Locus 7554

Sequence ID	2L_DroMel_CAF1
Location	20,933,404 – 20,933,523
Length	119
Max. P	0.993793

overview

Window 5

Location	20,933,404 – 20,933,523
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.04
Mean single sequence MFE	-49.00
Consensus MFE	-41.78
Energy contribution	-41.46
Covariance contribution	-0.32
Combinations/Pair	1.20
Mean z-score	-2.18
Structure conservation index	0.85
SVM decision value	2.43
SVM RNA-class probability	0.993793
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20933404 119 + 22407834
UGGAGCGGAGUUGCUGCUGGUGGCAUUGCCCAAAUGCAAGCUGGGUUCGAUAUUCGGGCCAUUGUGUGGCGGCUUUUGUGCUUCGUUCCGGGUUCCAGGUGAAAAGUGGAAAGG-AGGGG
.((((((.((..((((((...(((.((((......))))))).((((((.....)))))).......))))))..)).)))))).((((...(((((.........))))).))-))... ( -43.00)
>DroSec_CAF1 19723 119 + 1
UGGAGUGGAGUUGCUGCUGGUGGCAUUGCCCAAAUGCAAGCUGGGUUCGAUAUUCGGGCCAUUGUGUGGCAGCUUUUGUGCUUCGCCCCGGGUUCCAGGUGGAAAGUGGAAUGG-GGGGA
.(((((((((((((..((((((((.((((......)))).((((((.....))))))))))))).)..))))))))...))))).((((..((((((.........))))))..-)))). ( -47.60)
>DroSim_CAF1 18018 120 + 1
UGGAGCGGAGUUGCUGCUGGUGGCAUUGCCCAAAUGCAAGCUGGGUUCGAUAUUCGGGCCAUUGUGUGGCGGCUUUUGUGCUUCGCCCCGGGUUCCAGGUGGAAAGUGGAAAGGGGGGGA
.((((((.((..((((((...(((.((((......))))))).((((((.....)))))).......))))))..)).)))))).((((...(((((.........))))).)))).... ( -47.60)
>DroEre_CAF1 17147 118 + 1
UGGAGCGCAGCUGCUGCUGGUGGCAUUGGCCAAAUGCAAGCUGGGUUCGAUAUUCGGGCCAUUGUGUGGCGGCCUUUGUGCUUCGCUCCGGGCUCCAGGUGGAAAGUGGGAGC--GGAGA
.(((((((((..((((((..((((....)))).((((((....((((((.....)))))).))))))))))))..))))))))).((((..(((((.(.(....).).)))))--)))). ( -54.20)
>DroYak_CAF1 18004 118 + 1
UGGAGCGCAGCUGCUGCUGGUGGCAUUGCCCAAAUGCAAGCUGAGUUCGAUAUUCGGGCCAUUGUGUGGCGGCUUUUGUGCUUCGCUCCGGGUUCCAGGUGGAAGGUGGAAAC--GGAGA
.(((((((((((((..((((((((.((((......)))).((((((.....))))))))))))).)..)))))...)))))))).(((((..(((((.........))))).)--)))). ( -52.60)
>consensus
UGGAGCGGAGUUGCUGCUGGUGGCAUUGCCCAAAUGCAAGCUGGGUUCGAUAUUCGGGCCAUUGUGUGGCGGCUUUUGUGCUUCGCUCCGGGUUCCAGGUGGAAAGUGGAAAGG_GGGGA
.(((((((((((((..((((((((.((((......)))).((((((.....))))))))))))).)..)))))))...)))))).((((...(((((.........)))))....)))). (-41.78 = -41.46 +  -0.32)

alignment

secondary structure

dotplot

Window 6

Location	20,933,404 – 20,933,523
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.04
Mean single sequence MFE	-31.48
Consensus MFE	-25.72
Energy contribution	-25.56
Covariance contribution	-0.16
Combinations/Pair	1.12
Mean z-score	-1.68
Structure conservation index	0.82
SVM decision value	0.82
SVM RNA-class probability	0.857968
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20933404 119 - 22407834
CCCCU-CCUUUCCACUUUUCACCUGGAACCCGGAACGAAGCACAAAAGCCGCCACACAAUGGCCCGAAUAUCGAACCCAGCUUGCAUUUGGGCAAUGCCACCAGCAGCAACUCCGCUCCA
.....-..................(((...((((.(((.((......)).((((.....)))).......)))......(((.((.....(((...)))....)))))...)))).))). ( -23.50)
>DroSec_CAF1 19723 119 - 1
UCCCC-CCAUUCCACUUUCCACCUGGAACCCGGGGCGAAGCACAAAAGCUGCCACACAAUGGCCCGAAUAUCGAACCCAGCUUGCAUUUGGGCAAUGCCACCAGCAGCAACUCCACUCCA
(((((-(..(((((.........)))))...)))).)).........(((((.........((((((((..(((.......))).))))))))..........)))))............ ( -30.91)
>DroSim_CAF1 18018 120 - 1
UCCCCCCCUUUCCACUUUCCACCUGGAACCCGGGGCGAAGCACAAAAGCCGCCACACAAUGGCCCGAAUAUCGAACCCAGCUUGCAUUUGGGCAAUGCCACCAGCAGCAACUCCGCUCCA
................((((....))))...((((((..((......)).((.........((((((((..(((.......))).))))))))..(((.....))))).....)))))). ( -29.00)
>DroEre_CAF1 17147 118 - 1
UCUCC--GCUCCCACUUUCCACCUGGAGCCCGGAGCGAAGCACAAAGGCCGCCACACAAUGGCCCGAAUAUCGAACCCAGCUUGCAUUUGGCCAAUGCCACCAGCAGCAGCUGCGCUCCA
.....--(((((............)))))..((((((.(((.....(((((........)))))...............(((.((...((((....))))...))))).))).)))))). ( -41.00)
>DroYak_CAF1 18004 118 - 1
UCUCC--GUUUCCACCUUCCACCUGGAACCCGGAGCGAAGCACAAAAGCCGCCACACAAUGGCCCGAAUAUCGAACUCAGCUUGCAUUUGGGCAAUGCCACCAGCAGCAGCUGCGCUCCA
.....--.........((((....))))...((((((.(((....((((.((((.....)))).((.....))......))))((..((((.........))))..)).))).)))))). ( -33.00)
>consensus
UCCCC_CCUUUCCACUUUCCACCUGGAACCCGGAGCGAAGCACAAAAGCCGCCACACAAUGGCCCGAAUAUCGAACCCAGCUUGCAUUUGGGCAAUGCCACCAGCAGCAACUCCGCUCCA
................((((....))))...((((((((((.........((((.....)))).((.....))......))))((..((((.........))))..)).....)))))). (-25.72 = -25.56 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:44 2006