Locus 1410

Sequence ID 3R_DroMel_CAF1
Location 4,096,668 – 4,096,788
Length 120
Max. P 0.936430
window2335 window2336

overview

Window 5

Location 4,096,668 – 4,096,788
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.68
Mean single sequence MFE -26.02
Consensus MFE -22.75
Energy contribution -23.35
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.37
Structure conservation index 0.87
SVM decision value 0.55
SVM RNA-class probability 0.778310
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4096668 120 + 27905053
UUUGUGUUUUUUUGUUUGUCCAACCCUUGAAGAGAUUGAUUAUUGUUUAUAUUUGUGCCCCUGCAUCGAUGUGUACAUACAUAUAUAUCUGUAUCCAAUGUAUAGGCAUGUGAAUGCAGU
.((((((((...(((((((.((........(((..........(((.((((((.((((....)))).)))))).)))..........)))........)).)))))))...)))))))). ( -23.04)
>DroSec_CAF1 8633 114 + 1
UUUGUGUUUUUUUGUUUGUCCAACCCUUGAAGAGAUUGAUUAUUGUUUAUAUUUGUGCCCCUGCAUCGAUGUGUACAU------AUAUCUGUAUCAAAUGUAUGGGCAUGUGAAUGCAGU
.((((((((.......((((((((..(((((.((((.......(((.((((((.((((....)))).)))))).))).------..)))).).))))..)).))))))...)))))))). ( -26.00)
>DroSim_CAF1 8664 114 + 1
UUUGUGUUUUUUUGUUUGUCCAACCCUUGAAGAGAUUGAUUAUUGUUUAUAUUUGUGCCCCUGCAUCGAUGUGUACAU------AUAUCUGUAUCAAAUGUAUGGGCAUGUGAAUGCAGU
.((((((((.......((((((((..(((((.((((.......(((.((((((.((((....)))).)))))).))).------..)))).).))))..)).))))))...)))))))). ( -26.00)
>DroEre_CAF1 8662 117 + 1
UUU-UGUUUUUUUGUUUGUCCAACCCUUGAAGAGAUUGAUUAUUGUUUAUAUUUGUGCCCCUGCAUCGAUGUGUACAUA--UCUGUAUCUGUAUCAAAUGUAUGGGCAUGUGAAUGCAGU
..(-(((...((..(.((((((((..(((((.((((.(((...(((.((((((.((((....)))).)))))).))).)--))...)))).).))))..)).)))))).)..)).)))). ( -29.50)
>DroYak_CAF1 8604 118 + 1
UUUAUGUAUUUUUGUUUGUCCAACCCUUGAAGAGAUUGAUUAUUGUUUAUAUUUGUACCCCUGCAUCGAUGUGUACAUA--UAUGUAUCUGUAUCAAAUGUAUGGGCAUGUGAAUGCAGU
....(((((((.....((((((((..(((((.((((.......(((.((((((((((....))))..)))))).)))..--.....)))).).))))..)).))))))...))))))).. ( -25.54)
>consensus
UUUGUGUUUUUUUGUUUGUCCAACCCUUGAAGAGAUUGAUUAUUGUUUAUAUUUGUGCCCCUGCAUCGAUGUGUACAUA__U_UAUAUCUGUAUCAAAUGUAUGGGCAUGUGAAUGCAGU
....(((...((..(.((((((((..(((((.((((.......(((.((((((.((((....)))).)))))).))).........)))).).))))..)).)))))).)..)).))).. (-22.75 = -23.35 +   0.60)

alignment

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secondary structure

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dotplot

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Window 6

Location 4,096,668 – 4,096,788
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.68
Mean single sequence MFE -18.80
Consensus MFE -16.30
Energy contribution -16.38
Covariance contribution 0.08
Combinations/Pair 1.09
Mean z-score -1.64
Structure conservation index 0.87
SVM decision value 1.25
SVM RNA-class probability 0.936430
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4096668 120 - 27905053
ACUGCAUUCACAUGCCUAUACAUUGGAUACAGAUAUAUAUGUAUGUACACAUCGAUGCAGGGGCACAAAUAUAAACAAUAAUCAAUCUCUUCAAGGGUUGGACAAACAAAAAAACACAAA
.(((((((.((((((.((((..(((....)))...)))).)))))).......))))))).....................(((((((......)))))))................... ( -19.40)
>DroSec_CAF1 8633 114 - 1
ACUGCAUUCACAUGCCCAUACAUUUGAUACAGAUAU------AUGUACACAUCGAUGCAGGGGCACAAAUAUAAACAAUAAUCAAUCUCUUCAAGGGUUGGACAAACAAAAAAACACAAA
.(((((((....((..((((.(((((...))))).)------)))..))....))))))).....................(((((((......)))))))................... ( -19.40)
>DroSim_CAF1 8664 114 - 1
ACUGCAUUCACAUGCCCAUACAUUUGAUACAGAUAU------AUGUACACAUCGAUGCAGGGGCACAAAUAUAAACAAUAAUCAAUCUCUUCAAGGGUUGGACAAACAAAAAAACACAAA
.(((((((....((..((((.(((((...))))).)------)))..))....))))))).....................(((((((......)))))))................... ( -19.40)
>DroEre_CAF1 8662 117 - 1
ACUGCAUUCACAUGCCCAUACAUUUGAUACAGAUACAGA--UAUGUACACAUCGAUGCAGGGGCACAAAUAUAAACAAUAAUCAAUCUCUUCAAGGGUUGGACAAACAAAAAAACA-AAA
............(((((...((((.(((...(.((((..--..)))))..)))))))...)))))................(((((((......)))))))...............-... ( -18.50)
>DroYak_CAF1 8604 118 - 1
ACUGCAUUCACAUGCCCAUACAUUUGAUACAGAUACAUA--UAUGUACACAUCGAUGCAGGGGUACAAAUAUAAACAAUAAUCAAUCUCUUCAAGGGUUGGACAAACAAAAAUACAUAAA
.(((...(((.(((......))).)))..)))....(((--(.(((((...((......)).))))).)))).........(((((((......)))))))................... ( -17.30)
>consensus
ACUGCAUUCACAUGCCCAUACAUUUGAUACAGAUAUA_A__UAUGUACACAUCGAUGCAGGGGCACAAAUAUAAACAAUAAUCAAUCUCUUCAAGGGUUGGACAAACAAAAAAACACAAA
............(((((...((((.(((....((((......))))....)))))))...)))))................(((((((......)))))))................... (-16.30 = -16.38 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:37 2006