Locus 4535

Sequence ID 2L_DroMel_CAF1
Location 12,982,317 – 12,982,410
Length 93
Max. P 0.986250
window7148 window7149

overview

Window 8

Location 12,982,317 – 12,982,410
Length 93
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 83.28
Mean single sequence MFE -24.23
Consensus MFE -17.28
Energy contribution -17.17
Covariance contribution -0.11
Combinations/Pair 1.04
Mean z-score -2.01
Structure conservation index 0.71
SVM decision value 0.44
SVM RNA-class probability 0.738133
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12982317 93 + 22407834
------CCCAAGUCUAUGAAAAUUAAAUGAGAAUUUAAUUUUUUUUGUGUGAGUGCCUGCCUCUUGCAGGCGUGUGCGUAUGUGUGCGAGAAAGAGAGA
------..((...(...(((((((((((....)))))))))))...)..)).....((...(((((((.(((((....))))).))))))).))..... ( -21.70)
>DroSec_CAF1 6636 90 + 1
AUUUCUCAUAUGUUUAUGUAAAUUAAAUGAGAAUUUACUU---UUUGUGUGUGUGUCUGCCUCUUGCAGACGUGUGCGUAUGUGUGCGAG------AGA
.((((((.((..(.((((((((((.......)))))))..---.....(((..(((((((.....)))))))..)))))).)..)).)))------))) ( -25.50)
>DroSim_CAF1 6189 95 + 1
AUUUUUCAUAUGUUUAUGUAAAUUAAAUGAGAAUUUACUUU--UUUGUGUGUGUGUCUGCCUCUUGCAGACGUGUGCGUAUGUGUGCGAGA--GAGAGA
......((((((.....(((((((.......)))))))...--..))))))....(((..((((((((.(((((....))))).)))))))--)..))) ( -25.50)
>consensus
AUUU_UCAUAUGUUUAUGUAAAUUAAAUGAGAAUUUACUUU__UUUGUGUGUGUGUCUGCCUCUUGCAGACGUGUGCGUAUGUGUGCGAGA__GAGAGA
...........((.((((((...(((((....)))))...........(((..(((((((.....)))))))..))).)))))).))............ (-17.28 = -17.17 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 12,982,317 – 12,982,410
Length 93
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 83.28
Mean single sequence MFE -17.29
Consensus MFE -13.11
Energy contribution -13.33
Covariance contribution 0.22
Combinations/Pair 1.07
Mean z-score -3.21
Structure conservation index 0.76
SVM decision value 2.03
SVM RNA-class probability 0.986250
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12982317 93 - 22407834
UCUCUCUUUCUCGCACACAUACGCACACGCCUGCAAGAGGCAGGCACUCACACAAAAAAAAUUAAAUUCUCAUUUAAUUUUCAUAGACUUGGG------
............((........))....((((((.....)))))).((((.......((((((((((....))))))))))........))))------ ( -18.16)
>DroSec_CAF1 6636 90 - 1
UCU------CUCGCACACAUACGCACACGUCUGCAAGAGGCAGACACACACACAAA---AAGUAAAUUCUCAUUUAAUUUACAUAAACAUAUGAGAAAU
..(------(((((........))....((((((.....))))))...........---..(((((((.......)))))))..........))))... ( -18.60)
>DroSim_CAF1 6189 95 - 1
UCUCUC--UCUCGCACACAUACGCACACGUCUGCAAGAGGCAGACACACACACAAA--AAAGUAAAUUCUCAUUUAAUUUACAUAAACAUAUGAAAAAU
......--.........((((.......((((((.....))))))...........--...(((((((.......))))))).......))))...... ( -15.10)
>consensus
UCUCUC__UCUCGCACACAUACGCACACGUCUGCAAGAGGCAGACACACACACAAA__AAAGUAAAUUCUCAUUUAAUUUACAUAAACAUAUGA_AAAU
............((........))....((((((.....))))))................(((((((.......)))))))................. (-13.11 = -13.33 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:27 2006