Locus 7847

Sequence ID 3L_DroMel_CAF1
Location 20,994,805 – 20,994,898
Length 93
Max. P 0.998627
window12775 window12776

overview

Window 5

Location 20,994,805 – 20,994,898
Length 93
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 95.19
Mean single sequence MFE -26.96
Consensus MFE -23.58
Energy contribution -23.58
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.46
Structure conservation index 0.87
SVM decision value 3.16
SVM RNA-class probability 0.998627
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20994805 93 + 23771897
C-CCGCACCUGCACUCGCCGCUGCUUUUGCUGCUCGUGCAGUGGAACACCUGUAAAACAAAGGCAGCUCUAUCUGCCACAA-AGCUGCAACUAUA
.-..((....))....((.(((..(((..((((....))))..)))...............(((((......)))))....-))).))....... ( -26.10)
>DroSec_CAF1 12408 92 + 1
C-CC-CACCUGCACUCGCUGCUGCUUUUGCUGCUCGUGCAGUGGAACACCUGUAAAACAAAGGCAGCUCUAUCUGCCACAA-AGCUGCAACUGUA
.-.(-(((.(((((..((.((.......)).))..))))))))).(((..((((.......(((((......)))))....-...))))..))). ( -28.74)
>DroSim_CAF1 19876 92 + 1
C-CC-CACCUGCACUCGCUGCUGCUUUUGCUGCUCGUGCAGUGGAACACCUGUAAAACAAAGGCAGCUCUAUCUGCCACAA-AGCUGCAACUGUA
.-.(-(((.(((((..((.((.......)).))..))))))))).(((..((((.......(((((......)))))....-...))))..))). ( -28.74)
>DroEre_CAF1 21067 94 + 1
CCCC-CACCUGCACUUGCCGAUGCUUUUGCUGCUCGUGCAGUGGAACACCUGUAAAACAAAGGCAGCUCUAUCUGCCACAAAAGCUGCAACUAUA
...(-(((.(((((..((....((....)).))..)))))))))..................((((((..............))))))....... ( -25.34)
>DroYak_CAF1 18586 93 + 1
C-CC-CACCUGCAAUCGCCGCUGCUUUUGCUGCUCGUGCAGUGGAACACCUGUAAAACAAAGGCAGCUCUAUCUGCCACAAUAGAUGCAACUCUA
.-..-....((((......((((((((((((((....)))).((....)).......))))))))))(((((........)))))))))...... ( -25.90)
>consensus
C_CC_CACCUGCACUCGCCGCUGCUUUUGCUGCUCGUGCAGUGGAACACCUGUAAAACAAAGGCAGCUCUAUCUGCCACAA_AGCUGCAACUAUA
.........((((...((.(.((.(((..((((....))))..))))).).))........(((((......)))))........))))...... (-23.58 = -23.58 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 20,994,805 – 20,994,898
Length 93
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 95.19
Mean single sequence MFE -32.20
Consensus MFE -25.70
Energy contribution -25.86
Covariance contribution 0.16
Combinations/Pair 1.04
Mean z-score -1.62
Structure conservation index 0.80
SVM decision value 0.16
SVM RNA-class probability 0.613388
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20994805 93 - 23771897
UAUAGUUGCAGCU-UUGUGGCAGAUAGAGCUGCCUUUGUUUUACAGGUGUUCCACUGCACGAGCAGCAAAAGCAGCGGCGAGUGCAGGUGCGG-G
.((((..((((((-((((.....))))))))))..))))..(((.((....)).((((((..((.((.......)).))..)))))))))...-. ( -32.30)
>DroSec_CAF1 12408 92 - 1
UACAGUUGCAGCU-UUGUGGCAGAUAGAGCUGCCUUUGUUUUACAGGUGUUCCACUGCACGAGCAGCAAAAGCAGCAGCGAGUGCAGGUG-GG-G
.((((..((((((-((((.....))))))))))..))))...........((((((((((..((.((.......)).))..))))).)))-))-. ( -35.90)
>DroSim_CAF1 19876 92 - 1
UACAGUUGCAGCU-UUGUGGCAGAUAGAGCUGCCUUUGUUUUACAGGUGUUCCACUGCACGAGCAGCAAAAGCAGCAGCGAGUGCAGGUG-GG-G
.((((..((((((-((((.....))))))))))..))))...........((((((((((..((.((.......)).))..))))).)))-))-. ( -35.90)
>DroEre_CAF1 21067 94 - 1
UAUAGUUGCAGCUUUUGUGGCAGAUAGAGCUGCCUUUGUUUUACAGGUGUUCCACUGCACGAGCAGCAAAAGCAUCGGCAAGUGCAGGUG-GGGG
.((((..((((((((..........))))))))..))))..........(((((((((((..((.((....))....))..))))).)))-))). ( -29.50)
>DroYak_CAF1 18586 93 - 1
UAGAGUUGCAUCUAUUGUGGCAGAUAGAGCUGCCUUUGUUUUACAGGUGUUCCACUGCACGAGCAGCAAAAGCAGCGGCGAUUGCAGGUG-GG-G
...((((((.((((((......))))))(((((.((((.......((....)).((((....)))))))).))))).)))))).......-..-. ( -27.40)
>consensus
UACAGUUGCAGCU_UUGUGGCAGAUAGAGCUGCCUUUGUUUUACAGGUGUUCCACUGCACGAGCAGCAAAAGCAGCGGCGAGUGCAGGUG_GG_G
....(((((.(((.(((((((((......)))))..(((((....((((...))))....))))))))).))).)))))................ (-25.70 = -25.86 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:33 2006