Locus 4285

Sequence ID 2R_DroMel_CAF1
Location 14,088,610 – 14,088,725
Length 115
Max. P 0.903810
window6878 window6879

overview

Window 8

Location 14,088,610 – 14,088,725
Length 115
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 92.06
Mean single sequence MFE -33.37
Consensus MFE -24.79
Energy contribution -24.13
Covariance contribution -0.66
Combinations/Pair 1.10
Mean z-score -3.95
Structure conservation index 0.74
SVM decision value 0.70
SVM RNA-class probability 0.827822
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14088610 115 + 20766785
UUUUUUUCUCUCUUUUUUUUGUAGUUGGAGGGGGGAGGAGUAGGUAGGCUUUGUAUAUUUUGUUGUUGCCUUUACCGCUUGAUUAAUUUUUGGUGCGUUUGGCAACAGCGAAAAA
(((((..((((((..((.....))..))))))..)))))..................(((((((((((((...((((((.((......)).)))).))..))))))))))))).. ( -36.30)
>DroSec_CAF1 3806 108 + 1
UUUUUUUUU-UC-UCUUUUUUUGGUAGGUGGGGGGAGG----GGUAGGCUUUGUAUAUUUUGUUGUUGCCUUUACCGCUUGAUUAAUU-UUGGUGCGUUUGGCAACAGCGAAAAA
.......(.-.(-(((((((.........)))))))).----.).............(((((((((((((...((((((.((.....)-).)))).))..))))))))))))).. ( -30.20)
>DroSim_CAF1 13476 110 + 1
UUUUUUUCUAUCUUUUUUUUUUGGUAGGUGGGGGGAGG----GGUAGGCUUUGUAUAUUUUGUUGUUGCCUUUACCGCUUGAUUAAUU-UUGGUGCGUUUGGCAACAGCGAAAAA
......(((((((((((((((........)))))))))----)))))).........(((((((((((((...((((((.((.....)-).)))).))..))))))))))))).. ( -33.60)
>consensus
UUUUUUUCU_UCUUUUUUUUUUGGUAGGUGGGGGGAGG____GGUAGGCUUUGUAUAUUUUGUUGUUGCCUUUACCGCUUGAUUAAUU_UUGGUGCGUUUGGCAACAGCGAAAAA
.((((..((.((..((......))..)).))..))))....................(((((((((((((...((((((............)))).))..))))))))))))).. (-24.79 = -24.13 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 14,088,610 – 14,088,725
Length 115
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 92.06
Mean single sequence MFE -14.92
Consensus MFE -12.99
Energy contribution -12.99
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.87
SVM decision value 1.03
SVM RNA-class probability 0.903810
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14088610 115 - 20766785
UUUUUCGCUGUUGCCAAACGCACCAAAAAUUAAUCAAGCGGUAAAGGCAACAACAAAAUAUACAAAGCCUACCUACUCCUCCCCCCUCCAACUACAAAAAAAAGAGAGAAAAAAA
(((((((.(((((((...(((................))).....))))))).)...............................(((...............))).)))))).. ( -16.55)
>DroSec_CAF1 3806 108 - 1
UUUUUCGCUGUUGCCAAACGCACCAA-AAUUAAUCAAGCGGUAAAGGCAACAACAAAAUAUACAAAGCCUACC----CCUCCCCCCACCUACCAAAAAAAGA-GA-AAAAAAAAA
(((((((.(((((((...(((.....-..........))).....))))))).)...................----...........((.........)).-))-))))..... ( -14.26)
>DroSim_CAF1 13476 110 - 1
UUUUUCGCUGUUGCCAAACGCACCAA-AAUUAAUCAAGCGGUAAAGGCAACAACAAAAUAUACAAAGCCUACC----CCUCCCCCCACCUACCAAAAAAAAAAGAUAGAAAAAAA
(((((((.(((((((...(((.....-..........))).....))))))).)...................----...........((............))...)))))).. ( -13.96)
>consensus
UUUUUCGCUGUUGCCAAACGCACCAA_AAUUAAUCAAGCGGUAAAGGCAACAACAAAAUAUACAAAGCCUACC____CCUCCCCCCACCUACCAAAAAAAAAAGA_AGAAAAAAA
......(.(((((((...(((................))).....))))))).)............................................................. (-12.99 = -12.99 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:11 2006