Locus 7322

Sequence ID X_DroMel_CAF1
Location 18,272,316 – 18,272,516
Length 200
Max. P 0.717530
window11991 window11992

overview

Window 1

Location 18,272,316 – 18,272,420
Length 104
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 80.74
Mean single sequence MFE -25.30
Consensus MFE -19.02
Energy contribution -18.47
Covariance contribution -0.55
Combinations/Pair 1.14
Mean z-score -1.66
Structure conservation index 0.75
SVM decision value 0.39
SVM RNA-class probability 0.717530
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18272316 104 - 22224390
UUUGGGUCACCUUGGUGAUAUGUUUAGUUGAGCUCACAAGCAUUUGUAGUUUAAAGACGGAGUACACGUUUUUUUUGACUCUAAUGCCGUUUGGGGUCACCUUU
...(((((((....))))).........(((.((((...(((((.(.((((.(((((((.......)))))))...))))).)))))....)))).)))))... ( -28.40)
>DroSec_CAF1 40618 88 - 1
UUUGGAUCACCUUGGUGAUAUGUUUAAUAU---------GC-----CACUUUAAAGUCGGAGUGCAAGUUU--UUUGACUCUGAUGCUGUUUGGGGUCACCUUG
...(((((((....)))))..........(---------((-----.(((((......)))))))).....--..((((((..(......)..))))))))... ( -21.90)
>DroSim_CAF1 15253 88 - 1
UUUGGGUCACCUUGGUGAUAUGUUUAAUAC---------GC-----CACUUUAAAGUCGGAGUGCAAGUUU--UUUGACUCUGAUGCUGUUUGGGGUCACCUUG
...((((.(((((((((.(((.....))))---------))-----)........((((((((.((((...--)))))))))))).......))))).)))).. ( -25.60)
>consensus
UUUGGGUCACCUUGGUGAUAUGUUUAAUAC_________GC_____CACUUUAAAGUCGGAGUGCAAGUUU__UUUGACUCUGAUGCUGUUUGGGGUCACCUUG
...(((((((....)))))...........................((((((......))))))...........(((((((((......)))))))))))... (-19.02 = -18.47 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 18,272,420 – 18,272,516
Length 96
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 82.48
Mean single sequence MFE -32.73
Consensus MFE -18.65
Energy contribution -19.77
Covariance contribution 1.12
Combinations/Pair 1.09
Mean z-score -2.53
Structure conservation index 0.57
SVM decision value 0.13
SVM RNA-class probability 0.597561
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18272420 96 - 22224390
GGGGGUGACUCUUCGGCGGUGACCUUUUUAAAGAGCAACAAAUAAGGUUGAGUUCUUAAAGGUAUGCCACUUUAAAAUGGUAACCGGAUUCCAAGU---------------
((((....))))..((((((.(((.((((((((.(((((...(((((......)))))...)).)))..)))))))).))).))))....))....--------------- ( -27.90)
>DroSec_CAF1 40706 109 - 1
GG-GGUGACUCGUUAGCGGUGACCUUUUCAAAGAGCUACAGAAAAGUUUGAGUUCUUAAAGGUAUGCCACUUUAGAAUGGUACCC-GAUUCCAAGUUAUGGGUCACCUAGU
.(-((((((((((.(((((((((((((...(((((((.((((....))))))))))))))))).))))......((((.(....)-.))))...))))))))))))))... ( -39.10)
>DroSim_CAF1 15341 109 - 1
GG-GGUAACUCUUUAGCGGUGACCUUUUCAAAGAGCUUCAGAAAAGUUUGAGUUCUUAAAGGUAUGCCACUUUAAAAUGGUACCC-GAUUCCAAGUUAUGGGUCACCUAGU
.(-(((.((((..((((((((((((((...(((((((.((((....))))))))))))))))).)))).........(((.....-....))).)))).)))).))))... ( -31.20)
>consensus
GG_GGUGACUCUUUAGCGGUGACCUUUUCAAAGAGCUACAGAAAAGUUUGAGUUCUUAAAGGUAUGCCACUUUAAAAUGGUACCC_GAUUCCAAGUUAUGGGUCACCUAGU
....((((((....((.((((((((((...(((((((.((((....))))))))))))))))).)))).))......(((..........)))))))))............ (-18.65 = -19.77 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:58 2006