Locus 2557

Sequence ID 2L_DroMel_CAF1
Location 7,070,015 – 7,070,109
Length 94
Max. P 0.999670
window4087 window4088

overview

Window 7

Location 7,070,015 – 7,070,109
Length 94
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.19
Mean single sequence MFE -21.76
Consensus MFE -5.79
Energy contribution -8.99
Covariance contribution 3.20
Combinations/Pair 1.00
Mean z-score -2.30
Structure conservation index 0.27
SVM decision value 1.98
SVM RNA-class probability 0.984534
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7070015 94 + 22407834
UUAUCCGAACGAACAGUUCGGAUUUCUGGAUUUCUUUGUUCUAUGGCCAUUGCGUAUAUUUAAACACAGUUUUUCUUCAAAUGCCAUGAACUUU--------------------------
..((((((((.....))))))))..............((((.(((((.((((.((........)).))))............)))))))))...-------------------------- ( -21.12)
>DroSec_CAF1 11886 93 + 1
UUAUCCGAACGAUCAGUUCGGAUUUCUGGAUUUCUUUGUUCUAUGGCCAUUGCGUAUCUUUAAACGCAGUUUUUCUUCA-AUGCCAUGAACUUU--------------------------
..((((((((.....))))))))..............((((.(((((.(((((((........))))))).........-..)))))))))...-------------------------- ( -26.60)
>DroSim_CAF1 12042 93 + 1
UAAUCCGAACGAUCAGUUCGGAUUUCUGGAUUUCUUUGUUCUAUGGCCAUUGCGUAUCUUUAAACGCAGUUUUUCCUUA-AUGCCAUGAACUUU--------------------------
.(((((((((.....))))))))).............((((.(((((.(((((((........))))))).........-..)))))))))...-------------------------- ( -27.50)
>DroEre_CAF1 15650 116 + 1
UCAUCCAAACGAUCAGUUA---GUUCGGGAUUCCUUUGUUCUAUGGCCAUCGCGUAUCCCUAACCACAGUUUUACUUCC-AUAGCACGAACUUCCAUCAUUACUUGGGAUAGAAACUUUU
((((((...(((.(.....---).)))(((....(((((.(((((((....))(((...((......))...)))...)-)))).)))))..)))...........)))).))....... ( -18.80)
>DroYak_CAF1 15490 91 + 1
AUAUCCAAACGAUCAG-------UUCUGGAUUUCUUUGUUCUAUGGCCAUCGCGUAUCUUUAACCACAGUGUUACUAGC-AUAGCACGAACUUUCAUCC---------------------
..((((((((.....)-------)).)))))......((((....((....))...............((((((.....-.))))))))))........--------------------- ( -14.80)
>consensus
UUAUCCGAACGAUCAGUUCGGAUUUCUGGAUUUCUUUGUUCUAUGGCCAUUGCGUAUCUUUAAACACAGUUUUUCUUCA_AUGCCAUGAACUUU__________________________
...(((((((.....)))))))...............((((.(((((...................................)))))))))............................. ( -5.79 =  -8.99 +   3.20)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,070,015 – 7,070,109
Length 94
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 74.19
Mean single sequence MFE -25.76
Consensus MFE -13.28
Energy contribution -15.60
Covariance contribution 2.32
Combinations/Pair 1.17
Mean z-score -3.06
Structure conservation index 0.52
SVM decision value 3.86
SVM RNA-class probability 0.999670
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7070015 94 - 22407834
--------------------------AAAGUUCAUGGCAUUUGAAGAAAAACUGUGUUUAAAUAUACGCAAUGGCCAUAGAACAAAGAAAUCCAGAAAUCCGAACUGUUCGUUCGGAUAA
--------------------------...(((((((((.(((.....)))..(((((........)))))...))))).))))..............((((((((.....)))))))).. ( -25.70)
>DroSec_CAF1 11886 93 - 1
--------------------------AAAGUUCAUGGCAU-UGAAGAAAAACUGCGUUUAAAGAUACGCAAUGGCCAUAGAACAAAGAAAUCCAGAAAUCCGAACUGAUCGUUCGGAUAA
--------------------------...(((((((((.(-(......))..(((((........)))))...))))).))))..............((((((((.....)))))))).. ( -26.90)
>DroSim_CAF1 12042 93 - 1
--------------------------AAAGUUCAUGGCAU-UAAGGAAAAACUGCGUUUAAAGAUACGCAAUGGCCAUAGAACAAAGAAAUCCAGAAAUCCGAACUGAUCGUUCGGAUUA
--------------------------...(((((((((..-..((......))((((........))))....))))).)))).............(((((((((.....))))))))). ( -29.10)
>DroEre_CAF1 15650 116 - 1
AAAAGUUUCUAUCCCAAGUAAUGAUGGAAGUUCGUGCUAU-GGAAGUAAAACUGUGGUUAGGGAUACGCGAUGGCCAUAGAACAAAGGAAUCCCGAAC---UAACUGAUCGUUUGGAUGA
.............(((((..((.(.(..((((((((((..-...))))...(((((((((..(.....)..))))))))).............)))))---)..)).))..))))).... ( -26.10)
>DroYak_CAF1 15490 91 - 1
---------------------GGAUGAAAGUUCGUGCUAU-GCUAGUAACACUGUGGUUAAAGAUACGCGAUGGCCAUAGAACAAAGAAAUCCAGAA-------CUGAUCGUUUGGAUAU
---------------------((((((.(((((.(((((.-..)))))...(((((((((..(.....)..)))))))))..............)))-------))..))))))...... ( -21.00)
>consensus
__________________________AAAGUUCAUGGCAU_UGAAGAAAAACUGUGUUUAAAGAUACGCAAUGGCCAUAGAACAAAGAAAUCCAGAAAUCCGAACUGAUCGUUCGGAUAA
.............................(((((((((......((.....))((((........))))....))))).))))..............((((((((.....)))))))).. (-13.28 = -15.60 +   2.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:44 2006