Locus 3844

Sequence ID	3L_DroMel_CAF1
Location	11,128,200 – 11,128,294
Length	94
Max. P	0.995018

overview

Window 7

Location	11,128,200 – 11,128,294
Length	94
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	73.31
Mean single sequence MFE	-32.53
Consensus MFE	-14.47
Energy contribution	-15.78
Covariance contribution	1.31
Combinations/Pair	1.12
Mean z-score	-2.77
Structure conservation index	0.44
SVM decision value	2.53
SVM RNA-class probability	0.995018
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11128200 94 + 23771897
AAGUGGCAGGCGGUCGGGAAAAGGAGGCGAAGCCCCUCAAGAGUUUG-GCACUCAGUCCCACUAUGGUGCACAUAUAUGUACAUAUGGUGGGACG
.((((.(((((..((..((...((.(((...)))))))..)))))))-.))))..((((((((((((((((......))))).))))))))))). ( -39.80)
>DroSec_CAF1 24488 77 + 1
AAGUGGCA-------------AGGAGGCGAAGCCCCUCAAGAGUUUG-GCACCCAGUCCCACUAUGGUGCCCAUGUAC----AUAUGGUGGGACG
..(((.((-------------((((((.(....))))).....))))-.)))...(((((((((((((((....))))----.))))))))))). ( -31.50)
>DroSim_CAF1 24397 80 + 1
AAGUGGCA-------------AGGAGGCGAAGCCCCUCAAGAGUUUG-GCACCCAGUCCCACUAUGGUGCACAUGUACAUACAUAUGGUGGGAC-
..(((.((-------------((((((.(....))))).....))))-.)))...(((((((((((((((....)))).....)))))))))))- ( -28.00)
>DroEre_CAF1 27417 91 + 1
AAGGGGCAGGCGAACGGGU-AAGGAGGCGAAGCCCCUCAAGAGUUUG-GCACCCAGUCGCACUAUGGUGCACAC--AUGUACAUAUGGUGGGACG
..(((...(.(((((....-.(((.(((...)))))).....)))))-.).))).(((.((((((((((((...--.))))).))))))).))). ( -36.90)
>DroWil_CAF1 29184 78 + 1
AAGUGGCA-----ACUUAU-AGGGGGGCGAAGCCUCUCAAGAGCCAAAGAGCUAAGGCACAGCAUGUGGCGCA------UACA---AGUGGGA--
..(((((.-----......-.(((((((...)))))))....((((....(((.......)))...)))))).------))).---.......-- ( -22.60)
>DroYak_CAF1 32413 91 + 1
AAGGGGCAUUCGAACGGGU-AAGGAGGCGAAGCCUCUCAAGAGCUUG-GCACCCAGUCCCACUAUGGUGUAGAC--AUGUACAAAUGGUGGGACG
..(((((((((....))))-..((((((...))))))..........-)).))).((((((((((..((((...--...)))).)))))))))). ( -36.40)
>consensus
AAGUGGCA_____ACGGGU_AAGGAGGCGAAGCCCCUCAAGAGUUUG_GCACCCAGUCCCACUAUGGUGCACAU__AUGUACAUAUGGUGGGACG
.....................(((.(((...))))))..................(((((((((((.................))))))))))). (-14.47 = -15.78 +   1.31)

alignment

secondary structure

dotplot

Window 8

Location	11,128,200 – 11,128,294
Length	94
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	73.31
Mean single sequence MFE	-25.02
Consensus MFE	-15.47
Energy contribution	-16.67
Covariance contribution	1.20
Combinations/Pair	1.25
Mean z-score	-1.45
Structure conservation index	0.62
SVM decision value	0.65
SVM RNA-class probability	0.811980
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11128200 94 - 23771897
CGUCCCACCAUAUGUACAUAUAUGUGCACCAUAGUGGGACUGAGUGC-CAAACUCUUGAGGGGCUUCGCCUCCUUUUCCCGACCGCCUGCCACUU
.(((((((.((.((((((....))))))..)).))))))).((((..-...))))..(((((((...))).)))).................... ( -29.10)
>DroSec_CAF1 24488 77 - 1
CGUCCCACCAUAU----GUACAUGGGCACCAUAGUGGGACUGGGUGC-CAAACUCUUGAGGGGCUUCGCCUCCU-------------UGCCACUU
.(((((((.((.(----((......)))..)).))))))).((((..-...))))..(((((((...))).)))-------------)....... ( -24.00)
>DroSim_CAF1 24397 80 - 1
-GUCCCACCAUAUGUAUGUACAUGUGCACCAUAGUGGGACUGGGUGC-CAAACUCUUGAGGGGCUUCGCCUCCU-------------UGCCACUU
-((((((((((((((....))))))).......))))))).((((..-...))))..(((((((...))).)))-------------)....... ( -27.31)
>DroEre_CAF1 27417 91 - 1
CGUCCCACCAUAUGUACAU--GUGUGCACCAUAGUGCGACUGGGUGC-CAAACUCUUGAGGGGCUUCGCCUCCUU-ACCCGUUCGCCUGCCCCUU
.(((.(((.((.(((((..--..)))))..)).))).))).((((((-..(((...((((((((...))).))))-)...))).))..))))... ( -26.30)
>DroWil_CAF1 29184 78 - 1
--UCCCACU---UGUA------UGCGCCACAUGCUGUGCCUUAGCUCUUUGGCUCUUGAGAGGCUUCGCCCCCCU-AUAAGU-----UGCCACUU
--....(((---((((------...((((...((((.....))))....))))........(((...)))....)-))))))-----........ ( -16.00)
>DroYak_CAF1 32413 91 - 1
CGUCCCACCAUUUGUACAU--GUCUACACCAUAGUGGGACUGGGUGC-CAAGCUCUUGAGAGGCUUCGCCUCCUU-ACCCGUUCGAAUGCCCCUU
.(((((((....((((...--...)))).....))))))).(((((.-(((....))).(((((...)))))..)-))))............... ( -27.40)
>consensus
CGUCCCACCAUAUGUACAU__AUGUGCACCAUAGUGGGACUGGGUGC_CAAACUCUUGAGGGGCUUCGCCUCCUU_ACCCGU_____UGCCACUU
.(((((((....((((........)))).....))))))).((((......))))....(((((...)))))....................... (-15.47 = -16.67 +   1.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:12 2006