Locus 7337

Sequence ID	3R_DroMel_CAF1
Location	19,397,067 – 19,397,218
Length	151
Max. P	0.902797

overview

Window 4

Location	19,397,067 – 19,397,182
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	83.93
Mean single sequence MFE	-30.74
Consensus MFE	-19.56
Energy contribution	-20.84
Covariance contribution	1.28
Combinations/Pair	1.18
Mean z-score	-1.74
Structure conservation index	0.64
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19397067 115 + 27905053
ACACACAGCGUUGCAUUUAGACAAUGCUGAGAUGCUGUGCUUGUGGCAUGUUUACAAGUUGAAUG-----UGUAUUUUUCCACAAAACUCAUUGAAAUGGAAUUCCAUUCGGAGCACAUC
...((((((((((((((.....)))))...)))))))))..(((((((((((((.....))))))-----)))....((((.(((......))).(((((....))))).)))))))).. ( -31.50)
>DroSec_CAF1 45194 115 + 1
ACACACAGCGUUGCAUUUAGACAAUGCUGAGAUGCUGGGCUUGUGGCAUAUUUACGAGUUGAAUG-----UUUAUUUUUCCACAAAACUCAUUGAAAUGGAAUUCCAUUCGGAGCACAUC
.....((((((((........))))))))...((((.(((((((((.....)))))))))(((((-----.......((((((((......)))...)))))...)))))..)))).... ( -27.70)
>DroEre_CAF1 49823 115 + 1
ACACACAGCGUUGCAUUUAGACAAAGCUGAGAUGCUGUGCUUGUGGCAUAUUUACGAGUUGUAUG-----UGUAUUUUUGCACAAAACUCAUUGAAAUGGAAUUCCAUUCGGAGCACAUC
.((((.((((..((((((((......)).))))))..))))))))((........(((((...((-----((((....)))))).))))).(((((.(((....)))))))).))..... ( -35.00)
>DroYak_CAF1 50131 115 + 1
ACACACAGCGUUGCAUUUAGACAAUGCUGAGAUGCUGUGCUUGUGGCAUAUUUACGAGUUGUAUG-----UGUGUUUUUCCACAAAACUCAUUGAAAUGGAAUUCCAUUCGGAGCACAUC
.....((((((((........))))))))......((((((((((((((((.(((.....))).)-----)))).....)))).........((((.(((....)))))))))))))).. ( -32.80)
>DroAna_CAF1 52786 116 + 1
GCAUCCA---AUGUACUUAGACAAUACCGAGAUGCCGCACUGUGGAAAUAUUUACAUUUCGUGUGUAUCGUGUGCUGUUUCAG-AUAUUCAUUGAAAUGGAAUCCCAUUCGAGGCACAUC
((.((((---(((..((.(((((.(((...(((((.((((((((((....))))))....)))))))))..))).))))).))-.....))))).(((((....))))).)).))..... ( -26.70)
>consensus
ACACACAGCGUUGCAUUUAGACAAUGCUGAGAUGCUGUGCUUGUGGCAUAUUUACGAGUUGUAUG_____UGUAUUUUUCCACAAAACUCAUUGAAAUGGAAUUCCAUUCGGAGCACAUC
.....((((((((........))))))))...((((..((((((((.....))))))))................................(((((.(((....)))))))))))).... (-19.56 = -20.84 +   1.28)

