Locus 8377

Sequence ID 3L_DroMel_CAF1
Location 22,008,682 – 22,008,782
Length 100
Max. P 0.953840
window13700 window13701

overview

Window 0

Location 22,008,682 – 22,008,782
Length 100
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 83.56
Mean single sequence MFE -19.93
Consensus MFE -15.10
Energy contribution -16.10
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.65
Structure conservation index 0.76
SVM decision value 1.39
SVM RNA-class probability 0.949550
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22008682 100 + 23771897
UUGUACAUACUAUAUGUAGUAGCAGACUGGCUCUGCUUAGCAACAAUUUGUAAUAAGCAAGUGCAUUUAAUUUUCUCUACUAUGGCAUUGUUAUA-UUUUU
.((((((..(((((.((((.((((((.....))))))..(((....(((((.....))))))))............)))))))))...)).))))-..... ( -18.00)
>DroSec_CAF1 11210 90 + 1
-----CAUACUAUACGUAGUAGCAGACUGGCUCUGCUUAUUG--AACUUUGAAUAAGCAACUGCCUUAAAUUUUCUCUACUAU---AUAGUUUUU-UUUUU
-----...(((((..(((((((.(((..(((..((((((((.--.......))))))))...)))........))))))))))---)))))....-..... ( -22.00)
>DroSim_CAF1 9933 91 + 1
-----CAUACUAUACGUAGUAGCAGACUGGCUCUGCUUAUUG--AACUUUGAAUAAGCAACUGCCUUAAAUUUUCUCUACUAU---AUUGUUUUUUUUUUU
-----..........(((((((.(((..(((..((((((((.--.......))))))))...)))........))))))))))---............... ( -19.80)
>consensus
_____CAUACUAUACGUAGUAGCAGACUGGCUCUGCUUAUUG__AACUUUGAAUAAGCAACUGCCUUAAAUUUUCUCUACUAU___AUUGUUUUU_UUUUU
...............(((((((.(((..(((..((((((((..........))))))))...)))........)))))))))).................. (-15.10 = -16.10 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 22,008,682 – 22,008,782
Length 100
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 83.56
Mean single sequence MFE -19.13
Consensus MFE -15.02
Energy contribution -15.47
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -2.61
Structure conservation index 0.79
SVM decision value 1.44
SVM RNA-class probability 0.953840
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22008682 100 - 23771897
AAAAA-UAUAACAAUGCCAUAGUAGAGAAAAUUAAAUGCACUUGCUUAUUACAAAUUGUUGCUAAGCAGAGCCAGUCUGCUACUACAUAUAGUAUGUACAA
.....-....(((.(((.(((((((............((....))...................((((((.....)))))).)))).))).)))))).... ( -15.80)
>DroSec_CAF1 11210 90 - 1
AAAAA-AAAAACUAU---AUAGUAGAGAAAAUUUAAGGCAGUUGCUUAUUCAAAGUU--CAAUAAGCAGAGCCAGUCUGCUACUACGUAUAGUAUG-----
.....-....(((((---((((((((((........(((..(((((((((.......--.))))))))).)))..))).)))))..)))))))...----- ( -23.00)
>DroSim_CAF1 9933 91 - 1
AAAAAAAAAAACAAU---AUAGUAGAGAAAAUUUAAGGCAGUUGCUUAUUCAAAGUU--CAAUAAGCAGAGCCAGUCUGCUACUACGUAUAGUAUG-----
.............(.---.(((((((((........(((..(((((((((.......--.))))))))).)))..))).))))))..)........----- ( -18.60)
>consensus
AAAAA_AAAAACAAU___AUAGUAGAGAAAAUUUAAGGCAGUUGCUUAUUCAAAGUU__CAAUAAGCAGAGCCAGUCUGCUACUACGUAUAGUAUG_____
...................(((((((((........(((..(((((((((..........))))))))).)))..))).))))))................ (-15.02 = -15.47 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:13:50 2006