Locus 640

Sequence ID	3L_DroMel_CAF1
Location	1,882,790 – 1,882,892
Length	102
Max. P	0.999294

overview

Window 0

Location	1,882,790 – 1,882,892
Length	102
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	94.05
Mean single sequence MFE	-31.75
Consensus MFE	-27.31
Energy contribution	-28.47
Covariance contribution	1.17
Combinations/Pair	1.11
Mean z-score	-2.84
Structure conservation index	0.86
SVM decision value	2.34
SVM RNA-class probability	0.992652
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1882790 102 + 23771897
AACGCAAGUUUCCCAAUUGCCUGUUAAAAUUAACGCUCACAAUUACCGGCCGUAAAGCUGCAGCUGCUUCGCAGCUCUUGGCCAACAAAAGUGGCGGCGAAA
(((....)))......(((((.((((....))))((.(((.......(((((...((((((.........))))))..))))).......)))))))))).. ( -32.94)
>DroSec_CAF1 5196 102 + 1
AGCGCAAGUUUCCCAAUUGCCUGUUAAAAUUAACGCUCACAAUUACCGGCCGUAAAGCUGCAGCUGCUUCGCAGCUCUUGGCCAACAAAAGUGGCGGCGAAA
(((....)))......(((((.((((....))))((.(((.......(((((...((((((.........))))))..))))).......)))))))))).. ( -32.94)
>DroSim_CAF1 5330 102 + 1
AACGCAAGUUUCCCAAUUGCCUGUUAAAAUUAACGCUCACAAUUACCGGCCGUAAAGCUGCAGCUGCUUCGCAGCUCUUGGCCAACAAAAGUGGCGGCGAAA
(((....)))......(((((.((((....))))((.(((.......(((((...((((((.........))))))..))))).......)))))))))).. ( -32.94)
>DroEre_CAF1 5236 102 + 1
AACGUAAGUUUCCCAAUUGCCUGUUAAAAUUAACGCUCACAAUUACCGGCCGUAAAGCUGCAGCUGCUUCGCAGCUCUUGGCCAACAAAAGUGGCGGCGAAA
(((....)))......(((((.((((....))))((.(((.......(((((...((((((.........))))))..))))).......)))))))))).. ( -31.94)
>DroYak_CAF1 5421 102 + 1
AACGUAAGUUUCCCAAUUGCCUGUUAAAAUUAACGCUCACAAUUACCGGCCGUAAAGCUGCAGCUGCUUCGCAGCUCUUGGCCAACAAAAGUGGCGGCGAAA
(((....)))......(((((.((((....))))((.(((.......(((((...((((((.........))))))..))))).......)))))))))).. ( -31.94)
>DroAna_CAF1 4773 94 + 1
AGCGCAAAUUUCCCAAUUGCCUGUUAAAAUUAACGCUCACAAUUACCGGCCAUAAGGCUGCAGCUGCUUUGCAGCUCUUGGCCAACU----UCGCUGC----
((((..........(((((..(((((....)))))....)))))...(((((...((((((((.....))))))))..)))))....----.))))..---- ( -27.80)
>consensus
AACGCAAGUUUCCCAAUUGCCUGUUAAAAUUAACGCUCACAAUUACCGGCCGUAAAGCUGCAGCUGCUUCGCAGCUCUUGGCCAACAAAAGUGGCGGCGAAA
(((....)))......(((((.((((....))))((.(((.......(((((...((((((.........))))))..))))).......)))))))))).. (-27.31 = -28.47 +   1.17)

alignment

secondary structure

dotplot

Window 1

Location	1,882,790 – 1,882,892
Length	102
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	94.05
Mean single sequence MFE	-37.97
Consensus MFE	-33.76
Energy contribution	-34.48
Covariance contribution	0.72
Combinations/Pair	1.07
Mean z-score	-3.17
Structure conservation index	0.89
SVM decision value	3.49
SVM RNA-class probability	0.999294
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1882790 102 - 23771897
UUUCGCCGCCACUUUUGUUGGCCAAGAGCUGCGAAGCAGCUGCAGCUUUACGGCCGGUAAUUGUGAGCGUUAAUUUUAACAGGCAAUUGGGAAACUUGCGUU
....((((((((..(((..((((.(((((((((.......)))))))))..))))..)))..))).))((((....)))).)))....((....))...... ( -39.40)
>DroSec_CAF1 5196 102 - 1
UUUCGCCGCCACUUUUGUUGGCCAAGAGCUGCGAAGCAGCUGCAGCUUUACGGCCGGUAAUUGUGAGCGUUAAUUUUAACAGGCAAUUGGGAAACUUGCGCU
....((((((((..(((..((((.(((((((((.......)))))))))..))))..)))..))).))((((....)))).)))....((....))...... ( -39.40)
>DroSim_CAF1 5330 102 - 1
UUUCGCCGCCACUUUUGUUGGCCAAGAGCUGCGAAGCAGCUGCAGCUUUACGGCCGGUAAUUGUGAGCGUUAAUUUUAACAGGCAAUUGGGAAACUUGCGUU
....((((((((..(((..((((.(((((((((.......)))))))))..))))..)))..))).))((((....)))).)))....((....))...... ( -39.40)
>DroEre_CAF1 5236 102 - 1
UUUCGCCGCCACUUUUGUUGGCCAAGAGCUGCGAAGCAGCUGCAGCUUUACGGCCGGUAAUUGUGAGCGUUAAUUUUAACAGGCAAUUGGGAAACUUACGUU
....((((((((..(((..((((.(((((((((.......)))))))))..))))..)))..))).))((((....)))).)))....((....))...... ( -39.40)
>DroYak_CAF1 5421 102 - 1
UUUCGCCGCCACUUUUGUUGGCCAAGAGCUGCGAAGCAGCUGCAGCUUUACGGCCGGUAAUUGUGAGCGUUAAUUUUAACAGGCAAUUGGGAAACUUACGUU
....((((((((..(((..((((.(((((((((.......)))))))))..))))..)))..))).))((((....)))).)))....((....))...... ( -39.40)
>DroAna_CAF1 4773 94 - 1
----GCAGCGA----AGUUGGCCAAGAGCUGCAAAGCAGCUGCAGCCUUAUGGCCGGUAAUUGUGAGCGUUAAUUUUAACAGGCAAUUGGGAAAUUUGCGCU
----...((((----..(((((((.((((((((.......))))).))).)))))))...)))).(((((.((((((..(((....))).)))))).))))) ( -30.80)
>consensus
UUUCGCCGCCACUUUUGUUGGCCAAGAGCUGCGAAGCAGCUGCAGCUUUACGGCCGGUAAUUGUGAGCGUUAAUUUUAACAGGCAAUUGGGAAACUUGCGUU
....((((((((..(((..((((.(((((((((.......)))))))))..))))..)))..))).))((((....)))).)))....((....))...... (-33.76 = -34.48 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:24 2006