Locus 6216

Sequence ID	2R_DroMel_CAF1
Location	19,553,267 – 19,553,381
Length	114
Max. P	0.999656

overview

Window 5

Location	19,553,267 – 19,553,381
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	94.80
Mean single sequence MFE	-31.08
Consensus MFE	-28.56
Energy contribution	-27.92
Covariance contribution	-0.64
Combinations/Pair	1.12
Mean z-score	-1.57
Structure conservation index	0.92
SVM decision value	1.67
SVM RNA-class probability	0.971078
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19553267 114 + 20766785
UAGAUUUUCCUUUCUUUUUUUCCCGGCGCUCGGAAAGUUCAAGGGUAAGUUCACAAGUGCCGGCAAGUUUAAGGGUGAGAACAAGCCGACAAGAGGGAGAAAGAAAACUAAAAG
..............((((((((((((((((.((((..(........)..))).).))))))(((..((((........))))..))).......)))))))))).......... ( -30.30)
>DroSec_CAF1 407 113 + 1
UACAUUUUCCUUCCU-UUUUUCCCGGCGCUCGGAAAGUUCAAGGGUAAGUUCACAAGUGCCGGCAAGUUUAAGGGUGAGAACAAGCCGACAAAAGGGAGAAAGAAAACUAAAAG
....((((.((((((-(((.((((((((((.((((..(........)..))).).))))))))..........(((........))))).))))))))).)))).......... ( -30.90)
>DroSim_CAF1 276 113 + 1
UAGAUUUUCCUUCCU-UUUUUCCCGGCGCUCGGAAAGUUCAAGGGUAAGUUCACAAGUGCCGGCAAGUUUAAGGGUGAGAACAAGCCGACAAAAGGGAGAAAGAAAACUAAAAG
(((.(((((((((((-(((.((((((((((.((((..(........)..))).).))))))))..........(((........))))).)))))))))...)))))))).... ( -32.60)
>DroEre_CAF1 453 113 + 1
UCGAUUUUCCCUUCU-UUUUUCCCGGCACUCGGAAAGUUCAAGGGUAAGUUCACAAGUGCCGGCAAGUUUAAGGGUGAGAACAAGCCGACAAAAGGGAGAAGGAAAACCAAAAG
..(.((((((.....-.(((((((((((((.((((..(........)..))).).))))))(((..((((........))))..))).......))))))))))))).)..... ( -31.90)
>DroYak_CAF1 286 113 + 1
CUCAUUUUCCCUUCU-UUUUUCCCGGCAUUCGGAAAGUUCAAGGGUAAGUUCACAAGUGCCGGCAAGUUUAAGGGUGAGAACAAGCCGACAAAAGGGAGAAGGAAAACCAAAAG
.((.(((((((((((-(.(((.((((((((.((((..(........)..))).).)))))))).)))...)))(((........))).....))))))))).)).......... ( -29.70)
>consensus
UAGAUUUUCCUUUCU_UUUUUCCCGGCGCUCGGAAAGUUCAAGGGUAAGUUCACAAGUGCCGGCAAGUUUAAGGGUGAGAACAAGCCGACAAAAGGGAGAAAGAAAACUAAAAG
................((((((((((((((.((((..(........)..))).).))))))(((..((((........))))..))).......))))))))............ (-28.56 = -27.92 +  -0.64)

alignment

secondary structure

dotplot

Window 6

Location	19,553,267 – 19,553,381
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	94.80
Mean single sequence MFE	-30.83
Consensus MFE	-28.74
Energy contribution	-28.22
Covariance contribution	-0.52
Combinations/Pair	1.07
Mean z-score	-2.28
Structure conservation index	0.93
SVM decision value	3.84
SVM RNA-class probability	0.999656
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19553267 114 - 20766785
CUUUUAGUUUUCUUUCUCCCUCUUGUCGGCUUGUUCUCACCCUUAAACUUGCCGGCACUUGUGAACUUACCCUUGAACUUUCCGAGCGCCGGGAAAAAAAGAAAGGAAAAUCUA
.......(((((((((((((.......(((..(((..........)))..)))(((.((((.(((..............))))))).)))))))......)))))))))..... ( -28.34)
>DroSec_CAF1 407 113 - 1
CUUUUAGUUUUCUUUCUCCCUUUUGUCGGCUUGUUCUCACCCUUAAACUUGCCGGCACUUGUGAACUUACCCUUGAACUUUCCGAGCGCCGGGAAAAA-AGGAAGGAAAAUGUA
......((((((((((((((.......(((..(((..........)))..)))(((.((((.(((..............))))))).)))))))....-..))))))))))... ( -29.94)
>DroSim_CAF1 276 113 - 1
CUUUUAGUUUUCUUUCUCCCUUUUGUCGGCUUGUUCUCACCCUUAAACUUGCCGGCACUUGUGAACUUACCCUUGAACUUUCCGAGCGCCGGGAAAAA-AGGAAGGAAAAUCUA
....((((((((((((((((.......(((..(((..........)))..)))(((.((((.(((..............))))))).)))))))....-..))))))))).))) ( -29.54)
>DroEre_CAF1 453 113 - 1
CUUUUGGUUUUCCUUCUCCCUUUUGUCGGCUUGUUCUCACCCUUAAACUUGCCGGCACUUGUGAACUUACCCUUGAACUUUCCGAGUGCCGGGAAAAA-AGAAGGGAAAAUCGA
...(((((((((((((((((.......(((..(((..........)))..)))((((((((.(((..............)))))))))))))))....-.))).)))))))))) ( -36.54)
>DroYak_CAF1 286 113 - 1
CUUUUGGUUUUCCUUCUCCCUUUUGUCGGCUUGUUCUCACCCUUAAACUUGCCGGCACUUGUGAACUUACCCUUGAACUUUCCGAAUGCCGGGAAAAA-AGAAGGGAAAAUGAG
(((....((((((((((......(((((((..(((..........)))..))))))).....................((((((.....))))))...-))))))))))..))) ( -29.80)
>consensus
CUUUUAGUUUUCUUUCUCCCUUUUGUCGGCUUGUUCUCACCCUUAAACUUGCCGGCACUUGUGAACUUACCCUUGAACUUUCCGAGCGCCGGGAAAAA_AGAAAGGAAAAUCUA
.......(((((((((((((.......(((..(((..........)))..)))(((.((((.(((..............))))))).)))))))......)))))))))..... (-28.74 = -28.22 +  -0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:48 2006