Locus 5581

Sequence ID	3L_DroMel_CAF1
Location	15,311,963 – 15,312,062
Length	99
Max. P	0.993549

overview

Window 7

Location	15,311,963 – 15,312,062
Length	99
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	78.53
Mean single sequence MFE	-29.93
Consensus MFE	-14.95
Energy contribution	-16.48
Covariance contribution	1.53
Combinations/Pair	1.05
Mean z-score	-2.31
Structure conservation index	0.50
SVM decision value	0.73
SVM RNA-class probability	0.835698
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15311963 99 + 23771897
ACAGCCAAGCAGCCAGCCCACCCACUC----UGGCGCCCUUUUCGGUGUCCUUGCGGACAGUUAUUGAUUU-UUAGUCGUCUUAGCUUUGG--------CUCUUUGGCUGCA
.((((((((.((((((.....((.(..----.((((((......))))))...).))..(((((.((((..-...))))...)))))))))--------)).)))))))).. ( -35.20)
>DroPse_CAF1 46808 90 + 1
----CCAAGCAG---GGUCUUCCAUUUUCGAUUGCUCCCAUUUCGAUGUCCUUGCGGACAGUUAUUGAUUUUUUAGUCUUCUUGUCU---------------UUUGGCUGUA
----((((((((---((.(........((((...........)))).).))))))((((((.....((((....))))...))))))---------------.))))..... ( -19.30)
>DroSec_CAF1 43751 98 + 1
ACAGCCAAGC-GCCAGCCCACCCACUC----UGGCGCCCUUUUCGGUGUCCUUGCGGACAGUUAUUGAUUU-UUAGUCGUCUUGGCUUUGG--------CUUUUUGGCUGCA
.((((((((.-(((((((.........----.((((((......)))))).....((((..(((.......-.)))..)))).)))..)))--------)..)))))))).. ( -32.30)
>DroSim_CAF1 44385 99 + 1
ACAGCCAAGCAGCCAGCCCACCCACUC----UGGCGCCCUGUUCGGUGUCCUUGCGGACAGUUAUUGAUUU-UUAGUCGUCUUGGCUUUGG--------CUUUUUGGCUGCA
.((((((((.((((((((.........----.)))((((((((((.........))))))).....(((..-...))).....)))..)))--------)).)))))))).. ( -35.80)
>DroEre_CAF1 43698 103 + 1
ACAGCCAAGC----AGCCCACCCACUU----GGGCGCCCCUUUCGGUGUCCUUGCGGACAGUUAUUGAUUU-UUAGUCGUCUUGGCUUUGGCUUUUUGGCUUUUUGGCUGCA
.((((((((.----((((...((.(..----(((((((......)))))))..).))..(((((.((((..-...))))...)))))..........)))).)))))))).. ( -37.70)
>DroPer_CAF1 45549 90 + 1
----CCAAGCAG---GGUCUUCCAUUUUCGAUUGCUCCCAUUUCGAUGUCCUUGCGGACAGUUAUUGAUUUUUUAGUCUUCUUGUCU---------------UUUGGCUGUA
----((((((((---((.(........((((...........)))).).))))))((((((.....((((....))))...))))))---------------.))))..... ( -19.30)
>consensus
ACAGCCAAGCAG__AGCCCACCCACUC____UGGCGCCCUUUUCGGUGUCCUUGCGGACAGUUAUUGAUUU_UUAGUCGUCUUGGCUUUGG________CUUUUUGGCUGCA
.((((((((.....................................(((((....)))))((((.(((((....)))))...))))................)))))))).. (-14.95 = -16.48 +   1.53)

alignment

secondary structure

dotplot

Window 8

Location	15,311,963 – 15,312,062
Length	99
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	78.53
Mean single sequence MFE	-33.60
Consensus MFE	-17.43
Energy contribution	-18.18
Covariance contribution	0.75
Combinations/Pair	1.18
Mean z-score	-3.73
Structure conservation index	0.52
SVM decision value	2.41
SVM RNA-class probability	0.993549
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15311963 99 - 23771897
UGCAGCCAAAGAG--------CCAAAGCUAAGACGACUAA-AAAUCAAUAACUGUCCGCAAGGACACCGAAAAGGGCGCCA----GAGUGGGUGGGCUGGCUGCUUGGCUGU
.((((((((..((--------(((..(((...........-...........(((((....)))))((.....)).((((.----.....))))))))))))..)))))))) ( -38.90)
>DroPse_CAF1 46808 90 - 1
UACAGCCAAA---------------AGACAAGAAGACUAAAAAAUCAAUAACUGUCCGCAAGGACAUCGAAAUGGGAGCAAUCGAAAAUGGAAGACC---CUGCUUGG----
..........---------------...((((.((.................(((((....)))))((((..((....)).))))............---)).)))).---- ( -17.80)
>DroSec_CAF1 43751 98 - 1
UGCAGCCAAAAAG--------CCAAAGCCAAGACGACUAA-AAAUCAAUAACUGUCCGCAAGGACACCGAAAAGGGCGCCA----GAGUGGGUGGGCUGGC-GCUUGGCUGU
.((((((((...(--------(((..(((...........-...........(((((....)))))((.....)).((((.----.....)))))))))))-..)))))))) ( -39.20)
>DroSim_CAF1 44385 99 - 1
UGCAGCCAAAAAG--------CCAAAGCCAAGACGACUAA-AAAUCAAUAACUGUCCGCAAGGACACCGAACAGGGCGCCA----GAGUGGGUGGGCUGGCUGCUUGGCUGU
.((((((((..((--------(((..(((...........-...........(((((....)))))((.....)).((((.----.....))))))))))))..)))))))) ( -41.60)
>DroEre_CAF1 43698 103 - 1
UGCAGCCAAAAAGCCAAAAAGCCAAAGCCAAGACGACUAA-AAAUCAAUAACUGUCCGCAAGGACACCGAAAGGGGCGCCC----AAGUGGGUGGGCU----GCUUGGCUGU
.((((((((..((((...........(((...........-...........(((((....)))))((....)))))((((----....)))).))))----..)))))))) ( -46.30)
>DroPer_CAF1 45549 90 - 1
UACAGCCAAA---------------AGACAAGAAGACUAAAAAAUCAAUAACUGUCCGCAAGGACAUCGAAAUGGGAGCAAUCGAAAAUGGAAGACC---CUGCUUGG----
..........---------------...((((.((.................(((((....)))))((((..((....)).))))............---)).)))).---- ( -17.80)
>consensus
UGCAGCCAAAAAG________CCAAAGCCAAGACGACUAA_AAAUCAAUAACUGUCCGCAAGGACACCGAAAAGGGCGCCA____AAGUGGGUGGGCU__CUGCUUGGCUGU
.........................(((((((...........(((......(((((....)))))((.....))...............)))..........))))))).. (-17.43 = -18.18 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:56 2006