Locus 791

Sequence ID	2R_DroMel_CAF1
Location	3,768,942 – 3,769,104
Length	162
Max. P	0.842910

overview

Window 7

Location	3,768,942 – 3,769,040
Length	98
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	89.65
Mean single sequence MFE	-29.62
Consensus MFE	-25.28
Energy contribution	-25.52
Covariance contribution	0.24
Combinations/Pair	1.11
Mean z-score	-1.57
Structure conservation index	0.85
SVM decision value	0.76
SVM RNA-class probability	0.842910
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3768942 98 - 20766785
CCAUCCAUACACCUGGUGGAGCUGAUACAUGCGUAUUGAUGCCAAACGCGUUCAGGCAGAGCGACAAACUUGACACCCACUUAAAGGUGUUAAGUGCU
(((.(((......))))))..((((...((((((.(((....)))))))))))))....(((.....((((((((((........))))))))))))) ( -29.50)
>DroSec_CAF1 24900 98 - 1
CCAUCCAUACACCUGGUGGAGCUGAUACAUGCGUAUUGAUGCCAAGCGCGUUCAGGCAGAGCGACAAACUUGACACCCACUUACAGGUGUUAAGUGCU
.((((.((((.((....)).((........)))))).))))...(((((((((.....))))).)..((((((((((........))))))))))))) ( -31.20)
>DroSim_CAF1 46963 98 - 1
CCAUCCAUACACCUGGUGGAGCUGAUACAUGCGUAUUGAUGCCAAGCGCGUUCAGGCAGAGCGACAAACUUGACACCCACUUACAGGUGUUAAGUGCU
.((((.((((.((....)).((........)))))).))))...(((((((((.....))))).)..((((((((((........))))))))))))) ( -31.20)
>DroEre_CAF1 26050 94 - 1
CCAUCC----ACCUGAUGGAGCUGAUAUUUGCGUAUUGAUGCCAAGCGCGUUCGGGCAGAGCGGCAAACUUGACACCCACUCAAAAGUGUUAAGUGGC
(((((.----....))))).((........))........(((..((.(((((.....)))))))..(((((((((..........)))))))))))) ( -29.00)
>DroYak_CAF1 18928 94 - 1
CCAUCC----AUCUAGUGGAGCCGAUACAUGCGUAUUGAUGCCAAACGCGUUCAGGCGAAGCGCCAAACUUGACACCCACUCAAAAGUGUUAAGUGGU
...(((----((...)))))(((((...((((((.(((....))))))))))).((((...))))..(((((((((..........)))))))))))) ( -27.20)
>consensus
CCAUCCAUACACCUGGUGGAGCUGAUACAUGCGUAUUGAUGCCAAGCGCGUUCAGGCAGAGCGACAAACUUGACACCCACUUAAAGGUGUUAAGUGCU
(((((.........))))).(((.....((((((.(((....)))))))))...)))..........((((((((((........))))))))))... (-25.28 = -25.52 +   0.24)

alignment

secondary structure

dotplot

Window 8

Location	3,769,012 – 3,769,104
Length	92
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	78.73
Mean single sequence MFE	-31.00
Consensus MFE	-18.04
Energy contribution	-18.57
Covariance contribution	0.53
Combinations/Pair	1.24
Mean z-score	-1.95
Structure conservation index	0.58
SVM decision value	0.65
SVM RNA-class probability	0.812376
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3769012 92 - 20766785
---ACAUAGAGCUCCAGCCAGGCGUUCC-AUUCGCAUGCAUGAUUGAC-AGCCGAGUGGGCGGCCACAUCCAUCCAUACACCUGGUGGAGCUGAUAC
---......(((((((.(((((.(((((-(((((..((((....)).)-)..)))))))).((......))......)).))))))))))))..... ( -35.00)
>DroSec_CAF1 24970 92 - 1
---ACAUAGAGCUCCAUCCAGGCGUUCC-AUUCGCAUGCAUGAUUGAC-AGCCGAGUGGUGGGGCACAUCCAUCCAUACACCUGGUGGAGCUGAUAC
---......(((((((.(((((.((.((-(((((..((((....)).)-)..)))))))((((.....)))).....)).))))))))))))..... ( -36.10)
>DroSim_CAF1 47033 91 - 1
---ACAUAGAGCUCCAGCCAGGCGUUCC-AUUCGCAUGCAUGAUUGAC-AGCCGAGUGG-GGGGCACAUCCAUCCAUACACCUGGUGGAGCUGAUAC
---......(((((((.(((((.((.((-(((((..((((....)).)-)..)))))))-(((.....)))......)).))))))))))))..... ( -36.10)
>DroEre_CAF1 26120 88 - 1
---ACAUAGAGCUCCAGCCAGGCGUUCC-AUUCGCAUGCAUGACAGCCGAGCCGAGUGG-AGGCCUCAUCCAUCC----ACCUGAUGGAGCUGAUAU
---...........((((.((((.((((-((((((..((......))...).)))))))-))))))..((((((.----....)))))))))).... ( -31.50)
>DroYak_CAF1 18998 79 - 1
---ACAUAGAGCUCCAGCCAGGCGUUCC-AUUCGCA----UGACAGC-----CGAGUGG-AGGGCAUAUCCAUCC----AUCUAGUGGAGCCGAUAC
---.....(.((((((.....((.((((-((((((.----.....).-----)))))))-)).)).........(----.....))))))))..... ( -24.40)
>DroAna_CAF1 23543 78 - 1
GACACAUAGAGCUUCAACGAGGCGUUCCGAAUCGCUUGCAUGAUUGAC-AGCCGAGUGG-UGGGCACAUCC-----------UUGUGGCGU------
..((((..(((((((...)))))((.((..((((((((..((.....)-)..)))))))-).)).)).)).-----------.))))....------ ( -22.90)
>consensus
___ACAUAGAGCUCCAGCCAGGCGUUCC_AUUCGCAUGCAUGAUUGAC_AGCCGAGUGG_AGGGCACAUCCAUCC____ACCUGGUGGAGCUGAUAC
.........(((((((.(((((((........)))....................(((......)))..............)))))))))))..... (-18.04 = -18.57 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:29 2006