Locus 3296

Sequence ID 2L_DroMel_CAF1
Location 9,544,253 – 9,544,384
Length 131
Max. P 0.724274
window5237 window5238

overview

Window 7

Location 9,544,253 – 9,544,344
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 78.10
Mean single sequence MFE -27.07
Consensus MFE -18.76
Energy contribution -18.18
Covariance contribution -0.58
Combinations/Pair 1.25
Mean z-score -1.30
Structure conservation index 0.69
SVM decision value 0.41
SVM RNA-class probability 0.724274
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9544253 91 - 22407834
GGCGUAUACCCAUACUGCUUAAGUGGAGCCAUCCACUUGGCAUCCGCAUCCGCAACUGUAUCCUUUGAGCUUCCCCCCAGGCAGAAGCCAA
(((((((....)))).(((((((((((((((......)))).)))))....((....)).....))))))................))).. ( -25.80)
>DroPse_CAF1 3438 82 - 1
GCACUCCAUCCGUACCGUUUGAGCGGAGCCAUCCAUUUGGCAUCUGCCUC---AUCUGAAGCCUGCGUGC------CGUGGCAGGAGCCGA
...((((........((..((((((((((((......)))).)))).)))---)..))..(((.(((...------)))))).)))).... ( -27.70)
>DroSec_CAF1 3488 88 - 1
GCCGUAUAACCAUACUGCUUAAGUGGAGCCAUCCACUUGGCAUCCGCGUCCGAAACUGCAUCCUUUGAGCCU---CCCAGGCAGAAGCCAA
(((((((....)))).(((((((((((((((......)))).)))))((........)).....))))))..---....)))......... ( -25.10)
>DroSim_CAF1 3504 88 - 1
GCCGUAUAACCAUACUGCUUGAGUGGAGCCAUCCACUUGGCAUCCGCGUCCGGAACUGCAUCCUUUGAGCCU---CCCAGGCAGAAGCCAA
(((((((....)))).(((..((((((((((......)))).)))))....(((......))).)..)))..---....)))......... ( -28.00)
>DroYak_CAF1 3494 88 - 1
GGCGUAUAUCCAUACUGCUUGAGUGGGGCCAUCCACUUGGCAUCCGCGUCCGGAACUGCAUCCUUCGAACCG---CCAAGGCAAAAGCCAA
(((((((....))))(((((..((((.((((......)))).((((....))))...............)))---)..)))))...))).. ( -28.60)
>DroPer_CAF1 4021 82 - 1
GCACUCCAUCCGUACUGUUUGAGCGGAGCCAUCCAUUUGGCAUCUGCCUC---AUCUGAAGCCUGCGUGC------CGUGGCAGGAGCCGA
...((((.(((((.(.....).)))))(((((......((((((.((.((---....)).))..).))))------)))))).)))).... ( -27.20)
>consensus
GCCGUAUAUCCAUACUGCUUGAGUGGAGCCAUCCACUUGGCAUCCGCGUCCG_AACUGCAUCCUUCGAGCCU___CCCAGGCAGAAGCCAA
......................(((((((((......)))).)))))................................(((....))).. (-18.76 = -18.18 +  -0.58)

alignment

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secondary structure

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dotplot

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Window 8

Location 9,544,290 – 9,544,384
Length 94
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 83.08
Mean single sequence MFE -29.20
Consensus MFE -20.20
Energy contribution -20.29
Covariance contribution 0.09
Combinations/Pair 1.22
Mean z-score -1.63
Structure conservation index 0.69
SVM decision value -0.02
SVM RNA-class probability 0.525419
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9544290 94 - 22407834
GGUGAAUUCACCAUGCUCCACUUUGUUCUUCAGAUGCUGCGGCGUAUACCCAUACUGCUUAAGUGGAGCCAUCCACUUGGCAUCCGCAUCCGCA
((((....)))).(((.....((((.....))))...(((((.((((....))))((((.(((((((....))))))))))).)))))...))) ( -29.70)
>DroPse_CAF1 3469 91 - 1
GGUAAAGUCGCCGUGCUCCACUCUGUUUUUCAGCUGGCUGGCACUCCAUCCGUACCGUUUGAGCGGAGCCAUCCAUUUGGCAUCUGCCUC---A
((((..(..(..((((((((..(((.....))).)))..)))))..)..)..))))...((((((((((((......)))).)))).)))---) ( -30.20)
>DroSec_CAF1 3522 94 - 1
GGUGAAUUCACCAUGCUCCACUUUGUUCUUCAGAUGCUGGGCCGUAUAACCAUACUGCUUAAGUGGAGCCAUCCACUUGGCAUCCGCGUCCGAA
((((....)))).................((.(((((.(((..((((....))))((((.(((((((....))))))))))))))))))).)). ( -30.30)
>DroSim_CAF1 3538 94 - 1
GGUGAAUUCACCAUGCUCCACUUUGUUCUUCAGAUGCUGGGCCGUAUAACCAUACUGCUUGAGUGGAGCCAUCCACUUGGCAUCCGCGUCCGGA
((((....))))....(((....((.....))(((((.(((((((((....)))).....(((((((....)))))))))).)).))))).))) ( -29.90)
>DroYak_CAF1 3528 94 - 1
GGUGAAUUCACCGUGCUCCACUUUGUUCUUCAGAUGCUGCGGCGUAUAUCCAUACUGCUUGAGUGGGGCCAUCCACUUGGCAUCCGCGUCCGGA
((((....))))....(((..((((.....))))....((((.((((....))))((((.(((((((....))))))))))).))))....))) ( -27.60)
>DroPer_CAF1 4052 91 - 1
GGUAAAGUCGCCGUGCUCCACUCUGUUUUUCAGCUGGCUGGCACUCCAUCCGUACUGUUUGAGCGGAGCCAUCCAUUUGGCAUCUGCCUC---A
(((......)))((((((((..(((.....))).)))..)))))...............((((((((((((......)))).)))).)))---) ( -27.50)
>consensus
GGUGAAUUCACCAUGCUCCACUUUGUUCUUCAGAUGCUGGGCCGUAUAUCCAUACUGCUUGAGUGGAGCCAUCCACUUGGCAUCCGCGUCCG_A
((((....))))..(((((((((.((.......((((......))))......)).....)))))))((((......))))....))....... (-20.20 = -20.29 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:11 2006