Locus 966

Sequence ID	3L_DroMel_CAF1
Location	2,870,782 – 2,870,895
Length	113
Max. P	0.996267

overview

Window 5

Location	2,870,782 – 2,870,895
Length	113
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	90.14
Mean single sequence MFE	-24.21
Consensus MFE	-21.66
Energy contribution	-23.32
Covariance contribution	1.66
Combinations/Pair	1.11
Mean z-score	-2.12
Structure conservation index	0.89
SVM decision value	2.67
SVM RNA-class probability	0.996267
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2870782 113 + 23771897
AAAAUUGCUAUGGAAAUGGUAAUUGCGGCGUUGCCCAAGCCAAAUCAAAUAUGAGUAUCAUAAUUAAUAUGCGGCCGCCGGGCAGGCCAAAAUAACAAAAA-AAAAAAAAAUUG
..(((((((((....)))))))))..(((.((((((..(((...(((....)))((((..........)))))))....))))))))).............-............ ( -29.00)
>DroSec_CAF1 115619 108 + 1
A-AAUUGCUAUGGAAAUGGUAAUUGCGGUGUUGCCCAAGCCAAAUCAAAUAUGAGUAUCAUAAUUAAUAUGCGGCCGCCGGGCAGGCCAAAACAGCAACAA-----AAAAAUUG
.-(((((((((....)))))))))....((((((....((.........((((.....))))........))((((........))))......)))))).-----........ ( -26.63)
>DroSim_CAF1 106342 108 + 1
A-AAUUGCUAUGGAAAUGGUAAUUGCGGUGUUGCCCAAGCCAAAUCAAAUAUGAGUAUCAUAAUUAAUAUGCGGCCGCCGGGUAGGCCAAAACAACAACAA-----AAAAAUUG
.-(((((((((....)))))))))..(((.((((((..(((...(((....)))((((..........)))))))....))))))))).............-----........ ( -24.50)
>DroEre_CAF1 122310 101 + 1
A-AAUUGCUAUGGAAAUGAUAAUUGCGGCGUUGCCCAAGCCAAAUCAAAUAUGAGUAUCAUAAUUAAUAUGCGGCCGCCGGGCAAGCAAAAAAAA------------AAAAUUG
.-(((((.(((....))).)))))...((.((((((..(((...(((....)))((((..........)))))))....))))))))........------------....... ( -19.40)
>DroYak_CAF1 121340 113 + 1
A-AAUUGGUAUGGAAAUGGUAAUUGCGGCGUUGCCCAAGCCAAAUCAAAUAUGAGUAUCAUAAUUAAUAUGCGGCCGCCGGGCAAGCAAAAAAAAAAAAAACAGAAAAAAAUUG
.-(((((.(((....))).)))))...((.((((((..(((...(((....)))((((..........)))))))....))))))))........................... ( -21.50)
>consensus
A_AAUUGCUAUGGAAAUGGUAAUUGCGGCGUUGCCCAAGCCAAAUCAAAUAUGAGUAUCAUAAUUAAUAUGCGGCCGCCGGGCAGGCCAAAAAAACAAAAA_____AAAAAUUG
..(((((((((....)))))))))..(((.((((((..(((...(((....)))((((..........)))))))....))))))))).......................... (-21.66 = -23.32 +   1.66)

alignment

secondary structure

dotplot

Window 6

Location	2,870,782 – 2,870,895
Length	113
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	90.14
Mean single sequence MFE	-25.17
Consensus MFE	-19.74
Energy contribution	-19.94
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.45
Structure conservation index	0.78
SVM decision value	1.77
SVM RNA-class probability	0.976202
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2870782 113 - 23771897
CAAUUUUUUUUU-UUUUUGUUAUUUUGGCCUGCCCGGCGGCCGCAUAUUAAUUAUGAUACUCAUAUUUGAUUUGGCUUGGGCAACGCCGCAAUUACCAUUUCCAUAGCAAUUUU
............-.....((.(((.((((.((((((..(((((...(((((.((((.....)))).))))).)))))))))))..)))).))).)).................. ( -27.20)
>DroSec_CAF1 115619 108 - 1
CAAUUUUU-----UUGUUGCUGUUUUGGCCUGCCCGGCGGCCGCAUAUUAAUUAUGAUACUCAUAUUUGAUUUGGCUUGGGCAACACCGCAAUUACCAUUUCCAUAGCAAUU-U
........-----..((((((((..(((..((((((..(((((...(((((.((((.....)))).))))).)))))))))))............))).....)))))))).-. ( -27.14)
>DroSim_CAF1 106342 108 - 1
CAAUUUUU-----UUGUUGUUGUUUUGGCCUACCCGGCGGCCGCAUAUUAAUUAUGAUACUCAUAUUUGAUUUGGCUUGGGCAACACCGCAAUUACCAUUUCCAUAGCAAUU-U
........-----((((((((((((.((((........))))((..(((((.((((.....)))).)))))...))..))))))))..))))....................-. ( -23.30)
>DroEre_CAF1 122310 101 - 1
CAAUUUU------------UUUUUUUUGCUUGCCCGGCGGCCGCAUAUUAAUUAUGAUACUCAUAUUUGAUUUGGCUUGGGCAACGCCGCAAUUAUCAUUUCCAUAGCAAUU-U
.......------------......(((((((((((..(((((...(((((.((((.....)))).))))).))))))))))))....))))....................-. ( -24.10)
>DroYak_CAF1 121340 113 - 1
CAAUUUUUUUCUGUUUUUUUUUUUUUUGCUUGCCCGGCGGCCGCAUAUUAAUUAUGAUACUCAUAUUUGAUUUGGCUUGGGCAACGCCGCAAUUACCAUUUCCAUACCAAUU-U
.........................(((((((((((..(((((...(((((.((((.....)))).))))).))))))))))))....))))....................-. ( -24.10)
>consensus
CAAUUUUU_____UUGUUGUUGUUUUGGCCUGCCCGGCGGCCGCAUAUUAAUUAUGAUACUCAUAUUUGAUUUGGCUUGGGCAACGCCGCAAUUACCAUUUCCAUAGCAAUU_U
..............................((((((..(((((...(((((.((((.....)))).))))).)))))))))))............................... (-19.74 = -19.94 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:34 2006