Locus 124

Sequence ID	2R_DroMel_CAF1
Location	1,386,885 – 1,387,041
Length	156
Max. P	0.987166

overview

Window 2

Location	1,386,885 – 1,387,001
Length	116
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	97.93
Mean single sequence MFE	-19.54
Consensus MFE	-18.78
Energy contribution	-19.18
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.74
Structure conservation index	0.96
SVM decision value	2.07
SVM RNA-class probability	0.987166
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1386885 116 - 20766785
UUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCGAUUGGCAAACCCAAAACCGAAAUAAAAGUGAAAUGCAAAGCAUUAAAAACAGCAGAACUUAAACGCCAAAAUAAAC
(((((((....(((...(((...(((((((..(((((.....)))))....(......).......)))))))..)))))).......)))))))..................... ( -21.40)
>DroSec_CAF1 13977 116 - 1
UUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCGAUUGGCAAAACCAAAACCGAAAUAAAAGUGAAAUGCAAAGCAUUAAAAACAGCAGAACUUAAACGCCAAAAUAAAC
(((((((....(((...(((...(((((((..(((((.....)))))....(......).......)))))))..)))))).......)))))))..................... ( -21.40)
>DroSim_CAF1 18713 116 - 1
UUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCGAUUGGCAAACCCAAAACCGAAAUAAAAGUGAAAUGCAAAGCAUUAAAAACAGCAGAACUUAAACGCCAAAAUAAAC
(((((((....(((...(((...(((((((..(((((.....)))))....(......).......)))))))..)))))).......)))))))..................... ( -21.40)
>DroEre_CAF1 12099 116 - 1
UUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCGAUUGGCAAACCCAAAACCGAAAUAAAAGUGAAAUGCAAAGCAUUAAAAACAGAAGAACUUAAACGCCAAAAUAAAC
...((((....(((...(((...(((((((..(((((.....)))))....(......).......)))))))..)))))).......))))........................ ( -16.30)
>DroYak_CAF1 9899 116 - 1
UUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCAAUUGGCAAACGCAAAACCGAAAUAAAAGUGAAAUGCAAAGCAUUAAAAACAACAGAACUUAAACGCCAAAAUAAAU
...........(((...(((...(((((((..(((((.....)))))..((......)).......)))))))..))))))................................... ( -17.20)
>consensus
UUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCGAUUGGCAAACCCAAAACCGAAAUAAAAGUGAAAUGCAAAGCAUUAAAAACAGCAGAACUUAAACGCCAAAAUAAAC
(((((((....(((...(((...(((((((..(((((.....)))))....(......).......)))))))..)))))).......)))))))..................... (-18.78 = -19.18 +   0.40)

alignment

secondary structure

dotplot

Window 3

Location	1,386,925 – 1,387,041
Length	116
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	98.62
Mean single sequence MFE	-29.96
Consensus MFE	-28.36
Energy contribution	-28.40
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.28
Structure conservation index	0.95
SVM decision value	0.25
SVM RNA-class probability	0.654792
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1386925 116 - 20766785
AACUGAUGUGCGGUUUUGGUUUCAUGGCUUACGGCUUUGAUUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCGAUUGGCAAACCCAAAACCGAAAUAAAAGUGAAAUGC
.(((.((...(((((((((..(((.(((..(((((.......)))))....)))....)))...........(((((.....)))))...)))))))))..))...)))....... ( -29.60)
>DroSec_CAF1 14017 116 - 1
AACUGAUGUGCGGUUUUGGUUUCAUGGCUUACGGCUUUGAUUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCGAUUGGCAAAACCAAAACCGAAAUAAAAGUGAAAUGC
.(((.((...((((((((((((........(((((.......)))))....((.((((((((..............)))))))))).))))))))))))..))...)))....... ( -32.24)
>DroSim_CAF1 18753 116 - 1
AACUGAUGUGCGGUUUUGGUUUCAUGGCUUACGGCUUUGAUUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCGAUUGGCAAACCCAAAACCGAAAUAAAAGUGAAAUGC
.(((.((...(((((((((..(((.(((..(((((.......)))))....)))....)))...........(((((.....)))))...)))))))))..))...)))....... ( -29.60)
>DroEre_CAF1 12139 116 - 1
AACUGAUGUGCGGUUUUGGUUUCAUGGCUUACGGCUUUGAUUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCGAUUGGCAAACCCAAAACCGAAAUAAAAGUGAAAUGC
.(((.((...(((((((((..(((.(((..(((((.......)))))....)))....)))...........(((((.....)))))...)))))))))..))...)))....... ( -29.60)
>DroYak_CAF1 9939 116 - 1
AACUGAUGUGCGGUUUUGGUUUUAUGGCUUACGGCUUUGAUUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCAAUUGGCAAACGCAAAACCGAAAUAAAAGUGAAAUGC
.(((.((...((((((((((((........(((((.......)))))....((.((((((((..............)))))))))))))).))))))))..))...)))....... ( -28.74)
>consensus
AACUGAUGUGCGGUUUUGGUUUCAUGGCUUACGGCUUUGAUUGCUGUCAUCGCUCAAUUGAUUUUUCACUAAUGCCGUCGAUUGGCAAACCCAAAACCGAAAUAAAAGUGAAAUGC
.(((.((...(((((((((...........(((((.......)))))....((.((((((((..............))))))))))....)))))))))..))...)))....... (-28.36 = -28.40 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:28:01 2006