Locus 2635

Sequence ID	2L_DroMel_CAF1
Location	7,364,724 – 7,364,838
Length	114
Max. P	0.648302

overview

Window 2

Location	7,364,724 – 7,364,818
Length	94
Sequences	6
Columns	94
Reading direction	forward
Mean pairwise identity	80.99
Mean single sequence MFE	-17.90
Consensus MFE	-11.25
Energy contribution	-11.33
Covariance contribution	0.09
Combinations/Pair	1.20
Mean z-score	-1.76
Structure conservation index	0.63
SVM decision value	0.24
SVM RNA-class probability	0.648302
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7364724 94 + 22407834
CACUGUGCCCAGUGAUAAAUUGAUUAACGAAAAUGCCGUGCAAUUAAACAUUUGGCCCCAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAAC
(((((....)))))...(((((....(((.......))).))))).....((((((.....((((((((....))))))))......)))))). ( -20.30)
>DroVir_CAF1 204842 94 + 1
UUGUGUGUCCAGCAACAACAAAAGCAACAAAAAUGUGCUGCCACUAGAAUUUUGGCUUCAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAGC
....(((..(((((.((................))))))).)))......((((((((...((((((((....))))))))....)))))))). ( -20.79)
>DroPse_CAF1 184760 94 + 1
AAUUGAGAGCAGUGAUAAAUUGAUUAACAAAAAUGUUGUACAAUUAAACAUUUGGCUACAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAGC
........((.((....(((((..(((((....)))))..)))))..))..((((((....((((((((....)))))))).....)))))))) ( -17.90)
>DroGri_CAF1 173113 94 + 1
UUAUGUGGACAGCAACAACAAAAGAAACAAAAAUGUUCUUCAACUAAAAUUUAGGCUUCAAUUGUAUGAAAAUUUAUGCAAAUCAAAGUCGAGC
.......((((((........(((((.((....)))))))...(((.....))))))....((((((((....))))))))......))).... ( -12.60)
>DroAna_CAF1 158997 94 + 1
AACAGUGCCAAGUGAUAAAUUGAUUAACGAAAAUGCUUUACAAUUAAACACUGGGCUUCAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAGC
..(((((....((((...(((..........)))...)))).......)))))(((((...((((((((....))))))))....))))).... ( -17.90)
>DroPer_CAF1 186868 94 + 1
AAUUGAGAGCAGUGAUAAAUUGAUUAACAAAAAUGUUGUACAAUUAAACAUUUGGCUACAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAGC
........((.((....(((((..(((((....)))))..)))))..))..((((((....((((((((....)))))))).....)))))))) ( -17.90)
>consensus
AACUGUGACCAGUGAUAAAUUGAUUAACAAAAAUGUUGUACAAUUAAACAUUUGGCUUCAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAGC
..................................................(((((((....((((((((....)))))))).....))))))). (-11.25 = -11.33 +   0.09)

alignment

secondary structure

dotplot

Window 3

Location	7,364,746 – 7,364,838
Length	92
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	84.79
Mean single sequence MFE	-22.82
Consensus MFE	-15.35
Energy contribution	-15.38
Covariance contribution	0.03
Combinations/Pair	1.23
Mean z-score	-2.58
Structure conservation index	0.67
SVM decision value	-0.01
SVM RNA-class probability	0.530971
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7364746 92 + 22407834
AUUAACGAAAAUGCCGUGCAAUUAAACAUUUGGCCCCAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAACGAUGACUGCGUGGCGAGCAA---
...........(((((((((.(((....((((((.....((((((((....))))))))......))))))...))).))))))))).....--- ( -23.30)
>DroVir_CAF1 204864 92 + 1
AGCAACAAAAAUGUGCUGCCACUAGAAUUUUGGCUUCAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAGCGAUGACUGCGUGGCAAGCAA---
.............(((((((((.......(((((((...((((((((....))))))))....)))))))(((.....)))))))).)))).--- ( -29.30)
>DroPse_CAF1 184782 95 + 1
AUUAACAAAAAUGUUGUACAAUUAAACAUUUGGCUACAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAGCGAUGACUGUGUGGCAAGAAGCAA
...........(((..((((.(((....(((((((....((((((((....)))))))).....)))))))...))).))))..)))........ ( -21.90)
>DroGri_CAF1 173135 92 + 1
AGAAACAAAAAUGUUCUUCAACUAAAAUUUAGGCUUCAAUUGUAUGAAAAUUUAUGCAAAUCAAAGUCGAGCGAUGACUGCGUGGCAAGCAA---
...........((((................(((((...((((((((....))))))))....)))))..((.(((....))).)).)))).--- ( -15.30)
>DroMoj_CAF1 217538 92 + 1
UGCAAUCAAAAUGUGCUGCUAGUCAAAUUUGGGCUACAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAGCGAUGACUGCGUGGCGAGCAA---
(((..........(((..(((((((...((.((((....((((((((....)))))))).....)))).))...)))))).)..))).))).--- ( -25.20)
>DroPer_CAF1 186890 95 + 1
AUUAACAAAAAUGUUGUACAAUUAAACAUUUGGCUACAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAGCGAUGACUGUGUGGCAAGAAGCAA
...........(((..((((.(((....(((((((....((((((((....)))))))).....)))))))...))).))))..)))........ ( -21.90)
>consensus
AGUAACAAAAAUGUUCUGCAAUUAAAAAUUUGGCUACAAUUGUAUGAAAAUUUAUGCAAAUCAAAGCCGAGCGAUGACUGCGUGGCAAGCAA___
...........(((..((((........(((((((....((((((((....)))))))).....))))))).......))))..)))........ (-15.35 = -15.38 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:24 2006