Locus 4744

Sequence ID	3L_DroMel_CAF1
Location	13,344,619 – 13,344,752
Length	133
Max. P	0.619599

overview

Window 6

Location	13,344,619 – 13,344,715
Length	96
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	82.51
Mean single sequence MFE	-33.50
Consensus MFE	-23.83
Energy contribution	-24.52
Covariance contribution	0.69
Combinations/Pair	1.26
Mean z-score	-1.65
Structure conservation index	0.71
SVM decision value	0.18
SVM RNA-class probability	0.619599
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13344619 96 - 23771897
AAUUAUUGUUGUUAGCUGAAGUUGCCCGGAUGGGUGG-AUUCUUGCUGCCGGGACUCGCCUUCGUCGCGUGCAGCUAACAAGGUCCUUCUGCCGUCU-
........((((((((((((.(..(((....)))..)-.))).....((((.(((........))).)).)))))))))))(((......)))....- ( -31.60)
>DroSec_CAF1 16503 96 - 1
AAUUAUUGUUGUUAGCUGAAGUUGCCCGGAUGGGUGG-AUUCUGGCUACCAGGACUGGCCUCCGUCGCGUGCAGCUAACAAGGUCCUUCUGCCGCCU-
........((((((((((....(((.((((.((.(((-.((((((...))))))))).))))))..)))..))))))))))(((......)))....- ( -36.40)
>DroSim_CAF1 16042 96 - 1
AAUUAUUGUUGUUAGCUGAAGUUGCCCGGAUGGGUGG-AUUCUGGCUGCCAGGGCUCGCCUCCGUCGCGUGCAGCUAACAAGGUCCUUCUGCCGCCU-
........((((((((((....(((.((((..((((.-.((((((...))))))..))))))))..)))..))))))))))(((......)))....- ( -37.60)
>DroEre_CAF1 16546 89 - 1
AAUUAUUGUUGUUAGCUGAAGUUGCCCGGCUGGGUGG-CUCCUGGCUGCCAGGACUCGCCUCCGUCGCGUGCAGCUAACAAAGUCCUUCU--------
........((((((((((....(((.(((..(((((.-.((((((...))))))..))))))))..)))..)))))))))).........-------- ( -37.70)
>DroYak_CAF1 17240 98 - 1
AAUUAUUGUUGUUAGCUGAAGUUGCCCGGGUGGGUGGGAUUCUGGCUGCCAGGACUCGCCUCUGUCGCGUGCAGCUAACAAAGUCCUUCUGCCUGCUG
........((((((((((....(((.(((..(((((((.((((((...))))))))))))))))..)))..))))))))))................. ( -34.70)
>DroMoj_CAF1 30016 82 - 1
AAUUAUUGUUGUUAGCAGAAGUUGCCUGAAUGGCUGG-AUGG-----------UGUUGCU--UGUCGCGUGCAGCCAACAAAGUCCUUUUGG--GCUA
((((.((((.....)))).))))(((..((.....((-((..-----------(((((.(--(((.....)))).)))))..)))).))..)--)).. ( -23.00)
>consensus
AAUUAUUGUUGUUAGCUGAAGUUGCCCGGAUGGGUGG_AUUCUGGCUGCCAGGACUCGCCUCCGUCGCGUGCAGCUAACAAAGUCCUUCUGCCGCCU_
........((((((((((....(((.(((..((((((...(((((...)))))..)))))))))..)))..))))))))))................. (-23.83 = -24.52 +   0.69)

alignment

secondary structure

dotplot

Window 7

Location	13,344,657 – 13,344,752
Length	95
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	82.50
Mean single sequence MFE	-29.49
Consensus MFE	-18.15
Energy contribution	-19.59
Covariance contribution	1.44
Combinations/Pair	1.15
Mean z-score	-2.04
Structure conservation index	0.62
SVM decision value	0.08
SVM RNA-class probability	0.571798
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13344657 95 - 23771897
CAGCGAUGC---GGGGCAACUUUUCAUAAACAUUAUUAACAAUUAUUGUUGUUAGCUGAAGUUGCCCGGAUGGGUGG-AUUCUUGCUGCCGGGACUCGC
..((((...---.((((((((((............((((((((....))))))))..))))))))))(..(.((..(-.......)..)).)..))))) ( -29.94)
>DroVir_CAF1 22664 87 - 1
UGACGAUGCGAAGGGGCAACCUUUCAUAAACAUUAUUAACAAUUAUUGUUGUUAGCAGAAGUUGCCUGAAUGGCUGG-AUGG-----------UGUUGC
...((((((((((((....)))))).....((((.((((((((....))))))))........(((.....)))..)-))))-----------))))). ( -26.40)
>DroSec_CAF1 16541 95 - 1
CAGCGAUGC---GGGGCAACUUUUCAUAAACAUUAUUAACAAUUAUUGUUGUUAGCUGAAGUUGCCCGGAUGGGUGG-AUUCUGGCUACCAGGACUGGC
((.(.((.(---.((((((((((............((((((((....))))))))..)))))))))).))).).)).-.((((((...))))))..... ( -28.94)
>DroEre_CAF1 16577 95 - 1
CAGCGAUGC---GGGGCAACUUUUCAUAAACAUUAUUAACAAUUAUUGUUGUUAGCUGAAGUUGCCCGGCUGGGUGG-CUCCUGGCUGCCAGGACUCGC
..((((.((---.((((((((((............((((((((....))))))))..)))))))))).))..((..(-(.....))..)).....)))) ( -36.54)
>DroYak_CAF1 17279 96 - 1
CAGCGAAGC---GGGGCAACUUUUCAUAAACAUUAUUAACAAUUAUUGUUGUUAGCUGAAGUUGCCCGGGUGGGUGGGAUUCUGGCUGCCAGGACUCGC
..((((..(---.((((((((((............((((((((....))))))))..)))))))))).((..(.(((....))).)..))..)..)))) ( -31.94)
>DroMoj_CAF1 30051 87 - 1
UGUCGAUGCGAAGGGGCAACUUUUCAUAAACAUUAUUAACAAUUAUUGUUGUUAGCAGAAGUUGCCUGAAUGGCUGG-AUGG-----------UGUUGC
...((((((((((((....)))))).....((((.((((((((....))))))))........(((.....)))..)-))))-----------))))). ( -23.20)
>consensus
CAGCGAUGC___GGGGCAACUUUUCAUAAACAUUAUUAACAAUUAUUGUUGUUAGCUGAAGUUGCCCGGAUGGGUGG_AUUCUGGCUGCCAGGACUCGC
..((((.......((((((((((............((((((((....))))))))..))))))))))............(((((.....))))).)))) (-18.15 = -19.59 +   1.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:05 2006