Locus 2627

Sequence ID	3L_DroMel_CAF1
Location	7,236,057 – 7,236,177
Length	120
Max. P	0.978592

overview

Window 5

Location	7,236,057 – 7,236,177
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.12
Mean single sequence MFE	-29.49
Consensus MFE	-23.12
Energy contribution	-23.16
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.60
Structure conservation index	0.78
SVM decision value	0.20
SVM RNA-class probability	0.631025
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7236057 120 + 23771897
UCAUUGAUCCAUUUGGUAUUGGCAUUUGUACUGGUCUCACUAUCGCCUAAAGGCAAUUCCCCAGAUUGCAGUCUUGCUGCCAAAUGACCAAAGAGUGGCCUUUUCACUCGAAUUUCCAAC
............((((..((((((((((..((((.......((.(((....))).))...))))...((((.....)))))))))).)))).((((((.....))))))......)))). ( -31.70)
>DroSec_CAF1 17611 119 + 1
UCAUUGAUCCAUUUGGUAUUGGCAUGUGUACUGGUCUCCCUGUCGCCUAAAGGCAAUUCCACAGAUUGCAGUCUUGCUGCCAAAUGACCAAAGAGUG-CCUUUUCCCUCGAAUUGCCAAC
............((((((..(((((......(((((...((((.(((....)))......))))...((((.....)))).....)))))....)))-))..(((....))).)))))). ( -29.00)
>DroSim_CAF1 17624 119 + 1
UCAUUGAUCCAUUUGGUAUUGGCAUUUGUACUGGUCUCCCUGUCGCCUAAAGGCAAUUCCACAGAUUGCAGUCUUGCUGCCAAAUGACCAAAGAGUG-CCUUUUCACUCGAAUUGCCAAC
............((((((((((((((((..((((.(.....).)(((....))).......)))...((((.....)))))))))).)))).(((((-......)))))....)))))). ( -33.00)
>DroEre_CAF1 18109 116 + 1
UCAUUGAUCCAUUUGGUAUUGGCAUUUGUACUGGUCCCCCUGUUGCCUAGAGGCAAUUCCACAGAUUGCAGU-UUGCUGCCAAAUGACCAAAG--UU-GCUUUUCACUCGAAUUUCCACC
...((((.......((((((((((((((..(((........((((((....))))))....)))...((((.-...)))))))))).))))..--.)-)))......))))......... ( -26.82)
>DroYak_CAF1 19164 116 + 1
UCAUUGAUCCAUUUGGUAUUGGCAUUUGUACUGGUCUCCCUGUCGCCUAAAGGCAAUUUCACAGAUUGCAGU-UUGCUGCCAAAUGACCAAAA--UG-CCUUUUCACUCGAAUUUCCACC
...((((.......((((((((((((((..((((.(.....).)(((....))).......)))...((((.-...)))))))))).)))..)--))-)).......))))......... ( -26.94)
>consensus
UCAUUGAUCCAUUUGGUAUUGGCAUUUGUACUGGUCUCCCUGUCGCCUAAAGGCAAUUCCACAGAUUGCAGUCUUGCUGCCAAAUGACCAAAGAGUG_CCUUUUCACUCGAAUUUCCAAC
...........((((((.((((((.....((((((((....((.(((....))).)).....))))..)))).....))))))...))))))............................ (-23.12 = -23.16 +   0.04)

alignment

secondary structure

dotplot

Window 6

Location	7,236,057 – 7,236,177
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.12
Mean single sequence MFE	-35.26
Consensus MFE	-29.06
Energy contribution	-30.02
Covariance contribution	0.96
Combinations/Pair	1.11
Mean z-score	-2.12
Structure conservation index	0.82
SVM decision value	1.82
SVM RNA-class probability	0.978592
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7236057 120 - 23771897
GUUGGAAAUUCGAGUGAAAAGGCCACUCUUUGGUCAUUUGGCAGCAAGACUGCAAUCUGGGGAAUUGCCUUUAGGCGAUAGUGAGACCAGUACAAAUGCCAAUACCAAAUGGAUCAAUGA
.((((......(((((.......))))).((((.((((((((((.....))))...((((...((((((....)))))).......))))..))))))))))..))))............ ( -35.70)
>DroSec_CAF1 17611 119 - 1
GUUGGCAAUUCGAGGGAAAAGG-CACUCUUUGGUCAUUUGGCAGCAAGACUGCAAUCUGUGGAAUUGCCUUUAGGCGACAGGGAGACCAGUACACAUGCCAAUACCAAAUGGAUCAAUGA
((((((..(((....)))...)-).((.((((((...(((((((((....)))....((((...(((((....)))))..((....))....)))))))))).)))))).))..)))).. ( -36.60)
>DroSim_CAF1 17624 119 - 1
GUUGGCAAUUCGAGUGAAAAGG-CACUCUUUGGUCAUUUGGCAGCAAGACUGCAAUCUGUGGAAUUGCCUUUAGGCGACAGGGAGACCAGUACAAAUGCCAAUACCAAAUGGAUCAAUGA
(((((((....(((((......-))))).((((((.....((((.....))))..(((.((...(((((....))))))).)))))))))......))))))).((....))........ ( -39.10)
>DroEre_CAF1 18109 116 - 1
GGUGGAAAUUCGAGUGAAAAGC-AA--CUUUGGUCAUUUGGCAGCAA-ACUGCAAUCUGUGGAAUUGCCUCUAGGCAACAGGGGGACCAGUACAAAUGCCAAUACCAAAUGGAUCAAUGA
((((.......((((.......-.)--)))(((.((((((((((...-.))))...........(((((....)))))..((....))....))))))))).)))).............. ( -30.80)
>DroYak_CAF1 19164 116 - 1
GGUGGAAAUUCGAGUGAAAAGG-CA--UUUUGGUCAUUUGGCAGCAA-ACUGCAAUCUGUGAAAUUGCCUUUAGGCGACAGGGAGACCAGUACAAAUGCCAAUACCAAAUGGAUCAAUGA
((((....(((....)))..((-((--((((((((.....((((...-.))))..(((.((...(((((....))))))).))))))))....)))))))..)))).............. ( -34.10)
>consensus
GUUGGAAAUUCGAGUGAAAAGG_CACUCUUUGGUCAUUUGGCAGCAAGACUGCAAUCUGUGGAAUUGCCUUUAGGCGACAGGGAGACCAGUACAAAUGCCAAUACCAAAUGGAUCAAUGA
.......(((((((((.......)))))((((((...((((((.....((((...(((.((...(((((....))))))).)))...)))).....)))))).)))))).))))...... (-29.06 = -30.02 +   0.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:01 2006