Locus 2351

Sequence ID	X_DroMel_CAF1
Location	6,283,134 – 6,283,250
Length	116
Max. P	0.999596

overview

Window 6

Location	6,283,134 – 6,283,250
Length	116
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.95
Mean single sequence MFE	-33.77
Consensus MFE	-30.57
Energy contribution	-31.37
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.22
Structure conservation index	0.91
SVM decision value	0.09
SVM RNA-class probability	0.578710
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6283134 116 + 22224390
AAUUGCGGCCAGG----CAGGUCCUUGGCCCCCAGGACAUGCGGUCAAUCAUAAAUUGCCUUAGCGAAAGCCUUCGCCAAAGCGUAAACAAGUCGACGCAGUCCUGACAUUAUUAUAUUU
......(((((((----......)))))))..((((((.((((.((..........(((.((.(((((....))))).)).)))..........)))))))))))).............. ( -35.95)
>DroPse_CAF1 4415 117 + 1
AAUUGCGGCCCGG---CCAGGUCCUUGGCCCCCAGGACAUGCGGUCAAUCAUAAAUUGCCUUAGCGAAAGCCUUCGCCAAAGCGUAAACAAGUCGACGCAGACCUGACAUUAUUAUAUUU
..(((((...(((---(...(((((.(....).)))))((((((.((((.....))))))...(((((....)))))....))))......)))).)))))................... ( -30.30)
>DroSec_CAF1 20148 116 + 1
AAUUGCGGCCAGG----CAGGUCCUUGGCCCCCAGGACAUGCGGUCAAUCAUAAAUUGCCUUCGCGAAAGCCUUCGCCAAAGCGUAAACAAGUCGACGCAGUCCUGACAUUAUUAUAUUU
......(((((((----......)))))))..((((((.((((.((..........(((.((.(((((....))))).)).)))..........)))))))))))).............. ( -35.95)
>DroPer_CAF1 4664 117 + 1
AAUUGCGGCCCGG---CCAGGUCCUUGGCCCCCAGGACAUGCGGUCAAUCAUAAAUUGCCUUAGCGAAAGCCUUCGCCAAAGCGUAAACAAGUCGACGCAGACCUGACAUUAUUAUAUUU
..(((((...(((---(...(((((.(....).)))))((((((.((((.....))))))...(((((....)))))....))))......)))).)))))................... ( -30.30)
>DroYak_CAF1 17229 120 + 1
AAUUGCGGCCAGGCGGGCAGGUCCUUGGCCCCCAGGACAUGCGGUCAAUCAUAAAUUGCCUUAGCGAAAGCCUUCGCCAAAGCGUAAACAAGUCGACGCAGUCCUGACAUUAUUAUAUUU
......(((((((.((.....)))))))))..((((((.((((.((..........(((.((.(((((....))))).)).)))..........)))))))))))).............. ( -36.35)
>consensus
AAUUGCGGCCAGG____CAGGUCCUUGGCCCCCAGGACAUGCGGUCAAUCAUAAAUUGCCUUAGCGAAAGCCUUCGCCAAAGCGUAAACAAGUCGACGCAGUCCUGACAUUAUUAUAUUU
......(((((((..........)))))))..((((((.((((.((..........(((.((.(((((....))))).)).)))..........)))))))))))).............. (-30.57 = -31.37 +   0.80)

alignment

secondary structure

dotplot

Window 7

Location	6,283,134 – 6,283,250
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.95
Mean single sequence MFE	-43.52
Consensus MFE	-39.88
Energy contribution	-40.88
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.63
Structure conservation index	0.92
SVM decision value	3.76
SVM RNA-class probability	0.999596
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6283134 116 - 22224390
AAAUAUAAUAAUGUCAGGACUGCGUCGACUUGUUUACGCUUUGGCGAAGGCUUUCGCUAAGGCAAUUUAUGAUUGACCGCAUGUCCUGGGGGCCAAGGACCUG----CCUGGCCGCAAUU
..............((((((((((((((.(..(....(((((((((((....))))))))))).....)..))))).)))).))))))(.(((((.((.....----))))))).).... ( -46.30)
>DroPse_CAF1 4415 117 - 1
AAAUAUAAUAAUGUCAGGUCUGCGUCGACUUGUUUACGCUUUGGCGAAGGCUUUCGCUAAGGCAAUUUAUGAUUGACCGCAUGUCCUGGGGGCCAAGGACCUGG---CCGGGCCGCAAUU
..............((((.(((((((((.(..(....(((((((((((....))))))))))).....)..))))).)))).).))))(.((((..((......---)).)))).).... ( -40.50)
>DroSec_CAF1 20148 116 - 1
AAAUAUAAUAAUGUCAGGACUGCGUCGACUUGUUUACGCUUUGGCGAAGGCUUUCGCGAAGGCAAUUUAUGAUUGACCGCAUGUCCUGGGGGCCAAGGACCUG----CCUGGCCGCAAUU
..............((((((((((((((.(..(....(((((.(((((....))))).))))).....)..))))).)))).))))))(.(((((.((.....----))))))).).... ( -44.20)
>DroPer_CAF1 4664 117 - 1
AAAUAUAAUAAUGUCAGGUCUGCGUCGACUUGUUUACGCUUUGGCGAAGGCUUUCGCUAAGGCAAUUUAUGAUUGACCGCAUGUCCUGGGGGCCAAGGACCUGG---CCGGGCCGCAAUU
..............((((.(((((((((.(..(....(((((((((((....))))))))))).....)..))))).)))).).))))(.((((..((......---)).)))).).... ( -40.50)
>DroYak_CAF1 17229 120 - 1
AAAUAUAAUAAUGUCAGGACUGCGUCGACUUGUUUACGCUUUGGCGAAGGCUUUCGCUAAGGCAAUUUAUGAUUGACCGCAUGUCCUGGGGGCCAAGGACCUGCCCGCCUGGCCGCAAUU
..............((((((((((((((.(..(....(((((((((((....))))))))))).....)..))))).)))).))))))(.(((((.((......))...))))).).... ( -46.10)
>consensus
AAAUAUAAUAAUGUCAGGACUGCGUCGACUUGUUUACGCUUUGGCGAAGGCUUUCGCUAAGGCAAUUUAUGAUUGACCGCAUGUCCUGGGGGCCAAGGACCUG____CCUGGCCGCAAUU
..............((((((((((((((.(..(....(((((((((((....))))))))))).....)..))))).)))).))))))(.(((((.((.........))))))).).... (-39.88 = -40.88 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:28 2006