Locus 2624

Sequence ID	2R_DroMel_CAF1
Location	9,272,855 – 9,272,998
Length	143
Max. P	0.868319

overview

Window 9

Location	9,272,855 – 9,272,964
Length	109
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	84.77
Mean single sequence MFE	-50.08
Consensus MFE	-40.76
Energy contribution	-41.13
Covariance contribution	0.37
Combinations/Pair	1.35
Mean z-score	-2.45
Structure conservation index	0.81
SVM decision value	0.86
SVM RNA-class probability	0.868319
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9272855 109 - 20766785
AGCAGGUUUCACAAAUUGGCCGGCGUAGUCUCCUUCCUUCGGCGUCCGUGGAUUCGGGCGCUGUGGAGGAUUCUGCACCUCGUAGUGGAAACUGCCCUUCGGGAGGGGU
.((.((((.........)))).))((((..((((((...(((((((((......))))))))).))))))..))))((((((((((....)))))((....)).))))) ( -52.40)
>DroSec_CAF1 158083 109 - 1
AGCAGGCUUCACAAAUUGGCCGGCGUAGUCUCCUUCCUUCGGCGUCCGUGGAUUCGGGCGCUGGGGAGGAUUCUGCACCUCGUAGUGGAAACUGCCCUUCGGGAGGGGU
.((.((((.........)))).))((((..(((((((..(((((((((......))))))))))))))))..))))((((((((((....)))))((....)).))))) ( -57.40)
>DroSim_CAF1 144055 109 - 1
AGCAGGUUUCACAAAUUGGCCGGCGUAGUCUCCUUCCUUCGGCGUCCGCGGAUUCGGGCGCUGGGGAGGAUUCUGCACCUCGUAGUGGAAACUGCCCUUCGGGAGGGGU
.((.((((.........)))).))((((..(((((((..(((((((((......))))))))))))))))..))))((((((((((....)))))((....)).))))) ( -53.90)
>DroEre_CAF1 144479 109 - 1
AGCAGGUUGCACAAACUGGCCGGCGUAGUCUCCAUCCUUCGGUGUCCGUGGAUUCGGGCGCUGGGGAGGAUUCUGCACCUCGUAGUGGAAGCUACCCUUCGGAAGGGGC
.((.((((.....)))).)).((.((((..(((.((((.(((((((((......))))))))))))))))..)))).))..(((((....))))).((((....)))). ( -45.80)
>DroYak_CAF1 142285 109 - 1
AGCAGGCUUCACAAAUUGGCCGGCGUAGUCUCCUUCCGUCGGCGUCCGUGGACUCGGUCGCUGCGGAGGAUUCUGCACCUCGUAGUGGAAACUGCCCUUCGGAAGGGGC
.((.((((.........)))).))((((..((((.(((.(((((.(((......))).))))))))))))..)))).(((((((((....))))).(....)..)))). ( -50.30)
>DroMoj_CAF1 238436 109 - 1
AGCGGGUCUGAUGAAGGGACUAUCGUAGGCGAUUUCCUUGGGCUGCUUGGCAAUGAUGCGCUGCGGGGGAUUGUUGGCCUCGUAGUGGAAGCUGCCCUUCGGUAUGGGC
.((..((((((...(((((..((((....)))).)))))((((.((((.(((....)))(((((((((.........)))))))))..)))).)))).)))).))..)) ( -40.70)
>consensus
AGCAGGUUUCACAAAUUGGCCGGCGUAGUCUCCUUCCUUCGGCGUCCGUGGAUUCGGGCGCUGGGGAGGAUUCUGCACCUCGUAGUGGAAACUGCCCUUCGGGAGGGGC
.((.((((.........)))).))((((..(((.((((.(((((((((......))))))))))))))))..))))((((((((((....))))).(....)..))))) (-40.76 = -41.13 +   0.37)

alignment

secondary structure

dotplot

Window 0

Location	9,272,890 – 9,272,998
Length	108
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	87.16
Mean single sequence MFE	-46.73
Consensus MFE	-39.54
Energy contribution	-39.77
Covariance contribution	0.23
Combinations/Pair	1.29
Mean z-score	-1.64
Structure conservation index	0.85
SVM decision value	0.14
SVM RNA-class probability	0.601489
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9272890 108 - 20766785
CCUGGCUAAGCUCCUGUUGAUAGGCCAACUGGGCAGCAGGUUUCACAAAUUGGCCGGCGUAGUCUCCUUCCUUCGGCGUCCGUGGAUUCGGGCGCUGUGGAGGAUUCU
.((((((((...(((((((.(((.....)))..))))))).........))))))))...((..((((((...(((((((((......))))))))).))))))..)) ( -46.40)
>DroSec_CAF1 158118 108 - 1
CCUGGCUGAGCUCCUGUUGGUAGGCCAACUGGGCAGCAGGCUUCACAAAUUGGCCGGCGUAGUCUCCUUCCUUCGGCGUCCGUGGAUUCGGGCGCUGGGGAGGAUUCU
...(((((.((.((.(((((....))))).)))).((.((((.........)))).)).)))))(((((((..(((((((((......)))))))))))))))).... ( -51.50)
>DroSim_CAF1 144090 108 - 1
CCUGGCUGAGCUCCUGUUGGUAGGCCAACUGGGCAGCAGGUUUCACAAAUUGGCCGGCGUAGUCUCCUUCCUUCGGCGUCCGCGGAUUCGGGCGCUGGGGAGGAUUCU
.(((((..((((((((((((....))))).))).))).(......)...)..)))))...((..(((((((..(((((((((......))))))))))))))))..)) ( -49.60)
>DroEre_CAF1 144514 108 - 1
CCUGGCUGAGCUCCUGUUGGAAGGUCAACUGGGCAGCAGGUUGCACAAACUGGCCGGCGUAGUCUCCAUCCUUCGGUGUCCGUGGAUUCGGGCGCUGGGGAGGAUUCU
.((((((..(((((((((((....))))).))).))).((((.....))))))))))...((..(((.((((.(((((((((......))))))))))))))))..)) ( -44.40)
>DroYak_CAF1 142320 108 - 1
CCUGGCUGAGCUCCUGUUGGUAGGUCAACUGGGCAGCAGGCUUCACAAAUUGGCCGGCGUAGUCUCCUUCCGUCGGCGUCCGUGGACUCGGUCGCUGCGGAGGAUUCU
((..(.(((.((((....)).)).))).)..))..((.((((.........)))).))..((..((((.(((.(((((.(((......))).))))))))))))..)) ( -45.30)
>DroPer_CAF1 122435 108 - 1
CAUGACUGUAUUCCUGUUGAUAGGACAACUGGCCAGCAGGUCGCACAAAGUGGGCGGCGUAGUCCGCCUCCUGCUGUGGCCGAGGGCUCGGCAACUGCGGAGGACUUC
...(((((.....((((((.(((.....)))..))))))(((((.(.....).))))).)))))..(((((.((.((.(((((....))))).)).)))))))..... ( -43.20)
>consensus
CCUGGCUGAGCUCCUGUUGGUAGGCCAACUGGGCAGCAGGUUUCACAAAUUGGCCGGCGUAGUCUCCUUCCUUCGGCGUCCGUGGAUUCGGGCGCUGGGGAGGAUUCU
...(((((.((((..(((((....))))).)))).((.((((.........)))).)).)))))..((((((.(((((((((......)))))))))))))))..... (-39.54 = -39.77 +   0.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:52 2006