Locus 5104

Sequence ID X_DroMel_CAF1
Location 13,328,501 – 13,328,611
Length 110
Max. P 0.970263
window8301 window8302

overview

Window 1

Location 13,328,501 – 13,328,611
Length 110
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 93.03
Mean single sequence MFE -28.88
Consensus MFE -21.44
Energy contribution -22.04
Covariance contribution 0.60
Combinations/Pair 1.16
Mean z-score -1.89
Structure conservation index 0.74
SVM decision value 0.09
SVM RNA-class probability 0.579641
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13328501 110 + 22224390
UUCACUGAUUUACGCUAAUGAAUUUGGUGUCUGUUUGGUAUAAUUUAGCCCGUUUACCAAUCAGUUGCGGUUUUCGG-GACACCACCUUCUAUUUACUGGCAUAAACCAAA
.....((.((((.((((.(((((.((((((((....(((........)))((...(((..........)))...)))-)))))))......))))).)))).)))).)).. ( -24.20)
>DroSec_CAF1 41072 110 + 1
UUUACUGAUUUACGCUAAUGAAUUUGGUGUCUGUUUGGUAUAAUUUAGCCCGUUUACCAAUCAGUUGUGGUUUUCGG-GACACCGCCUUCUAUUUACUGGCGUAAACCAAA
.....((.(((((((((.(((((.((((((((....(((........)))((...((((........))))...)))-)))))))......))))).))))))))).)).. ( -31.00)
>DroSim_CAF1 32881 110 + 1
UUUACUGAUUUACGCUAAUGAAUUUGGUGUCUGUUUGGUAUAAUUUAGCCCGUUUACCAAUCAGUUGCGGUUUUCGG-GACACCGCCUUCUAUUUACUGGCGUAAACCAAA
.....((.(((((((((.(((((..((((..((.((((((..............)))))).))(((.((.....)).-)))..))))....))))).))))))))).)).. ( -29.34)
>DroEre_CAF1 32441 110 + 1
UUGACUGACUUACGCUAAUGAAUUUGGUGUUUGUUUGGUAUAAUUUAGCCCGUUUACCAAUCAGUUGCGGUUUUUGG-GACACAGCCUUCUAUUUGCUGGCGAAAACCAAA
..(((((((..(((((((.....)))))))..).((((((..............))))))))))))..((((((((.-....((((.........)))).))))))))... ( -28.94)
>DroYak_CAF1 32368 111 + 1
UUAACUGAUUUACGCUAAUGAAUUUGGUGUCUGUUUGGUAGAAUUUAGACCGUUUACCAAUCAGUUGCGGUUUUUGGGGGCACCGCCUUCUGUUUACCGUCGAAAACCAAA
.(((((((...(((((((.....)))))))....((((((((..........))))))))))))))).(((((((((.((....((.....))...)).)))))))))... ( -30.90)
>consensus
UUUACUGAUUUACGCUAAUGAAUUUGGUGUCUGUUUGGUAUAAUUUAGCCCGUUUACCAAUCAGUUGCGGUUUUCGG_GACACCGCCUUCUAUUUACUGGCGUAAACCAAA
.....((.(((((((((.(((((..((((.(((.((((((..............)))))).))).....(((......)))..))))....))))).))))))))).)).. (-21.44 = -22.04 +   0.60)

alignment

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secondary structure

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dotplot

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Window 2

Location 13,328,501 – 13,328,611
Length 110
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 93.03
Mean single sequence MFE -25.50
Consensus MFE -21.70
Energy contribution -22.50
Covariance contribution 0.80
Combinations/Pair 1.14
Mean z-score -1.85
Structure conservation index 0.85
SVM decision value 1.66
SVM RNA-class probability 0.970263
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13328501 110 - 22224390
UUUGGUUUAUGCCAGUAAAUAGAAGGUGGUGUC-CCGAAAACCGCAACUGAUUGGUAAACGGGCUAAAUUAUACCAAACAGACACCAAAUUCAUUAGCGUAAAUCAGUGAA
.(((((((((((.(((.....(((..(((((((-.((.....))....((.((((((..............)))))).)))))))))..)))))).))))))))))).... ( -28.94)
>DroSec_CAF1 41072 110 - 1
UUUGGUUUACGCCAGUAAAUAGAAGGCGGUGUC-CCGAAAACCACAACUGAUUGGUAAACGGGCUAAAUUAUACCAAACAGACACCAAAUUCAUUAGCGUAAAUCAGUAAA
.(((((((((((.(((.....(((...((((((-......((((........))))....((...........)).....))))))...)))))).))))))))))).... ( -27.50)
>DroSim_CAF1 32881 110 - 1
UUUGGUUUACGCCAGUAAAUAGAAGGCGGUGUC-CCGAAAACCGCAACUGAUUGGUAAACGGGCUAAAUUAUACCAAACAGACACCAAAUUCAUUAGCGUAAAUCAGUAAA
.(((((((((((.(((.(((.....(((((...-......)))))..(((.((((((..............)))))).))).......))).))).))))))))))).... ( -30.04)
>DroEre_CAF1 32441 110 - 1
UUUGGUUUUCGCCAGCAAAUAGAAGGCUGUGUC-CCAAAAACCGCAACUGAUUGGUAAACGGGCUAAAUUAUACCAAACAAACACCAAAUUCAUUAGCGUAAGUCAGUCAA
...((((((.((((((.........)))).)).-...)))))).....((((((......((...........)).....................((....)))))))). ( -17.70)
>DroYak_CAF1 32368 111 - 1
UUUGGUUUUCGACGGUAAACAGAAGGCGGUGCCCCCAAAAACCGCAACUGAUUGGUAAACGGUCUAAAUUCUACCAAACAGACACCAAAUUCAUUAGCGUAAAUCAGUUAA
.(((((((...(((.(((.......(((((..........)))))..(((.((((((..............)))))).)))............))).)))))))))).... ( -23.34)
>consensus
UUUGGUUUACGCCAGUAAAUAGAAGGCGGUGUC_CCGAAAACCGCAACUGAUUGGUAAACGGGCUAAAUUAUACCAAACAGACACCAAAUUCAUUAGCGUAAAUCAGUAAA
.(((((((((((.(((.........(((((..........)))))..(((.((((((..............)))))).)))...........))).))))))))))).... (-21.70 = -22.50 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:14 2006