Locus 1736

Sequence ID X_DroMel_CAF1
Location 4,827,517 – 4,827,624
Length 107
Max. P 0.586776
window2845

overview

Window 5

Location 4,827,517 – 4,827,624
Length 107
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 80.25
Mean single sequence MFE -30.17
Consensus MFE -20.76
Energy contribution -21.88
Covariance contribution 1.13
Combinations/Pair 1.15
Mean z-score -1.29
Structure conservation index 0.69
SVM decision value 0.11
SVM RNA-class probability 0.586776
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4827517 107 - 22224390
AGAGCGCUUCA-----AUU-----CGUCUCGUCUCACGUGUCGUAUACGUAAUGUGGGGAAUUUGGUGACUUUGGCCAGC--UUGUGGCAUCUUGCAUCUCCAUAGAGACGAUCAUUAA
.(((((.....-----...-----)).)))(((((((((((...))))))..((((((((....(....)....((((..--...))))........)))))))))))))......... ( -31.70)
>DroSec_CAF1 33614 112 - 1
AGAGCGCUUCAAUUCAAUU-----CGUCUUGUCUCACGUGUCGUAUACGUAAUGUGGGGAAUUUGGUGACUUUGGCCAGU--UUGUGGCAUCUCGCAUCUCCAUAGAGACGAUCAUUAA
...................-----....(((((((((((((...))))))..((((((((.....((((.....((((..--...))))...)))).)))))))))))))))....... ( -30.40)
>DroSim_CAF1 33452 112 - 1
AGAGCGCUUCAAUUCAAUU-----CGUCUCGUCUCACGUGUCGUAUACGUAAUGUGGGGAAUUUGGUGACUUUGGCCAGC--UUGUGGCAUCUCGCAUCUCCAUAGAGACGAUCAUUAA
..................(-----((((((.....((((((...))))))..((((((((.....((((.....((((..--...))))...)))).)))))))))))))))....... ( -32.60)
>DroEre_CAF1 43486 105 - 1
AGAUCGCUUCAAUU----------CGUCGCGUCUCACGUGUCGUAUACGUAAUGUGGGGAAUUUGGUGACUUUGGCCAGC--UUGUGGCAU--CGCAUCUCCAUAGAGACGAUCAUUAA
.((((((..(....----------.)..))(((((((((((...))))))..((((((((.....((((.....((((..--...)))).)--))).)))))))))))))))))..... ( -34.90)
>DroYak_CAF1 34916 117 - 1
AGAUCGCUUCAAUUCAAUUCAUCUCGUCUCGUCUCACGUGUCGUAUACGUAAUGUGGGGAAUUUGGUGGCUUUGGCCAGCAUUUGUGGCAU--CGCAUCUCCAUAGAGACAAUCAUUAA
..............................(((((((((((...))))))..((((((((...((.((((....)))).))..((((....--)))))))))))))))))......... ( -32.60)
>DroPer_CAF1 27242 90 - 1
-----------GUUCGUCU-----CGUCUCGUAUCACCUGGCGAAUACGUAAUGUGUGGAAUUUUAUACCCCU-------------ACCAUUCUGCAUCUCCAUGGAGACAAUCAUUAA
-----------(((((((.-----.((........))..)))))))...(((((((..((((..((......)-------------)..))))..))((((....))))....))))). ( -18.80)
>consensus
AGAGCGCUUCAAUUCAAUU_____CGUCUCGUCUCACGUGUCGUAUACGUAAUGUGGGGAAUUUGGUGACUUUGGCCAGC__UUGUGGCAUCUCGCAUCUCCAUAGAGACGAUCAUUAA
............................((((((((((((.....)))))..((((((((.....(((......((((.......))))....))).)))))))))))))))....... (-20.76 = -21.88 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:45 2006