Locus 5481

Sequence ID	2L_DroMel_CAF1
Location	15,646,178 – 15,646,363
Length	185
Max. P	0.628757

overview

Window 6

Location	15,646,178 – 15,646,298
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.60
Mean single sequence MFE	-44.73
Consensus MFE	-29.37
Energy contribution	-30.63
Covariance contribution	1.26
Combinations/Pair	1.27
Mean z-score	-1.41
Structure conservation index	0.66
SVM decision value	0.20
SVM RNA-class probability	0.628757
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15646178 120 + 22407834
GCUCUGAAGGAGGGCUCGAUCGCAAAAGUACGGCUCAGCCUUGCGAGAUCCCUGAGAGCUUUGAUGCUGCGAUCCAAAGUGGCUCGAUCCGGGCGCAUUGCCGCCGUUGGAGCCACUGUG
(((((.....)))))..((((((....(((.(((...))).)))............(((......)))))))))((.((((((((.(....((((......))))..).)))))))).)) ( -44.00)
>DroPse_CAF1 4769 117 + 1
GCUCUGGAUGAGGGUUCGAUCGCAAAAGUACGGCUCUGCCUUGCGAGAACCCUGGGCAUUCAGAUGCUGCGACCCAAAGUGGCUCGAUCCGGGCGAAUUGC---CGUUGGAGCCACUGUG
(((((((((((((((((..((((((......(((...))))))))))))))))...)))))))).)).......((.((((((((.(....(((.....))---)..).)))))))).)) ( -48.50)
>DroWil_CAF1 20313 117 + 1
GCUCUGGAACAGAGUUCGAUCGCAAUAAUAGGGCUCAGCCUUGCGAGAACUCUGAGCAUUCAAAUGCUGUGAACCAUAGUGACUGGAAGAUGGUGAAUUAC---CAUUGGAACCACUGUG
(((.(((..((((((((..(((((......((((...)))))))))))))))))(((((....))))).....))).)))...(((..(((((((...)))---))))....)))..... ( -37.70)
>DroMoj_CAF1 2981 105 + 1
GCUCUGAAUGAGGGUUCGAUCGCAGUAGUAGGGCUCCGCCUUGCGAGAACCUUGCACAUUCAGAUGCUGCGCACCAAAGUGGGCAGCACUGGGCGAGGUGC---C------------GUG
.(((.....)))(((....((((.((.((((((.(((((...))).)).))))))))..((((.((((((.(((....))).))))))))))))))...))---)------------... ( -44.80)
>DroAna_CAF1 6997 117 + 1
GCUCUGGAUAAGGGUUCGAUCGCAGAAGUAGGGCUCAGCCUUGCGAGAUCCCUGAGAGUUUAGGUGCUGCGACCCAAAGUGGCUUGAGCCGGGUGCAUUGC---CGUUUGAGCCACUGUG
(((((.....)))))....((((((..(((((((...)))))))......(((((....)))))..))))))..((.(((((((..(((..(((.....))---))))..))))))).)) ( -44.90)
>DroPer_CAF1 2551 117 + 1
GCUCUGGAUGAGGGUUCGAUCGCAAAAGUACGGCUCUGCCUUGCGAGAACCCUGGGCAUUCAGAUGCUGCGACCCAAAGUGGCUCGAUCCGGGCGAAUUGC---CGUUGGAGCCACUGUG
(((((((((((((((((..((((((......(((...))))))))))))))))...)))))))).)).......((.((((((((.(....(((.....))---)..).)))))))).)) ( -48.50)
>consensus
GCUCUGGAUGAGGGUUCGAUCGCAAAAGUACGGCUCAGCCUUGCGAGAACCCUGAGCAUUCAGAUGCUGCGACCCAAAGUGGCUCGAUCCGGGCGAAUUGC___CGUUGGAGCCACUGUG
(((((((((.(((((((..((((((......(((...))))))))))))))))....))))))).)).......((.((((((((.......((.....))........)))))))).)) (-29.37 = -30.63 +   1.26)

alignment

secondary structure

dotplot

Window 7

Location	15,646,258 – 15,646,363
Length	105
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	81.51
Mean single sequence MFE	-26.19
Consensus MFE	-17.51
Energy contribution	-17.71
Covariance contribution	0.19
Combinations/Pair	1.05
Mean z-score	-1.48
Structure conservation index	0.67
SVM decision value	0.07
SVM RNA-class probability	0.567499
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15646258 105 - 22407834
CUUAUACGGAAAACCUCUUCCUCAAUCAGGUUCGACCCAAGUCGCCGCAGCCACAUCACAACAUGCACAGUGGCUCCAACGGCGGCAAUGCGCCCGGAUCGAGCC
.......((((......)))).......(((((((.((.....((((.((((((...............))))))....))))(((.....))).)).))))))) ( -35.06)
>DroPse_CAF1 4849 98 - 1
CUAAUCUUUGAU----UUCCUUCCCUCAGGUUCGACCAAAGUCGCCGCAGCCACAUCACAACAUGCACAGUGGCUCCAACG---GCAAUUCGCCCGGAUCGAGCC
............----............(((((((((.........(.((((((...............)))))).)...(---((.....))).)).))))))) ( -25.16)
>DroEre_CAF1 10207 102 - 1
CUUAUGUGAAAUAUUUUGUCCCGCAUCAGGUUCGACCCAAGUCGCCGCAGCCACAUCACAACAUGCACAGUGGCUCCAACG---GCAAUGCGCCCGGAUCGAGCC
...(((((..((.....))..)))))..(((((((.((..((.((((.((((((...............))))))....))---))...))....)).))))))) ( -27.76)
>DroYak_CAF1 11365 102 - 1
CUUAUACGAAAAAUCUCGUCUUGAAUCAGGUUCGACCUAAGUCGCCGCAGCCACAUCACAACAUGCACAGUGGCUCCAACG---GCAAUGCGCCAGGAUCGAGCC
.(((.((((......))))..)))....((((((((((..((.((((.((((((...............))))))....))---))...))...))).))))))) ( -29.56)
>DroAna_CAF1 7077 97 - 1
UUUAUC-----AACUCCGAUCUCAUACAGGUUCGACCCAAGUCACCGCAACCACACCACAACAUGCACAGUGGCUCAAACG---GCAAUGCACCCGGCUCAAGCC
......-----.................((((.((.((.((((((.(((..............)))...)))))).....(---(........)))).)).)))) ( -14.44)
>DroPer_CAF1 2631 98 - 1
CUAAUCUUUGAU----UUCCUUUCCUCAGGUUCGACCAAAGUCGCCGCAGCCACAUCACAACAUGCACAGUGGCUCCAACG---GCAAUUCGCCCGGAUCGAGCC
............----............(((((((((.........(.((((((...............)))))).)...(---((.....))).)).))))))) ( -25.16)
>consensus
CUUAUCUGAAAAA__UCGUCCUCAAUCAGGUUCGACCCAAGUCGCCGCAGCCACAUCACAACAUGCACAGUGGCUCCAACG___GCAAUGCGCCCGGAUCGAGCC
............................(((((((((..((((((.(((..............)))...)))))).........((.....))..)).))))))) (-17.51 = -17.71 +   0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:11 2006