Locus 1746

Sequence ID	2L_DroMel_CAF1
Location	4,773,116 – 4,773,231
Length	115
Max. P	0.998927

overview

Window 3

Location	4,773,116 – 4,773,231
Length	115
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	94.43
Mean single sequence MFE	-34.40
Consensus MFE	-29.84
Energy contribution	-29.88
Covariance contribution	0.04
Combinations/Pair	1.10
Mean z-score	-2.56
Structure conservation index	0.87
SVM decision value	3.29
SVM RNA-class probability	0.998927
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4773116 115 + 22407834
ACGUUAAAUUACCCCAAUGGCCAUUGGCCAGUUGAGCCAGAAAAUGGCAGCCAUUAAAUGGGCUCGAACUGUUAAAUACAUGGCUGAUACCGGUUAGGCUGAAACGAAGCCAAUG
.((((............(((((((..((((.(((((((....(((((...))))).....)))))))..(((.....)))))))..))...)))))((((.......)))))))) ( -33.20)
>DroSec_CAF1 221435 115 + 1
ACGUUAAAUUAGCCCAAUGGCCAUUGGCCAGUUGAGCCAGAAAAUGGCAGCCAUUAAAUGGGCUCGAACUGUUAAAUACAUGGCUGAUACCAGUUAGGCUGAAACAAAGCCAAUG
.((((..(((((((...(((((...))))).(((((((....(((((...))))).....)))))))..............)))))))........((((.......)))))))) ( -35.80)
>DroSim_CAF1 198389 115 + 1
ACGUUAAAUUAGCCCAAUGGCCAUUGGCCAGUUGAGCCAGAAAAUGGCAGCCAUUAAAUGGGCUCGAACUGUUAAAUACAUGGCUGAUACCAGUUAGGCUGAAACAAAGCCAAUG
.((((..(((((((...(((((...))))).(((((((....(((((...))))).....)))))))..............)))))))........((((.......)))))))) ( -35.80)
>DroEre_CAF1 210127 114 + 1
ACAUUAAAUUAGCCCAAUGGUCAUUGGC-UGUUGAGCCAGAAAAUGGCAGCCAUUAAAUGGGCUCGAACUGUUAAAUACAUGGCUGAUACCAGUUAGGCCGAAGCCAAGCCAAUG
...........(((....)))(((((((-(.(((((((....(((((...))))).....))))))).............(((((....((.....))....))))))))))))) ( -34.30)
>DroYak_CAF1 208520 114 + 1
ACAUUAAAUUAGCCGAAUGGUCAUUGGC-UGUUGAGCCAGAAAAUGGCAGCCAUUAAAUGGGCUCGAACUGUUAAAUACAUGGCUGAUACCAGUAAGGCCGAAGCCAAGCCAAUA
...........(((....))).((((((-(.(((((((....(((((...))))).....))))))).............(((((....((.....))....)))))))))))). ( -32.90)
>consensus
ACGUUAAAUUAGCCCAAUGGCCAUUGGCCAGUUGAGCCAGAAAAUGGCAGCCAUUAAAUGGGCUCGAACUGUUAAAUACAUGGCUGAUACCAGUUAGGCUGAAACAAAGCCAAUG
...........(((....)))(((((((..(((..(((.((...((((((((((......(((.......)))......)))))))...))).)).)))...)))...))))))) (-29.84 = -29.88 +   0.04)

alignment

secondary structure

dotplot

Window 4

Location	4,773,116 – 4,773,231
Length	115
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	94.43
Mean single sequence MFE	-35.26
Consensus MFE	-28.80
Energy contribution	-29.20
Covariance contribution	0.40
Combinations/Pair	1.07
Mean z-score	-2.83
Structure conservation index	0.82
SVM decision value	2.55
SVM RNA-class probability	0.995141
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4773116 115 - 22407834
CAUUGGCUUCGUUUCAGCCUAACCGGUAUCAGCCAUGUAUUUAACAGUUCGAGCCCAUUUAAUGGCUGCCAUUUUCUGGCUCAACUGGCCAAUGGCCAUUGGGGUAAUUUAACGU
(((((((.................(((....)))..........(((((.(((((.....(((((...)))))....)))))))))))))))))(((.....))).......... ( -33.10)
>DroSec_CAF1 221435 115 - 1
CAUUGGCUUUGUUUCAGCCUAACUGGUAUCAGCCAUGUAUUUAACAGUUCGAGCCCAUUUAAUGGCUGCCAUUUUCUGGCUCAACUGGCCAAUGGCCAUUGGGCUAAUUUAACGU
(((((((..............((((((....)))).))......(((((.(((((.....(((((...)))))....)))))))))))))))))(((....)))........... ( -35.70)
>DroSim_CAF1 198389 115 - 1
CAUUGGCUUUGUUUCAGCCUAACUGGUAUCAGCCAUGUAUUUAACAGUUCGAGCCCAUUUAAUGGCUGCCAUUUUCUGGCUCAACUGGCCAAUGGCCAUUGGGCUAAUUUAACGU
(((((((..............((((((....)))).))......(((((.(((((.....(((((...)))))....)))))))))))))))))(((....)))........... ( -35.70)
>DroEre_CAF1 210127 114 - 1
CAUUGGCUUGGCUUCGGCCUAACUGGUAUCAGCCAUGUAUUUAACAGUUCGAGCCCAUUUAAUGGCUGCCAUUUUCUGGCUCAACA-GCCAAUGACCAUUGGGCUAAUUUAAUGU
(((((((((((((...(((.....)))...)))))...........(((.(((((.....(((((...)))))....)))))))))-)))))))..(((((((....))))))). ( -37.30)
>DroYak_CAF1 208520 114 - 1
UAUUGGCUUGGCUUCGGCCUUACUGGUAUCAGCCAUGUAUUUAACAGUUCGAGCCCAUUUAAUGGCUGCCAUUUUCUGGCUCAACA-GCCAAUGACCAUUCGGCUAAUUUAAUGU
((((((((.(((....))).(((((((....)))).))).......(((.(((((.....(((((...)))))....)))))))))-))))))).((....))............ ( -34.50)
>consensus
CAUUGGCUUGGUUUCAGCCUAACUGGUAUCAGCCAUGUAUUUAACAGUUCGAGCCCAUUUAAUGGCUGCCAUUUUCUGGCUCAACUGGCCAAUGGCCAUUGGGCUAAUUUAACGU
(((((((...(((...(((.....)))...)))...........(((((.(((((.....(((((...)))))....))))))))))))))))).((....))............ (-28.80 = -29.20 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:06 2006