Locus 6283

Sequence ID 2R_DroMel_CAF1
Location 19,726,207 – 19,726,303
Length 96
Max. P 0.845754
window10045 window10046

overview

Window 5

Location 19,726,207 – 19,726,303
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 77.72
Mean single sequence MFE -26.99
Consensus MFE -16.22
Energy contribution -17.92
Covariance contribution 1.70
Combinations/Pair 1.06
Mean z-score -1.39
Structure conservation index 0.60
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19726207 96 + 20766785
CGGUUCGGUAAAUAAAAUGCCAAAUGGCAAACGGCAAUACCCGAACGCGCAGCUCACCCAUCGAGGGCGAGCUCCAUUGUCGCCAAUUGGCAACUU
.................((((((.((((...(((......))).....(.(((((.(((.....))).))))).)......)))).)))))).... ( -33.30)
>DroPse_CAF1 40752 72 + 1
--GCUCAGUAAAUAAAAGUGCU--UGGCU---------GCUUG-----------GGUUCUUGGCUGGCUGCCGCCAUUGUCAGCAAUUGGCAACUU
--.............(((((((--..(((---------((...-----------(((....(((.....))))))...).))))....))).)))) ( -18.70)
>DroSec_CAF1 35933 96 + 1
CGGUUCGGUAAAUAAAAUGCCAAAUGGCAAACGGCAAUACCCGAACGCGCAGCGCAGCCUUCGAGGGCGAGCUCCAUUGUCGCCAAUUGGCAACUU
.................((((((.((((...(((......))).....(.(((...((((....))))..))).)......)))).)))))).... ( -29.60)
>DroSim_CAF1 41306 96 + 1
CGGUUCGGUAAAUAAAAUGCCAAAUGGCAAACGGCAAUACCCGAACGCGCAGCGCAGCCUUCGAGGGCGAGCUCCAUUGUCGCCAAUUGGCAACUU
.................((((((.((((...(((......))).....(.(((...((((....))))..))).)......)))).)))))).... ( -29.60)
>DroEre_CAF1 36249 83 + 1
CGGUUCGGUAAAUAAAAUGCCAAAUGGCAAACGGCAAUACCCGAACGCGCAG-------------GGCGAGCUCCAUUGUCGCCAAUUGGCAACUU
..((((((.........((((....))))...........))))))((.((.-------------(((((.(......))))))...))))..... ( -24.15)
>DroYak_CAF1 36485 91 + 1
CGGUUCGGUAAAUAAAAUGCCAAAUGGCAAACGGCAAUACCCGAACGCGCAGC-----CCGAGAAGGCGAGCUCCAUUGUCGCCAAUUGGCAACUU
.................((((((.((((...(((......)))...((...((-----(......)))..)).........)))).)))))).... ( -26.60)
>consensus
CGGUUCGGUAAAUAAAAUGCCAAAUGGCAAACGGCAAUACCCGAACGCGCAGC_CA_CCUUCGAGGGCGAGCUCCAUUGUCGCCAAUUGGCAACUU
.................((((((.((((...(((......)))......................(((((......))))))))).)))))).... (-16.22 = -17.92 +   1.70)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,726,207 – 19,726,303
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 77.72
Mean single sequence MFE -30.83
Consensus MFE -18.47
Energy contribution -20.05
Covariance contribution 1.58
Combinations/Pair 1.10
Mean z-score -1.84
Structure conservation index 0.60
SVM decision value 0.77
SVM RNA-class probability 0.845754
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19726207 96 - 20766785
AAGUUGCCAAUUGGCGACAAUGGAGCUCGCCCUCGAUGGGUGAGCUGCGCGUUCGGGUAUUGCCGUUUGCCAUUUGGCAUUUUAUUUACCGAACCG
..((((((....))))))...(.(((((((((.....))))))))).)(.((((((...........((((....)))).........))))))). ( -43.85)
>DroPse_CAF1 40752 72 - 1
AAGUUGCCAAUUGCUGACAAUGGCGGCAGCCAGCCAAGAACC-----------CAAGC---------AGCCA--AGCACUUUUAUUUACUGAGC--
..(((((((.(((....)))))))))).(((((.........-----------...((---------.....--.))...........))).))-- ( -13.80)
>DroSec_CAF1 35933 96 - 1
AAGUUGCCAAUUGGCGACAAUGGAGCUCGCCCUCGAAGGCUGCGCUGCGCGUUCGGGUAUUGCCGUUUGCCAUUUGGCAUUUUAUUUACCGAACCG
..((((((....))))))...(.(((.((((......))).).))).)(.((((((...........((((....)))).........))))))). ( -33.35)
>DroSim_CAF1 41306 96 - 1
AAGUUGCCAAUUGGCGACAAUGGAGCUCGCCCUCGAAGGCUGCGCUGCGCGUUCGGGUAUUGCCGUUUGCCAUUUGGCAUUUUAUUUACCGAACCG
..((((((....))))))...(.(((.((((......))).).))).)(.((((((...........((((....)))).........))))))). ( -33.35)
>DroEre_CAF1 36249 83 - 1
AAGUUGCCAAUUGGCGACAAUGGAGCUCGCC-------------CUGCGCGUUCGGGUAUUGCCGUUUGCCAUUUGGCAUUUUAUUUACCGAACCG
....((((((.(((((((....((((.(((.-------------..))).)))).((.....))).)))))).))))))................. ( -27.10)
>DroYak_CAF1 36485 91 - 1
AAGUUGCCAAUUGGCGACAAUGGAGCUCGCCUUCUCGG-----GCUGCGCGUUCGGGUAUUGCCGUUUGCCAUUUGGCAUUUUAUUUACCGAACCG
..((((((....))))))...(.((((((......)))-----))).)(.((((((...........((((....)))).........))))))). ( -33.55)
>consensus
AAGUUGCCAAUUGGCGACAAUGGAGCUCGCCCUCGAAGG_UG_GCUGCGCGUUCGGGUAUUGCCGUUUGCCAUUUGGCAUUUUAUUUACCGAACCG
..((((((....))))))....((((.(((................))).)))).((((........((((....)))).......))))...... (-18.47 = -20.05 +   1.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:19 2006