Locus 5990

Sequence ID	X_DroMel_CAF1
Location	15,393,952 – 15,394,072
Length	120
Max. P	0.943660

overview

Window 2

Location	15,393,952 – 15,394,072
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.45
Mean single sequence MFE	-29.25
Consensus MFE	-25.38
Energy contribution	-24.98
Covariance contribution	-0.40
Combinations/Pair	1.08
Mean z-score	-1.33
Structure conservation index	0.87
SVM decision value	0.28
SVM RNA-class probability	0.667643
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15393952 120 + 22224390
GCAUUUCGGUGGCCAACUCCCGUGGGGCCAUUAAAUCAAUAGACAAAGACAUUAAAGCGAAUAUUCAACAGAUUGUCGAAACAUUUCCCACGAGACGGCGCCAUUUAUGCGGACAUAAAA
((((...(((((((...((.(((((((........((....))....((((.......((....)).......))))........))))))).))..).)))))).)))).......... ( -27.14)
>DroSec_CAF1 40295 118 + 1
GCAUUUCGGUGGCCAACUCCUGUGGGGCCAUUAAAUCAAUAGACAAAGACAUUAAAGCGAAUAUUCAACAGAUUGUCGAAACAUUUCCCACGAGACGGCGCCAUUUAUGCGUACAUAA--
((((...((((.((..(((..((((((........((....))....((((.......((....)).......))))........)))))))))..))))))....))))........-- ( -26.24)
>DroSim_CAF1 34721 118 + 1
GCAUUUCGGUGGCCAAGUCCCGUGGGGCCAUUAAAUCAAUAGACAAAGACAUUAAAGCGAAUAUUCAACAGAUUGUCGAAACAUUUCCCACGAGACGGCGCCAUUUAUGCGUACAUAA--
((((...((((((...(((.(((((((........((....))....((((.......((....)).......))))........))))))).)))...)))))).))))........-- ( -30.84)
>DroEre_CAF1 31168 118 + 1
GCAUUUCGGUGGCCAACUCCUGUGGGCCCAUUAAAUCAAUAGACAAAGACAUUAAAGGGAAUAUUCAACAGAUUGUCGAAACAUUUCCCACGAGACGGCGCCUUUUAUGCGAACAUAA--
((((...((((.((..(((..((((((((.((((.((..........))..)))).)))....(((.((.....)).)))......))))))))..))))))....))))........-- ( -28.50)
>DroYak_CAF1 22984 118 + 1
GCAUUUCGGUGUCCAACUCCCGUGGGGCCAUUAAAUCAAUAGACAAAGACAUUAAAGGGAAUAUUCAACAGAUUGUCGAAACAUUUCCCACGGGACGGCGCCUUUUAUGUGAACAUAA--
.......((((((....((((((((((........((....))....((((.......((....)).......))))........)))))))))).))))))..(((((....)))))-- ( -33.54)
>consensus
GCAUUUCGGUGGCCAACUCCCGUGGGGCCAUUAAAUCAAUAGACAAAGACAUUAAAGCGAAUAUUCAACAGAUUGUCGAAACAUUUCCCACGAGACGGCGCCAUUUAUGCGAACAUAA__
((((...((((.((...((.((((((.........((....))....((((.......((....)).......)))).........)))))).)).))))))....)))).......... (-25.38 = -24.98 +  -0.40)

alignment

secondary structure

dotplot

Window 3

Location	15,393,952 – 15,394,072
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.45
Mean single sequence MFE	-33.64
Consensus MFE	-30.38
Energy contribution	-30.58
Covariance contribution	0.20
Combinations/Pair	1.06
Mean z-score	-1.54
Structure conservation index	0.90
SVM decision value	1.34
SVM RNA-class probability	0.943660
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15393952 120 - 22224390
UUUUAUGUCCGCAUAAAUGGCGCCGUCUCGUGGGAAAUGUUUCGACAAUCUGUUGAAUAUUCGCUUUAAUGUCUUUGUCUAUUGAUUUAAUGGCCCCACGGGAGUUGGCCACCGAAAUGC
.((((((....))))))(((.(((((((((((((.((((((.((((.....)))))))))).(((.....(((..........))).....))))))))))))..))))..)))...... ( -35.00)
>DroSec_CAF1 40295 118 - 1
--UUAUGUACGCAUAAAUGGCGCCGUCUCGUGGGAAAUGUUUCGACAAUCUGUUGAAUAUUCGCUUUAAUGUCUUUGUCUAUUGAUUUAAUGGCCCCACAGGAGUUGGCCACCGAAAUGC
--........((((...(((.((((.((((((((.((((((.((((.....)))))))))).(((.....(((..........))).....))))))))..))).))))..)))..)))) ( -30.40)
>DroSim_CAF1 34721 118 - 1
--UUAUGUACGCAUAAAUGGCGCCGUCUCGUGGGAAAUGUUUCGACAAUCUGUUGAAUAUUCGCUUUAAUGUCUUUGUCUAUUGAUUUAAUGGCCCCACGGGACUUGGCCACCGAAAUGC
--........((((...(((.(((((((((((((.((((((.((((.....)))))))))).(((.....(((..........))).....)))))))))))))..)))..)))..)))) ( -36.20)
>DroEre_CAF1 31168 118 - 1
--UUAUGUUCGCAUAAAAGGCGCCGUCUCGUGGGAAAUGUUUCGACAAUCUGUUGAAUAUUCCCUUUAAUGUCUUUGUCUAUUGAUUUAAUGGGCCCACAGGAGUUGGCCACCGAAAUGC
--........((((....((.((((.((((((((.((((((.((((.....))))))))))(((.((((.(((..........))))))).))))))))..))).))))..))...)))) ( -32.10)
>DroYak_CAF1 22984 118 - 1
--UUAUGUUCACAUAAAAGGCGCCGUCCCGUGGGAAAUGUUUCGACAAUCUGUUGAAUAUUCCCUUUAAUGUCUUUGUCUAUUGAUUUAAUGGCCCCACGGGAGUUGGACACCGAAAUGC
--(((((....)))))..((.(((((((((((((.((((((.((((.....)))))))))).........(((...(((....))).....))))))))))))..))).).))....... ( -34.50)
>consensus
__UUAUGUACGCAUAAAUGGCGCCGUCUCGUGGGAAAUGUUUCGACAAUCUGUUGAAUAUUCGCUUUAAUGUCUUUGUCUAUUGAUUUAAUGGCCCCACGGGAGUUGGCCACCGAAAUGC
..(((((....)))))..((.(((((((((((((.((((((.((((.....)))))))))).(((.....(((..........))).....))))))))))))..))).).))....... (-30.38 = -30.58 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:36 2006