Locus 6067

Sequence ID	2L_DroMel_CAF1
Location	17,058,419 – 17,058,527
Length	108
Max. P	0.981410

overview

Window 1

Location	17,058,419 – 17,058,527
Length	108
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	96.76
Mean single sequence MFE	-37.77
Consensus MFE	-34.08
Energy contribution	-34.76
Covariance contribution	0.68
Combinations/Pair	1.07
Mean z-score	-1.80
Structure conservation index	0.90
SVM decision value	1.87
SVM RNA-class probability	0.980780
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17058419 108 + 22407834
UGCAGAUUGGGGGGCCACCAACAUAUUUUAGCGACAAAACAAUUAAAACUGCAUGCUGAGCGAACUGCGAGAGGCAUCUGCCUUUGGCCGCCCACCCCGCAUCCGGGG
.......((((.((((...........((((((.((.............))..))))))((.....)).((((((....)))))))))).))))(((((....))))) ( -36.12)
>DroSec_CAF1 22459 108 + 1
UGCAGAUUGGGGGGCCACCAACAUAUUUUAGCGACAAAACAAUUAAAACUGCAUGCUGAGCGAACUGCGAGAGGCAUCUGCCUUUGGCCCCCCACCCCGCAUCCGGGG
.......(((((((((...........((((((.((.............))..))))))((.....)).((((((....)))))))))))))))(((((....))))) ( -41.02)
>DroSim_CAF1 17256 108 + 1
UGCAGAUUGGGGGGCCACCAACAUAUUUUAGCGACAAAACAAUUAAAACUGCAUGCUGAGCGAACUGCGAGAGGCAUCUGCCUUUGGCCCCCCACCCCGCAUCCGGGG
.......(((((((((...........((((((.((.............))..))))))((.....)).((((((....)))))))))))))))(((((....))))) ( -41.02)
>DroEre_CAF1 22137 107 + 1
UGCAGUUUGGGGGG-CACCAACAUAUUUUAGCGACACAACAAUUAAAACUGCAUGCUGGGCGAACUGCGAGAGGCAUCUGCCUCUGGCCCCCCACCCCGCAUCCGGGG
.......(((((((-(.(((.(((.((((((...........))))))....))).))))).....((.((((((....)))))).))))))))(((((....))))) ( -40.60)
>DroYak_CAF1 20168 106 + 1
UGCAGAUUGGGGGG-CACCAACAUAUUUUAGCGACACAACAAUUAAAACUGCAUGCUGAGCGAACUGCGAGAGGCAUCUGCCUUUGGCC-CCCACCCCGCAUCCUGGG
..(((..((.((((-...........(((((((...((...........))..)))))))......((.((((((....)))))).)).-....)))).))..))).. ( -30.10)
>consensus
UGCAGAUUGGGGGGCCACCAACAUAUUUUAGCGACAAAACAAUUAAAACUGCAUGCUGAGCGAACUGCGAGAGGCAUCUGCCUUUGGCCCCCCACCCCGCAUCCGGGG
.......(((((((((...........((((((.((.............))..))))))((.....)).((((((....)))))))))))))))(((((....))))) (-34.08 = -34.76 +   0.68)

alignment

secondary structure

dotplot

Window 2

Location	17,058,419 – 17,058,527
Length	108
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	96.76
Mean single sequence MFE	-41.55
Consensus MFE	-37.68
Energy contribution	-38.72
Covariance contribution	1.04
Combinations/Pair	1.03
Mean z-score	-1.78
Structure conservation index	0.91
SVM decision value	1.89
SVM RNA-class probability	0.981410
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17058419 108 - 22407834
CCCCGGAUGCGGGGUGGGCGGCCAAAGGCAGAUGCCUCUCGCAGUUCGCUCAGCAUGCAGUUUUAAUUGUUUUGUCGCUAAAAUAUGUUGGUGGCCCCCCAAUCUGCA
...(((((...(((.((((.(((((((((....))))..........((...(((.(((((....)))))..))).)).........))))).))))))).))))).. ( -37.90)
>DroSec_CAF1 22459 108 - 1
CCCCGGAUGCGGGGUGGGGGGCCAAAGGCAGAUGCCUCUCGCAGUUCGCUCAGCAUGCAGUUUUAAUUGUUUUGUCGCUAAAAUAUGUUGGUGGCCCCCCAAUCUGCA
(((((....)))))((((((((((.((((....))))...((.....))((((((((.(((..(((.....)))..)))....))))))))))))))))))....... ( -44.50)
>DroSim_CAF1 17256 108 - 1
CCCCGGAUGCGGGGUGGGGGGCCAAAGGCAGAUGCCUCUCGCAGUUCGCUCAGCAUGCAGUUUUAAUUGUUUUGUCGCUAAAAUAUGUUGGUGGCCCCCCAAUCUGCA
(((((....)))))((((((((((.((((....))))...((.....))((((((((.(((..(((.....)))..)))....))))))))))))))))))....... ( -44.50)
>DroEre_CAF1 22137 107 - 1
CCCCGGAUGCGGGGUGGGGGGCCAGAGGCAGAUGCCUCUCGCAGUUCGCCCAGCAUGCAGUUUUAAUUGUUGUGUCGCUAAAAUAUGUUGGUG-CCCCCCAAACUGCA
.......(((((..((((((((.((((((....)))))).)).....((((((((((((((....)))))..............))))))).)-)))))))..))))) ( -46.43)
>DroYak_CAF1 20168 106 - 1
CCCAGGAUGCGGGGUGGG-GGCCAAAGGCAGAUGCCUCUCGCAGUUCGCUCAGCAUGCAGUUUUAAUUGUUGUGUCGCUAAAAUAUGUUGGUG-CCCCCCAAUCUGCA
....((((...(((.(((-.(((((((((....)))).....(((..((.(((((............))))).)).)))........))))).-)))))).))))... ( -34.40)
>consensus
CCCCGGAUGCGGGGUGGGGGGCCAAAGGCAGAUGCCUCUCGCAGUUCGCUCAGCAUGCAGUUUUAAUUGUUUUGUCGCUAAAAUAUGUUGGUGGCCCCCCAAUCUGCA
.......(((((..((((((((((.((((....))))...((.....))((((((((.(((..(((.....)))..)))....))))))))))))))))))..))))) (-37.68 = -38.72 +   1.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:30 2006