Locus 1673

Sequence ID	2L_DroMel_CAF1
Location	4,532,087 – 4,532,220
Length	133
Max. P	0.639736

overview

Window 8

Location	4,532,087 – 4,532,198
Length	111
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	75.81
Mean single sequence MFE	-32.12
Consensus MFE	-20.76
Energy contribution	-20.65
Covariance contribution	-0.11
Combinations/Pair	1.24
Mean z-score	-1.20
Structure conservation index	0.65
SVM decision value	0.12
SVM RNA-class probability	0.593436
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4532087 111 - 22407834
AAUGAUCUAAUCCCGUAGAGCAUGGUCGCACGCCUGGAUGCGAGCAUUGUCCACCAGGCGCGAACUGCGAUCCAACAACCGGUGCUUGUAUAAAGGGUAAGUUCUACUGUC
..............(((((((.(((((((((((((((.((.((......))))))))))).....))))).)))....((.(((....)))...))....))))))).... ( -36.10)
>DroVir_CAF1 48088 110 - 1
AAA-UUUAAAUAUUACAGCAACAGGUCGCACUCCUGGCUGUGAGCACUGCCCACCAGGCGCAAAGUGUGAUCCCACAACUGGUGCUUGUAUUAAAGGUAUGUACGAUUUUU
...-........(((((((..((((.......)))))))))))(((.((((...(((((((....((((....))))....))))))).......)))))))......... ( -31.30)
>DroGri_CAF1 52084 110 - 1
AAU-UCAUGAUAUUACAGCAACAGGUCGCACUCCUGGCUGCGACCACUGUCCGCCAGGCGCAAAGUGCGAUCCUACAACUGGCGCCUGUAUUAAAGGUAUGUACAAGAUUU
...-((.((((((..(((....((((((((((((((((.(.(((....)))))))))).....))))))).)))....)))..((((.......)))))))).)).))... ( -33.90)
>DroEre_CAF1 47849 111 - 1
AAUAUUCUAAUUGCGCAGAGCAUGGUCGCACGCCUGGCUGCGAGCAUUGUCCACCAGGCGCAAACUGCGAUCCAACAACCGGUGCUUGUAUAAAGGGUAAGUUUUACUGUC
..((((((..(((..((.(((((((((((((((((((.((.((......))))))))))).....))))))).........)))))))..)))))))))............ ( -32.20)
>DroWil_CAF1 2343 111 - 1
UUGAUUCUAAAAUUACAGUAUCUGGUCGCACACCUGGCUGUGAGCAUUGUCCACCUGGUGUCAAAUGCGAUCCCACAACUGGUGCUUGUAUCAAGGGUAAGUUCUAUAUAC
...(((((.....(((((((((.(((((((((((.((.((.((......)))))).))))).....))))))........))))).))))...)))))............. ( -24.20)
>DroMoj_CAF1 54931 110 - 1
AAU-UUGAGAUAUUACAGCAACAGGACGCACACCUGGCUGCGAGCACUGCCCGCCAGGUGCAAAGUGUGAUCCCACAACUGGUGCCUGUAUUAAAGGUAUGUUUUGACUUU
...-(..((((((.((....(((((.(((.((((((((.(((.....)))..))))))))...((((((....))).))).)))))))).......))))))))..).... ( -35.00)
>consensus
AAU_UUCUAAUAUUACAGCAACAGGUCGCACACCUGGCUGCGAGCACUGUCCACCAGGCGCAAAGUGCGAUCCCACAACUGGUGCUUGUAUUAAAGGUAAGUUCUACUUUC
...............(((.....((((((((((((((.((.(........)))))))))).....)))))))......))).(((((.......)))))............ (-20.76 = -20.65 +  -0.11)

alignment

secondary structure

dotplot

Window 9

Location	4,532,125 – 4,532,220
Length	95
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	83.16
Mean single sequence MFE	-27.53
Consensus MFE	-22.88
Energy contribution	-23.04
Covariance contribution	0.17
Combinations/Pair	1.18
Mean z-score	-1.53
Structure conservation index	0.83
SVM decision value	0.22
SVM RNA-class probability	0.639736
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4532125 95 - 22407834
UGAAUAACUGGCUCAAACUAUUAAUGAUCUAAUCCCGUAGAGCAUGGUCGCACGCCUGGAUGCGAGCAUUGUCCACCAGGCGCGAACUGCGAUCC
..........((((.....((((......))))......))))..((((((((((((((.((.((......))))))))))).....))))))). ( -27.50)
>DroVir_CAF1 48126 93 - 1
-AAAUUAUUGGAUUGUGUUAUUAAA-UUUAAAUAUUACAGCAACAGGUCGCACUCCUGGCUGUGAGCACUGCCCACCAGGCGCAAAGUGUGAUCC
-........(((((...........-........(((((((..((((.......)))))))))))(((((((((....)).))..)))))))))) ( -25.10)
>DroSec_CAF1 47137 95 - 1
UUAAUAACUGGCUCAAAUUAUAAAUCUUCUAAUCUCGCAGAGCAUGGUCGCACGCCUGGAUGCGGGCAUUGCCCACCAGGCGCGAACUGCGAUCC
..........((((.........................))))..((((((((((((((....((((...)))).))))))).....))))))). ( -30.71)
>DroSim_CAF1 12017 95 - 1
UGAAUAACCGGCUCAAAUUAUGAAUGUUCUAAUCCCGCAGAGCAUGGUCGCACGCCUGGAUGCGAGCAUUGUCCACCAGGCGCGAACUGCGAUCC
.......................(((((((........)))))))((((((((((((((.((.((......))))))))))).....))))))). ( -29.30)
>DroEre_CAF1 47887 95 - 1
UAAAUAACUGGUUCAAUUUAUUAAUAUUCUAAUUGCGCAGAGCAUGGUCGCACGCCUGGCUGCGAGCAUUGUCCACCAGGCGCAAACUGCGAUCC
.......(((...(((((............)))))..))).....((((((((((((((.((.((......))))))))))).....))))))). ( -25.90)
>DroYak_CAF1 39066 95 - 1
UGAAUAACUGGUUCAAUUUAUUAAUAUUCUAAUCCCGCAGAGCACGGUCGCACGCCUGGCUGCGAACAUUGUCCACCAGGCGCAAACUGCGAUCC
(((((.....)))))....................(((((.((......)).(((((((.((.((......)))))))))))....))))).... ( -26.70)
>consensus
UGAAUAACUGGCUCAAAUUAUUAAUAUUCUAAUCCCGCAGAGCAUGGUCGCACGCCUGGAUGCGAGCAUUGUCCACCAGGCGCAAACUGCGAUCC
..........((((.........................))))..((((((((((((((.((.((......))))))))))).....))))))). (-22.88 = -23.04 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:09 2006