Locus 5189

Sequence ID 2R_DroMel_CAF1
Location 16,864,983 – 16,865,091
Length 108
Max. P 0.780974
window8296 window8297

overview

Window 6

Location 16,864,983 – 16,865,091
Length 108
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 79.07
Mean single sequence MFE -36.98
Consensus MFE -20.42
Energy contribution -20.23
Covariance contribution -0.19
Combinations/Pair 1.24
Mean z-score -2.06
Structure conservation index 0.55
SVM decision value 0.56
SVM RNA-class probability 0.780974
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16864983 108 + 20766785
UGGCACACGGAGGUGCCGUUCAGGCAGGUGCAGUUCGUACACCUGUCCGGCAUAAACUGCGUCUUCUCCGGAUAAACGCUUUUGUUGAAGAGGCAUUUGCCUGGA----AAA
.((((...(...((((((..((((...((((.....)))).))))..))))))...)(((.(((((..((((........))))..))))).)))..))))....----... ( -40.50)
>DroVir_CAF1 26931 108 + 1
UGGCAAAUCGAGGUGCCGUUCAGGCAGGUGCAAUUGGUGCAGCGAUCCGGCGUAAAUUGUGUCUUGUCAUAGUACAGAUUGUUGUUGAAUAUGCACUUGCCUG----GCGAA
.((((........))))((.((((((((((((......(((((((((.(......((((((......)))))).).)))))))))......))))))))))))----))... ( -41.30)
>DroPse_CAF1 15092 108 + 1
UGGCAGAUGGAUGUGCCGUUAAGACAGGUGCAGUUGGUGCAUCGGUCCGGCAUGAACUGCGUUUUGUCAUAGUGGAGUUUGUUGUUAAAGAUGCACUUUCCUGGA----GAA
.((((.(....).)))).....((((..(((((((.((((.........)))).)))))))..).))).(((..((((.((((......)))).))))..)))..----... ( -32.20)
>DroMoj_CAF1 22289 112 + 1
UGGCAAAUCGAUGUGCCGUUCAGGCAGGUGCAAUUAGUGCAGCGAUCCGGCGUAAACUGCGUCUUGUCGUAGUACAGCUUAUUGUUGAAUAUGCACUUGCCUGCAAUGACAA
.((((........))))(((((((((((((((....((((.(((((..(((((.....)))))..))))).))))(((.....))).....)))))))))))).)))..... ( -45.30)
>DroAna_CAF1 19131 108 + 1
UGGCAGACCGAGGUGCCGUUCAGACAGGUGCAGUUGGUGCAUCUAUCCGGCAUAAACUGGGUCUUCUCGUAGUACAUUUGUUUGUUAAAAAAACAUUUUCCUGGA----AGA
....(((((.((((((((....((.(((((((.....))))))).))))))))...)).)))))(((..(((......(((((.......))))).....)))..----))) ( -30.40)
>DroPer_CAF1 16618 108 + 1
UGGCAGAUGGAUGUGCCGUUAAGACAGGUGCAGUUGGUGCAUCGGUCCGGCAUGAACUGCGUUUUGUCAUAGUGGAGUUUGUUGUUAAAGAUGCACUUUCCUGGA----GAA
.((((.(....).)))).....((((..(((((((.((((.........)))).)))))))..).))).(((..((((.((((......)))).))))..)))..----... ( -32.20)
>consensus
UGGCAGAUCGAGGUGCCGUUCAGACAGGUGCAGUUGGUGCAUCGAUCCGGCAUAAACUGCGUCUUGUCAUAGUACAGUUUGUUGUUAAAGAUGCACUUGCCUGGA____GAA
.((((........)))).....(((((((((((((.((((.........)))).))))))).))))))............................................ (-20.42 = -20.23 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,864,983 – 16,865,091
Length 108
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 79.07
Mean single sequence MFE -27.18
Consensus MFE -15.34
Energy contribution -15.39
Covariance contribution 0.06
Combinations/Pair 1.24
Mean z-score -1.69
Structure conservation index 0.56
SVM decision value 0.03
SVM RNA-class probability 0.549025
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16864983 108 - 20766785
UUU----UCCAGGCAAAUGCCUCUUCAACAAAAGCGUUUAUCCGGAGAAGACGCAGUUUAUGCCGGACAGGUGUACGAACUGCACCUGCCUGAACGGCACCUCCGUGUGCCA
...----..(((((((((((.............)))))).(((((...((((...))))...))))).(((((((.....))))))))))))...(((((......))))). ( -36.92)
>DroVir_CAF1 26931 108 - 1
UUCGC----CAGGCAAGUGCAUAUUCAACAACAAUCUGUACUAUGACAAGACACAAUUUACGCCGGAUCGCUGCACCAAUUGCACCUGCCUGAACGGCACCUCGAUUUGCCA
.....----((((((.(((((.......((.(.(((((.........................))))).).)).......))))).))))))...((((........)))). ( -26.05)
>DroPse_CAF1 15092 108 - 1
UUC----UCCAGGAAAGUGCAUCUUUAACAACAAACUCCACUAUGACAAAACGCAGUUCAUGCCGGACCGAUGCACCAACUGCACCUGUCUUAACGGCACAUCCAUCUGCCA
...----..((((..((((...................))))..........((((((..(((.........)))..)))))).)))).......((((........)))). ( -21.31)
>DroMoj_CAF1 22289 112 - 1
UUGUCAUUGCAGGCAAGUGCAUAUUCAACAAUAAGCUGUACUACGACAAGACGCAGUUUACGCCGGAUCGCUGCACUAAUUGCACCUGCCUGAACGGCACAUCGAUUUGCCA
.........((((((.(((((..........((((((((.((......))..)))))))).((.((....))))......))))).))))))...((((........)))). ( -31.40)
>DroAna_CAF1 19131 108 - 1
UCU----UCCAGGAAAAUGUUUUUUUAACAAACAAAUGUACUACGAGAAGACCCAGUUUAUGCCGGAUAGAUGCACCAACUGCACCUGUCUGAACGGCACCUCGGUCUGCCA
(((----(..((.....(((((.......)))))......))..))))(((((.((....((((((((((.((((.....)))).)))))....))))).)).))))).... ( -26.10)
>DroPer_CAF1 16618 108 - 1
UUC----UCCAGGAAAGUGCAUCUUUAACAACAAACUCCACUAUGACAAAACGCAGUUCAUGCCGGACCGAUGCACCAACUGCACCUGUCUUAACGGCACAUCCAUCUGCCA
...----..((((..((((...................))))..........((((((..(((.........)))..)))))).)))).......((((........)))). ( -21.31)
>consensus
UUC____UCCAGGAAAGUGCAUCUUCAACAACAAACUGUACUAUGACAAGACGCAGUUUAUGCCGGACCGAUGCACCAACUGCACCUGCCUGAACGGCACAUCCAUCUGCCA
.........((((..((((...................))))..........((((((..(((.........)))..)))))).)))).......((((........)))). (-15.34 = -15.39 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:47 2006