Locus 6753

Sequence ID	3R_DroMel_CAF1
Location	17,794,031 – 17,794,121
Length	90
Max. P	0.988312

overview

Window 9

Location	17,794,031 – 17,794,121
Length	90
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	76.84
Mean single sequence MFE	-21.26
Consensus MFE	-14.82
Energy contribution	-15.38
Covariance contribution	0.56
Combinations/Pair	1.11
Mean z-score	-2.27
Structure conservation index	0.70
SVM decision value	2.11
SVM RNA-class probability	0.988312
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17794031 90 + 27905053
AUCCAACCACCCGCGAUUUUCGCCAAACACGC-GAAGCAACAGUUGUCAUCUGUCGACAACUUGUUGUUAGGA----AAGCUAUUCCCUCUCCCU-
.(((.......((((..............)))-).(((((((((((((.......)))))).))))))).)))----..................- ( -22.04)
>DroSim_CAF1 82189 80 + 1
AUCCAACCACCCGCGAUUUUCGCAAAACACGC-GAAGCAACAGUUGUCAUCUGUCGACAACUUGUUGUUAGGA----AAGCUAUU-----------
.(((........(((.....))).........-..(((((((((((((.......)))))).))))))).)))----........----------- ( -22.50)
>DroEre_CAF1 88250 90 + 1
AUCCAACCACCCGCGAUUUUCGCCAAACACGC-GAAGCAACAGUUGUCAUCUGUCGACAACUUGUUGUUAGGA----AGGCCAUUCCCUCUCCCU-
...........((((..............)))-).(((((((((((((.......)))))).))))))).(((----(((......))).)))..- ( -22.94)
>DroYak_CAF1 88844 94 + 1
AUCCAACCACCCGCGAUUUUUGCCAAACACGC-GAAGCAACAGUUGUCAUCUGUCGACAACUUGUUGUUAGGAAGAAAGGCUUUCCCCUCUCCCA-
.(((.......((((..............)))-).(((((((((((((.......)))))).))))))).))).((.(((......))).))...- ( -24.44)
>DroAna_CAF1 90055 89 + 1
ACCCACUCACCAACC--CUCCACCACCCAUCCAGCAGCAACAGUUGGCCGC-GGCGACAACUUGUUGUUCCAA----AGCUCGUGCUCUCACUCUC
...............--................(.(((((((((((((...-.))..)))).))))))).)..----(((....)))......... ( -14.40)
>consensus
AUCCAACCACCCGCGAUUUUCGCCAAACACGC_GAAGCAACAGUUGUCAUCUGUCGACAACUUGUUGUUAGGA____AGGCUAUUCCCUCUCCCU_
......((....(((.....)))............(((((((((((((.......)))))).))))))).))........................ (-14.82 = -15.38 +   0.56)

alignment

secondary structure

dotplot

Window 0

Location	17,794,031 – 17,794,121
Length	90
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	76.84
Mean single sequence MFE	-28.28
Consensus MFE	-14.92
Energy contribution	-14.72
Covariance contribution	-0.20
Combinations/Pair	1.27
Mean z-score	-1.74
Structure conservation index	0.53
SVM decision value	0.00
SVM RNA-class probability	0.535755
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17794031 90 - 27905053
-AGGGAGAGGGAAUAGCUU----UCCUAACAACAAGUUGUCGACAGAUGACAACUGUUGCUUC-GCGUGUUUGGCGAAAAUCGCGGGUGGUUGGAU
-.(((((((.......)))----))))..((((.((((((((.....))))))))...(((.(-(((.((((.....))))))))))).))))... ( -27.50)
>DroSim_CAF1 82189 80 - 1
-----------AAUAGCUU----UCCUAACAACAAGUUGUCGACAGAUGACAACUGUUGCUUC-GCGUGUUUUGCGAAAAUCGCGGGUGGUUGGAU
-----------..(((((.----(((...(((((.(((((((.....)))))))))))).(((-(((.....))))))......))).)))))... ( -25.10)
>DroEre_CAF1 88250 90 - 1
-AGGGAGAGGGAAUGGCCU----UCCUAACAACAAGUUGUCGACAGAUGACAACUGUUGCUUC-GCGUGUUUGGCGAAAAUCGCGGGUGGUUGGAU
-.....(((((.....)))----))(((((((((.(((((((.....)))))))))))(((.(-(((.((((.....))))))))))).))))).. ( -26.80)
>DroYak_CAF1 88844 94 - 1
-UGGGAGAGGGGAAAGCCUUUCUUCCUAACAACAAGUUGUCGACAGAUGACAACUGUUGCUUC-GCGUGUUUGGCAAAAAUCGCGGGUGGUUGGAU
-.((((((((((....))))))))))...((((.((((((((.....))))))))...(((.(-(((.((((.....))))))))))).))))... ( -33.70)
>DroAna_CAF1 90055 89 - 1
GAGAGUGAGAGCACGAGCU----UUGGAACAACAAGUUGUCGCC-GCGGCCAACUGUUGCUGCUGGAUGGGUGGUGGAG--GGUUGGUGAGUGGGU
.......(((((....)))----)).((.(((....))))).((-((.(((((((.(..(..((.....))..)..)..--)))))))..)))).. ( -28.30)
>consensus
_AGGGAGAGGGAAUAGCCU____UCCUAACAACAAGUUGUCGACAGAUGACAACUGUUGCUUC_GCGUGUUUGGCGAAAAUCGCGGGUGGUUGGAU
.............(((((...........(((((.((((((.......)))))))))))......((((.((......)).))))...)))))... (-14.92 = -14.72 +  -0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:09 2006