Locus 889

Sequence ID 2R_DroMel_CAF1
Location 4,039,860 – 4,040,012
Length 152
Max. P 0.999951
window1550 window1551

overview

Window 0

Location 4,039,860 – 4,039,976
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.88
Mean single sequence MFE -16.78
Consensus MFE -15.63
Energy contribution -15.47
Covariance contribution -0.16
Combinations/Pair 1.06
Mean z-score -1.20
Structure conservation index 0.93
SVM decision value 0.48
SVM RNA-class probability 0.752362
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4039860 116 - 20766785
CCAUUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUCCAUAUACACGCACCGCCAAAAAACACAAAAUCAAUAAACAAACAAGCAAACAGCCGCCCU----GUCAAC
.........(((((((((((((..........((.......))........))))))))((..................................)).....)))))...----...... ( -15.75)
>DroSec_CAF1 22492 116 - 1
CCAUUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUCCAUAUACACGCACCGCCAAAAAACACAAAAUCAAUAAACAAACAAACAAACAGCCGCCUU----GUCAAC
.....(((.(((((((((((((..........((.......))........))))))))((...))....................................))))).))----)..... ( -15.77)
>DroSim_CAF1 24633 116 - 1
CCAUUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUCCAUAUACACGCACCGCCAAAAAACACAAAAUCAAUAAACAAACAAACAAACAGCCGCCCU----GUCAAC
.........(((((((((((((..........((.......))........))))))))((...))....................................)))))...----...... ( -15.47)
>DroEre_CAF1 21982 112 - 1
CCACUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUGCAUGUACACGCACCGCCAAAAAACACAAAAUCAAUAAACAAAC----AAACAGCCGCCCU----GUCAAC
.(((.....)))((((((((........((......)).((((......))))))))))))................................----..((((.....))----)).... ( -18.30)
>DroYak_CAF1 25582 116 - 1
CCAUUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUGCAUAUACACGCACCGCCAAAAAACACAAAAUCAAUAAACAAAC----AAACAGCCGCCCUGUCUGUCAAC
.(((.....)))((((((((((((....((..((.......))...)))).))))))))))..............................((----(.((((.....)))).))).... ( -18.60)
>consensus
CCAUUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUCCAUAUACACGCACCGCCAAAAAACACAAAAUCAAUAAACAAACAA_CAAACAGCCGCCCU____GUCAAC
.........(((((((((((((..........((.......))........))))))))((...))....................................)))))............. (-15.63 = -15.47 +  -0.16) 

alignment

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secondary structure

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dotplot

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Window 1

Location 4,039,896 – 4,040,012
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.45
Mean single sequence MFE -28.46
Consensus MFE -27.57
Energy contribution -27.61
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -3.12
Structure conservation index 0.97
SVM decision value 4.80
SVM RNA-class probability 0.999951
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4039896 116 - 20766785
CUCGGCAUACG----UACGUGAGUGACAACAUUAAAUAAUCCAUUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUCCAUAUACACGCACCGCCAAAAAACACAAAA
...(((....(----(((....)).)).(((((((((.....))))))))).((((((((((..........((.......))........))))))))))...)))............. ( -28.37)
>DroSec_CAF1 22528 116 - 1
CUCGGCAUACG----UACGUGAGUGACAACAUUAAAUAAUCCAUUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUCCAUAUACACGCACCGCCAAAAAACACAAAA
...(((....(----(((....)).)).(((((((((.....))))))))).((((((((((..........((.......))........))))))))))...)))............. ( -28.37)
>DroSim_CAF1 24669 116 - 1
CUCGGCAUACG----UACGUGAGUGACAACAUUAAAUAAUCCAUUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUCCAUAUACACGCACCGCCAAAAAACACAAAA
...(((....(----(((....)).)).(((((((((.....))))))))).((((((((((..........((.......))........))))))))))...)))............. ( -28.37)
>DroEre_CAF1 22014 120 - 1
CUCGGCAUACGUAUGUACGUGAGUGACAACAUUAAAUAAUCCACUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUGCAUGUACACGCACCGCCAAAAAACACAAAA
...(((....(..((((((((...((..(((((((.........)))))))((((((.(((.(((.....))).))))).))))..))..))))))))..)...)))............. ( -28.00)
>DroYak_CAF1 25618 116 - 1
CUCGGCAUACG----UACGUGAGUGACAACAUUAAAUAAUCCAUUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUGCAUAUACACGCACCGCCAAAAAACACAAAA
...(((....(----(((....)).)).(((((((((.....))))))))).((((((((((((....((..((.......))...)))).))))))))))...)))............. ( -29.20)
>consensus
CUCGGCAUACG____UACGUGAGUGACAACAUUAAAUAAUCCAUUUAAUGUGGCGUGUAUAUCAUUUCGAAUGCUAUCAGUGCCAAUCUCCAUAUACACGCACCGCCAAAAAACACAAAA
...(((.........(((....)))...(((((((((.....))))))))).((((((((((..........((.......))........))))))))))...)))............. (-27.57 = -27.61 +   0.04) 

alignment

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secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:10 2006