((....)))))).....((((((..((((((....))))--.))..((((.....))))...-............)))))).. ( -26.90)
>consensus
________________A__CCCAUGGUUGACAUCUUUGUAAGUGCAAAGCUAUGCCAUCGAAUGCUCCAGCUGCAG__ACAAAGAUGUGAGGCUGCAAA_CUACAAAAUGCA___UUCAA
...........................(.((((((((((..((((..((((..((........))...))))))))..)))))))))).).............................. (-16.54 = -17.38 +   0.84)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,211,304 – 19,211,414
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 75.93
Mean single sequence MFE -28.08
Consensus MFE -8.92
Energy contribution -9.32
Covariance contribution 0.40
Combinations/Pair 1.12
Mean z-score -1.96
Structure conservation index 0.32
SVM decision value 0.69
SVM RNA-class probability 0.824065
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19211304 110 - 22224390
GUGCUAAAUUCAUUGCAC--CCAGAAUGUAUUC-----UAUUGAA---UGCAUUUUGUAAAUGAGCAGCCUCACAUCUUUGUGUGUGCAGCUGGAGCAGUCGAUGGCAUAGCUUCGCACU
((((((...(((((((.(--(((((((((((((-----....)))---)))))))))......(((.(((.((((....)))).).)).))))).))))).))))))))........... ( -36.70)
>DroSec_CAF1 32682 95 - 1
GUGCUAAAUU-------------GUAUGUA-UC-----UACUGAA---UGCAUUUUGUAG-UUUGCAGCCUCACAUCUUUGU--AUGCAGCUGGAGCAUUCGAUGGCAUAGCUUUGCACU
((((.(((..-------------.(((((.-..-----...((((---(((....(.(((-((.(((.....(((....)))--.)))))))).))))))))...)))))..))))))). ( -21.20)
>DroSim_CAF1 7428 95 - 1
GUGCUAAAUU-------------GUAUGUA-UC-----UAUUGAA---UGCAUUUUGUAG-UUUGCAGCCUCACAUCUUUGU--AUGCAGCUGGAGCAUUCGAUGGCAUAGCUUUGCACU
((((.(((..-------------.((((..-.(-----(((((((---(((....(.(((-((.(((.....(((....)))--.)))))))).))))))))))))))))..))))))). ( -25.20)
>DroEre_CAF1 29810 106 - 1
GUGCCAAAUCCAAUGCAC--CAAGAAUGUA-UC-----UAUAGAA---UGCGUUUUGCAG-UUUGAAGCAUCACUUCUUUGU--CCGCAGCUGCAGCACUUGAUGGCAUAGCUUGGCACU
(((((((...(.((((..--((((((((((-((-----....).)---))))))((((((-(..((((.....))))..((.--...)))))))))..))))...)))).).))))))). ( -30.80)
>DroYak_CAF1 30604 116 - 1
GUGCUAAAUUCACUACAUUCACAGCAUGUA-UCAACGAUAUUGAAUGAUGCAUUUUGUAG-UUUGAAGCAUCACUUCUUUGU--CUGCAGCCACAGCAUCUCAUUCGAUAACUUCGCACU
((((.........(((((.......)))))-.......(((((((((((((...((((((-...((((.....)))).....--)))))).....)))..)))))))))).....)))). ( -26.50)
>consensus
GUGCUAAAUUCA_U_CA_____AGAAUGUA_UC_____UAUUGAA___UGCAUUUUGUAG_UUUGCAGCCUCACAUCUUUGU__AUGCAGCUGGAGCAUUCGAUGGCAUAGCUUCGCACU
((((............................................(((.....)))........(((((.......(((....)))((....))....)).)))........)))). ( -8.92 =  -9.32 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:40 2006