Locus 4110

Sequence ID	3L_DroMel_CAF1
Location	11,990,790 – 11,990,897
Length	107
Max. P	0.973163

overview

Window 2

Location	11,990,790 – 11,990,897
Length	107
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	96.25
Mean single sequence MFE	-25.43
Consensus MFE	-20.56
Energy contribution	-20.42
Covariance contribution	-0.14
Combinations/Pair	1.04
Mean z-score	-2.42
Structure conservation index	0.81
SVM decision value	0.37
SVM RNA-class probability	0.710206
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11990790 107 + 23771897
UGGCUGCUUGAAUCAAAUGAUAUUUCAACAACAGUUGCUUGUGCUGAAAAAUAAUUGUUUAAAUGUCAUAAAAUAAACAACGUAAACCCAGCGGAGGGUCAGCCAAG
((((((..........(((((((((.(((((((((.......))))........))))).)))))))))................((((......)))))))))).. ( -26.20)
>DroSec_CAF1 9197 107 + 1
UGGCUGCUUGAAUCAAAUGAUAUUUCAACAACAGUUGCUUGUGCUGAAAAAUAAUUGUUUAAAUGUCAUAAAAUAAACAACGCAAACCCAGCGGAGGGUCAGCCAUG
(((((((((.......(((((((((.(((((((((.......))))........))))).)))))))))...........(((.......)))..))).)))))).. ( -26.60)
>DroSim_CAF1 8388 107 + 1
UGGCUGCUUGAAUCAAAUGAUAUUUCAACAACAGUUGCUUGUGCUGAAAAAUAAUUGUUUAAAUGUCAUAAAAUAAACAACGCAAACCCAGCGGAGGGUCAGCCAAG
(((((((((.......(((((((((.(((((((((.......))))........))))).)))))))))...........(((.......)))..))).)))))).. ( -26.80)
>DroEre_CAF1 9252 106 + 1
UGGCUGGUUAAAUCAAAUGAUAUUUCAACAACAGUUGCUUGUGCUGAAAAAUAAUUGUUUAAAUGUCAUAAAAUAAACAACGCAAACCCAGCGGAGGGUCAGC-AAG
..((((..(...((..(((((((((.(((((((((.......))))........))))).)))))))))...........(((.......))))).)..))))-... ( -24.40)
>DroYak_CAF1 8693 106 + 1
UGGCUGGUUAAAUCAAAUGAUAUUUCAACAACAGUUGCUUGUGCUGAAAAAUAAUUGUUUAAAUGUCAUAAAAUAAACAACGCAAACCCAGCGGAGGGUCAGC-AAG
..((((..(...((..(((((((((.(((((((((.......))))........))))).)))))))))...........(((.......))))).)..))))-... ( -24.40)
>DroAna_CAF1 8897 105 + 1
UGGCUGGUUAAAUCAAAUGAUAUUUCAACAACAGUUGCCUGUGUUGAAAAAUAAUUGUUUAAAUGUCAUAAAAUAAACAACAUA-ACCCAGCGGAGGGUCAGC-AAG
..((((..........(((((((((.((((((((....)))((((....)))).))))).)))))))))...............-((((......))))))))-... ( -24.20)
>consensus
UGGCUGCUUAAAUCAAAUGAUAUUUCAACAACAGUUGCUUGUGCUGAAAAAUAAUUGUUUAAAUGUCAUAAAAUAAACAACGCAAACCCAGCGGAGGGUCAGC_AAG
..((((..........(((((((((.(((((((((.......))))........))))).)))))))))................((((......)))))))).... (-20.56 = -20.42 +  -0.14)

alignment

secondary structure

dotplot

Window 3

Location	11,990,790 – 11,990,897
Length	107
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	96.25
Mean single sequence MFE	-25.40
Consensus MFE	-21.77
Energy contribution	-21.63
Covariance contribution	-0.14
Combinations/Pair	1.04
Mean z-score	-2.43
Structure conservation index	0.86
SVM decision value	1.71
SVM RNA-class probability	0.973163
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11990790 107 - 23771897
CUUGGCUGACCCUCCGCUGGGUUUACGUUGUUUAUUUUAUGACAUUUAAACAAUUAUUUUUCAGCACAAGCAACUGUUGUUGAAAUAUCAUUUGAUUCAAGCAGCCA
..((((((((((......))))....((((((((............))))))))....((((((((((......)).))))))))................)))))) ( -25.80)
>DroSec_CAF1 9197 107 - 1
CAUGGCUGACCCUCCGCUGGGUUUGCGUUGUUUAUUUUAUGACAUUUAAACAAUUAUUUUUCAGCACAAGCAACUGUUGUUGAAAUAUCAUUUGAUUCAAGCAGCCA
..((((((((((......))))).((((((((((............))))))))....((((((((((......)).))))))))...............))))))) ( -26.90)
>DroSim_CAF1 8388 107 - 1
CUUGGCUGACCCUCCGCUGGGUUUGCGUUGUUUAUUUUAUGACAUUUAAACAAUUAUUUUUCAGCACAAGCAACUGUUGUUGAAAUAUCAUUUGAUUCAAGCAGCCA
..((((((((((......))))).((((((((((............))))))))....((((((((((......)).))))))))...............))))))) ( -26.80)
>DroEre_CAF1 9252 106 - 1
CUU-GCUGACCCUCCGCUGGGUUUGCGUUGUUUAUUUUAUGACAUUUAAACAAUUAUUUUUCAGCACAAGCAACUGUUGUUGAAAUAUCAUUUGAUUUAACCAGCCA
...-((.(((((......))))).))((((((((............))))))))....((((((((((......)).))))))))...................... ( -22.10)
>DroYak_CAF1 8693 106 - 1
CUU-GCUGACCCUCCGCUGGGUUUGCGUUGUUUAUUUUAUGACAUUUAAACAAUUAUUUUUCAGCACAAGCAACUGUUGUUGAAAUAUCAUUUGAUUUAACCAGCCA
...-((.(((((......))))).))((((((((............))))))))....((((((((((......)).))))))))...................... ( -22.10)
>DroAna_CAF1 8897 105 - 1
CUU-GCUGACCCUCCGCUGGGU-UAUGUUGUUUAUUUUAUGACAUUUAAACAAUUAUUUUUCAACACAGGCAACUGUUGUUGAAAUAUCAUUUGAUUUAACCAGCCA
...-((((((((......))))-.((((..(.......)..))))((((((((.....(((((((((((....))).))))))))......))).))))).)))).. ( -28.70)
>consensus
CUU_GCUGACCCUCCGCUGGGUUUGCGUUGUUUAUUUUAUGACAUUUAAACAAUUAUUUUUCAGCACAAGCAACUGUUGUUGAAAUAUCAUUUGAUUCAACCAGCCA
....((((((((......))))....((((((((............))))))))....((((((((((......)).))))))))................)))).. (-21.77 = -21.63 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:43 2006