Locus 611

Sequence ID	2L_DroMel_CAF1
Location	1,820,893 – 1,821,005
Length	112
Max. P	0.922666

overview

Window 0

Location	1,820,893 – 1,821,005
Length	112
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	86.22
Mean single sequence MFE	-39.74
Consensus MFE	-30.23
Energy contribution	-31.37
Covariance contribution	1.14
Combinations/Pair	1.15
Mean z-score	-2.22
Structure conservation index	0.76
SVM decision value	0.04
SVM RNA-class probability	0.555427
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1820893 112 + 22407834
------CUCAAAGUUCCGCCCGCAGGUGGUCCACUCCAUUGGCAUCUGCCAAGUCAUGCGGCAAACUUUUAAAGACUU--GCCCGGCGGCAGUGGCCACUAAUUGGCAGAACUUCGACGU
------.((.((((((.(((....(((((.(((((((.(((((....)))))(((..(.(((((............))--))))))))).))))))))))....))).)))))).))... ( -44.10)
>DroSec_CAF1 40907 112 + 1
------CUCAAAGUUCCGCCCGCCGGUGGUCCACUCCAUUGGCAUCUGCCAAGUCAUGCGGCAAACUUUUAAAGACUU--GCCCGGCGGCAGGGGCCACUAAUUGGCAGAACUUCGACGU
------.((.((((((.(((....((((((((.((((.(((((....)))))(((..(.(((((............))--))))))))).))))))))))....))).)))))).))... ( -43.70)
>DroSim_CAF1 18598 112 + 1
------CUCAAAGUUCCGCCCGCCGGUGGUCCACUCCAUUGGCAUCUGCCAAGUCAUGCGGCAAACUUUUAAAGACUU--GCCCGGCGGCAGUGGCCACUAAUUGGCAGAACUUCGACGU
------.((.((((((.(((....(((((.(((((((.(((((....)))))(((..(.(((((............))--))))))))).))))))))))....))).)))))).))... ( -44.10)
>DroPer_CAF1 32939 104 + 1
UGUGGGCUCAAAGUUUCAC------GUAGCCC-------UGGCAUUUGCCAAUCCAUGCGGCAAACUUUAAAAGACCCUGUUCCAGUGG---CGGCCACUAAUUGGUGGAAGUUUGACGU
...(((((....(.....)------..)))))-------((((....))))......(((.(((((((.....(.(((((...))).))---)..(((((....)))))))))))).))) ( -29.80)
>DroEre_CAF1 29350 112 + 1
------CUCAAAGUUCCGCCCGCAGGUGGUCCACUCCAUUGGCAUCUGCCAAGUCAUGCGGCAAACUUUUAAAGACUC--GCCCGGCGGCAGUGGCCACUAAUUGGCACAACUUCGACGU
------.((.(((((..(((....(((((.(((((((.(((((....)))))(((..((((...............))--))..))))).))))))))))....)))..))))).))... ( -38.36)
>DroYak_CAF1 5690 112 + 1
------CUCAAAGUUCCGCCCGCAGGUGGUCCACUCCAUUGGCAUCUGCCAAGUCAUGCGGCAAACUUUUAAAGACUC--GCCCGGCGGCAGUGGCCACUAAUUGGCACAACUUCGACGU
------.((.(((((..(((....(((((.(((((((.(((((....)))))(((..((((...............))--))..))))).))))))))))....)))..))))).))... ( -38.36)
>consensus
______CUCAAAGUUCCGCCCGCAGGUGGUCCACUCCAUUGGCAUCUGCCAAGUCAUGCGGCAAACUUUUAAAGACUC__GCCCGGCGGCAGUGGCCACUAAUUGGCAGAACUUCGACGU
.......((.((((((.(((....(((((.(((((...(((((....)))))(((.((.(((..................)))))..)))))))))))))....))).)))))).))... (-30.23 = -31.37 +   1.14)

alignment

secondary structure

dotplot

Window 1

Location	1,820,893 – 1,821,005
Length	112
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	86.22
Mean single sequence MFE	-47.78
Consensus MFE	-37.54
Energy contribution	-38.30
Covariance contribution	0.75
Combinations/Pair	1.14
Mean z-score	-3.38
Structure conservation index	0.79
SVM decision value	1.15
SVM RNA-class probability	0.922666
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1820893 112 - 22407834
ACGUCGAAGUUCUGCCAAUUAGUGGCCACUGCCGCCGGGC--AAGUCUUUAAAAGUUUGCCGCAUGACUUGGCAGAUGCCAAUGGAGUGGACCACCUGCGGGCGGAACUUUGAG------
...(((((((((((((.....(((((((((.((((..(((--(((.((.....)))))))))).....(((((....))))).))))))).)))).....))))))))))))).------ ( -53.30)
>DroSec_CAF1 40907 112 - 1
ACGUCGAAGUUCUGCCAAUUAGUGGCCCCUGCCGCCGGGC--AAGUCUUUAAAAGUUUGCCGCAUGACUUGGCAGAUGCCAAUGGAGUGGACCACCGGCGGGCGGAACUUUGAG------
...(((((((((((((.......(((....)))(((((((--(((.((.....)))))))).(((..((((((....))))).)..)))......)))).))))))))))))).------ ( -50.70)
>DroSim_CAF1 18598 112 - 1
ACGUCGAAGUUCUGCCAAUUAGUGGCCACUGCCGCCGGGC--AAGUCUUUAAAAGUUUGCCGCAUGACUUGGCAGAUGCCAAUGGAGUGGACCACCGGCGGGCGGAACUUUGAG------
...(((((((((((((..(..(((((((((.((((..(((--(((.((.....)))))))))).....(((((....))))).))))))).))))..)..))))))))))))).------ ( -54.80)
>DroPer_CAF1 32939 104 - 1
ACGUCAAACUUCCACCAAUUAGUGGCCG---CCACUGGAACAGGGUCUUUUAAAGUUUGCCGCAUGGAUUGGCAAAUGCCA-------GGGCUAC------GUGAAACUUUGAGCCCACA
..................(((((((...---)))))))....((((...(((((((((..(((.(((.(((((....))))-------)..))).------))))))))))))))))... ( -30.10)
>DroEre_CAF1 29350 112 - 1
ACGUCGAAGUUGUGCCAAUUAGUGGCCACUGCCGCCGGGC--GAGUCUUUAAAAGUUUGCCGCAUGACUUGGCAGAUGCCAAUGGAGUGGACCACCUGCGGGCGGAACUUUGAG------
...((((((((.((((.....(((((((((.((((..(((--(((.((.....)))))))))).....(((((....))))).))))))).)))).....)))).)))))))).------ ( -48.90)
>DroYak_CAF1 5690 112 - 1
ACGUCGAAGUUGUGCCAAUUAGUGGCCACUGCCGCCGGGC--GAGUCUUUAAAAGUUUGCCGCAUGACUUGGCAGAUGCCAAUGGAGUGGACCACCUGCGGGCGGAACUUUGAG------
...((((((((.((((.....(((((((((.((((..(((--(((.((.....)))))))))).....(((((....))))).))))))).)))).....)))).)))))))).------ ( -48.90)
>consensus
ACGUCGAAGUUCUGCCAAUUAGUGGCCACUGCCGCCGGGC__AAGUCUUUAAAAGUUUGCCGCAUGACUUGGCAGAUGCCAAUGGAGUGGACCACCUGCGGGCGGAACUUUGAG______
...((((((((.((((.....(((((((((.(((...(((..............((((((((.......)))))))))))..)))))))).)))).....)))).))))))))....... (-37.54 = -38.30 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:56 2006