Locus 4809

Sequence ID	2L_DroMel_CAF1
Location	13,730,348 – 13,730,448
Length	100
Max. P	0.915614

overview

Window 5

Location	13,730,348 – 13,730,448
Length	100
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	91.67
Mean single sequence MFE	-30.85
Consensus MFE	-21.78
Energy contribution	-22.74
Covariance contribution	0.96
Combinations/Pair	1.10
Mean z-score	-3.52
Structure conservation index	0.71
SVM decision value	1.10
SVM RNA-class probability	0.915614
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13730348 100 + 22407834
AAAAACGGCAUCAAUUUUUCCGCUUCACCCUUCGCUUUAGCCAACCCACUCGAAAAACUCAGCGAAUGGAACAAGGCGUGCUGGAA--AAAUUGCUGCUCAU
......((((.(((((((((((...(((((((.((....))....(((.(((..........))).)))...)))).))).)))))--)))))).))))... ( -28.50)
>DroSec_CAF1 87616 100 + 1
AAAAACGGCAGCAAUUUUUCCGCUUCACCCUUCGCUUUAGCCGCCCCACUGGAAAAACUCAGCGAAUGGAACAGAGCGUGCUGGAA--AAAUUGCUGCUCAU
......(((((((((((((((((.........((((((..(((...(.((((......)))).)..)))...)))))).)).))))--)))))))))))... ( -35.10)
>DroSim_CAF1 85435 100 + 1
AAAAACGGCAGCAAUUUUUCCGCUUCACCCUUCGCUUUAGCCGCCCCACUGGAAAAACUCAGCGAAUGGAACAGAGCGUGCUGGAA--AAAUUGCUGCUCAU
......(((((((((((((((((.........((((((..(((...(.((((......)))).)..)))...)))))).)).))))--)))))))))))... ( -35.10)
>DroEre_CAF1 87964 102 + 1
AAAAACGGCAGCAAUUUUUCCGCAUCACCCUUCGCUUUAGCCACCCCACUGGAAAAACUCAGCCAAUGGAACAAAACGAGCUCGAAAAAAAUUGCUGCUCAU
......((((((((((((((.((.((.......((....))....(((.(((..........))).)))........))))..))..))))))))))))... ( -23.90)
>DroYak_CAF1 88296 100 + 1
AAAAACGGCAGCAAUUUUUCCGCUUCACCCUUCGCUUUGGCAACGCCACUCGAAAAACUCAGCCAAUGGAGCCAAGCGUGCUGGAA--AAAUGGCUGCUCAU
......((((((.(((((((((...(((.(((.((((((((....................))))...)))).))).))).)))))--)))).))))))... ( -31.65)
>consensus
AAAAACGGCAGCAAUUUUUCCGCUUCACCCUUCGCUUUAGCCACCCCACUGGAAAAACUCAGCGAAUGGAACAAAGCGUGCUGGAA__AAAUUGCUGCUCAU
......(((((((((((((((((.........((((((..(((.....((((......))))....)))...)))))).)).))))..)))))))))))... (-21.78 = -22.74 +   0.96)

alignment

secondary structure

dotplot

Window 6

Location	13,730,348 – 13,730,448
Length	100
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	91.67
Mean single sequence MFE	-38.04
Consensus MFE	-26.84
Energy contribution	-27.12
Covariance contribution	0.28
Combinations/Pair	1.14
Mean z-score	-3.35
Structure conservation index	0.71
SVM decision value	0.98
SVM RNA-class probability	0.893782
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13730348 100 - 22407834
AUGAGCAGCAAUUU--UUCCAGCACGCCUUGUUCCAUUCGCUGAGUUUUUCGAGUGGGUUGGCUAAAGCGAAGGGUGAAGCGGAAAAAUUGAUGCCGUUUUU
(((.(((.((((((--((((.((.((((((..((((((((..........))))))))...((....))..))))))..)))))))))))).)))))).... ( -34.40)
>DroSec_CAF1 87616 100 - 1
AUGAGCAGCAAUUU--UUCCAGCACGCUCUGUUCCAUUCGCUGAGUUUUUCCAGUGGGGCGGCUAAAGCGAAGGGUGAAGCGGAAAAAUUGCUGCCGUUUUU
(((.((((((((((--((((.((.(((((((((((....((((........))))))))).((....))..))))))..))))))))))))))))))).... ( -40.70)
>DroSim_CAF1 85435 100 - 1
AUGAGCAGCAAUUU--UUCCAGCACGCUCUGUUCCAUUCGCUGAGUUUUUCCAGUGGGGCGGCUAAAGCGAAGGGUGAAGCGGAAAAAUUGCUGCCGUUUUU
(((.((((((((((--((((.((.(((((((((((....((((........))))))))).((....))..))))))..))))))))))))))))))).... ( -40.70)
>DroEre_CAF1 87964 102 - 1
AUGAGCAGCAAUUUUUUUCGAGCUCGUUUUGUUCCAUUGGCUGAGUUUUUCCAGUGGGGUGGCUAAAGCGAAGGGUGAUGCGGAAAAAUUGCUGCCGUUUUU
(((.(((((((((((((.((.((((.....(..(((((((..........)))))))..).((....))...))))....)))))))))))))))))).... ( -35.10)
>DroYak_CAF1 88296 100 - 1
AUGAGCAGCCAUUU--UUCCAGCACGCUUGGCUCCAUUGGCUGAGUUUUUCGAGUGGCGUUGCCAAAGCGAAGGGUGAAGCGGAAAAAUUGCUGCCGUUUUU
(((.(((((.((((--((((..(((.(((.(((...(((((...(((........)))...)))))))).))).)))....)))))))).)))))))).... ( -39.30)
>consensus
AUGAGCAGCAAUUU__UUCCAGCACGCUUUGUUCCAUUCGCUGAGUUUUUCCAGUGGGGUGGCUAAAGCGAAGGGUGAAGCGGAAAAAUUGCUGCCGUUUUU
(((.((((((((((..((((.((.((((((((((((((..............)))))))).((....))..))))))..))))))))))))))))))).... (-26.84 = -27.12 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:53 2006