Locus 6124

Sequence ID	X_DroMel_CAF1
Location	15,687,046 – 15,687,204
Length	158
Max. P	0.692133

overview

Window 9

Location	15,687,046 – 15,687,165
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.29
Mean single sequence MFE	-29.62
Consensus MFE	-24.87
Energy contribution	-25.91
Covariance contribution	1.04
Combinations/Pair	1.09
Mean z-score	-1.38
Structure conservation index	0.84
SVM decision value	0.33
SVM RNA-class probability	0.692133
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15687046 119 - 22224390
UAUACCGACCAGUGGAGAACGCCUCGAAUUGGCUGUUCACGUCACUC-GCACGCUGGUCACACCGAUUUUGUAAAUGCAAAAAUUGAGUAUGUAUAAGUAUUUACCAUCGUGUCGUUAUA
......((((((((..(((((((.......))).)))).((.....)-)..))))))))((((.(((...((((((((...................)))))))).)))))))....... ( -32.51)
>DroSec_CAF1 2713 118 - 1
UAUACCGAUCAGUGGAGAACGCCUUGAAUUGGCUGUUCACGCCAUUC-GCACGCUGGUCACACCGAUUUUGUAAAUGCAA-AAUUGAGUAUGUAUAAGUAUUUACCAUCGUGUCGUUAUA
......((((((((..(((((((.......))).))))..((.....-)).))))))))(((((((((((((....))))-))))).(((.(((....))).)))....))))....... ( -32.90)
>DroSim_CAF1 2805 119 - 1
UAUACCGACCAGUGGAGAACGCCUUGAAUUGGCUGUUCACGCCACUC-GCACGCUGGUCACACCGAUUUUGUAAAUGCAAAAAUUGAGUAUGUAUAAGUAUUUACCAUCGUGUCGUUAUA
......((((((((..(((((((.......))).))))..((.....-)).))))))))((((.(((...((((((((...................)))))))).)))))))....... ( -34.01)
>DroEre_CAF1 4040 119 - 1
UAUACUGACAAGUGGAGAACGCCUCAAAUUGCCUGUUUUCGCCACUC-GCACCCUGGUCACACUGAUUUUAUAAAUGCAAAAAUUGAGUAUGUAUAAGUAUUUACCAUCGUGUCGUUAUA
.....((((.(((((.(((.((............)).))).))))).-((((..((((......(((((((((.((((.........)))).)))))).))).))))..)))).)))).. ( -20.10)
>DroYak_CAF1 2587 120 - 1
UAUACUGACCAUUGGUGAACGCCUCAAAUUGGCUGUUUACGCCAUUUGGCACCCUGGCCACACUGAUUUUAUAAAUGCAAAAAUUGAGUAUGUAUAAGUAUUUACCAUCGUGUCGUUAUA
((((.(((((..(((((((..(.(((...(((((......(((....))).....)))))...)))..(((((.((((.........)))).))))))..)))))))..).)))).)))) ( -28.60)
>consensus
UAUACCGACCAGUGGAGAACGCCUCGAAUUGGCUGUUCACGCCACUC_GCACGCUGGUCACACCGAUUUUGUAAAUGCAAAAAUUGAGUAUGUAUAAGUAUUUACCAUCGUGUCGUUAUA
......((((((((..(((((((.......))).))))..((......)).))))))))((((.(((...((((((((...................)))))))).)))))))....... (-24.87 = -25.91 +   1.04)

alignment

secondary structure

dotplot

Window 0

Location	15,687,086 – 15,687,204
Length	118
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	88.68
Mean single sequence MFE	-32.94
Consensus MFE	-24.42
Energy contribution	-25.02
Covariance contribution	0.60
Combinations/Pair	1.17
Mean z-score	-1.60
Structure conservation index	0.74
SVM decision value	0.05
SVM RNA-class probability	0.559594
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15687086 118 - 22224390
UAUCAGCUGUUUGAAUGCACAACCUGUGCAAUGCGAAAAUAUACCGACCAGUGGAGAACGCCUCGAAUUGGCUGUUCACGUCACUC-GCACGCUGGUCACACCGAUUUUGUAAAUGCAA
.....((........(((((.....))))).(((((((.......((((((((..(((((((.......))).)))).((.....)-)..)))))))).......)))))))...)).. ( -34.74)
>DroSec_CAF1 2752 118 - 1
UAUCAGCUGUUUGAAUGCACAACCUGUGCAAUACGAAAAUAUACCGAUCAGUGGAGAACGCCUUGAAUUGGCUGUUCACGCCAUUC-GCACGCUGGUCACACCGAUUUUGUAAAUGCAA
.....((........(((((.....))))).(((((((.......((((((((..(((((((.......))).))))..((.....-)).)))))))).......)))))))...)).. ( -33.64)
>DroSim_CAF1 2845 118 - 1
UAUCAGCUGUUUGAAUGCACAACCUGUGCAAUGCGAAAAUAUACCGACCAGUGGAGAACGCCUUGAAUUGGCUGUUCACGCCACUC-GCACGCUGGUCACACCGAUUUUGUAAAUGCAA
.....((........(((((.....))))).(((((((.......((((((((..(((((((.......))).))))..((.....-)).)))))))).......)))))))...)).. ( -36.24)
>DroEre_CAF1 4080 118 - 1
UAUCAGCUGUUUGGAUGCUCAGUCUGUGCAACGCGAAAAUAUACUGACAAGUGGAGAACGCCUCAAAUUGCCUGUUUUCGCCACUC-GCACCCUGGUCACACUGAUUUUAUAAAUGCAA
.(((((.(((...(((...(((..((((....(((((((((((((....))))(((.....)))........)))))))))....)-)))..))))))))))))))............. ( -26.60)
>DroYak_CAF1 2627 119 - 1
UAUCAGCUGUUUGGGUGAACAGCCUGUGCCACGCAAAAAUAUACUGACCAUUGGUGAACGCCUCAAAUUGGCUGUUUACGCCAUUUGGCACCCUGGCCACACUGAUUUUAUAAAUGCAA
.(((((.(((.(((((((((((((((((...)))).................(((....))).......)))))))))).)))...(((......)))))))))))............. ( -33.50)
>consensus
UAUCAGCUGUUUGAAUGCACAACCUGUGCAAUGCGAAAAUAUACCGACCAGUGGAGAACGCCUCGAAUUGGCUGUUCACGCCACUC_GCACGCUGGUCACACCGAUUUUGUAAAUGCAA
.....((..(((((.(((((.....))))).).))))........((((((((..(((((((.......))).))))..((......)).)))))))).................)).. (-24.42 = -25.02 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:54 2006