Locus 7306

Sequence ID X_DroMel_CAF1
Location 18,206,409 – 18,206,501
Length 92
Max. P 0.898978
window11965 window11966

overview

Window 5

Location 18,206,409 – 18,206,501
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 86.12
Mean single sequence MFE -30.48
Consensus MFE -23.22
Energy contribution -22.86
Covariance contribution -0.36
Combinations/Pair 1.26
Mean z-score -2.12
Structure conservation index 0.76
SVM decision value 1.01
SVM RNA-class probability 0.898978
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18206409 92 + 22224390
GUGUCAGGUGUUACGGAUCCCAGCCAGAAGUGGCUACCAAGGAUGUUAGUGCAGAAGCACUUCAAAGCCUCCUUUGGUAUGGGAACUGAGUG
.............(((.(((((((((....))))(((((((((.((((((((....)))))....))).))).))))))))))).))).... ( -33.00)
>DroSec_CAF1 66545 92 + 1
GUGUCAGGUGUCACGGAUCCCAGCCCGAAGUGGCUACCAAGGAUUUCAGUGCAGAAGCACUUCAAAGCCUCCUUUGGUAUGGGAACUAAGUG
(((.(....).)))((.(((((..((((((.((((.(....).....(((((....)))))....))))..))))))..))))).))..... ( -31.30)
>DroSim_CAF1 65791 92 + 1
GUGUCAGGUGUCACGGAUCCCAGCCCGAAGUGGCUACCAAGGAUUUCAGUGCAGAAGCACUUCAAAGCGUCCUUUGGUAUGGGAACUGAGUG
(((.(....).)))((.((((((((......)))((((((((((...(((((....))))).......)))).))))))))))).))..... ( -30.20)
>DroEre_CAF1 60597 87 + 1
GUGUCAGGUGUCACGGAUCCCAGCCAAAGGUAGUUUUAAAGGAUUUCAGUGCAGAAGCACUUAAAAGCUUUCUUUGGUAUGGGAACU-----
(((.(....).)))((.(((((((((((((.((((((.(((..((((......))))..))).)))))).)))))))).))))).))----- ( -31.60)
>DroYak_CAF1 60383 87 + 1
GUGUCAGGUGUCACGGAUCCCAGCCAGAAGUAGUUUCCAAGGAUUUCGAUGCAGAAGCACUUGAAAGCUUCCUUUGGCAUUGGAAUA-----
(((.(....).)))...(((..((((((.(.(((((.((((..((((......))))..)))).))))).).))))))...)))...----- ( -26.30)
>consensus
GUGUCAGGUGUCACGGAUCCCAGCCAGAAGUGGCUACCAAGGAUUUCAGUGCAGAAGCACUUCAAAGCCUCCUUUGGUAUGGGAACU_AGUG
(((.(....).)))...(((((((((((.(.((((...(((..((((......))))..)))...)))).).)))))).)))))........ (-23.22 = -22.86 +  -0.36)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 18,206,409 – 18,206,501
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 86.12
Mean single sequence MFE -25.94
Consensus MFE -17.32
Energy contribution -18.72
Covariance contribution 1.40
Combinations/Pair 1.09
Mean z-score -2.01
Structure conservation index 0.67
SVM decision value 0.21
SVM RNA-class probability 0.635950
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18206409 92 - 22224390
CACUCAGUUCCCAUACCAAAGGAGGCUUUGAAGUGCUUCUGCACUAACAUCCUUGGUAGCCACUUCUGGCUGGGAUCCGUAACACCUGACAC
...((((.(((((((((((.(((........(((((....)))))....)))))))))((((....)))))))))..........))))... ( -28.20)
>DroSec_CAF1 66545 92 - 1
CACUUAGUUCCCAUACCAAAGGAGGCUUUGAAGUGCUUCUGCACUGAAAUCCUUGGUAGCCACUUCGGGCUGGGAUCCGUGACACCUGACAC
(((.....(((((((((((.(((........(((((....)))))....)))))))))(((......))))))))...)))........... ( -29.60)
>DroSim_CAF1 65791 92 - 1
CACUCAGUUCCCAUACCAAAGGACGCUUUGAAGUGCUUCUGCACUGAAAUCCUUGGUAGCCACUUCGGGCUGGGAUCCGUGACACCUGACAC
(((.....(((((((((((.(((....((..(((((....)))))..)))))))))))(((......))))))))...)))........... ( -29.10)
>DroEre_CAF1 60597 87 - 1
-----AGUUCCCAUACCAAAGAAAGCUUUUAAGUGCUUCUGCACUGAAAUCCUUUAAAACUACCUUUGGCUGGGAUCCGUGACACCUGACAC
-----...(((((..((((((((((..(((.(((((....))))).)))..))))........)))))).)))))...(((........))) ( -21.70)
>DroYak_CAF1 60383 87 - 1
-----UAUUCCAAUGCCAAAGGAAGCUUUCAAGUGCUUCUGCAUCGAAAUCCUUGGAAACUACUUCUGGCUGGGAUCCGUGACACCUGACAC
-----.((((((..((((.(((.((.((((((((((....)))........))))))).)).))).))))))))))..(((........))) ( -21.10)
>consensus
CACU_AGUUCCCAUACCAAAGGAAGCUUUGAAGUGCUUCUGCACUGAAAUCCUUGGUAGCCACUUCUGGCUGGGAUCCGUGACACCUGACAC
........(((((((((((.(((........(((((....)))))....)))))))))(((......))))))))................. (-17.32 = -18.72 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:35 2006