Locus 4452

Sequence ID X_DroMel_CAF1
Location 11,783,252 – 11,783,395
Length 143
Max. P 0.997139
window7313 window7314

overview

Window 3

Location 11,783,252 – 11,783,356
Length 104
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 79.59
Mean single sequence MFE -27.72
Consensus MFE -14.32
Energy contribution -14.48
Covariance contribution 0.16
Combinations/Pair 1.22
Mean z-score -1.92
Structure conservation index 0.52
SVM decision value 0.10
SVM RNA-class probability 0.581596
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11783252 104 - 22224390
GUAUUCACAUUUCACGAAU----AGCAAGUUGAA-AUGUGAGUGCUGGGUGAAUCAUAGUCCGUACACACUCGACU-------AUAGAUAUGAUCUU--UGUUUCGGAACAAGUUCCC
(((((((((((((((....----.....).))))-)))))))))).((((.((((((((((.((....))..))))-------)).))).).)))).--......((((....)))). ( -28.90)
>DroSec_CAF1 13175 101 - 1
GUAUUCACAUUUCACGAAU----AGCA-GUUGAA-AUGUGAGUGCUGGGUGAAUCAUAGUCUGUAC--ACUCGACU-------AUAGAUAUGAUCUU--UGUUGCGGAACAAGUUCCC
(((((((((((((((....----....-).))))-)))))))))).(((...((((((.((((((.--.......)-------))))))))))).((--((((....))))))..))) ( -30.60)
>DroSim_CAF1 13258 101 - 1
GUAUUCACAUUUCACGAAU----AGCA-GUUGAA-AUGUGAGUGCUGGGUGAAUCAUAGUCUGUAC--ACUCGACU-------AUAGAUAUGAUCUU--UGUUGCGGAACAAGUUCCC
(((((((((((((((....----....-).))))-)))))))))).(((...((((((.((((((.--.......)-------))))))))))).((--((((....))))))..))) ( -30.60)
>DroEre_CAF1 12871 97 - 1
GCAUUCACAUUUCGCGAAU----AGCAA--UGAU-AUGUGAGUGCCGGGUGAA----------CAC--ACUCGACUGUAGAUUAUAGACAUGAUCUU--UGUUUCGGAACAAGUUCUC
((((((((((.((((....----.))..--.)).-))))))))))((((((..----------..)--)))))((...(((((((....))))))).--.))...((((....)))). ( -28.60)
>DroYak_CAF1 13134 101 - 1
GUAUUCACAUAUCACAAAUUGAUGGCAAAUUGAUAAUGUGAGUGCUGGGUGAAACAUAGUCCGUAC--ACUCGACU-------AUAGAUAUGAACUUACUGUUACGGGGC--------
((((((((((((((....(((....)))..)))).))))))))))...((((.....(((.((((.--..((....-------...)))))).))).....)))).....-------- ( -19.90)
>consensus
GUAUUCACAUUUCACGAAU____AGCAAGUUGAA_AUGUGAGUGCUGGGUGAAUCAUAGUCCGUAC__ACUCGACU_______AUAGAUAUGAUCUU__UGUUGCGGAACAAGUUCCC
((((((((((((((................)))).))))))))))(((((..................)))))................................((((....)))). (-14.32 = -14.48 +   0.16)

alignment

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secondary structure

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dotplot

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Window 4

Location 11,783,285 – 11,783,395
Length 110
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 83.90
Mean single sequence MFE -30.70
Consensus MFE -24.48
Energy contribution -24.16
Covariance contribution -0.31
Combinations/Pair 1.08
Mean z-score -3.24
Structure conservation index 0.80
SVM decision value 2.80
SVM RNA-class probability 0.997139
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11783285 110 - 22224390
UAACCCGAUUUAAACGAUUAUCUACACUGUU-AAUGCCCGGUAUUCACAUUUCACGAAU----AGCAAGUUGAA-AUGUGAGUGCUGGGUGAAUCAUAGUCCGUACACACUCGACU
..............(((.....((((((((.-...((((((((((((((((((((....----.....).))))-))))))))))))))).....)))))..))).....)))... ( -33.60)
>DroSec_CAF1 13208 107 - 1
UUACCCAAUUUAAACGAUUAUCUACACUGUU-AAUGCCUGGUAUUCACAUUUCACGAAU----AGCA-GUUGAA-AUGUGAGUGCUGGGUGAAUCAUAGUCUGUAC--ACUCGACU
..............(((........(((((.-...(((..(((((((((((((((....----....-).))))-))))))))))..))).....)))))......--..)))... ( -31.09)
>DroSim_CAF1 13291 107 - 1
UUACCCAAUUUAAACGAUUAUCUACACUGUU-AAUGCCCGGUAUUCACAUUUCACGAAU----AGCA-GUUGAA-AUGUGAGUGCUGGGUGAAUCAUAGUCUGUAC--ACUCGACU
..............(((........(((((.-...((((((((((((((((((((....----....-).))))-))))))))))))))).....)))))......--..)))... ( -33.69)
>DroYak_CAF1 13161 102 - 1
UAACACAAUUU------------ACACUGUUUUCUGCACGGUAUUCACAUAUCACAAAUUGAUGGCAAAUUGAUAAUGUGAGUGCUGGGUGAAACAUAGUCCGUAC--ACUCGACU
..........(------------(((((((((((.((.((((((((((((((((....(((....)))..)))).)))))))))))).)))))).)))))..))).--........ ( -24.40)
>consensus
UAACCCAAUUUAAACGAUUAUCUACACUGUU_AAUGCCCGGUAUUCACAUUUCACGAAU____AGCA_GUUGAA_AUGUGAGUGCUGGGUGAAUCAUAGUCCGUAC__ACUCGACU
.........................(((((.....(((((((((((((((((((................)))).))))))))))))))).....)))))................ (-24.48 = -24.16 +  -0.31)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:23 2006