Locus 5128

Sequence ID	3L_DroMel_CAF1
Location	14,097,512 – 14,097,611
Length	99
Max. P	0.998978

overview

Window 9

Location	14,097,512 – 14,097,611
Length	99
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	69.22
Mean single sequence MFE	-24.86
Consensus MFE	-7.17
Energy contribution	-7.69
Covariance contribution	0.52
Combinations/Pair	1.18
Mean z-score	-1.98
Structure conservation index	0.29
SVM decision value	0.69
SVM RNA-class probability	0.824865
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14097512 99 + 23771897
AUAUGUUAACCAAGGUGGCCAUAGUCCAAAAUUGGUCCAGACAGACCACUUUGGGACACUUUAUCUUUGGCUCAGACAAAGAUUAAAGUAGU--GUCUGUU
.........((((((((((....(.(((....))).)......).)))))))))((((((..(((((((.......)))))))......)))--))).... ( -29.20)
>DroSec_CAF1 95670 99 + 1
AUAUGUUGGCCAAGGUGGCCAUAGUCCGAAAUGCGUCUCGAUAGACCAUUUUGGGACACUUUAUCUUUAGCGCACACAAAGAUUAAAGUAAU--AUCUGUU
......(((((.....)))))..((((((((((.((((....)))))))))).))))(((((((((((.(......)))))).))))))...--....... ( -28.40)
>DroSim_CAF1 97278 99 + 1
AUAUGUUGGCCAAGGUGGCCAUAGUCCGAAAUGCGUCCCGACAGACCACUUUGGGACACUUUAUCUUUAGCGCACACAAAGAUUAAAGUAAU--AUCUGUU
......(((((.....)))))..((((.(((((.(((......))))).))).))))(((((((((((.(......)))))).))))))...--....... ( -25.80)
>DroEre_CAF1 94169 80 + 1
AUAUGUUGGCCAAGGUGGCCAUAAUACGAGC-AGAACGCUUUG----------GAACACUUUAUAUUUCG-----G-----UUGUAGGUUCUAACACAGUU
......(((((.....)))))......((((-.....))))((----------((((....((((.....-----.-----.)))).))))))........ ( -16.30)
>DroYak_CAF1 98987 79 + 1
AUAUGUUGGCCAAGGUGGCCAUAAUCCGAAAUGGGUCUCGACA----------GACCACUUUGUUUUUAG-----A-----CUUAAAGUAAU--UUCGGUU
......(((((.....)))))....(((((((.(((((....)----------))))((((((.......-----.-----..)))))).))--))))).. ( -24.60)
>consensus
AUAUGUUGGCCAAGGUGGCCAUAGUCCGAAAUGGGUCCCGACAGACCA_UUUGGGACACUUUAUCUUUAGC_CA_ACAAAGAUUAAAGUAAU__AUCUGUU
......(((((.....)))))....................................((((((....................))))))............ ( -7.17 =  -7.69 +   0.52)

alignment

secondary structure

dotplot

Window 0

Location	14,097,512 – 14,097,611
Length	99
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	69.22
Mean single sequence MFE	-25.46
Consensus MFE	-10.28
Energy contribution	-9.80
Covariance contribution	-0.48
Combinations/Pair	1.40
Mean z-score	-2.81
Structure conservation index	0.40
SVM decision value	3.31
SVM RNA-class probability	0.998978
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14097512 99 - 23771897
AACAGAC--ACUACUUUAAUCUUUGUCUGAGCCAAAGAUAAAGUGUCCCAAAGUGGUCUGUCUGGACCAAUUUUGGACUAUGGCCACCUUGGUUAACAUAU
....(((--(((......(((((((.......)))))))..))))))((((.((((((.(((..((.....))..)))...)))))).))))......... ( -31.30)
>DroSec_CAF1 95670 99 - 1
AACAGAU--AUUACUUUAAUCUUUGUGUGCGCUAAAGAUAAAGUGUCCCAAAAUGGUCUAUCGAGACGCAUUUCGGACUAUGGCCACCUUGGCCAACAUAU
.......--...((((((.(((((((....)).)))))))))))((((..(((((((((....)))).))))).))))..(((((.....)))))...... ( -29.00)
>DroSim_CAF1 97278 99 - 1
AACAGAU--AUUACUUUAAUCUUUGUGUGCGCUAAAGAUAAAGUGUCCCAAAGUGGUCUGUCGGGACGCAUUUCGGACUAUGGCCACCUUGGCCAACAUAU
.......--...((((((.(((((((....)).)))))))))))((((..(((((((((....)))).))))).))))..(((((.....)))))...... ( -28.70)
>DroEre_CAF1 94169 80 - 1
AACUGUGUUAGAACCUACAA-----C-----CGAAAUAUAAAGUGUUC----------CAAAGCGUUCU-GCUCGUAUUAUGGCCACCUUGGCCAACAUAU
...(((((((((((((..((-----(-----(..........).))).----------...)).)))))-).........(((((.....)))))))))). ( -15.40)
>DroYak_CAF1 98987 79 - 1
AACCGAA--AUUACUUUAAG-----U-----CUAAAAACAAAGUGGUC----------UGUCGAGACCCAUUUCGGAUUAUGGCCACCUUGGCCAACAUAU
..(((((--((.(((((..(-----(-----......)))))))((((----------(....))))).)))))))....(((((.....)))))...... ( -22.90)
>consensus
AACAGAU__AUUACUUUAAUCUUUGU_UG_GCUAAAGAUAAAGUGUCCCAAA_UGGUCUGUCGAGACCCAUUUCGGACUAUGGCCACCUUGGCCAACAUAU
..........................................((((..............((((((....))))))....(((((.....))))))))).. (-10.28 =  -9.80 +  -0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:37 2006