Locus 7802

Sequence ID X_DroMel_CAF1
Location 19,441,184 – 19,441,287
Length 103
Max. P 0.968075
window12800 window12801

overview

Window 0

Location 19,441,184 – 19,441,287
Length 103
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 71.47
Mean single sequence MFE -32.80
Consensus MFE -16.31
Energy contribution -16.20
Covariance contribution -0.11
Combinations/Pair 1.11
Mean z-score -1.92
Structure conservation index 0.50
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19441184 103 + 22224390
AUAUCUGAAUGACUCAGCACGGAAUAAACGCACGCCCCAUAUACAGGGCAAUAAAUCCAUACAGGUAGGUGUAUCUAUGCCCUACCGAAGUUGCCACUUGAAG-----------------
....((((.....))))...((....(((....((((........))))..............((((((.(((....)))))))))...))).))........----------------- ( -25.10)
>DroEre_CAF1 12780 98 + 1
AUAUCUGAAUGACUCAGCGCGGAAUAAACGCGCGC-CCAGAUACAGGGCGAUAUAUCUAUACAGGUAGGU------UUCCCCUACCGAAGUUAG---------------GGCUACUUGGA
(((((...........(((((.......)))))((-((.......))))))))).......(((((((..------...(((((.......)))---------------))))))))).. ( -33.10)
>DroYak_CAF1 13133 113 + 1
AUAUCCGAAUGGCUCAGCGCGGAAUAAACGCAGGC-CCAGAUACAGGGCGGUAAAUCUAUACAGGUAGGU------CUCCCCUACCGAAGUUGGGAUUUGGAGCGCUUUGGCUACUUGGU
....((((.(((((.(((((.............((-((.......))))..(((((((..((.((((((.------....))))))...))..)))))))..)))))..))))).)))). ( -40.20)
>consensus
AUAUCUGAAUGACUCAGCGCGGAAUAAACGCACGC_CCAGAUACAGGGCGAUAAAUCUAUACAGGUAGGU______AUCCCCUACCGAAGUUGG_A_UUG_AG______GGCUACUUGG_
.........((((((...(((.......)))..((.((.......))))..............((((((...........))))))).)))))........................... (-16.31 = -16.20 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,441,184 – 19,441,287
Length 103
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 71.47
Mean single sequence MFE -32.80
Consensus MFE -19.61
Energy contribution -20.17
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -1.84
Structure conservation index 0.60
SVM decision value 1.62
SVM RNA-class probability 0.968075
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19441184 103 - 22224390
-----------------CUUCAAGUGGCAACUUCGGUAGGGCAUAGAUACACCUACCUGUAUGGAUUUAUUGCCCUGUAUAUGGGGCGUGCGUUUAUUCCGUGCUGAGUCAUUCAGAUAU
-----------------.....((((((....((((((.((.(((((..(((...((.....)).......(((((......))))))))..))))).)).))))))))))))....... ( -32.50)
>DroEre_CAF1 12780 98 - 1
UCCAAGUAGCC---------------CUAACUUCGGUAGGGGAA------ACCUACCUGUAUAGAUAUAUCGCCCUGUAUCUGG-GCGCGCGUUUAUUCCGCGCUGAGUCAUUCAGAUAU
........(((---------------(.......((((((....------.)))))).....(((((((......)))))))))-))(((((.......)))))...(((.....))).. ( -32.00)
>DroYak_CAF1 13133 113 - 1
ACCAAGUAGCCAAAGCGCUCCAAAUCCCAACUUCGGUAGGGGAG------ACCUACCUGUAUAGAUUUACCGCCCUGUAUCUGG-GCCUGCGUUUAUUCCGCGCUGAGCCAUUCGGAUAU
.((.(((.((...(((((...(((((...((...((((((....------.)))))).))...)))))...((((.......))-)).............)))))..)).))).)).... ( -33.90)
>consensus
_CCAAGUAGCC______CU_CAA_U_CCAACUUCGGUAGGGGAA______ACCUACCUGUAUAGAUUUAUCGCCCUGUAUCUGG_GCGUGCGUUUAUUCCGCGCUGAGUCAUUCAGAUAU
..................................((((((...........))))))......((((((..((((.......)).))(((((.......))))))))))).......... (-19.61 = -20.17 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:54 2006