Locus 8640

Sequence ID 3L_DroMel_CAF1
Location 22,439,994 – 22,440,126
Length 132
Max. P 0.821164
window14158 window14159

overview

Window 8

Location 22,439,994 – 22,440,086
Length 92
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 80.67
Mean single sequence MFE -33.78
Consensus MFE -23.16
Energy contribution -24.48
Covariance contribution 1.31
Combinations/Pair 1.23
Mean z-score -1.90
Structure conservation index 0.69
SVM decision value 0.68
SVM RNA-class probability 0.821164
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22439994 92 + 23771897
G-GGGUGUGUAUUUGGUCUG---------------------------CCUGAGAAUCUGAGCGACAGCUCAGGGUGUAGCGCAGGUGUAUUGUGUGGCUGAUAUAAAGGGCAAAGAAAAG
.-.....(((.(((.(((.(---------------------------((......(((((((....))))))).....((((((.....))))))))).)))...))).)))........ ( -25.40)
>DroSec_CAF1 11652 119 + 1
G-GGGUGUGUAUUUGGCCUGCGAGGCUGACAGAACAUAUAAGAUGCGCCUGAGAAAUGGAGCGACAGCUCAGUGUGUAGCACAGGUGUAUUGUGUGGCUGAUAUAAAGGCCAAAGAAAAG
.-.........((((((((....(((((((((.((((......((((((((((...((......)).))))).)))))......)))).)))).))))).......))))))))...... ( -38.60)
>DroEre_CAF1 18188 118 + 1
GGG--UGUGUAUUUGGUCUGCGAGGCUGACAGAACAUGUAAGAUGCGCCUGAGAAUCGAAGCGACAGCUCAGUGUGUGGCGCAGGUGUAUUGUGUGGCCGAUAUAAAGGCCAAAGAAAAG
...--......((((((((....(((((((((.((((.(..(..(((((((((..(((...)))...))))).))))..)..).)))).)))).))))).......))))))))...... ( -36.40)
>DroYak_CAF1 56803 120 + 1
GGGGGCAUGUAUUUGGUCUGCGAGGCUGACGGAACAUGUAAGAUGCGCCUGAGAAUCGAAGCGACAGUUCAGUGUGUAGUGCAGGUGUAUUGUGUGGCCGAUAUAAAGGCCAAAGAAAAG
....((((((..((.(((.((...)).))).))))))))..((((((((((.....(...((.((......))))...)..))))))))))...(((((........)))))........ ( -34.70)
>consensus
G_GGGUGUGUAUUUGGUCUGCGAGGCUGACAGAACAUGUAAGAUGCGCCUGAGAAUCGAAGCGACAGCUCAGUGUGUAGCGCAGGUGUAUUGUGUGGCCGAUAUAAAGGCCAAAGAAAAG
...........((((((((....((((................((((((((((..((.....))...))))).)))))((((((.....)))))))))).......))))))))...... (-23.16 = -24.48 +   1.31)

alignment

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secondary structure

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dotplot

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Window 9

Location 22,440,013 – 22,440,126
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.38
Mean single sequence MFE -29.53
Consensus MFE -17.88
Energy contribution -19.00
Covariance contribution 1.12
Combinations/Pair 1.34
Mean z-score -1.84
Structure conservation index 0.61
SVM decision value 0.35
SVM RNA-class probability 0.700327
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22440013 113 + 23771897
-------CCUGAGAAUCUGAGCGACAGCUCAGGGUGUAGCGCAGGUGUAUUGUGUGGCUGAUAUAAAGGGCAAAGAAAAGCAUUGAAUGAAGUCGGGAAAAUGCCAAAACUGCCAGUGAA
-------((((.(..(((((((....)))))))......).))))((((((........))))))...((((.......(((((...((....))....)))))......))))...... ( -27.32)
>DroSec_CAF1 11691 120 + 1
AGAUGCGCCUGAGAAAUGGAGCGACAGCUCAGUGUGUAGCACAGGUGUAUUGUGUGGCUGAUAUAAAGGCCAAAGAAAAGCACUGAAUUAAGUCGGGAAAAUGCCAAAACUGCCAGUGAA
.((((((((((.......((((....)))).((.....)).))))))))))...(((((........)))))........(((((.....(((..((......))...)))..))))).. ( -35.30)
>DroSim_CAF1 16251 86 + 1
----------------------------------UGUAGCGCAGGUGCAUUGUGUGGCUGAUAUAAAGGCCAAAGAAAAGCACUGAAUUAAGUCGGGAAAAUGCCAAAACUGCCAGUAAA
----------------------------------....(.((((((((.((...(((((........)))))....)).))))............((......))....)))))...... ( -20.00)
>DroEre_CAF1 18226 120 + 1
AGAUGCGCCUGAGAAUCGAAGCGACAGCUCAGUGUGUGGCGCAGGUGUAUUGUGUGGCCGAUAUAAAGGCCAAAGAAAAGAACCGAAUUAUGUCGGGAAAAUGCCAAAACAGGCAGUGAA
.((((((((((.........((.(((.(.....)))).)).))))))))))...(((((........)))))..........((((......)))).....((((......))))..... ( -37.50)
>DroYak_CAF1 56843 120 + 1
AGAUGCGCCUGAGAAUCGAAGCGACAGUUCAGUGUGUAGUGCAGGUGUAUUGUGUGGCCGAUAUAAAGGCCAAAGAAAAGAACCGAAUUAAGUGUGGAAAAUGUCAAAACUGUCAGUGAA
...((((((((((..(((...)))...))))).)))))..((.(((........(((((........))))).........)))((....(((...((.....))...))).)).))... ( -27.53)
>consensus
AGAUGCGCCUGAGAAUCGAAGCGACAGCUCAGUGUGUAGCGCAGGUGUAUUGUGUGGCUGAUAUAAAGGCCAAAGAAAAGCACUGAAUUAAGUCGGGAAAAUGCCAAAACUGCCAGUGAA
...((((((((((..((.....))...))))).))))).(((.(((((.((...(((((........)))))....)).)))))......(((..((......))...)))....))).. (-17.88 = -19.00 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:07 2006