Locus 4264

Sequence ID 3R_DroMel_CAF1
Location 11,396,693 – 11,396,813
Length 120
Max. P 0.959295
window6919 window6920

overview

Window 9

Location 11,396,693 – 11,396,813
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.83
Mean single sequence MFE -29.66
Consensus MFE -22.48
Energy contribution -25.02
Covariance contribution 2.54
Combinations/Pair 1.03
Mean z-score -2.63
Structure conservation index 0.76
SVM decision value 1.50
SVM RNA-class probability 0.959295
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11396693 120 + 27905053
UUUUUAAAGCCCGUGCAAACAGUUUGGGGCAACGAAAUGUAAACCUAUUGCACUAACAAUUAAACACUGCCCCAAAGCAGCCAGCAGCAUUUCAAACGAAAGUGAUUUCGUUGAAAACCA
............((((......(((((((((......(((((.....))))).((.....)).....)))))))))((.....)).))))(((((.(((((....))))))))))..... ( -27.60)
>DroSec_CAF1 144411 120 + 1
UUUUUAAAGUCUGUGCACACAGUUCGGGGCAACGAAAUGUAAACCUAUUGCACUGCCAAUUAAACACUGCCCCAAAGCUGCCAGCAGCAUUUCAAACGAAAGUGAUUUCGUUGAAAACCA
..........((((....))))...((((((......(((((.....))))).((.........)).))))))...((((....)))).((((((.(((((....))))))))))).... ( -30.40)
>DroSim_CAF1 135488 120 + 1
UUUUUAAAGCCUGUGCACACAGUUCGGGGCAACGAAAUGUAAACCUAUUGCACUACCAAUUAAACACUGCCCCAAAGCUGCCAGCAGCAUUUCAAACGAAAGUGAUUUCGUUGAAAACCA
..........((((....))))...((((((......(((((.....))))).((.....)).....))))))...((((....)))).((((((.(((((....))))))))))).... ( -30.00)
>DroEre_CAF1 132632 105 + 1
--------------GCA-ACAGCUUGGGGCAACGAAAUGUAAGCCUAUUGCACUUCCAUUUAAACACUGCCCCAAAGCCGCCAGCAGCAUUUCAAACGAAAGUGAUUUCGUUGAAAACCA
--------------((.-.(.((((((((((...(((((.(((.........))).)))))......)))))).)))).)...))....((((((.(((((....))))))))))).... ( -29.70)
>DroYak_CAF1 135372 119 + 1
UUUUUAAAGCCUGUGCACACAGUUUGGGGCAACGAAAUGUAAACCUAUUGCACUUCCAAUUAAACACUGCC-CAAAGCUGCCAGCAGCAUUUCAAACGAAAGUGAUUUCGUUGAAAACCA
........((.(((.....((((((.(((((..(((.(((((.....))))).)))...........))))-).))))))...))))).((((((.(((((....))))))))))).... ( -30.62)
>consensus
UUUUUAAAGCCUGUGCACACAGUUUGGGGCAACGAAAUGUAAACCUAUUGCACUACCAAUUAAACACUGCCCCAAAGCUGCCAGCAGCAUUUCAAACGAAAGUGAUUUCGUUGAAAACCA
.............(((...((((((((((((......(((((.....)))))...............)))))).))))))...)))...((((((.(((((....))))))))))).... (-22.48 = -25.02 +   2.54)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,396,693 – 11,396,813
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.83
Mean single sequence MFE -33.98
Consensus MFE -29.76
Energy contribution -29.48
Covariance contribution -0.28
Combinations/Pair 1.11
Mean z-score -1.67
Structure conservation index 0.88
SVM decision value 1.38
SVM RNA-class probability 0.947827
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11396693 120 - 27905053
UGGUUUUCAACGAAAUCACUUUCGUUUGAAAUGCUGCUGGCUGCUUUGGGGCAGUGUUUAAUUGUUAGUGCAAUAGGUUUACAUUUCGUUGCCCCAAACUGUUUGCACGGGCUUUAAAAA
.((((((((((((((....))))).)))))).)))(((.(.((((((((((((((((...(((((....)))))......)))).....)))))))))......)))).)))........ ( -32.60)
>DroSec_CAF1 144411 120 - 1
UGGUUUUCAACGAAAUCACUUUCGUUUGAAAUGCUGCUGGCAGCUUUGGGGCAGUGUUUAAUUGGCAGUGCAAUAGGUUUACAUUUCGUUGCCCCGAACUGUGUGCACAGACUUUAAAAA
.((((((((((((((....))))).)))))).)))((..((((.(((((((((((((..((((.((...))....)))).)))).....)))))))))))))..)).............. ( -33.10)
>DroSim_CAF1 135488 120 - 1
UGGUUUUCAACGAAAUCACUUUCGUUUGAAAUGCUGCUGGCAGCUUUGGGGCAGUGUUUAAUUGGUAGUGCAAUAGGUUUACAUUUCGUUGCCCCGAACUGUGUGCACAGGCUUUAAAAA
..(((((.(((((((....))))))).)))))(((((..((((.((((((((((((........((((.((.....))))))....))))))))))))))))..))...)))........ ( -33.70)
>DroEre_CAF1 132632 105 - 1
UGGUUUUCAACGAAAUCACUUUCGUUUGAAAUGCUGCUGGCGGCUUUGGGGCAGUGUUUAAAUGGAAGUGCAAUAGGCUUACAUUUCGUUGCCCCAAGCUGU-UGC--------------
.((((((((((((((....))))).)))))).)))((.((((((((.(((((((((...(((((.((((.......)))).)))))))))))))))))))))-)))-------------- ( -37.10)
>DroYak_CAF1 135372 119 - 1
UGGUUUUCAACGAAAUCACUUUCGUUUGAAAUGCUGCUGGCAGCUUUG-GGCAGUGUUUAAUUGGAAGUGCAAUAGGUUUACAUUUCGUUGCCCCAAACUGUGUGCACAGGCUUUAAAAA
(((....(((((((((((((((((....((((((((((.(......).-))))))))))...)))))))).....(.....))))))))))..)))..((((....)))).......... ( -33.40)
>consensus
UGGUUUUCAACGAAAUCACUUUCGUUUGAAAUGCUGCUGGCAGCUUUGGGGCAGUGUUUAAUUGGAAGUGCAAUAGGUUUACAUUUCGUUGCCCCAAACUGUGUGCACAGGCUUUAAAAA
.((((((((((((((....))))).)))))).)))((..((((.((((((((((((......((.....((.....))...))...))))))))))))))))..)).............. (-29.76 = -29.48 +  -0.28)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:53 2006