Locus 7880

Sequence ID X_DroMel_CAF1
Location 19,627,884 – 19,628,001
Length 117
Max. P 0.999991
window12928 window12929

overview

Window 8

Location 19,627,884 – 19,628,001
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 62.65
Mean single sequence MFE -34.97
Consensus MFE -18.45
Energy contribution -16.80
Covariance contribution -1.65
Combinations/Pair 1.40
Mean z-score -3.19
Structure conservation index 0.53
SVM decision value 5.64
SVM RNA-class probability 0.999991
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19627884 117 + 22224390
ACUGU-GUGUACACAUGGGCUUACACACAAAUAUACAUACAUAACAUACAUAUGUAUGUAUGUAUGCAAAUGGCGAGGGUUGUCGCAAUAGUUGUGAUCUGAGUCAUUAAAUAGUUUU--
..(((-(((((..(....)..))))))))..((((((((((((.(((....)))))))))))))))..((((((..((((..(.((....)).)..))))..))))))..........-- ( -35.20)
>DroPse_CAF1 39193 96 + 1
ACUGUUGUG---------------GCACGAGUACAUA----U-GCGUGUGUCUACAUGUGUACGUGCCGAGAGCCAGGGCUGCCACAAGAGUUGUGG----GAAAACUAAAUGUUUUAGG
(((.(((((---------------((.((.((((.((----(-((((((....))))))))).))))))..(((....)))))))))).))).....----.(((((.....)))))... ( -35.40)
>DroPer_CAF1 39969 100 + 1
ACUGUUGUG---------------GCACGAGUACAUAUGUAU-GCGUGUGUCUACAUGUGUAUGUGCCGAGAGCCAGGGCUGCCACAAGAGUUGUGG----GAAAACUAAAUGCUUUAGG
(((.(((((---------------((.((.((((((((....-((((((....))))))))))))))))..(((....)))))))))).))).....----.....((((.....)))). ( -34.30)
>consensus
ACUGUUGUG_______________GCACGAGUACAUAU__AU_GCGUGUGUCUACAUGUGUAUGUGCCGAGAGCCAGGGCUGCCACAAGAGUUGUGG____GAAAACUAAAUGCUUUAGG
(((.(((((.....................((((((((.....((((((....))))))))))))))....(((....)))..))))).)))............................ (-18.45 = -16.80 +  -1.65)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 9

Location 19,627,884 – 19,628,001
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 62.65
Mean single sequence MFE -27.20
Consensus MFE -8.62
Energy contribution -8.97
Covariance contribution 0.35
Combinations/Pair 1.37
Mean z-score -3.24
Structure conservation index 0.32
SVM decision value 0.55
SVM RNA-class probability 0.777158
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19627884 117 - 22224390
--AAAACUAUUUAAUGACUCAGAUCACAACUAUUGCGACAACCCUCGCCAUUUGCAUACAUACAUACAUAUGUAUGUUAUGUAUGUAUAUUUGUGUGUAAGCCCAUGUGUACAC-ACAGU
--................................((((......))))....(((((((((((((((....))))).))))))))))...(((((((((.((....)).)))))-)))). ( -31.20)
>DroPse_CAF1 39193 96 - 1
CCUAAAACAUUUAGUUUUC----CCACAACUCUUGUGGCAGCCCUGGCUCUCGGCACGUACACAUGUAGACACACGC-A----UAUGUACUCGUGC---------------CACAACAGU
...(((((.....))))).----.....(((.(((((((((((.........)))..(((((.((((........))-)----).)))))...)))---------------))))).))) ( -26.10)
>DroPer_CAF1 39969 100 - 1
CCUAAAGCAUUUAGUUUUC----CCACAACUCUUGUGGCAGCCCUGGCUCUCGGCACAUACACAUGUAGACACACGC-AUACAUAUGUACUCGUGC---------------CACAACAGU
...(((((.....))))).----.....(((.(((((((((((.........)))...((((.(((((..(....).-.))))).))))....)))---------------))))).))) ( -24.30)
>consensus
CCUAAAACAUUUAGUUUUC____CCACAACUCUUGUGGCAGCCCUGGCUCUCGGCACAUACACAUGUAGACACACGC_AU__AUAUGUACUCGUGC_______________CACAACAGU
.......................(((((.....)))))...............(((((((((.(((((...........))))).))))..)))))........................ ( -8.62 =  -8.97 +   0.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:51 2006