Locus 1632

Sequence ID	2L_DroMel_CAF1
Location	4,372,564 – 4,372,664
Length	100
Max. P	0.998755

overview

Window 9

Location	4,372,564 – 4,372,664
Length	100
Sequences	4
Columns	100
Reading direction	forward
Mean pairwise identity	83.50
Mean single sequence MFE	-33.19
Consensus MFE	-26.38
Energy contribution	-27.70
Covariance contribution	1.31
Combinations/Pair	1.15
Mean z-score	-3.82
Structure conservation index	0.79
SVM decision value	3.21
SVM RNA-class probability	0.998755
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4372564 100 + 22407834
GCUCCCUAGAAAUAUCGAGGGCAAUGCACCAGAGAUGUGAUCUUUUCGUCUUGCAGAUUACAUUACGUGCUAAUGCUGCAAAUUUCAUAUCUUUGGUGUA
...((((.((....)).))))...((((((((((((((((..........(((((((((((((...))).)))).))))))...)))))))))))))))) ( -34.32)
>DroSec_CAF1 24438 92 + 1
GCUCCCUAGAAAUAUCGAGGGCAAUGCACCAGAUAUGUGAUC--------UUGCAAAGUACAUAACUUGCUAAUGCUGUACAUUUCAUAUCUUUGGUGUA
...((((.((....)).))))...(((((((((.((((((..--------.((((((((.....))))((....))))))....)))))).))))))))) ( -26.00)
>DroEre_CAF1 19762 100 + 1
GUUCCUCAGAAUUAUCAAGGGCAAUGCACCAGAGAUGUGAUCUUUUCGUCUUGCAGAGCACAUUACGUGCUGAUUCUGCAAAUUUCAUAUCUUUGGCGUA
((((((..((....))..))).)))((.((((((((((((..........(((((((((((.....))))....)))))))...)))))))))))).)). ( -31.12)
>DroYak_CAF1 20140 100 + 1
GCUCCCUAGAAUUAUCGGGGGCAAUGCACCAGAGCUGUGAUCUUUUCAGCUUGCAGAGUAGAAUACUUGCUGACUCUGCAAGUUUCAUAUCUUUGGCGUA
((((((..........))))))..(((.((((((.(((((.......((((((((((((((........)).))))))))))))))))).)))))).))) ( -41.31)
>consensus
GCUCCCUAGAAAUAUCGAGGGCAAUGCACCAGAGAUGUGAUCUUUUCGUCUUGCAGAGUACAUUACGUGCUAAUGCUGCAAAUUUCAUAUCUUUGGCGUA
...((((.((....)).))))...((((((((((((((((..........(((((((((((.....)))))....))))))...)))))))))))))))) (-26.38 = -27.70 +   1.31)

alignment

secondary structure

dotplot

Window 0

Location	4,372,564 – 4,372,664
Length	100
Sequences	4
Columns	100
Reading direction	reverse
Mean pairwise identity	83.50
Mean single sequence MFE	-27.42
Consensus MFE	-15.81
Energy contribution	-17.62
Covariance contribution	1.81
Combinations/Pair	1.14
Mean z-score	-2.51
Structure conservation index	0.58
SVM decision value	0.57
SVM RNA-class probability	0.785079
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4372564 100 - 22407834
UACACCAAAGAUAUGAAAUUUGCAGCAUUAGCACGUAAUGUAAUCUGCAAGACGAAAAGAUCACAUCUCUGGUGCAUUGCCCUCGAUAUUUCUAGGGAGC
..(((((.((((.(((..(((((((.((((.((.....))))))))))))).(.....).))).)))).))))).....((((.((....)).))))... ( -27.00)
>DroSec_CAF1 24438 92 - 1
UACACCAAAGAUAUGAAAUGUACAGCAUUAGCAAGUUAUGUACUUUGCAA--------GAUCACAUAUCUGGUGCAUUGCCCUCGAUAUUUCUAGGGAGC
..(((((..((((((.((((.....)))).((((((.....)).))))..--------.....))))))))))).....((((.((....)).))))... ( -24.30)
>DroEre_CAF1 19762 100 - 1
UACGCCAAAGAUAUGAAAUUUGCAGAAUCAGCACGUAAUGUGCUCUGCAAGACGAAAAGAUCACAUCUCUGGUGCAUUGCCCUUGAUAAUUCUGAGGAAC
..(((((.((((.(((..((((((((....((((.....)))))))))))).(.....).))).)))).)))))......((((((....)).))))... ( -28.00)
>DroYak_CAF1 20140 100 - 1
UACGCCAAAGAUAUGAAACUUGCAGAGUCAGCAAGUAUUCUACUCUGCAAGCUGAAAAGAUCACAGCUCUGGUGCAUUGCCCCCGAUAAUUCUAGGGAGC
..(((((.((...(((..((((((((((.((........))))))))))))((....)).)))...)).)))))....((.(((..........))).)) ( -30.40)
>consensus
UACACCAAAGAUAUGAAAUUUGCAGAAUCAGCAAGUAAUGUACUCUGCAAGACGAAAAGAUCACAUCUCUGGUGCAUUGCCCUCGAUAAUUCUAGGGAGC
..(((((.((((.(((..((((((((....(((.....)))..)))))))).........))).)))).))))).....((((.((....)).))))... (-15.81 = -17.62 +   1.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:11 2006