Locus 4557

Sequence ID	3L_DroMel_CAF1
Location	13,109,748 – 13,109,845
Length	97
Max. P	0.998764

overview

Window 6

Location	13,109,748 – 13,109,845
Length	97
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	94.83
Mean single sequence MFE	-23.08
Consensus MFE	-20.56
Energy contribution	-21.16
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.30
Structure conservation index	0.89
SVM decision value	3.22
SVM RNA-class probability	0.998764
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13109748 97 + 23771897
GCUUAUCAUGGGCCCGAAAAUUGCCAUGGCAACAACAAGUUGAAAACGCAAUUUUCGGCUUUUGCAUUACAGUUUUACCCCCAAA-AAACAGAAC-AGA
......((..((((.(((((((((.....((((.....)))).....)))))))))))))..)).......(((((........)-)))).....-... ( -23.30)
>DroSec_CAF1 97415 98 + 1
GCUAAUCAUGGGCCCGAAAAUUGCCAUGGCAACAACAAGUUGAAAACGCAAUUUUCGGCUUUUGCAUUACAGUUUUACCCCCAAAAAAACAGAAC-AGA
..((((((..((((.(((((((((.....((((.....)))).....)))))))))))))..)).))))..(((((.........))))).....-... ( -24.00)
>DroSim_CAF1 95210 98 + 1
GCUUAUCAUGGGCCCGAAAAUUGCCAUGGCAACAACAAGUUGAAAACGCAAUUUUCGGCUUUUGCAUUACAGUUUUACCCCCAAAAAAACAGAAC-AGA
........((((..((((((((((.....((((.....)))).....))))))))))((....))..............))))............-... ( -23.20)
>DroEre_CAF1 94056 95 + 1
GCUUAUCAUG-GCCCGAAAAUUGCCAUGGCAACAACAAGUUGAAAACGCAAUUCUCGGCUUUUGCAUUACAGUUUUACCCCCAAAAAG---GAACGAGA
((...(((((-((.........)))))))((((.....)))).....))...(((((((....))...............((.....)---)..))))) ( -20.90)
>DroYak_CAF1 97379 99 + 1
GUUUACCAUGGGCCCGAAAAUUGCCAUGGCAACAACAAGUUGAAAACGCAAUUCUCGGCUUUUGCAUUACAGUUUUACCCCCAAAAAAACUGAACGAGA
((((.((((((............))))))((((.....)))).)))).....(((((((....))....(((((((.........)))))))..))))) ( -24.00)
>consensus
GCUUAUCAUGGGCCCGAAAAUUGCCAUGGCAACAACAAGUUGAAAACGCAAUUUUCGGCUUUUGCAUUACAGUUUUACCCCCAAAAAAACAGAAC_AGA
........((((..((((((((((.....((((.....)))).....))))))))))((....))..............))))................ (-20.56 = -21.16 +   0.60)

alignment

secondary structure

dotplot

Window 7

Location	13,109,748 – 13,109,845
Length	97
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	94.83
Mean single sequence MFE	-25.44
Consensus MFE	-23.56
Energy contribution	-23.52
Covariance contribution	-0.04
Combinations/Pair	1.05
Mean z-score	-1.14
Structure conservation index	0.93
SVM decision value	0.21
SVM RNA-class probability	0.633520
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13109748 97 - 23771897
UCU-GUUCUGUUU-UUUGGGGGUAAAACUGUAAUGCAAAAGCCGAAAAUUGCGUUUUCAACUUGUUGUUGCCAUGGCAAUUUUCGGGCCCAUGAUAAGC
...-.....((((-.....((((.....((.....))....(((((((((((.....((((.....)))).....))))))))))))))).....)))) ( -25.70)
>DroSec_CAF1 97415 98 - 1
UCU-GUUCUGUUUUUUUGGGGGUAAAACUGUAAUGCAAAAGCCGAAAAUUGCGUUUUCAACUUGUUGUUGCCAUGGCAAUUUUCGGGCCCAUGAUUAGC
...-.....(((..((...((((.....((.....))....(((((((((((.....((((.....)))).....)))))))))))))))..))..))) ( -25.50)
>DroSim_CAF1 95210 98 - 1
UCU-GUUCUGUUUUUUUGGGGGUAAAACUGUAAUGCAAAAGCCGAAAAUUGCGUUUUCAACUUGUUGUUGCCAUGGCAAUUUUCGGGCCCAUGAUAAGC
...-.....((((.((...((((.....((.....))....(((((((((((.....((((.....)))).....)))))))))))))))..)).)))) ( -25.70)
>DroEre_CAF1 94056 95 - 1
UCUCGUUC---CUUUUUGGGGGUAAAACUGUAAUGCAAAAGCCGAGAAUUGCGUUUUCAACUUGUUGUUGCCAUGGCAAUUUUCGGGC-CAUGAUAAGC
..((((.(---((....)))(((.....((.....))....(((((((((((.....((((.....)))).....)))))))))))))-)))))..... ( -24.30)
>DroYak_CAF1 97379 99 - 1
UCUCGUUCAGUUUUUUUGGGGGUAAAACUGUAAUGCAAAAGCCGAGAAUUGCGUUUUCAACUUGUUGUUGCCAUGGCAAUUUUCGGGCCCAUGGUAAAC
...(((((((((((.........))))))).))))......(((((((((((.....((((.....)))).....)))))))))))(((...))).... ( -26.00)
>consensus
UCU_GUUCUGUUUUUUUGGGGGUAAAACUGUAAUGCAAAAGCCGAAAAUUGCGUUUUCAACUUGUUGUUGCCAUGGCAAUUUUCGGGCCCAUGAUAAGC
...................((((.....((.....))....(((((((((((.....((((.....)))).....)))))))))))))))......... (-23.56 = -23.52 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:30 2006