Locus 748

Sequence ID X_DroMel_CAF1
Location 2,046,744 – 2,046,838
Length 94
Max. P 0.986973
window1212 window1213

overview

Window 2

Location 2,046,744 – 2,046,838
Length 94
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 74.92
Mean single sequence MFE -30.92
Consensus MFE -21.68
Energy contribution -23.04
Covariance contribution 1.36
Combinations/Pair 1.14
Mean z-score -1.81
Structure conservation index 0.70
SVM decision value 1.46
SVM RNA-class probability 0.955656
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2046744 94 + 22224390
UUAAAUAGCAGGCGCUGGCAGAGCAAACGACCCG----UACGGACAGCAUGAGUCCCAGGGCUUUUGGGUCGUCCUGUCCACACCCCCCACCCCCCCG
.......(((((.(((.....)))..((((((((----(....)).....(((((....)))))..)))))))))))).................... ( -24.90)
>DroSec_CAF1 13418 89 + 1
UUAAAUAGCAGGCGCUGGCAGGGCAAACGACCCG----CCCGGACAGCAUGAGUCCCCGGGCUUUUGGGUCGUCCUGC----ACA-CCCCACCCCCCA
..........((.(.(((((((....((((((((----(((((...((....))..))))))....))))))))))))----.))-.)))........ ( -35.30)
>DroSim_CAF1 11104 89 + 1
UUAAAUAGCAGGCGCUGGCAGAGCAAACGACCCG----CCCGGACAGCAUGAGUCCCCGGGCUUUUGGGUCGUCCUGC----AGC-CCCACCCCCCCA
..........((.((((.(((.(...((((((((----(((((...((....))..))))))....))))))))))))----)))-.))......... ( -35.20)
>DroEre_CAF1 13436 72 + 1
UUAAAUAGAAGGCGCUGGCAGAGCAAACGACCCG----CCCGGACACUAA--AUGUCCGGGCUUUUGGGUCCUCCC--------C-A-----------
..........((.(((.....)))....((((((----((((((((....--.)))))))))....)))))....)--------)-.----------- ( -29.50)
>DroYak_CAF1 13593 80 + 1
UUAAAUAGAAGGCGCUGGCAGAGCAAACGACCCGCCCGCCCGGAUAGUAA--AUGUCCGGGCUUUUGGCUCCUCCUGC----UUC-C-----------
.....(((.(((.((((((.(..(....)..).))).(((((((((....--.)))))))))....))).))).))).----...-.----------- ( -29.70)
>consensus
UUAAAUAGCAGGCGCUGGCAGAGCAAACGACCCG____CCCGGACAGCAUGAGUCCCCGGGCUUUUGGGUCGUCCUGC____ACC_CCC__CCCCCC_
.......(((((.(((.....)))..((((((((....(((((.............)))))....))))))))))))).................... (-21.68 = -23.04 +   1.36) 

alignment

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secondary structure

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dotplot

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Window 3

Location 2,046,744 – 2,046,838
Length 94
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 74.92
Mean single sequence MFE -38.38
Consensus MFE -20.70
Energy contribution -21.90
Covariance contribution 1.20
Combinations/Pair 1.09
Mean z-score -2.33
Structure conservation index 0.54
SVM decision value 2.06
SVM RNA-class probability 0.986973
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2046744 94 - 22224390
CGGGGGGGUGGGGGGUGUGGACAGGACGACCCAAAAGCCCUGGGACUCAUGCUGUCCGUA----CGGGUCGUUUGCUCUGCCAGCGCCUGCUAUUUAA
.....((((((.((((((((.(((((((((((....((....((((.......)))))).----.))))))))....)))))).))))).)))))).. ( -36.20)
>DroSec_CAF1 13418 89 - 1
UGGGGGGUGGGG-UGU----GCAGGACGACCCAAAAGCCCGGGGACUCAUGCUGUCCGGG----CGGGUCGUUUGCCCUGCCAGCGCCUGCUAUUUAA
(((.(((((.((-((.----((((.(((((((....(((((((.((....).).))))))----)))))))))))).).)))..))))).)))..... ( -43.80)
>DroSim_CAF1 11104 89 - 1
UGGGGGGGUGGG-GCU----GCAGGACGACCCAAAAGCCCGGGGACUCAUGCUGUCCGGG----CGGGUCGUUUGCUCUGCCAGCGCCUGCUAUUUAA
..((.(((((.(-((.----((((.(((((((....(((((((.((....).).))))))----))))))))))))...)))..))))).))...... ( -45.80)
>DroEre_CAF1 13436 72 - 1
-----------U-G--------GGGAGGACCCAAAAGCCCGGACAU--UUAGUGUCCGGG----CGGGUCGUUUGCUCUGCCAGCGCCUUCUAUUUAA
-----------.-.--------((((((((((....((((((((((--...)))))))))----))))))....(((.....)))..)))))...... ( -33.20)
>DroYak_CAF1 13593 80 - 1
-----------G-GAA----GCAGGAGGAGCCAAAAGCCCGGACAU--UUACUAUCCGGGCGGGCGGGUCGUUUGCUCUGCCAGCGCCUUCUAUUUAA
-----------.-(((----..((((((.((.....(((((((...--......))))))).(((((((.....)).))))).)).)))))).))).. ( -32.90)
>consensus
_GGGGGG__GGG_GGU____GCAGGACGACCCAAAAGCCCGGGGACUCAUGCUGUCCGGG____CGGGUCGUUUGCUCUGCCAGCGCCUGCUAUUUAA
....................(((((..(((((.....((((((.(.......).)))))).....)))))(((.((...)).))).)))))....... (-20.70 = -21.90 +   1.20) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:51 2006