Locus 981

Sequence ID 3R_DroMel_CAF1
Location 3,162,617 – 3,162,771
Length 154
Max. P 0.996056
window1581 window1582

overview

Window 1

Location 3,162,617 – 3,162,735
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.12
Mean single sequence MFE -25.66
Consensus MFE -24.22
Energy contribution -24.10
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -1.10
Structure conservation index 0.94
SVM decision value 0.17
SVM RNA-class probability 0.616025
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3162617 118 - 27905053
GGCUGCCGGUAAUGGAGACCAGCCCGAAAGUACAUGCACCAGUAAGAGUAUUUUUCAGACGAAAAUAUUUUUGCAUAAAUUACAAUAACAGUGGCAGAACAAGAGG--AACAACAAUGAA
..((((((((...(....)..(..(....)..)....))).((((((((((((((.....))))))))))))))..................))))).........--............ ( -25.90)
>DroSec_CAF1 10503 118 - 1
GGCUGCCGGUAAUGGAGACUAGCCCGAAAGUACAUGCACCAGUAAGAGUAUUUUUCAGACGAAAAUAUUUUUGCAUAAAUUACAAUAACAGUGGCAGAACAAGAGG--AACAACAAUGAA
..((((((((.(((...(((........))).)))..))).((((((((((((((.....))))))))))))))..................))))).........--............ ( -27.00)
>DroSim_CAF1 12672 118 - 1
GGCUGCCGGUAAUGGAGACCAGCCCGAAAGUACAUGCACCAGUAAGAGUAUUUUUCAGACGAAAAUAUUUUUGCAUAAAUUACAAUAACAGUGGCAGAACACGAGG--AACAACAAUGAA
..((((((((...(....)..(..(....)..)....))).((((((((((((((.....))))))))))))))..................))))).........--............ ( -25.90)
>DroEre_CAF1 2190 119 - 1
GGCUGCCGGUAAUGGAGACCA-CCGGAAAGUACAUGCACCAGUGAGAGUAUUUUUCAGACGAAGAUAUUUUUGCAUAAAUUACUAUAGCAGUGGCAGAACAAGAGGCAAACAACAAUGAA
.(((.(((((...(....).)-))))...((...(((....(..(((((((((((.....)))))))))))..)......((((.....)))))))..))....)))............. ( -27.30)
>DroYak_CAF1 11933 117 - 1
GGCUGCCGGUAAUGGAGACCGGCCCGAAAGUACAUGCACCAGUAAGAGUAUUUUUCAGACGAAAAUAUU-UUGCAUAAAUUACAAUAACAGUGGCAGAAGACGGGG--AACAACAAUGAA
((..((((((.......))))))))....((...(((....((((((....(((((....)))))..))-))))......(((.......))))))....))....--............ ( -22.20)
>consensus
GGCUGCCGGUAAUGGAGACCAGCCCGAAAGUACAUGCACCAGUAAGAGUAUUUUUCAGACGAAAAUAUUUUUGCAUAAAUUACAAUAACAGUGGCAGAACAAGAGG__AACAACAAUGAA
..((((((((.(((...((..........)).)))..))).((((((((((((((.....))))))))))))))..................)))))....................... (-24.22 = -24.10 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,162,655 – 3,162,771
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.13
Mean single sequence MFE -36.06
Consensus MFE -32.90
Energy contribution -32.58
Covariance contribution -0.32
Combinations/Pair 1.11
Mean z-score -1.90
Structure conservation index 0.91
SVM decision value 2.65
SVM RNA-class probability 0.996056
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3162655 116 - 27905053
GGCGGUC----GCAUCUCCGACAUCUGGAGAAGAAGCCAAGGCUGCCGGUAAUGGAGACCAGCCCGAAAGUACAUGCACCAGUAAGAGUAUUUUUCAGACGAAAAUAUUUUUGCAUAAAU
...(((.----(((((((((....((((......(((....))).))))...))))))...(..(....)..).)))))).((((((((((((((.....))))))))))))))...... ( -35.30)
>DroSec_CAF1 10541 116 - 1
GGCGGUC----GCAUCUCUGACAUCUGGAGAAGGAGCCAAGGCUGCCGGUAAUGGAGACUAGCCCGAAAGUACAUGCACCAGUAAGAGUAUUUUUCAGACGAAAAUAUUUUUGCAUAAAU
(((((((----...(((((.......))))).(....)..)))))))(((.(((...(((........))).)))..))).((((((((((((((.....))))))))))))))...... ( -34.50)
>DroSim_CAF1 12710 116 - 1
GGCGGUC----GCAUCUCUGACAUCUGGAGAAGGAGCCAAGGCUGCCGGUAAUGGAGACCAGCCCGAAAGUACAUGCACCAGUAAGAGUAUUUUUCAGACGAAAAUAUUUUUGCAUAAAU
(((((((----...(((((.......))))).(((((....))).)).........)))).)))(....)...........((((((((((((((.....))))))))))))))...... ( -33.90)
>DroEre_CAF1 2230 115 - 1
GGCGGCC----UCAUCUCCGCCAUCUGGAGAAGCAGCCAAGGCUGCCGGUAAUGGAGACCA-CCGGAAAGUACAUGCACCAGUGAGAGUAUUUUUCAGACGAAGAUAUUUUUGCAUAAAU
(((((..----......))))).(((((....(((((....))))).(((.......))).-)))))..............(..(((((((((((.....)))))))))))..)...... ( -38.00)
>DroYak_CAF1 11971 119 - 1
GGCGGUCGCUCGCAUCUCCGACAUCUGGAGAAGGAGCCAAGGCUGCCGGUAAUGGAGACCGGCCCGAAAGUACAUGCACCAGUAAGAGUAUUUUUCAGACGAAAAUAUU-UUGCAUAAAU
(((((((((((.(.((((((.....)))))).)))))...)))))))(((...(....)..)))(....)...(((((.......((((((((((.....)))))))))-)))))).... ( -38.61)
>consensus
GGCGGUC____GCAUCUCCGACAUCUGGAGAAGGAGCCAAGGCUGCCGGUAAUGGAGACCAGCCCGAAAGUACAUGCACCAGUAAGAGUAUUUUUCAGACGAAAAUAUUUUUGCAUAAAU
(((((((....((.((((((.....))))))....))...)))))))(((.(((...((..........)).)))..))).((((((((((((((.....))))))))))))))...... (-32.90 = -32.58 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:24 2006