Locus 3547

Sequence ID	X_DroMel_CAF1
Location	9,504,109 – 9,504,226
Length	117
Max. P	0.929296

overview

Window 5

Location	9,504,109 – 9,504,226
Length	117
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	85.35
Mean single sequence MFE	-40.26
Consensus MFE	-26.18
Energy contribution	-26.14
Covariance contribution	-0.04
Combinations/Pair	1.24
Mean z-score	-2.89
Structure conservation index	0.65
SVM decision value	1.20
SVM RNA-class probability	0.929296
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9504109 117 + 22224390
AUGUGAAUAAACAUCGAUGCAUUGGGCAUCGAUGACUUUUGUGGGGUCGAUACCUUUCGAUGUU-CUCGGUCGUUAUCGAUGCUAAGCGAUGCAUCGAUUUACUAUCUAGGUGGAGCU
.(((......)))(((((((((((((((((((((((..(((.((((((((......))))).))-).)))..))))))))))))...)))))))))))((((((.....))))))... ( -45.40)
>DroSec_CAF1 47436 117 + 1
AUGUGAAUAACCAUCGAAGCAUCGGGCACCGAUGACUUUUGUGAGGUCGAUACCUUUCGAAGUU-CUCGGUCGCUAUCGAUGCUAAGCGAUUCAUCGAGUUACUAUCUAGGUGGCGCU
..(((.....(((((..(((((((((((((((.((((((...(((((....)))))..))))))-.))))).)))..))))))).((..((((...))))..)).....)))))))). ( -40.10)
>DroSim_CAF1 48480 117 + 1
AUGUGAAUAACCAUCGAUGCAUCGGGCACCGAUGACUUUUGUGGGGUCGAUACCUUUCGAAGUU-CUCGGUCGCUAUCGAUGCUAAGCGAUUCAUCGAGUUACUAUCUAGGUGGCGCU
..((((......((((..((((((((((((((.((((((.(..((((....))))..)))))))-.))))).)))..))))))....))))))))...((((((.....))))))... ( -37.90)
>DroEre_CAF1 47495 118 + 1
AUGUGAAUAAACAUCAAUGCAUCGGGCAUCGAUGUUUUUUCGGCUCUCGAUACCUUUCGAUGUUUGCCCUUGUCUAUCGAUAUUAAGCGAUUCAUCGAGUUACCAUCUAGGUGGCGCA
...((((.(((((((.((((.....)))).))))))).))))((............((((((.((((...((((....))))....))))..))))))((((((.....)))))))). ( -36.80)
>DroYak_CAF1 48103 116 + 1
AUGUGAAUAAACAUGGAUGCAUCGGGCAUCGAUGUUU-UUCGGGUAUCGAUACCUUUCGAUACA-CCGCUUCGCUAUCGAUGUUCAGCGAUUCAUCGAGUUACUAUCUAGGUGGCGCA
..(((((.((((((.(((((.....))))).))))))-..((((((((((......))))))).-))).)))))..((((((..........))))))((((((.....))))))... ( -41.10)
>consensus
AUGUGAAUAAACAUCGAUGCAUCGGGCAUCGAUGACUUUUGUGGGGUCGAUACCUUUCGAUGUU_CUCGGUCGCUAUCGAUGCUAAGCGAUUCAUCGAGUUACUAUCUAGGUGGCGCU
.............((((((.((((((((((((((.......((((.((((......)))).....)))).....))))))))))...)))).))))))((((((.....))))))... (-26.18 = -26.14 +  -0.04)

alignment

secondary structure

dotplot

Window 6

Location	9,504,109 – 9,504,226
Length	117
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	85.35
Mean single sequence MFE	-32.06
Consensus MFE	-22.14
Energy contribution	-21.46
Covariance contribution	-0.68
Combinations/Pair	1.25
Mean z-score	-1.89
Structure conservation index	0.69
SVM decision value	0.28
SVM RNA-class probability	0.666855
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9504109 117 - 22224390
AGCUCCACCUAGAUAGUAAAUCGAUGCAUCGCUUAGCAUCGAUAACGACCGAG-AACAUCGAAAGGUAUCGACCCCACAAAAGUCAUCGAUGCCCAAUGCAUCGAUGUUUAUUCACAU
...........(((((...((((((((((.(....((((((((.((...(((.-....)))...(((....)))........)).)))))))).).))))))))))..)))))..... ( -31.90)
>DroSec_CAF1 47436 117 - 1
AGCGCCACCUAGAUAGUAACUCGAUGAAUCGCUUAGCAUCGAUAGCGACCGAG-AACUUCGAAAGGUAUCGACCUCACAAAAGUCAUCGGUGCCCGAUGCUUCGAUGGUUAUUCACAU
...........((..((((((......((((...(((((((...((.(((((.-.((((....((((....)))).....))))..))))))).))))))).)))))))))))).... ( -31.40)
>DroSim_CAF1 48480 117 - 1
AGCGCCACCUAGAUAGUAACUCGAUGAAUCGCUUAGCAUCGAUAGCGACCGAG-AACUUCGAAAGGUAUCGACCCCACAAAAGUCAUCGGUGCCCGAUGCAUCGAUGGUUAUUCACAU
...........((..(((((((((((.((((....((((((((..(...((((-...))))...(((....)))........)..)))))))).)))).))))))..))))))).... ( -29.60)
>DroEre_CAF1 47495 118 - 1
UGCGCCACCUAGAUGGUAACUCGAUGAAUCGCUUAAUAUCGAUAGACAAGGGCAAACAUCGAAAGGUAUCGAGAGCCGAAAAAACAUCGAUGCCCGAUGCAUUGAUGUUUAUUCACAU
.((((((......))))..((((((.....((((....((....))...))))....(((....))))))))).)).(((.((((((((((((.....)))))))))))).))).... ( -36.00)
>DroYak_CAF1 48103 116 - 1
UGCGCCACCUAGAUAGUAACUCGAUGAAUCGCUGAACAUCGAUAGCGAAGCGG-UGUAUCGAAAGGUAUCGAUACCCGAA-AAACAUCGAUGCCCGAUGCAUCCAUGUUUAUUCACAU
.((........((.......))......((((((........)))))).))((-.(((((((......)))))))))(((-((((((.(((((.....))))).)))))).))).... ( -31.40)
>consensus
AGCGCCACCUAGAUAGUAACUCGAUGAAUCGCUUAGCAUCGAUAGCGACCGAG_AACAUCGAAAGGUAUCGACCCCACAAAAGUCAUCGAUGCCCGAUGCAUCGAUGUUUAUUCACAU
...........((((.....((((((..........))))))................((....))))))...........((((((((((((.....))))))))))))........ (-22.14 = -21.46 +  -0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:06 2006