Locus 2062

Sequence ID 3R_DroMel_CAF1
Location 5,869,756 – 5,869,871
Length 115
Max. P 0.598286
window3371

overview

Window 1

Location 5,869,756 – 5,869,871
Length 115
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.86
Mean single sequence MFE -32.60
Consensus MFE -18.69
Energy contribution -19.33
Covariance contribution 0.64
Combinations/Pair 1.24
Mean z-score -1.56
Structure conservation index 0.57
SVM decision value 0.13
SVM RNA-class probability 0.598286
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5869756 115 + 27905053
GAGAAUCCUAUAGCUGUAUU--AUUCUAGAGUCCCGAUGGCAAGUACAUUGCCAGUGGAGCCAUCGAUGGUAUCAUUACCAUUUUCGAUGUGGCCGCGGGCAAGGUAGUGCAAACAU
..............((((((--((..(...((((...((((((.....))))))((((...(((((((((((....)))))...))))))...)))))))))..))))))))..... ( -37.70)
>DroVir_CAF1 609 105 + 1
-----ACUUUUU-ACA------UUUUUAGAGUCCUGAUGGCAAGUACAUCGCAAAUGGUGCAAUUGAUGGCAUCAUUACCAUCUUCGAUGUGGCUGCUGGCAAAGUAGCGCAAACGC
-----......(-(((------((...(((.....((((.......))))...((((((((........))))))))....)))..))))))((((((.....))))))........ ( -26.90)
>DroPse_CAF1 28186 111 + 1
-----ACUUAUU-CCAUUUUGCAUUGCAGAGUCCAGAUGGCAAAUACAUAGCCAGCGGAGCCAUUGAUGGCAUCAUCACCAUCUUUGAUGUGGCCGCUGGCAAAGUGGCUCAGACCC
-----.......-(((((((((...((....(((...((((.........))))..)))(((((.(((((........)))))......))))).))..)))))))))......... ( -35.30)
>DroEre_CAF1 16739 115 + 1
CCAAGACUUUUAGCUAUACU--AUUUUAGAGUCCUGAUGGCAAGUACAUUGCCAGUGGAGCCAUCGAUGGUAUCAUCACCAUUUUCGAUGUGGCCGCGGGCAAGGUUGUGCAAACAU
.((.(((((((((.....))--)....)))))).))...(((...((.(((((.((((...((((((((((......))))...))))))...)))).))))).))..)))...... ( -36.00)
>DroMoj_CAF1 633 105 + 1
-----AAUUAUU-CCA------AAUGUAGAGUCCUGAUGGUAAAUACAUUGCAAACGGUGCAAUCGAUGGCAUCAUUACCAUAUUCGAUGUGGCUGCUGGCAAAGUGGCCCAAACUC
-----.......-...------......((((....(((((((....((((((.....)))))).(((...))).)))))))......((.(((..((.....))..))))).)))) ( -24.40)
>DroPer_CAF1 27210 111 + 1
-----AAUUAUU-CCAUUUUGCAUUGCAGAGUCCAGAUGGCAAAUACAUAGCCAGCGGAGCCAUUGAUGGCAUCAUCACCAUCUUUGAUGUGGCCGCUGGCAAAGUGGCACAGACCC
-----.......-(((((((((...((....(((...((((.........))))..)))(((((.(((((........)))))......))))).))..)))))))))......... ( -35.30)
>consensus
_____ACUUAUU_CCAU_UU__AUUGUAGAGUCCUGAUGGCAAAUACAUUGCCAGCGGAGCCAUCGAUGGCAUCAUCACCAUCUUCGAUGUGGCCGCUGGCAAAGUGGCGCAAACAC
...................................((((.......))))((((((((...(((((((((........)))...))))))...))))))))................ (-18.69 = -19.33 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:24 2006