Locus 1129

Sequence ID	2L_DroMel_CAF1
Location	3,069,823 – 3,069,954
Length	131
Max. P	0.999782

overview

Window 8

Location	3,069,823 – 3,069,914
Length	91
Sequences	6
Columns	91
Reading direction	reverse
Mean pairwise identity	91.58
Mean single sequence MFE	-35.28
Consensus MFE	-34.36
Energy contribution	-34.17
Covariance contribution	-0.19
Combinations/Pair	1.19
Mean z-score	-2.38
Structure conservation index	0.97
SVM decision value	4.07
SVM RNA-class probability	0.999782
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3069823 91 - 22407834
AACUCGGAGGACGAAAGCUGUUCGGCCUCAUCCGAGGACAUAAUGCGCAGCUCUUCCGCCUCCAGCACCGCAUCGGGUGGAUCCCUAUCCA
.....(((((..(((((((((.((.((((....))))......)).)))))).)))..)))))...........((((((....)))))). ( -33.00)
>DroSec_CAF1 125 91 - 1
AACUCGGAGGACGAGAGCUGUUCGGCCUCAUCCGAGGACAUAAUGCGCAGCUCUUCUGCCUCCAGCACCGCAUCGGGUGGGUCCCUAUCCA
.....(((((..(((((((((.((.((((....))))......)).)))))))))...)))))...........((((((....)))))). ( -38.60)
>DroSim_CAF1 66 91 - 1
AACUCGGAGGACGAGAGCUGUUCGGCCUCAUCCGAGGACAUAAUGCGCAGCUCUUCCGCCUCCAGCACCGCAUCGGGUGGAUCCCUAUCCA
.....(((((..(((((((((.((.((((....))))......)).)))))))))...)))))...........((((((....)))))). ( -37.20)
>DroEre_CAF1 68 91 - 1
AACUCGGAGGACGAGAGCUGUUCGGCCUCAUCCGAGGACAUAAUGCGCAGCUCCUCCGCCUCCAGCACAGCAUCGGGCGGUUCCCUAUCCA
.....(((((..(((((((((.((.((((....))))......)).)))))).)))..)))))...........((..((....))..)). ( -31.90)
>DroYak_CAF1 66 91 - 1
AACUCGGAGGACGAGAGCUGUUCGGCCUCAUCCGAGGACAUAAUGCGCAGCUCAUCCGCCUCCAGCACAGCAUCGGGCGGAUCCCUAUCCA
.....((((((...(((((((.((.((((....))))......)).))))))).(((((((...((...))...))))))))))...))). ( -35.00)
>DroAna_CAF1 2289 91 - 1
AAUUCGGAGGACGAAAGCUGCUCAGCCUCCUCGGAGGAUAUGAUGCGCAGCUCCUCUGCUUCCAGCACCGCUUCGGUGGGAUCCCUCACCA
.....(((((..((.(((((((((.((((....))))...)))...))))))..))..)))))...........((((((....)))))). ( -36.00)
>consensus
AACUCGGAGGACGAGAGCUGUUCGGCCUCAUCCGAGGACAUAAUGCGCAGCUCUUCCGCCUCCAGCACCGCAUCGGGUGGAUCCCUAUCCA
.....(((((..(((((((((.((.((((....))))......)).))))))).))..)))))...........((((((....)))))). (-34.36 = -34.17 +  -0.19)

alignment

secondary structure

dotplot

Window 9

Location	3,069,835 – 3,069,954
Length	119
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	87.43
Mean single sequence MFE	-50.60
Consensus MFE	-40.62
Energy contribution	-39.27
Covariance contribution	-1.35
Combinations/Pair	1.30
Mean z-score	-1.82
Structure conservation index	0.80
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3069835 119 - 22407834
AAUCCAGGAGUCCGCCGGCGAGGCCAUGGUCUCCGGUGCUAACUCGGAGGACGAAAGCUGUUCGGCCUCAUCCGAGGACAUAAUGCGCAGCUCUUCCGCCUCCAGCACCGCAUCGGGUG-
.((((.((((.(((((.....)))...)).))))((((((.....(((((..(((((((((.((.((((....))))......)).)))))).)))..))))))))))).....)))).- ( -52.30)
>DroSec_CAF1 137 119 - 1
AAUCCAGGAGUCCGCCGGCGAGGCCAUGGUCUCCGGUGCUAACUCGGAGGACGAGAGCUGUUCGGCCUCAUCCGAGGACAUAAUGCGCAGCUCUUCUGCCUCCAGCACCGCAUCGGGUG-
.((((.((((.(((((.....)))...)).))))((((((.....(((((..(((((((((.((.((((....))))......)).)))))))))...))))))))))).....)))).- ( -56.50)
>DroEre_CAF1 80 119 - 1
AAUCCAGGAGUCCGCCGGCGAGGCCAUGGUCUCCGGUGCCAACUCGGAGGACGAGAGCUGUUCGGCCUCAUCCGAGGACAUAAUGCGCAGCUCCUCCGCCUCCAGCACAGCAUCGGGCG-
..(((.((((.(((((.....)))...)).))))(((((...((.(((((..(((((((((.((.((((....))))......)).)))))).)))..)))))))....))))))))..- ( -50.90)
>DroWil_CAF1 221 120 - 1
GAUUCAAGAGUCUGCUGGCGAGGCCAUGGUCUCCGGUGCCAAUUCGGAAGAUGAAAGUUGCUCAGCCUCAUCGGAGGAAAUGAUGCGCAGCUCCUCAGCAUCGAGCACGACAUCGGGUAA
.......(((((((((...(((((....)))))((((((....((....))(((.(((((((((.((((....))))...)))...))))))..))))))))))))).))).))...... ( -42.70)
>DroYak_CAF1 78 119 - 1
AAUUCAGGAGUCCGCCGGCGAGGCUAUGGUCUCCGGUGCUAACUCGGAGGACGAGAGCUGUUCGGCCUCAUCCGAGGACAUAAUGCGCAGCUCAUCCGCCUCCAGCACAGCAUCGGGCG-
............((((...(((((....)))))(((((((..((.(((((..(((((((((.((.((((....))))......)).))))))).))..)))))))...)))))))))))- ( -50.70)
>DroAna_CAF1 2301 119 - 1
GAUCCAGGAAUCCGCCGGUGAGGCAAUGGUCUCCGGCGCCAAUUCGGAGGACGAAAGCUGCUCAGCCUCCUCGGAGGAUAUGAUGCGCAGCUCCUCUGCUUCCAGCACCGCUUCGGUGG-
......((((..((((((..((((....))))))))))......(((((((.....((((((((.((((....))))...)))...)))))))))))).))))....((((....))))- ( -50.50)
>consensus
AAUCCAGGAGUCCGCCGGCGAGGCCAUGGUCUCCGGUGCCAACUCGGAGGACGAAAGCUGUUCGGCCUCAUCCGAGGACAUAAUGCGCAGCUCCUCCGCCUCCAGCACCGCAUCGGGUG_
...((..((((.((((((..((((....))))))))))...))))(((((.....((((((.((.((((....))))......)).))))))......)))))...........)).... (-40.62 = -39.27 +  -1.35)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:26 2006