Locus 185

Sequence ID 3R_DroMel_CAF1
Location 844,630 – 844,750
Length 120
Max. P 0.958029
window309 window310

overview

Window 9

Location 844,630 – 844,750
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.92
Mean single sequence MFE -36.00
Consensus MFE -29.98
Energy contribution -30.22
Covariance contribution 0.25
Combinations/Pair 1.06
Mean z-score -2.77
Structure conservation index 0.83
SVM decision value 1.48
SVM RNA-class probability 0.958029
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 844630 120 + 27905053
UCUAUAAUUUAAGCAGAAAACAAGCGACAGAUACAUGCAGCAGCGCAACUGCAACUGUAACUGCGACUGCGACUGCAGGCAAAUCUCUUGCAGUUUCUUUCCUUUGCCGCUGUUGCGAAA
.......................(((((((......(((((((((((..(((....)))..)))).))))(((((((((.......))))))))).........)))..))))))).... ( -37.20)
>DroSec_CAF1 20394 120 + 1
UCUAUAAUUUAAGCAGAAAACAAGCGACAGAUACAUGCAGCAGCGCAACUGCAACUGCAACUGCGACUGCGGCUGCAGGCAAAUCUCUUGCAGUUUCUUUCCUUCGCCGCUGUUGCGAAA
.......................(((((((......((.((((((((..(((....)))..)))).))))(((((((((.......)))))))))..........))..))))))).... ( -38.10)
>DroSim_CAF1 19621 120 + 1
UCUAUAAUUUAAGCAGAAAACAAGCGACAGAUACAUGCAGCAGCGCAACUGCAACUGCAACUGCGACUGCGGCUGCAGGCAAAUCUCUUGCAGUUUCUUUCCUUCGCCGCUGUUGCGAAA
.......................(((((((......((.((((((((..(((....)))..)))).))))(((((((((.......)))))))))..........))..))))))).... ( -38.10)
>DroEre_CAF1 21516 108 + 1
UCUAUAAUUUAAGCAGAAAACAAGCGACAGAUACAUGCAGCAGCGCAACUGCAACUGCAAC------------UGCAGGCAAAUCUCUUGCAGUUUCUUUCCUUUGCUGCAGUUGCGAAA
.......................((..((......))..))..((((((((((...(((((------------((((((.......))))))))..........)))))))))))))... ( -30.60)
>consensus
UCUAUAAUUUAAGCAGAAAACAAGCGACAGAUACAUGCAGCAGCGCAACUGCAACUGCAACUGCGACUGCGGCUGCAGGCAAAUCUCUUGCAGUUUCUUUCCUUCGCCGCUGUUGCGAAA
..............(((((....((((.((((...(((.((((.....))))..(((((.((((....)))).)))))))).)))).))))..)))))....(((((.......))))). (-29.98 = -30.22 +   0.25)

alignment

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secondary structure

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dotplot

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Window 0

Location 844,630 – 844,750
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.92
Mean single sequence MFE -37.10
Consensus MFE -29.42
Energy contribution -30.43
Covariance contribution 1.00
Combinations/Pair 1.03
Mean z-score -1.71
Structure conservation index 0.79
SVM decision value 0.10
SVM RNA-class probability 0.582034
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 844630 120 - 27905053
UUUCGCAACAGCGGCAAAGGAAAGAAACUGCAAGAGAUUUGCCUGCAGUCGCAGUCGCAGUUACAGUUGCAGUUGCGCUGCUGCAUGUAUCUGUCGCUUGUUUUCUGCUUAAAUUAUAGA
..((((....))))..(((...(((((..(((((.(((.(((.(((((((((((..((((......))))..)))))..)))))).)))...))).)))))))))).))).......... ( -36.80)
>DroSec_CAF1 20394 120 - 1
UUUCGCAACAGCGGCGAAGGAAAGAAACUGCAAGAGAUUUGCCUGCAGCCGCAGUCGCAGUUGCAGUUGCAGUUGCGCUGCUGCAUGUAUCUGUCGCUUGUUUUCUGCUUAAAUUAUAGA
((((((.......))))))...(((((..(((((.(((.(((.((((((...((.((((..(((....)))..)))))))))))).)))...))).)))))))))).............. ( -40.50)
>DroSim_CAF1 19621 120 - 1
UUUCGCAACAGCGGCGAAGGAAAGAAACUGCAAGAGAUUUGCCUGCAGCCGCAGUCGCAGUUGCAGUUGCAGUUGCGCUGCUGCAUGUAUCUGUCGCUUGUUUUCUGCUUAAAUUAUAGA
((((((.......))))))...(((((..(((((.(((.(((.((((((...((.((((..(((....)))..)))))))))))).)))...))).)))))))))).............. ( -40.50)
>DroEre_CAF1 21516 108 - 1
UUUCGCAACUGCAGCAAAGGAAAGAAACUGCAAGAGAUUUGCCUGCA------------GUUGCAGUUGCAGUUGCGCUGCUGCAUGUAUCUGUCGCUUGUUUUCUGCUUAAAUUAUAGA
....((((((((((((((...................)))).)))))------------)))))....((((..(((..((.(((......))).)).)))...))))............ ( -30.61)
>consensus
UUUCGCAACAGCGGCAAAGGAAAGAAACUGCAAGAGAUUUGCCUGCAGCCGCAGUCGCAGUUGCAGUUGCAGUUGCGCUGCUGCAUGUAUCUGUCGCUUGUUUUCUGCUUAAAUUAUAGA
..((((....))))..(((...(((((..(((((.(((.((((((((((.((....)).))))))).((((((......)))))).)))...))).)))))))))).))).......... (-29.42 = -30.43 +   1.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:34 2006