Locus 2826

Sequence ID	2L_DroMel_CAF1
Location	8,082,949 – 8,083,057
Length	108
Max. P	0.978045

overview

Window 1

Location	8,082,949 – 8,083,057
Length	108
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	90.19
Mean single sequence MFE	-37.99
Consensus MFE	-33.68
Energy contribution	-33.80
Covariance contribution	0.12
Combinations/Pair	1.18
Mean z-score	-1.82
Structure conservation index	0.89
SVM decision value	1.80
SVM RNA-class probability	0.978045
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8082949 108 + 22407834
ACCCGCUUUGAUGACUGAUGCAGUGUGACCGUUCGCAGAGAUUGGCACAAUACCAGAUUUCAGGUGUGGCCAGAACGCUAAGAAUUUAACGGUCGCACUGCGAGUUCA
............((((..((((((((((((((((..((...(((((...(((((........))))).)))))....))..)).....)))))))))))))))))).. ( -39.50)
>DroSec_CAF1 39311 108 + 1
ACCCGCUUUGAUGACUGAUGCAGUGUGACCGUUUGCGGAGCGUGGCGCAAUACCAGAUUUCAGAUGUGGCCAGGACGCUGAGAAUUUAACGGUCGCACUGCGAGUUCA
............((((..(((((((((((((((.(((...(.(((((((...............))).)))).).))).........))))))))))))))))))).. ( -38.06)
>DroSim_CAF1 40162 108 + 1
ACCCGCUUUGAUGACUGAUGCAGUGUGACCGUUUGCAGAGCGUGGCGCAAUACCAGAUUUCAGGUGUGGCCAGGACGCUGAGAAUUUAACGGUCGCACUGAGAGUUCA
............((((....(((((((((((((..(((..(.((((.((.((((........)))))))))).)...))).......)))))))))))))..)))).. ( -40.30)
>DroEre_CAF1 39304 108 + 1
ACCCGCUUUGAUGACUGAUGUAGUGUGACCGUUCACAGAGAGUGGCGUAAUACUGGAUUCCAGGUGUGGCCAGGACACUGAGAAACUAACGGUCGCACUGCGAAUUGA
..................((((((((((((((((.(((.(..((((.((...((((...))))...))))))...).))).)).....))))))))))))))...... ( -35.50)
>DroYak_CAF1 39959 108 + 1
ACCCGCUUUGAUGACUGAUGCAGUGUGACCGUUCACAGAGAGUGGCGCAAUACCAGAUUCCAGGUGUGGCCAGGACGGUAGGAAUUUAACGGUCGCACUGCAAAUUGA
..................((((((((((((((((((.....)))......((((....(((.((.....)).))).)))).......)))))))))))))))...... ( -36.60)
>consensus
ACCCGCUUUGAUGACUGAUGCAGUGUGACCGUUCGCAGAGAGUGGCGCAAUACCAGAUUUCAGGUGUGGCCAGGACGCUGAGAAUUUAACGGUCGCACUGCGAGUUCA
..................((((((((((((((((.(((....((((...(((((........))))).)))).....))).)).....))))))))))))))...... (-33.68 = -33.80 +   0.12)

alignment

secondary structure

dotplot

Window 2

Location	8,082,949 – 8,083,057
Length	108
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	90.19
Mean single sequence MFE	-33.16
Consensus MFE	-25.72
Energy contribution	-26.12
Covariance contribution	0.40
Combinations/Pair	1.12
Mean z-score	-1.79
Structure conservation index	0.78
SVM decision value	0.59
SVM RNA-class probability	0.792340
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8082949 108 - 22407834
UGAACUCGCAGUGCGACCGUUAAAUUCUUAGCGUUCUGGCCACACCUGAAAUCUGGUAUUGUGCCAAUCUCUGCGAACGGUCACACUGCAUCAGUCAUCAAAGCGGGU
...((((((((((.(((((((((....)))))((((((((((.(((........)))..)).))))........)))))))).))))))....((.......)))))) ( -34.40)
>DroSec_CAF1 39311 108 - 1
UGAACUCGCAGUGCGACCGUUAAAUUCUCAGCGUCCUGGCCACAUCUGAAAUCUGGUAUUGCGCCACGCUCCGCAAACGGUCACACUGCAUCAGUCAUCAAAGCGGGU
...((((((((((.(((((((........(((((...(((((.(((........)))..)).)))))))).....))))))).))))))....((.......)))))) ( -34.02)
>DroSim_CAF1 40162 108 - 1
UGAACUCUCAGUGCGACCGUUAAAUUCUCAGCGUCCUGGCCACACCUGAAAUCUGGUAUUGCGCCACGCUCUGCAAACGGUCACACUGCAUCAGUCAUCAAAGCGGGU
(((.....(((((.(((((((.....(..(((((...(((((.(((........)))..)).))))))))..)..))))))).)))))......)))........... ( -31.50)
>DroEre_CAF1 39304 108 - 1
UCAAUUCGCAGUGCGACCGUUAGUUUCUCAGUGUCCUGGCCACACCUGGAAUCCAGUAUUACGCCACUCUCUGUGAACGGUCACACUACAUCAGUCAUCAAAGCGGGU
...((((((((((.((((((.....((.(((.(...((((.....((((...))))......))))..).))).)))))))).))))((....)).......)))))) ( -31.40)
>DroYak_CAF1 39959 108 - 1
UCAAUUUGCAGUGCGACCGUUAAAUUCCUACCGUCCUGGCCACACCUGGAAUCUGGUAUUGCGCCACUCUCUGUGAACGGUCACACUGCAUCAGUCAUCAAAGCGGGU
......(((((((.(((((((.......((((((((.((.....)).)))...)))))......(((.....)))))))))).))))))).................. ( -34.50)
>consensus
UGAACUCGCAGUGCGACCGUUAAAUUCUCAGCGUCCUGGCCACACCUGAAAUCUGGUAUUGCGCCACUCUCUGCGAACGGUCACACUGCAUCAGUCAUCAAAGCGGGU
...((((((((((.(((((((.......(((.(...((((((.(((........)))..)).))))..).)))..))))))).))))))....((.......)))))) (-25.72 = -26.12 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:13 2006