Locus 10137

Sequence ID 3R_DroMel_CAF1
Location 27,200,504 – 27,200,598
Length 94
Max. P 0.637692
window16136 window16137

overview

Window 6

Location 27,200,504 – 27,200,598
Length 94
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 78.81
Mean single sequence MFE -21.27
Consensus MFE -10.36
Energy contribution -12.08
Covariance contribution 1.72
Combinations/Pair 1.18
Mean z-score -2.10
Structure conservation index 0.49
SVM decision value 0.19
SVM RNA-class probability 0.624536
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27200504 94 + 27905053
CAUGGAACCGGGCAAUAAAGCAAAUUUAUGCAAACGAUAAAUUUCGUGCGAGAGA-AAUUGUUUGUUUUGU-GUUUUGUGUUUUGUGUUCGCCAGU
..(((...((((((.(((((((....((((((((((((...((((....))))..-.)))))))))...))-).....)))))))))))))))).. ( -23.90)
>DroVir_CAF1 20083 78 + 1
UUUGGAGCAGGGCAAUAAAGCAAAUUUAUGCAAACGAUAAAUUUCGUGAGAG--A-AAAUGUUUGUUUUGUU---------------UUCACCAGC
.((((((((((((((....(((......)))..........((((....)))--)-......))))))))))---------------....)))). ( -16.90)
>DroWil_CAF1 17795 76 + 1
------ACAGGGCAAUAAAGCAAAUUUAUGCAAACGAUAAAUUUCGUGAGAGAGCGAAAUGUUUGUUUUGUU----------U----UUCACCAGU
------...((.....((((((((.....(((((((.....((((....))))......)))))))))))))----------)----)...))... ( -17.30)
>DroYak_CAF1 14746 95 + 1
CAUGGAACCGGGCAAUAAAGCAAAUUUAUGCAAACGAUAAAUUUCGUGCGAGAGA-AAUUGUUUGCUUUGUUUGGUUUUGUUUUGGGUUCGCCAGU
....(((((.((.((((((((((((....(((((((((...((((....))))..-.)))))))))...)))).)))))))))).)))))...... ( -28.90)
>DroMoj_CAF1 17843 78 + 1
UUAGGAGCAGGGCAAUAAAGCAAAUUUAUGCAAACGAUAAAUUUCGUGAGAG--A-AAAUGUUUGUUUUGUU---------------UUCACCAGC
...((((((((((((....(((......)))..........((((....)))--)-......))))))))))---------------))....... ( -16.50)
>DroAna_CAF1 15712 84 + 1
U-CCGAGCCGGGCAAUAAAGCAAAUUUAUGCAAACGAUAAAUUUCGUGAGAGAGA-AAAUGUUUGUUUUG----------UUUUGUUUUUGCCAGU
.-........(((((..(((((((.....(((((((.....((((....))))..-...)))))))....----------.))))))))))))... ( -24.10)
>consensus
U_UGGAACAGGGCAAUAAAGCAAAUUUAUGCAAACGAUAAAUUUCGUGAGAGAGA_AAAUGUUUGUUUUGUU__________U____UUCACCAGU
......((.((((......))........(((((((.....((((....))))......))))))).........................)).)) (-10.36 = -12.08 +   1.72)

alignment

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secondary structure

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dotplot

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Window 7

Location 27,200,504 – 27,200,598
Length 94
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 78.81
Mean single sequence MFE -12.17
Consensus MFE -9.54
Energy contribution -9.15
Covariance contribution -0.39
Combinations/Pair 1.17
Mean z-score -1.04
Structure conservation index 0.78
SVM decision value 0.22
SVM RNA-class probability 0.637692
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27200504 94 - 27905053
ACUGGCGAACACAAAACACAAAAC-ACAAAACAAACAAUU-UCUCUCGCACGAAAUUUAUCGUUUGCAUAAAUUUGCUUUAUUGCCCGGUUCCAUG
((((((((................-...((((....((((-((........))))))....))))(((......)))....))).)))))...... ( -12.80)
>DroVir_CAF1 20083 78 - 1
GCUGGUGAA---------------AACAAAACAAACAUUU-U--CUCUCACGAAAUUUAUCGUUUGCAUAAAUUUGCUUUAUUGCCCUGCUCCAAA
((.((..(.---------------....((((......((-(--(......))))......))))(((......)))....)..))..))...... ( -10.90)
>DroWil_CAF1 17795 76 - 1
ACUGGUGAA----A----------AACAAAACAAACAUUUCGCUCUCUCACGAAAUUUAUCGUUUGCAUAAAUUUGCUUUAUUGCCCUGU------
...((..(.----.----------....((((....((((((........)))))).....))))(((......)))....)..))....------ ( -10.50)
>DroYak_CAF1 14746 95 - 1
ACUGGCGAACCCAAAACAAAACCAAACAAAGCAAACAAUU-UCUCUCGCACGAAAUUUAUCGUUUGCAUAAAUUUGCUUUAUUGCCCGGUUCCAUG
....(.(((((...................((((((((((-((........))))))....))))))........((......))..))))))... ( -16.60)
>DroMoj_CAF1 17843 78 - 1
GCUGGUGAA---------------AACAAAACAAACAUUU-U--CUCUCACGAAAUUUAUCGUUUGCAUAAAUUUGCUUUAUUGCCCUGCUCCUAA
((.((..(.---------------....((((......((-(--(......))))......))))(((......)))....)..))..))...... ( -10.90)
>DroAna_CAF1 15712 84 - 1
ACUGGCAAAAACAAAA----------CAAAACAAACAUUU-UCUCUCUCACGAAAUUUAUCGUUUGCAUAAAUUUGCUUUAUUGCCCGGCUCGG-A
.(.(((((........----------..............-........((((......))))..(((......)))....))))).)......-. ( -11.30)
>consensus
ACUGGCGAA____A__________AACAAAACAAACAUUU_UCUCUCUCACGAAAUUUAUCGUUUGCAUAAAUUUGCUUUAUUGCCCGGCUCCA_A
...(((((.........................................((((......))))..(((......)))....))))).......... ( -9.54 =  -9.15 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:49:42 2006