Locus 466

Sequence ID 2L_DroMel_CAF1
Location 1,365,250 – 1,365,390
Length 140
Max. P 0.897662
window749 window750

overview

Window 9

Location 1,365,250 – 1,365,366
Length 116
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 81.07
Mean single sequence MFE -36.23
Consensus MFE -24.08
Energy contribution -25.05
Covariance contribution 0.97
Combinations/Pair 1.08
Mean z-score -1.85
Structure conservation index 0.66
SVM decision value 0.48
SVM RNA-class probability 0.753678
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1365250 116 - 22407834
AUAACCAGGAUAACAACAAACGGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCGCGGAUAUAUCUAACCCCUCCCGGGCCCG---CGACCCUCC
.....................((((.....((.((((((((((((.........)))))...))))))))).((.(((.(((................))).))).)---)).)))... ( -39.69)
>DroPse_CAF1 172360 114 - 1
CCAACCCGCAUAACAACAAACAGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCGCGGAUAUAUCUUCCCGGUGGCCUGCCCCAUCCAAU-----
.....((((....((((.....(.....).((.((((((((((((.........)))))...))))))))).))))..))))............((.((....)))).......----- ( -37.40)
>DroEre_CAF1 140676 111 - 1
AUAACCAGGAUAACAACAAACGGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCGCGGAUAUAUCUAGCCCCGCCCCCGAACC---CGCC-----
....................((((..(((.((.((((((((((((.........)))))...))))))))).)))((((.((...........))))))))))....---....----- ( -37.60)
>DroWil_CAF1 174008 99 - 1
AUAAC--------CAACAAACAGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUG---CACUUGGCUAGGAUAUAUCCUGCUU-GCCACCGCCUU---UGCU-----
.....--------.........((((((..((..(((((((((((.........)))))...)))))---)...(((((((((....)))))...-))))..)).))---))))----- ( -32.80)
>DroAna_CAF1 148384 111 - 1
AUAACCAGGAUAACAACAAACAGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCGCGGAUAUAUCUUGCCACUCCCUCCCCUC---UAUC-----
.......(((....................((.((((((((((((.........)))))...)))))))))(((.((((.(((....))))))))))...)))....---....----- ( -31.50)
>DroPer_CAF1 181267 114 - 1
CCAACCCGCAUAACAACAAACAGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCGCGGAUAUAUCUUCCCGGUGCCCUGCCCUAUCCAAU-----
......................(((((((.((.((((((((((((.........)))))...))))))))).)))((((((((.......)))..))))).)))).........----- ( -38.40)
>consensus
AUAACCAGGAUAACAACAAACAGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCGCGGAUAUAUCUUGCCCCUCCCCCGCCCC___CAAC_____
.....................((((...(((((((((((((((((.........)))))...)))))))..)))))....(((....)))............))))............. (-24.08 = -25.05 +   0.97)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,365,287 – 1,365,390
Length 103
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 78.76
Mean single sequence MFE -35.00
Consensus MFE -23.60
Energy contribution -24.27
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.67
SVM decision value 1.00
SVM RNA-class probability 0.897662
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1365287 103 - 22407834
UUGGCUGGCUC----CUU-----GGCUG--CA-G-CCAUAACCAGGAUAACAACAAACGGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCG
...((..((((----(((-----(((((--((-(-((.......(.....)......(((((.....))))).))))))....))))))..(..((....))..))).)))..)). ( -42.30)
>DroPse_CAF1 172395 110 - 1
UUUGGUGGCCCUCCCCGC-----CGCUCCUCA-GACACCAACCCGCAUAACAACAAACAGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCG
...(((((......))))-----)........-....(((((..((.............(((.....)))((((((((((((.........)))))...))))))))).))))).. ( -36.30)
>DroWil_CAF1 174039 94 - 1
UUC----UUUU----CUUCGUUUUUUUA--CACG-CCAUAAC--------CAACAAACAGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUG---CACUUGGCU
...----....----.............--...(-(((....--------.........(((.....))).(((((((((((.........)))))...)))))---)...)))). ( -24.80)
>DroYak_CAF1 125779 94 - 1
---------UC----CUU-----GGCUG--CA-G-CCAUAACCAGGAUAACAACAAACGGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCG
---------((----(((-----(((..--..-)-))).....)))).............((.(((.((.((((((((((((.........)))))...))))))))).))).)). ( -34.60)
>DroAna_CAF1 148416 100 - 1
UUG----GUGC----CUU-----GGCUC--CA-UCCCAUAACCAGGAUAACAACAAACAGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCG
..(----(.((----...-----.)).)--)(-(((........))))............((.(((.((.((((((((((((.........)))))...))))))))).))).)). ( -35.50)
>DroPer_CAF1 181302 110 - 1
UUUGGUGGCCCUCCCCAC-----CGCUCCUCA-GACCCCAACCCGCAUAACAACAAACAGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCG
...(((((......))))-----)........-....(((((..((.............(((.....)))((((((((((((.........)))))...))))))))).))))).. ( -36.50)
>consensus
UUG____GCUC____CUU_____GGCUC__CA_G_CCAUAACCAGGAUAACAACAAACAGGCAAACAGCUCGCGGCUGCCACGAGCCAAAAGUGGCAUCAGCUGCGGCAGUUGGCG
............................................................((.(((.((.((((((((((((.........)))))...))))))))).))).)). (-23.60 = -24.27 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:51 2006