Locus 7647

Sequence ID 3L_DroMel_CAF1
Location 20,561,063 – 20,561,203
Length 140
Max. P 0.771557
window12423 window12424

overview

Window 3

Location 20,561,063 – 20,561,171
Length 108
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 96.97
Mean single sequence MFE -40.63
Consensus MFE -34.87
Energy contribution -34.87
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.46
Structure conservation index 0.86
SVM decision value 0.53
SVM RNA-class probability 0.771557
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20561063 108 + 23771897
ACUCGGGCCAAGACAAAGGCAAUGUCGGCCAGGAAAGUGGCAAGUCAAAGGCAGUGGCAGUGGCAUCUGCAUUAUGGCAAUGCGGAGUAUUGUGUUGCCUC---UUUCCCA
.....((((..((((.......)))))))).((((((.(((((((((...((....))..)))).((((((((.....))))))))........))))).)---))))).. ( -41.60)
>DroSim_CAF1 104446 111 + 1
ACUCCGGCCAAGACAAAGGCAAUGUCGGCCAGGAAAGUGGCAAGUCAAAGGCAGUGGCAGUCGCAUCUGCAUUAUGGCAAUGCGGAGUAUUGUGUUGCCUCUUCUUUCCCA
.....((((..((((.......)))))))).((((((.(((((((.....))....(((((.((.((((((((.....))))))))))))))).)))))....)))))).. ( -38.40)
>DroEre_CAF1 105618 108 + 1
ACUCCGGCCAAGACAAAGGCAAUGUCGGCCAGGAAAGUGGCAAGUCAAAGGCAGUGGCAGUGGCAUCUGCAUUAUGGCAAUGCGGAGUAUUGUGUUGCCUC---UUUCCCA
.....((((..((((.......)))))))).((((((.(((((((((...((....))..)))).((((((((.....))))))))........))))).)---))))).. ( -41.90)
>consensus
ACUCCGGCCAAGACAAAGGCAAUGUCGGCCAGGAAAGUGGCAAGUCAAAGGCAGUGGCAGUGGCAUCUGCAUUAUGGCAAUGCGGAGUAUUGUGUUGCCUC___UUUCCCA
.....((((..((((.......)))))))).(((((..(((((((.....))....(((((.((.((((((((.....))))))))))))))).))))).....))))).. (-34.87 = -34.87 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 20,561,096 – 20,561,203
Length 107
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 91.84
Mean single sequence MFE -32.88
Consensus MFE -29.91
Energy contribution -30.57
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.91
SVM decision value 0.14
SVM RNA-class probability 0.603198
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20561096 107 - 23771897
-------GC-GGCAACAGGCAACCUGGCUAACUGGCAACAUGGGAAA---GAGGCAACACAAUACUCCGCAUUGCCAUAAUGCAGAUGCCACUGCCACUGCCUUUGACUUGCCACUUU
-------..-(((((.(((((...((((....(((((.(...(((..---(.(....).).....)))((((((...)))))).).)))))..)))).))))).....)))))..... ( -32.20)
>DroSim_CAF1 104479 110 - 1
-------GC-GGCAACAGGCAACCUGGCUAACUGGCAACAUGGGAAAGAAGAGGCAACACAAUACUCCGCAUUGCCAUAAUGCAGAUGCGACUGCCACUGCCUUUGACUUGCCACUUU
-------..-(((((.(((((...((((....(((((..((((((.......(....).......))).))))))))...(((....)))...)))).))))).....)))))..... ( -31.54)
>DroEre_CAF1 105651 115 - 1
CUGGCAACCUGGCAACUGGCAACCUGGCUAACUGGCAACAUGGGAAA---GAGGCAACACAAUACUCCGCAUUGCCAUAAUGCAGAUGCCACUGCCACUGCCUUUGACUUGCCACUUU
.((((((...((((..(((((...((((...(((.((..((((.((.---(((...........)))....)).))))..)))))..)))).))))).))))......)))))).... ( -34.90)
>consensus
_______GC_GGCAACAGGCAACCUGGCUAACUGGCAACAUGGGAAA___GAGGCAACACAAUACUCCGCAUUGCCAUAAUGCAGAUGCCACUGCCACUGCCUUUGACUUGCCACUUU
..........(((((.(((((...((((....(((((.(...(((.......(....).......)))((((((...)))))).).)))))..)))).))))).....)))))..... (-29.91 = -30.57 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:37 2006