Locus 3211

Sequence ID X_DroMel_CAF1
Location 8,491,423 – 8,491,519
Length 96
Max. P 0.898293
window5265 window5266

overview

Window 5

Location 8,491,423 – 8,491,519
Length 96
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 84.91
Mean single sequence MFE -26.52
Consensus MFE -18.28
Energy contribution -18.24
Covariance contribution -0.04
Combinations/Pair 1.13
Mean z-score -2.41
Structure conservation index 0.69
SVM decision value 1.00
SVM RNA-class probability 0.898293
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8491423 96 + 22224390
AAAGAGG---------UGGCAGAUGAAAAAUGCAUUUCUCAGGCUCAUUUACAUUGAGCCGCGGCUACUGGAAUAUGC-UAUAUACAUAUGUAUGUAUGUACAUAC
.....((---------((((.((.((((......)))))).((((((.......))))))...))))))....((((.-(((((((((....))))))))))))). ( -30.10)
>DroSec_CAF1 33547 96 + 1
AAAGAGG---------UGGCAGAUGAAAAAUGCAUUUCUCAGGCUCAUUUACAUUGAGCCGCGGCUACUGGAAUAUGG-UAUAUACAGAUGUAUGUAUGUAUGUAC
.....((---------((((.((.((((......)))))).((((((.......))))))...))))))........(-((((((((......))))))))).... ( -28.60)
>DroSim_CAF1 42654 96 + 1
AAAGAGG---------UGGCAGAUGAAAAAUGCAUUUCUCAGGCUCAUUUACAUUGAGCCGCGGCUACUGGAAUAUGG-UAUAUACAGAUGUAUGUAUGUAUGUAC
.....((---------((((.((.((((......)))))).((((((.......))))))...))))))........(-((((((((......))))))))).... ( -28.60)
>DroEre_CAF1 39838 88 + 1
AAAGAGG---------UGGCAGAUGAAAAAUGCAUUUCUCAGGCUCAUUUACAUUGAGCCGCGGCUACUGGAAUAUGG-UAUACAUAUAUGUACAUGC--------
.....((---------((((.((.((((......)))))).((((((.......))))))...))))))...(((((.-....)))))..........-------- ( -23.40)
>DroAna_CAF1 55043 100 + 1
AAAGAGACGGACGCACUGGCAGAUGAAAAAUGCAUUUCUCAGGCUCAUUUACAUUGAGCCGCAGCUACUGGAAUAUGAAUAUAUAUAUGCGUACAUAU------GC
........(.(((((.((((.((.((((......)))))).((((((.......))))))...)))).....(((((....))))).))))).)....------.. ( -21.90)
>consensus
AAAGAGG_________UGGCAGAUGAAAAAUGCAUUUCUCAGGCUCAUUUACAUUGAGCCGCGGCUACUGGAAUAUGG_UAUAUACAUAUGUAUGUAUGUA__UAC
................((((.((.((((......)))))).((((((.......))))))...))))............(((((((....)))))))......... (-18.28 = -18.24 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 6

Location 8,491,423 – 8,491,519
Length 96
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 84.91
Mean single sequence MFE -19.78
Consensus MFE -17.68
Energy contribution -16.88
Covariance contribution -0.80
Combinations/Pair 1.17
Mean z-score -1.52
Structure conservation index 0.89
SVM decision value 0.25
SVM RNA-class probability 0.654630
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8491423 96 - 22224390
GUAUGUACAUACAUACAUAUGUAUAUA-GCAUAUUCCAGUAGCCGCGGCUCAAUGUAAAUGAGCCUGAGAAAUGCAUUUUUCAUCUGCCA---------CCUCUUU
((((((....))))))((((((.....-))))))....((((....((((((.......))))))(((((((....))))))).))))..---------....... ( -23.20)
>DroSec_CAF1 33547 96 - 1
GUACAUACAUACAUACAUCUGUAUAUA-CCAUAUUCCAGUAGCCGCGGCUCAAUGUAAAUGAGCCUGAGAAAUGCAUUUUUCAUCUGCCA---------CCUCUUU
(((.(((((..........))))).))-).........((((....((((((.......))))))(((((((....))))))).))))..---------....... ( -17.90)
>DroSim_CAF1 42654 96 - 1
GUACAUACAUACAUACAUCUGUAUAUA-CCAUAUUCCAGUAGCCGCGGCUCAAUGUAAAUGAGCCUGAGAAAUGCAUUUUUCAUCUGCCA---------CCUCUUU
(((.(((((..........))))).))-).........((((....((((((.......))))))(((((((....))))))).))))..---------....... ( -17.90)
>DroEre_CAF1 39838 88 - 1
--------GCAUGUACAUAUAUGUAUA-CCAUAUUCCAGUAGCCGCGGCUCAAUGUAAAUGAGCCUGAGAAAUGCAUUUUUCAUCUGCCA---------CCUCUUU
--------((((((....))))))...-..........((((....((((((.......))))))(((((((....))))))).))))..---------....... ( -18.00)
>DroAna_CAF1 55043 100 - 1
GC------AUAUGUACGCAUAUAUAUAUUCAUAUUCCAGUAGCUGCGGCUCAAUGUAAAUGAGCCUGAGAAAUGCAUUUUUCAUCUGCCAGUGCGUCCGUCUCUUU
..------..(((.((((((((((......))))....((((....((((((.......))))))(((((((....))))))).))))..)))))).)))...... ( -21.90)
>consensus
GUA__UACAUACAUACAUAUGUAUAUA_CCAUAUUCCAGUAGCCGCGGCUCAAUGUAAAUGAGCCUGAGAAAUGCAUUUUUCAUCUGCCA_________CCUCUUU
........((((((....))))))..............((((....((((((.......))))))(((((((....))))))).)))).................. (-17.68 = -16.88 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:51 2006