Locus 6042

Sequence ID 3R_DroMel_CAF1
Location 15,910,257 – 15,910,354
Length 97
Max. P 0.809194
window9857 window9858

overview

Window 7

Location 15,910,257 – 15,910,354
Length 97
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 80.99
Mean single sequence MFE -23.83
Consensus MFE -11.80
Energy contribution -12.66
Covariance contribution 0.86
Combinations/Pair 1.05
Mean z-score -2.40
Structure conservation index 0.49
SVM decision value 0.12
SVM RNA-class probability 0.590962
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15910257 97 + 27905053
UGAUUUCAUUAAGUG-AUUGCUGCCAAAGCUGACA---GCGUCAAUUAAUGACAAGCGGAAAUGAAAGU----UGCUGCUUAAAAAGAAACUCCA-UUUA-AGCGCA
.....(((((((.((-((.((((.((....)).))---)))))).)))))))...((((.(((....))----).))(((((((..(.....)..-))))-))))). ( -24.40)
>DroSec_CAF1 28094 97 + 1
UGAUUUCAUUAAGUG-AUUGCUGCCAAAGCUGACA---GCGUCAAUUAAUGACAAGCGGAAAUGAAAGU----UGCUGCUUAAAAAGAAGUGCCA-UCUA-AGCGCA
.....(((((((.((-((.((((.((....)).))---)))))).))))))).((((((.(((....))----).))))))........((((..-....-.)))). ( -28.00)
>DroSim_CAF1 17635 97 + 1
UGAUUUCAUUAAGUG-AUUGCUGCCAAAGCUGACA---GCGUCAAUUAAUGACAAGCGGAAAUGAAAGU----UGCUGCUCAAAAAGAAGUGCCA-UCUA-AGCGCA
.....(((((((.((-((.((((.((....)).))---)))))).)))))))..(((((.(((....))----).))))).........((((..-....-.)))). ( -26.50)
>DroEre_CAF1 17033 85 + 1
UGAUUUCAUUAAGUG-AUUGCUGCCAAAGCUGACA---GCGUCAAUUAAUGACAAGCGGAAAUGAAAAUGAAAUGCGGCUUAAAAAGAA------------------
.....(((((((.((-((.((((.((....)).))---)))))).))))))).((((.(..((....))......).))))........------------------ ( -18.80)
>DroYak_CAF1 18509 98 + 1
UGAUUUCAUUAAGUG-AUUGCUGCCAAAGCUGACA---GCGUCAAAUAAUGGCAAGCGGAAAUAAAAGU----UGCUGCUUAAAAAGAAGUGUCA-UCCAAAACGUA
((((.((((((..((-((.((((.((....)).))---))))))..)))))).((((((.(((....))----).))))))..........))))-........... ( -21.00)
>DroPer_CAF1 25809 100 + 1
UGAUUUCAUUAAGUGGAUUGCUGCUAAAGCUGACAGAAGCGUCAAUUAAUGACAAGCAGAAAUCGAAAUCGAAAGCAGCACAAAAAAUGCAGCAACUC-------UA
.((((((........((((.(((((...(((......)))((((.....)))).))))).))))))))))....((.(((.......))).)).....-------.. ( -24.30)
>consensus
UGAUUUCAUUAAGUG_AUUGCUGCCAAAGCUGACA___GCGUCAAUUAAUGACAAGCGGAAAUGAAAGU____UGCUGCUUAAAAAGAAGUGCCA_UCUA_AGCGCA
.....(((((((.......(((.....)))((((......)))).))))))).((((((................)))))).......................... (-11.80 = -12.66 +   0.86)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,910,257 – 15,910,354
Length 97
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 80.99
Mean single sequence MFE -24.50
Consensus MFE -11.40
Energy contribution -11.43
Covariance contribution 0.03
Combinations/Pair 1.08
Mean z-score -2.97
Structure conservation index 0.47
SVM decision value 0.64
SVM RNA-class probability 0.809194
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15910257 97 - 27905053
UGCGCU-UAAA-UGGAGUUUCUUUUUAAGCAGCA----ACUUUCAUUUCCGCUUGUCAUUAAUUGACGC---UGUCAGCUUUGGCAGCAAU-CACUUAAUGAAAUCA
((((((-((((-.((.....)).))))))).)))----..(((((((.......((((.....))))((---((((......))))))...-.....)))))))... ( -28.40)
>DroSec_CAF1 28094 97 - 1
UGCGCU-UAGA-UGGCACUUCUUUUUAAGCAGCA----ACUUUCAUUUCCGCUUGUCAUUAAUUGACGC---UGUCAGCUUUGGCAGCAAU-CACUUAAUGAAAUCA
((((((-((((-.((.....)).))))))).)))----..(((((((.......((((.....))))((---((((......))))))...-.....)))))))... ( -26.90)
>DroSim_CAF1 17635 97 - 1
UGCGCU-UAGA-UGGCACUUCUUUUUGAGCAGCA----ACUUUCAUUUCCGCUUGUCAUUAAUUGACGC---UGUCAGCUUUGGCAGCAAU-CACUUAAUGAAAUCA
((((((-((((-.((.....)).))))))).)))----..(((((((.......((((.....))))((---((((......))))))...-.....)))))))... ( -27.00)
>DroEre_CAF1 17033 85 - 1
------------------UUCUUUUUAAGCCGCAUUUCAUUUUCAUUUCCGCUUGUCAUUAAUUGACGC---UGUCAGCUUUGGCAGCAAU-CACUUAAUGAAAUCA
------------------.............(.((((((((.............((((.....))))((---((((......))))))...-.....))))))))). ( -19.10)
>DroYak_CAF1 18509 98 - 1
UACGUUUUGGA-UGACACUUCUUUUUAAGCAGCA----ACUUUUAUUUCCGCUUGCCAUUAUUUGACGC---UGUCAGCUUUGGCAGCAAU-CACUUAAUGAAAUCA
.........((-(...............(((((.----............)).)))(((((..(((.((---((((......))))))..)-))..)))))..))). ( -18.82)
>DroPer_CAF1 25809 100 - 1
UA-------GAGUUGCUGCAUUUUUUGUGCUGCUUUCGAUUUCGAUUUCUGCUUGUCAUUAAUUGACGCUUCUGUCAGCUUUAGCAGCAAUCCACUUAAUGAAAUCA
..-------(((..((.((((.....)))).)).)))((((((((((.(((((.((((.....))))(((......)))...))))).))))........)))))). ( -26.80)
>consensus
UGCGCU_UAGA_UGGCACUUCUUUUUAAGCAGCA____ACUUUCAUUUCCGCUUGUCAUUAAUUGACGC___UGUCAGCUUUGGCAGCAAU_CACUUAAUGAAAUCA
..................................................(((.((((....((((((....))))))...)))))))................... (-11.40 = -11.43 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:11 2006