Locus 1570

Sequence ID	2L_DroMel_CAF1
Location	4,235,223 – 4,235,318
Length	95
Max. P	0.981475

overview

Window 6

Location	4,235,223 – 4,235,318
Length	95
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	94.11
Mean single sequence MFE	-31.14
Consensus MFE	-24.42
Energy contribution	-25.58
Covariance contribution	1.16
Combinations/Pair	1.07
Mean z-score	-1.96
Structure conservation index	0.78
SVM decision value	0.72
SVM RNA-class probability	0.832091
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4235223 95 + 22407834
GCUGCAUUGUUUUAGUUUUGUGCAAACGCUC-GAGGCUUAAACAUCGAGCAGCUGCGUCUCCGUGCGAGGAGCCAACUUUGUAUGGCUCUAAUUAG
(((((..(((((.(((((((.((....)).)-)))))).)))))....)))))((((......)))).(((((((........)))))))...... ( -33.70)
>DroSec_CAF1 10340 95 + 1
GCUGCAUUGUUUUAGUUUUGUGCAAACGCCG-GAGGCUUAAACAUCGAGCAGCUGCGUCCCCAUGUGGGGAGCCAACUUUGUAUGGCUCUAAUUAG
(((((..(((((.((((((..((....))..-)))))).)))))....)))))....(((((....)))))((((........))))......... ( -31.70)
>DroSim_CAF1 17361 95 + 1
GCUGCAUUGUUUUAGUUUUGUGCAAACGCCG-GAGGCUUAAACAUCGAGCAGCUGCGUCCCCGUGUGGGGAGCCAACUUUGUAUGGCUCUAAUUAG
(((((..(((((.((((((..((....))..-)))))).)))))....)))))....(((((....)))))((((........))))......... ( -31.00)
>DroEre_CAF1 10650 92 + 1
GCUGCAUUGUUUUAGUUUUGUGCAAACGCUC-GAGGCUUAAACAUCGAGCAGCUGCGUCUCCGUGUGG---GCCAACUUUGUAUGGCUCUAAUUAG
(((((..(((((.(((((((.((....)).)-)))))).)))))....))))).(((....)))..((---((((........))))))....... ( -30.50)
>DroYak_CAF1 18638 93 + 1
GCUGCAUUGUUUUAGUUUUGUGCAAACGCUCCAAGGCUUAAACAUCGAGCAGCUGCGUCUCCGUGUGG---GCCAACUUUGUAUGGCUCUAAUUAG
(((((..(((((.(((((((.((....))..))))))).)))))....))))).(((....)))..((---((((........))))))....... ( -28.80)
>consensus
GCUGCAUUGUUUUAGUUUUGUGCAAACGCUC_GAGGCUUAAACAUCGAGCAGCUGCGUCUCCGUGUGGGGAGCCAACUUUGUAUGGCUCUAAUUAG
(((((..(((((.((((((..((....))...)))))).)))))....)))))....(((((....)))))((((........))))......... (-24.42 = -25.58 +   1.16)

alignment

secondary structure

dotplot

Window 7

Location	4,235,223 – 4,235,318
Length	95
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	94.11
Mean single sequence MFE	-27.48
Consensus MFE	-22.70
Energy contribution	-23.34
Covariance contribution	0.64
Combinations/Pair	1.04
Mean z-score	-2.19
Structure conservation index	0.83
SVM decision value	1.89
SVM RNA-class probability	0.981475
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4235223 95 - 22407834
CUAAUUAGAGCCAUACAAAGUUGGCUCCUCGCACGGAGACGCAGCUGCUCGAUGUUUAAGCCUC-GAGCGUUUGCACAAAACUAAAACAAUGCAGC
.......((((((........))))))...(((.(....)((((.(((((((.((....)).))-))))).))))...............)))... ( -31.70)
>DroSec_CAF1 10340 95 - 1
CUAAUUAGAGCCAUACAAAGUUGGCUCCCCACAUGGGGACGCAGCUGCUCGAUGUUUAAGCCUC-CGGCGUUUGCACAAAACUAAAACAAUGCAGC
.........((((........))))(((((....)))))....(((((....(((((..(((..-.)))((((.....))))..)))))..))))) ( -28.70)
>DroSim_CAF1 17361 95 - 1
CUAAUUAGAGCCAUACAAAGUUGGCUCCCCACACGGGGACGCAGCUGCUCGAUGUUUAAGCCUC-CGGCGUUUGCACAAAACUAAAACAAUGCAGC
.........((((........))))(((((....)))))....(((((....(((((..(((..-.)))((((.....))))..)))))..))))) ( -28.40)
>DroEre_CAF1 10650 92 - 1
CUAAUUAGAGCCAUACAAAGUUGGC---CCACACGGAGACGCAGCUGCUCGAUGUUUAAGCCUC-GAGCGUUUGCACAAAACUAAAACAAUGCAGC
....((((.((((........))))---......(....)((((.(((((((.((....)).))-))))).))))......))))........... ( -25.50)
>DroYak_CAF1 18638 93 - 1
CUAAUUAGAGCCAUACAAAGUUGGC---CCACACGGAGACGCAGCUGCUCGAUGUUUAAGCCUUGGAGCGUUUGCACAAAACUAAAACAAUGCAGC
.......(.((((........))))---.)...((....))..(((((....(((((.((..(((..((....)).)))..)).)))))..))))) ( -23.10)
>consensus
CUAAUUAGAGCCAUACAAAGUUGGCUCCCCACACGGAGACGCAGCUGCUCGAUGUUUAAGCCUC_GAGCGUUUGCACAAAACUAAAACAAUGCAGC
.......((((((........))))))......((....))..(((((....(((((..((......))((((.....))))..)))))..))))) (-22.70 = -23.34 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:40 2006