Locus 7381

Sequence ID 2L_DroMel_CAF1
Location 20,540,923 – 20,541,033
Length 110
Max. P 0.550460
window11857 window11858

overview

Window 7

Location 20,540,923 – 20,541,033
Length 110
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 72.19
Mean single sequence MFE -15.86
Consensus MFE -5.96
Energy contribution -6.96
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.38
SVM decision value 0.01
SVM RNA-class probability 0.536798
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20540923 110 + 22407834
UUCAAAAUAAAA-UACUUUGAUAACCGGAAGGGGCAUUCAUAGUGGAAUACAAAUUA-AACACAAUUGCAAAUAUUUCGAGAAAUCAACAGAAAAAACUUUAUUUUGAUGAA
.((((((((((.-.(((.(((...((....)).....))).)))((((((..((((.-.....)))).....))))))((....))............)))))))))).... ( -19.00)
>DroSec_CAF1 62206 98 + 1
UUCAAAAUAAAAAAAAAUUGAUAACCGGAAGGG------------GAAUACAACUUA-AACACAAUUGCAAAUAUUUCGAGUAAUCAACAGAA-CAACUUUAUUUUGUUGAA
(((.(((((......(((((....((....))(------------.....)......-....))))).....))))).)))...(((((((((-........))))))))). ( -15.60)
>DroSim_CAF1 63545 97 + 1
UUCAAAAUAAAA-AAAUUUGAUAGCCGGAAGGG------------GAAUACAACUUA-AACACAAUUGCAAAUAUUUCAAGUAAUCAACAGAA-CAACUUUAUUUUGUUGAA
............-..((((((...((....))(------------.....)......-..................))))))..(((((((((-........))))))))). ( -14.10)
>DroEre_CAF1 55420 89 + 1
UUUAAAAUAAAA-UACUUUGAUAACCAAAA-GGGCGUUC-------------------AUAAGAAUGGCAAAUACUCCGAAUAAUCAA-AGAA-CAACUUUAUUUUGUUGAA
............-..(((((((..((....-)).(((((-------------------....)))))................)))))-))..-((((........)))).. ( -14.70)
>DroYak_CAF1 58014 101 + 1
UUUAAAUUAAAA-U--------AACCGAAAGGGGCAUUC-UAAGGGAAUACAGUCUAAAAAAGGAUGGCAAAUAUUUCGCAAAUUCAAAAUAA-CAAUUUUAUUUUGUUGAA
.........(((-(--------(.((....))(.(((((-(...(((......))).....)))))).)...)))))........((((((((-.....))))))))..... ( -15.90)
>consensus
UUCAAAAUAAAA_UAAUUUGAUAACCGGAAGGGGC_UUC______GAAUACAACUUA_AACACAAUUGCAAAUAUUUCGAGUAAUCAACAGAA_CAACUUUAUUUUGUUGAA
........................((....))....................................................(((((((((.........))))))))). ( -5.96 =  -6.96 +   1.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,540,923 – 20,541,033
Length 110
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 72.19
Mean single sequence MFE -16.96
Consensus MFE -3.26
Energy contribution -5.26
Covariance contribution 2.00
Combinations/Pair 1.24
Mean z-score -1.58
Structure conservation index 0.19
SVM decision value 0.03
SVM RNA-class probability 0.550460
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20540923 110 - 22407834
UUCAUCAAAAUAAAGUUUUUUCUGUUGAUUUCUCGAAAUAUUUGCAAUUGUGUU-UAAUUUGUAUUCCACUAUGAAUGCCCCUUCCGGUUAUCAAAGUA-UUUUAUUUUGAA
....((((((((((((.....((.(((((..(.((((((((........)))))-).....((((((......))))))......)))..))))))).)-))))))))))). ( -20.30)
>DroSec_CAF1 62206 98 - 1
UUCAACAAAAUAAAGUUG-UUCUGUUGAUUACUCGAAAUAUUUGCAAUUGUGUU-UAAGUUGUAUUC------------CCCUUCCGGUUAUCAAUUUUUUUUUAUUUUGAA
.....((((((((((..(-....((((((.(((.(((.....(((((((.....-..)))))))...------------...))).))).)))))).)..)))))))))).. ( -19.90)
>DroSim_CAF1 63545 97 - 1
UUCAACAAAAUAAAGUUG-UUCUGUUGAUUACUUGAAAUAUUUGCAAUUGUGUU-UAAGUUGUAUUC------------CCCUUCCGGCUAUCAAAUUU-UUUUAUUUUGAA
.....((((((((((..(-((....((((..((.(((.....(((((((.....-..)))))))...------------...))).))..)))))))..-)))))))))).. ( -17.20)
>DroEre_CAF1 55420 89 - 1
UUCAACAAAAUAAAGUUG-UUCU-UUGAUUAUUCGGAGUAUUUGCCAUUCUUAU-------------------GAACGCCC-UUUUGGUUAUCAAAGUA-UUUUAUUUUAAA
......((((((((((..-..((-(((((.(((..(((.....((..(((....-------------------))).)).)-))..))).))))))).)-)))))))))... ( -15.20)
>DroYak_CAF1 58014 101 - 1
UUCAACAAAAUAAAAUUG-UUAUUUUGAAUUUGCGAAAUAUUUGCCAUCCUUUUUUAGACUGUAUUCCCUUA-GAAUGCCCCUUUCGGUU--------A-UUUUAAUUUAAA
.....((((((((.....-)))))))).......((((((...(((...((.....))...((((((.....-)))))).......))))--------)-))))........ ( -12.20)
>consensus
UUCAACAAAAUAAAGUUG_UUCUGUUGAUUACUCGAAAUAUUUGCAAUUGUGUU_UAAGUUGUAUUC______GAA_GCCCCUUCCGGUUAUCAAAGUA_UUUUAUUUUGAA
.....((((((((((.........((((....))))......(((((((........)))))))....................................)))))))))).. ( -3.26 =  -5.26 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:21 2006