Locus 8122

Sequence ID 3R_DroMel_CAF1
Location 21,823,073 – 21,823,201
Length 128
Max. P 0.983618
window13063 window13064

overview

Window 3

Location 21,823,073 – 21,823,187
Length 114
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 87.07
Mean single sequence MFE -34.44
Consensus MFE -31.02
Energy contribution -31.42
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.04
Structure conservation index 0.90
SVM decision value 1.95
SVM RNA-class probability 0.983618
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21823073 114 - 27905053
GCAAGAUUCCCUCGGCGUUGCACGUGUGCAACAUCAAAAAAAUUGGAUCGGGCGGAAGCCGCUGAGGCUCUCUUCUUGCACUGAAAACA--AUCCAUAUGUGGCAGAGAACAAUUU
((((((...(((((((((((((....))))))..................(((....))))))))))......)))))).(((...(((--.......)))..))).......... ( -41.10)
>DroSec_CAF1 93544 98 - 1
GCAAGAUUCCCUCGGCGCUGCACGUGUGCAACAUCAAAAAAAUUGGAUCGGGCGGAAGCCGCUGAGGCUCUCUUCUUGCACUGAAAACA--AUCUAUAUG----------------
((((((...((((((((.((((....)))).)..................(((....))))))))))......))))))..........--.........---------------- ( -33.20)
>DroSim_CAF1 96049 105 - 1
GCAAGAUUCCCUCGGCGCUGCACGUGUGCAACAUCAAAAAAAUUGGAUCGGGCGGAAGCCGCUGAGGCUCUCUUCUUGCACUGAAAACA--AUCUAUAUGUUGCAGA---------
((((((...((((((((.((((....)))).)..................(((....))))))))))......)))))).(((..((((--.......)))).))).--------- ( -36.10)
>DroEre_CAF1 99841 115 - 1
GCAAGAUUCCCUCGGCGCUGCACGUGUGCAACAUCAAAAAAAUUGGAUCGGGCGGAAGCCGCUGAGCCUCUCUUCUUGCACUGAAAACAAAAUCUAUACGCUGUAGCAAACAAG-C
((((((....(((((((.((((....)))).)..................(((....))))))))).......))))))....................((....)).......-. ( -31.20)
>DroYak_CAF1 90932 113 - 1
GCAAGAUUCCCUCGGCGCUGCACGUGUGCAACUUCAAA-AAAUUGGAUCGGGCGGAAGCCGCUGAGACUCUCUUCUUGCACUGAAAACA--AUCUCUAUGCUAUAGAAAACAGGGC
((((((....((((((..((((....))))..(((((.-...)))))...(((....))))))))).......))))))..........--...(((((...)))))......... ( -30.60)
>consensus
GCAAGAUUCCCUCGGCGCUGCACGUGUGCAACAUCAAAAAAAUUGGAUCGGGCGGAAGCCGCUGAGGCUCUCUUCUUGCACUGAAAACA__AUCUAUAUGCUGCAGA_AACA____
((((((...((((((((.((((....)))).)..................(((....))))))))))......))))))..................................... (-31.02 = -31.42 +   0.40)

alignment

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secondary structure

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dotplot

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Window 4

Location 21,823,108 – 21,823,201
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 97.96
Mean single sequence MFE -30.90
Consensus MFE -29.32
Energy contribution -29.72
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.24
Structure conservation index 0.95
SVM decision value 0.31
SVM RNA-class probability 0.683148
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21823108 93 - 27905053
ACUCUCUGCUUGUGGCAAGAUUCCCUCGGCGUUGCACGUGUGCAACAUCAAAAAAAUUGGAUCGGGCGGAAGCCGCUGAGGCUCUCUUCUUGC
..............((((((...(((((((((((((....))))))..................(((....))))))))))......)))))) ( -35.70)
>DroSec_CAF1 93563 93 - 1
ACUCUCUGCUUGUGGCAAGAUUCCCUCGGCGCUGCACGUGUGCAACAUCAAAAAAAUUGGAUCGGGCGGAAGCCGCUGAGGCUCUCUUCUUGC
..............((((((...((((((((.((((....)))).)..................(((....))))))))))......)))))) ( -31.50)
>DroSim_CAF1 96075 93 - 1
ACUCUCUGCUUGUGGCAAGAUUCCCUCGGCGCUGCACGUGUGCAACAUCAAAAAAAUUGGAUCGGGCGGAAGCCGCUGAGGCUCUCUUCUUGC
..............((((((...((((((((.((((....)))).)..................(((....))))))))))......)))))) ( -31.50)
>DroEre_CAF1 99877 93 - 1
ACUCUCUGCUUGUGGCAAGAUUCCCUCGGCGCUGCACGUGUGCAACAUCAAAAAAAUUGGAUCGGGCGGAAGCCGCUGAGCCUCUCUUCUUGC
..............((((((....(((((((.((((....)))).)..................(((....))))))))).......)))))) ( -28.00)
>DroYak_CAF1 90967 92 - 1
ACUCUCUGCUUGUGGCAAGAUUCCCUCGGCGCUGCACGUGUGCAACUUCAAA-AAAUUGGAUCGGGCGGAAGCCGCUGAGACUCUCUUCUUGC
..............((((((....((((((..((((....))))..(((((.-...)))))...(((....))))))))).......)))))) ( -27.80)
>consensus
ACUCUCUGCUUGUGGCAAGAUUCCCUCGGCGCUGCACGUGUGCAACAUCAAAAAAAUUGGAUCGGGCGGAAGCCGCUGAGGCUCUCUUCUUGC
..............((((((...((((((((.((((....)))).)..................(((....))))))))))......)))))) (-29.32 = -29.72 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:02 2006