Locus 7485

Sequence ID X_DroMel_CAF1
Location 18,670,143 – 18,670,244
Length 101
Max. P 0.667736
window12277 window12278

overview

Window 7

Location 18,670,143 – 18,670,244
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.23
Mean single sequence MFE -16.16
Consensus MFE -11.04
Energy contribution -11.64
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.68
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18670143 101 + 22224390
UA------------UGGCUAUGUUUACAUCUUUCUCACUUCUUCGUCUUCUAUU-UUUUGUUUUGCAUUUUAAUGAAUGAACGCCUUUUGCGAUUUUACAAUAGCCAUUUAUAU------
.(------------(((((((((....(((........................-....((((..(((....)))...))))((.....)))))...)).))))))))......------ ( -15.10)
>DroSec_CAF1 15090 101 + 1
UA------------UGGCUAUGUUUACAUCUUUCUCACUUCUUCGUCUUCUAUU-UUUUGUUUUGCAUUUUAAUGAAUGAACGCCUUUUGCGAUUUUACAAUAGCCAUUUAUAU------
.(------------(((((((((....(((........................-....((((..(((....)))...))))((.....)))))...)).))))))))......------ ( -15.10)
>DroSim_CAF1 13215 101 + 1
UA------------UGGCUAUGUUUACAUCUUUCUCACUUCUUCGUCUUCUAUU-UUUUGUUUUGCAUUUUAAUGAAUGAACGCCUUUUGCGAUUUUACAAUAGCCAUUUAUAU------
.(------------(((((((((....(((........................-....((((..(((....)))...))))((.....)))))...)).))))))))......------ ( -15.10)
>DroEre_CAF1 15281 108 + 1
UAU-------UAUAUGGCUAUGUUUACAUCUGCCUCACUUCUUCGUCUUAUUUUGUUUUGUUUUGCAUUUUAAUGAAUGAACGACUGUUGCGAUUUUACAAUAGCCAUUUAUUUA-----
...-------((.((((((((((....(((.((..((.((.(((((.(((((.(((........)))....)))))))))).)).))..)))))...)).)))))))).))....----- ( -20.90)
>DroYak_CAF1 15192 119 + 1
UACAUAUAUGUAUGUAGCUAUGUUUACAUCUUCCCCACUUCCUCGUCUUCUAUU-UUUUGUUUUGCAUUUUAAUGAAUGAACGAUUGUUGCGAUUUUACAAUAGCCAUUUAUAUGUUGUU
.(((.(((((((.((.(((((((....(((......((......))........-..((((((..(((....)))...)))))).......)))...)).))))).)).)))))))))). ( -14.60)
>consensus
UA____________UGGCUAUGUUUACAUCUUUCUCACUUCUUCGUCUUCUAUU_UUUUGUUUUGCAUUUUAAUGAAUGAACGCCUUUUGCGAUUUUACAAUAGCCAUUUAUAU______
..............(((((((((....(((.............................((((..(((....)))...))))((.....)))))...)).)))))))............. (-11.04 = -11.64 +   0.60)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,670,143 – 18,670,244
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.23
Mean single sequence MFE -16.00
Consensus MFE -11.42
Energy contribution -11.26
Covariance contribution -0.16
Combinations/Pair 1.06
Mean z-score -1.88
Structure conservation index 0.71
SVM decision value 0.28
SVM RNA-class probability 0.667736
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18670143 101 - 22224390
------AUAUAAAUGGCUAUUGUAAAAUCGCAAAAGGCGUUCAUUCAUUAAAAUGCAAAACAAAA-AAUAGAAGACGAAGAAGUGAGAAAGAUGUAAACAUAGCCA------------UA
------......((((((((.((...(((((.....)).((((((..((......(.........-....)......))..))))))...)))....)))))))))------------). ( -15.32)
>DroSec_CAF1 15090 101 - 1
------AUAUAAAUGGCUAUUGUAAAAUCGCAAAAGGCGUUCAUUCAUUAAAAUGCAAAACAAAA-AAUAGAAGACGAAGAAGUGAGAAAGAUGUAAACAUAGCCA------------UA
------......((((((((.((...(((((.....)).((((((..((......(.........-....)......))..))))))...)))....)))))))))------------). ( -15.32)
>DroSim_CAF1 13215 101 - 1
------AUAUAAAUGGCUAUUGUAAAAUCGCAAAAGGCGUUCAUUCAUUAAAAUGCAAAACAAAA-AAUAGAAGACGAAGAAGUGAGAAAGAUGUAAACAUAGCCA------------UA
------......((((((((.((...(((((.....)).((((((..((......(.........-....)......))..))))))...)))....)))))))))------------). ( -15.32)
>DroEre_CAF1 15281 108 - 1
-----UAAAUAAAUGGCUAUUGUAAAAUCGCAACAGUCGUUCAUUCAUUAAAAUGCAAAACAAAACAAAAUAAGACGAAGAAGUGAGGCAGAUGUAAACAUAGCCAUAUA-------AUA
-----.......((((((((.((...(((((.((..(((((((((......))))..................)))))....))...)).)))....))))))))))...-------... ( -17.46)
>DroYak_CAF1 15192 119 - 1
AACAACAUAUAAAUGGCUAUUGUAAAAUCGCAACAAUCGUUCAUUCAUUAAAAUGCAAAACAAAA-AAUAGAAGACGAGGAAGUGGGGAAGAUGUAAACAUAGCUACAUACAUAUAUGUA
....(((((((..(((((((.((...(((.(..((.(((((..(((...................-....)))))))).....))..)..)))....)))))))))......))))))). ( -16.60)
>consensus
______AUAUAAAUGGCUAUUGUAAAAUCGCAAAAGGCGUUCAUUCAUUAAAAUGCAAAACAAAA_AAUAGAAGACGAAGAAGUGAGAAAGAUGUAAACAUAGCCA____________UA
.............(((((((.((...((((((.....................)))..................((......))......)))....))))))))).............. (-11.42 = -11.26 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:06 2006