Locus 7017

Sequence ID	3R_DroMel_CAF1
Location	18,483,236 – 18,483,326
Length	90
Max. P	0.980106

overview

Window 1

Location	18,483,236 – 18,483,326
Length	90
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	93.56
Mean single sequence MFE	-26.50
Consensus MFE	-20.34
Energy contribution	-20.78
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-3.19
Structure conservation index	0.77
SVM decision value	1.85
SVM RNA-class probability	0.980106
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18483236 90 + 27905053
UCUGGUCAUUGAAUGCAUGAGUGCAUUUUCAUGGCAACAUGACCAUGGCCA-GAUUCGAUUAACUAAUUGAG--AAGAGUGAAGC-CAAUUUAA
(((((((((.(((((((....)))))))(((((....)))))..)))))))-))(((((((....)))))))--...........-........ ( -28.60)
>DroSec_CAF1 4912 93 + 1
UCUGGUCAUUGAAUGCAUGAAUGCAUUUUCAUGGCAACAUGACCAUGGCCAGGAUUCGAUUAACUAAUUGAGCAAAGAGUGAAGC-CAAUUUAA
(((((((((.(((((((....)))))))(((((....)))))..))))))))).(((((((....))))))).............-........ ( -27.30)
>DroSim_CAF1 4895 93 + 1
UCUGGUCAUUGAAUGCAUGAAUGCAUUUUCAUGGCAACAUGACCAUGGCCAGGAUUCGAUUAACUAAUUGAGCAAAGAGUGAAGC-CAAUUUAA
(((((((((.(((((((....)))))))(((((....)))))..))))))))).(((((((....))))))).............-........ ( -27.30)
>DroEre_CAF1 4793 93 + 1
UCUGGUCAUUGAAUGCCUGAAUACAUUUUCAUGGCAACAUGACCAUGGCCA-GAUUCGAUUAACUAAUUGAGCAAAAUUGGCUGCACAAUUUAA
(((((((((.(((((........)))))(((((....)))))..)))))))-))(((((((....)))))))..((((((......)))))).. ( -26.70)
>DroYak_CAF1 5078 92 + 1
UCUGGUCAUUGAAUGCAUGAAUACAUUUUCAUGGCAACAUGACCAUGGUCA-GAUUCGAUUAACUAAUUGAGCAAAGAGUGAAGC-CAAUUUAA
..((((((((...(((.(((...(((..(((((....)))))..))).)))-...((((((....)))))))))...))))..))-))...... ( -22.60)
>consensus
UCUGGUCAUUGAAUGCAUGAAUGCAUUUUCAUGGCAACAUGACCAUGGCCA_GAUUCGAUUAACUAAUUGAGCAAAGAGUGAAGC_CAAUUUAA
(((((((((.(((((((....)))))))(((((....)))))..))))))).))(((((((....)))))))...................... (-20.34 = -20.78 +   0.44)

alignment

secondary structure

dotplot

Window 2

Location	18,483,236 – 18,483,326
Length	90
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	93.56
Mean single sequence MFE	-22.13
Consensus MFE	-17.38
Energy contribution	-17.98
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.23
Structure conservation index	0.79
SVM decision value	1.23
SVM RNA-class probability	0.933734
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18483236 90 - 27905053
UUAAAUUG-GCUUCACUCUU--CUCAAUUAGUUAAUCGAAUC-UGGCCAUGGUCAUGUUGCCAUGAAAAUGCACUCAUGCAUUCAAUGACCAGA
......((-(((....((..--...............))...-.)))))(((((((..(((.((((........)))))))....))))))).. ( -20.43)
>DroSec_CAF1 4912 93 - 1
UUAAAUUG-GCUUCACUCUUUGCUCAAUUAGUUAAUCGAAUCCUGGCCAUGGUCAUGUUGCCAUGAAAAUGCAUUCAUGCAUUCAAUGACCAGA
......((-(((....((...(((.....))).....)).....)))))(((((((..(((.(((((......))))))))....))))))).. ( -22.10)
>DroSim_CAF1 4895 93 - 1
UUAAAUUG-GCUUCACUCUUUGCUCAAUUAGUUAAUCGAAUCCUGGCCAUGGUCAUGUUGCCAUGAAAAUGCAUUCAUGCAUUCAAUGACCAGA
......((-(((....((...(((.....))).....)).....)))))(((((((..(((.(((((......))))))))....))))))).. ( -22.10)
>DroEre_CAF1 4793 93 - 1
UUAAAUUGUGCAGCCAAUUUUGCUCAAUUAGUUAAUCGAAUC-UGGCCAUGGUCAUGUUGCCAUGAAAAUGUAUUCAGGCAUUCAAUGACCAGA
...(((((.((((......)))).))))).............-......(((((((..((((.((((......))))))))....))))))).. ( -25.30)
>DroYak_CAF1 5078 92 - 1
UUAAAUUG-GCUUCACUCUUUGCUCAAUUAGUUAAUCGAAUC-UGACCAUGGUCAUGUUGCCAUGAAAAUGUAUUCAUGCAUUCAAUGACCAGA
...(((((-((..........)).))))).((((........-))))..(((((((..(((.(((((......))))))))....))))))).. ( -20.70)
>consensus
UUAAAUUG_GCUUCACUCUUUGCUCAAUUAGUUAAUCGAAUC_UGGCCAUGGUCAUGUUGCCAUGAAAAUGCAUUCAUGCAUUCAAUGACCAGA
...(((((.((..........)).)))))....................(((((((..(((.(((((......))))))))....))))))).. (-17.38 = -17.98 +   0.60)

alignment

secondary structure

dotplot

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