Locus 1466

Sequence ID 3R_DroMel_CAF1
Location 4,217,248 – 4,217,339
Length 91
Max. P 0.909141
window2439 window2440

overview

Window 9

Location 4,217,248 – 4,217,339
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 93.59
Mean single sequence MFE -22.32
Consensus MFE -19.79
Energy contribution -20.10
Covariance contribution 0.31
Combinations/Pair 1.03
Mean z-score -1.64
Structure conservation index 0.89
SVM decision value 0.46
SVM RNA-class probability 0.746741
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4217248 91 + 27905053
AUGUUAUGCAAUUCAUGUAUUGCACGUGCGAUUGAUUUUAAUUAAAACCAUUGGGCAGCGAUGCGAUGAUGGGUGGGUGGGAUAUGUUUAA
..............(((((((.(((.(((..(((((....)))))..((((((.(((....)))..))))))))).))).))))))).... ( -20.00)
>DroSec_CAF1 28475 91 + 1
AUGUUAUGCAAUUCAUGUAUUGCACGUGCGAUUGAUUUUAAUUAAAAUCGUUGGGCAGCGAUGCGAUGAUGGGUGGGGGGAAUAUGUUUAA
.(.((((.((..(((((((((((..((.((((.((((((....)))))))))).)).))))))).)))))).)))).)............. ( -21.90)
>DroEre_CAF1 31068 88 + 1
AUGUUAUGCAAUUCAUGUAUUGCACGUGCGAUUGAUUUUAAUUAAAAUCGUUGGGCAGCGAUGCAAUGACGGGUGGG-UA--UAUGUUUAA
....(((((.((((...((((((((((((...(((((((....)))))))....))).)).)))))))..))))..)-))--))....... ( -21.60)
>DroYak_CAF1 28963 91 + 1
AUGUUAUGCAAUUCAUGUAUUGCACGUGCGAUUGAUUUUAAUUAAAAUCGUUGGGCAGCGAUGCGAUGAUGGGUGGGGUAGCUAUGUUUAA
..(((((.(.((((((.((((((((((((...(((((((....)))))))....))).)).))))))))))))).).)))))......... ( -25.80)
>consensus
AUGUUAUGCAAUUCAUGUAUUGCACGUGCGAUUGAUUUUAAUUAAAAUCGUUGGGCAGCGAUGCGAUGAUGGGUGGGGGAGAUAUGUUUAA
...((((.((..(((((((((((..((.((((.((((((....)))))))))).)).))))))).)))))).))))............... (-19.79 = -20.10 +   0.31)

alignment

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secondary structure

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dotplot

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Window 0

Location 4,217,248 – 4,217,339
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 93.59
Mean single sequence MFE -12.52
Consensus MFE -10.89
Energy contribution -10.70
Covariance contribution -0.19
Combinations/Pair 1.06
Mean z-score -2.07
Structure conservation index 0.87
SVM decision value 1.06
SVM RNA-class probability 0.909141
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4217248 91 - 27905053
UUAAACAUAUCCCACCCACCCAUCAUCGCAUCGCUGCCCAAUGGUUUUAAUUAAAAUCAAUCGCACGUGCAAUACAUGAAUUGCAUAACAU
................................(.(((....(((((((....)))))))...))))(((((((......)))))))..... ( -11.70)
>DroSec_CAF1 28475 91 - 1
UUAAACAUAUUCCCCCCACCCAUCAUCGCAUCGCUGCCCAACGAUUUUAAUUAAAAUCAAUCGCACGUGCAAUACAUGAAUUGCAUAACAU
...........................(((....))).....((((((....))))))........(((((((......)))))))..... ( -11.00)
>DroEre_CAF1 31068 88 - 1
UUAAACAUA--UA-CCCACCCGUCAUUGCAUCGCUGCCCAACGAUUUUAAUUAAAAUCAAUCGCACGUGCAAUACAUGAAUUGCAUAACAU
.........--..-.......((.((((((.((.(((.....((((((....))))))....)))))))))))))................ ( -14.20)
>DroYak_CAF1 28963 91 - 1
UUAAACAUAGCUACCCCACCCAUCAUCGCAUCGCUGCCCAACGAUUUUAAUUAAAAUCAAUCGCACGUGCAAUACAUGAAUUGCAUAACAU
.........((................(((....))).....((((((....))))))....))..(((((((......)))))))..... ( -13.20)
>consensus
UUAAACAUAUCCACCCCACCCAUCAUCGCAUCGCUGCCCAACGAUUUUAAUUAAAAUCAAUCGCACGUGCAAUACAUGAAUUGCAUAACAU
...........................(((....))).....((((((....))))))........(((((((......)))))))..... (-10.89 = -10.70 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:18 2006