alignment

secondary structure

dotplot

Window 5

Location	19,397,067 – 19,397,182
Length	115
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	83.93
Mean single sequence MFE	-29.98
Consensus MFE	-21.78
Energy contribution	-22.06
Covariance contribution	0.28
Combinations/Pair	1.24
Mean z-score	-2.20
Structure conservation index	0.73
SVM decision value	1.03
SVM RNA-class probability	0.902797
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19397067 115 - 27905053
GAUGUGCUCCGAAUGGAAUUCCAUUUCAAUGAGUUUUGUGGAAAAAUACA-----CAUUCAACUUGUAAACAUGCCACAAGCACAGCAUCUCAGCAUUGUCUAAAUGCAACGCUGUGUGU
..((((((..((((((....))))))..(..((((.((((........))-----))...))))..)............))))))((((..((((.((((......)))).)))).)))) ( -31.20)
>DroSec_CAF1 45194 115 - 1
GAUGUGCUCCGAAUGGAAUUCCAUUUCAAUGAGUUUUGUGGAAAAAUAAA-----CAUUCAACUCGUAAAUAUGCCACAAGCCCAGCAUCUCAGCAUUGUCUAAAUGCAACGCUGUGUGU
((((((((..((((((....))))))..(((((((..(((..........-----)))..)))))))............)))...))))).((((.((((......)))).))))..... ( -27.20)
>DroEre_CAF1 49823 115 - 1
GAUGUGCUCCGAAUGGAAUUCCAUUUCAAUGAGUUUUGUGCAAAAAUACA-----CAUACAACUCGUAAAUAUGCCACAAGCACAGCAUCUCAGCUUUGUCUAAAUGCAACGCUGUGUGU
..((((((..((((((....))))))..(((((((.((((........))-----))...)))))))............))))))((((..((((.((((......)))).)))).)))) ( -32.60)
>DroYak_CAF1 50131 115 - 1
GAUGUGCUCCGAAUGGAAUUCCAUUUCAAUGAGUUUUGUGGAAAAACACA-----CAUACAACUCGUAAAUAUGCCACAAGCACAGCAUCUCAGCAUUGUCUAAAUGCAACGCUGUGUGU
..((((((..((((((....))))))..(((((((.((((........))-----))...)))))))............))))))((((..((((.((((......)))).)))).)))) ( -33.90)
>DroAna_CAF1 52786 116 - 1
GAUGUGCCUCGAAUGGGAUUCCAUUUCAAUGAAUAU-CUGAAACAGCACACGAUACACACGAAAUGUAAAUAUUUCCACAGUGCGGCAUCUCGGUAUUGUCUAAGUACAU---UGGAUGC
(((((.....((((((....))))))......))))-).......((((..(.....)..((((((....))))))....)))).((((((..(((((.....)))))..---.)))))) ( -25.00)
>consensus
GAUGUGCUCCGAAUGGAAUUCCAUUUCAAUGAGUUUUGUGGAAAAAUACA_____CAUACAACUCGUAAAUAUGCCACAAGCACAGCAUCUCAGCAUUGUCUAAAUGCAACGCUGUGUGU
..(((((...((((((....))))))..(((((((..(((...............)))..))))))).............)))))((((..((((.((((......)))).)))).)))) (-21.78 = -22.06 +   0.28)

alignment

secondary structure

dotplot

Window 6

Location	19,397,107 – 19,397,218
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	83.07
Mean single sequence MFE	-24.08
Consensus MFE	-12.44
Energy contribution	-13.28
Covariance contribution	0.84
Combinations/Pair	1.11
Mean z-score	-2.51
Structure conservation index	0.52
SVM decision value	0.43
SVM RNA-class probability	0.734099
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19397107 111 - 27905053
UCGUAUA----CAUUCAGAUCCGAAAUUAAAUUACAAGUUGAUGUGCUCCGAAUGGAAUUCCAUUUCAAUGAGUUUUGUGGAAAAAUACA-----CAUUCAACUUGUAAACAUGCCACAA
..((((.----..(((......)))......(((((((((((...((((.((((((....))))))....))))..((((........))-----)).)))))))))))..))))..... ( -26.50)
>DroSec_CAF1 45234 111 - 1
ACGUAUA----CAUUCAGAUCCGAAAUUAAAUUACAAGUUGAUGUGCUCCGAAUGGAAUUCCAUUUCAAUGAGUUUUGUGGAAAAAUAAA-----CAUUCAACUCGUAAAUAUGCCACAA
..(((((----..(((......)))......((((.(((((((((((((.((((((....))))))....)))).((((......)))))-----)).)))))).)))).)))))..... ( -21.60)
>DroEre_CAF1 49863 111 - 1
GCAUAUA----CAUUCAGAUCCGAAAUUAAAUUACAAGUUGAUGUGCUCCGAAUGGAAUUCCAUUUCAAUGAGUUUUGUGCAAAAAUACA-----CAUACAACUCGUAAAUAUGCCACAA
((((((.----..(((......)))......((((.((((((((((....((((((....))))))......(((((.....))))).))-----))).))))).))))))))))..... ( -24.80)
>DroYak_CAF1 50171 115 - 1
GCAUAUAUGUAGAUUCGGAUGCGAAAUUAAAUUACAAGUUGAUGUGCUCCGAAUGGAAUUCCAUUUCAAUGAGUUUUGUGGAAAAACACA-----CAUACAACUCGUAAAUAUGCCACAA
((((((...(((.((((....)))).)))..((((.(((((((((((((.((((((....))))))....))))...(((......))))-----))).))))).))))))))))..... ( -30.00)
>DroAna_CAF1 52823 109 - 1
------A----CAUUCAAACCCGAAAUUAAAUUACAAGUUGAUGUGCCUCGAAUGGGAUUCCAUUUCAAUGAAUAU-CUGAAACAGCACACGAUACACACGAAAUGUAAAUAUUUCCACA
------.----...........(((((....(((((..(((.((((..(((..(((....)))(((((........-.))))).......)))..)))))))..)))))..))))).... ( -17.50)
>consensus
GCAUAUA____CAUUCAGAUCCGAAAUUAAAUUACAAGUUGAUGUGCUCCGAAUGGAAUUCCAUUUCAAUGAGUUUUGUGGAAAAAUACA_____CAUACAACUCGUAAAUAUGCCACAA
.............(((......)))......((((.((((((((.((((.((((((....))))))....))))...(((......)))......))).))))).))))........... (-12.44 = -13.28 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:27 2006