Locus 8414

Sequence ID 3R_DroMel_CAF1
Location 22,424,868 – 22,425,027
Length 159
Max. P 0.622098
window13547 window13548

overview

Window 7

Location 22,424,868 – 22,424,988
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 87.89
Mean single sequence MFE -46.33
Consensus MFE -36.17
Energy contribution -35.65
Covariance contribution -0.52
Combinations/Pair 1.31
Mean z-score -2.26
Structure conservation index 0.78
SVM decision value 0.05
SVM RNA-class probability 0.557697
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22424868 120 + 27905053
UCGAGCGACGGUCCAGUCAUUGUGCGCGAACGCGAGAAAAUCCUCGAUGAGAAGAUUGUGCGCCGCACUGAGGAGGUGGCAUGCCCCAUUACGGGGCGACCUCAACUGCGCACCGUCGAG
.....((((((((((((....(((((.(..((((....((((.((.....)).)))).))))))))))....(((((....((((((.....))))))))))).)))).).))))))).. ( -48.70)
>DroVir_CAF1 120001 120 + 1
UCUAGCGAUGGCCCGGUCAUCGUGCGCGAACGCGAGAAAAUACUCGAUGAGAAAAUUGUGCGGCGCACUGAGGAGGUGCCCUGCCCCAUAACGGGGCAACCUCAAUUGCGCACCGUUGAG
..((((((((((...))))))((((((((...((((......)))).((((..........((.(((((.....)))))))((((((.....))))))..)))).)))))))).)))).. ( -50.00)
>DroGri_CAF1 98404 120 + 1
UCAAGCGAUGGUCCGGUCAUCGUGCGCGAACGUGAGAAAAUACUCGAUGAGAAAAUCGUGCGACGCACUGAGGAGGUACCAUGCCCCAUAACGGGGCAACCUCAAUUGCGUACAGUCGAG
((....(((((.....)))))((((((((.(....)......((((((......)))((((...)))).)))(((((....((((((.....)))))))))))..))))))))....)). ( -43.80)
>DroWil_CAF1 61648 120 + 1
UCAAGCGAUGGCCCGGUUAUUGUACGCGAACGCGAGAAAAUACUCGAUGAGAAAAUUGUGCGACGCACCGAGGAGGUAGCCUGUCCCAUUACAGGUCUACCUCAAUUACGCACUGUCGAA
.....((((((..((((..((((((((....))(((......)))............))))))...))))..((((((((((((......))))).))))))).........)))))).. ( -39.70)
>DroMoj_CAF1 147807 120 + 1
UCGAGCGAUGGUCCGGUAAUCGUGCGCGAACGCGAGAAAAUACUCGAUGAGAAAAUUGUGAGACGCACUGAGGAGGUGCCCUGCCCCAUAACGGGGCAACCUCAAUUGCGAACCGUCGAG
.....(((((((.((.((((.((((((..(((((((......))))..........)))..).)))))(((((...(((((((........))))))).))))))))))).))))))).. ( -43.80)
>DroPer_CAF1 78715 120 + 1
UCAAGCGACGGUCCAGUAAUUGUACGCGAACGCGAGAAAAUACUCGACGAGAAAAUCGUGCGCCGCACUGAGGAGGUUGCCUGCCCCAUAACGGGGCGACCUCAACUGCGGACCGUCGAG
.....(((((((((.(((.......(((..((((((......))).((((.....))))))).)))..((((((((...)))(((((.....)))))..)))))..)))))))))))).. ( -52.00)
>consensus
UCAAGCGAUGGUCCGGUCAUCGUGCGCGAACGCGAGAAAAUACUCGAUGAGAAAAUUGUGCGACGCACUGAGGAGGUGCCCUGCCCCAUAACGGGGCAACCUCAAUUGCGCACCGUCGAG
.....((((((..((((..((((((((....))(((......)))............))))))...))))..(((((....((((((.....))))))))))).........)))))).. (-36.17 = -35.65 +  -0.52)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 8

Location 22,424,908 – 22,425,027
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.72
Mean single sequence MFE -38.42
Consensus MFE -31.40
Energy contribution -31.23
Covariance contribution -0.16
Combinations/Pair 1.24
Mean z-score -1.87
Structure conservation index 0.82
SVM decision value 0.18
SVM RNA-class probability 0.622098
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22424908 119 - 27905053
G-CUGGCUCUAACCUCCGUCUCGAUGAUUUUCUCAAUGUACUCGACGGUGCGCAGUUGAGGUCGCCCCGUAAUGGGGCAUGCCACCUCCUCAGUGCGGCGCACAAUCUUCUCAUCGAGGA
(-..((......))..).(((((((((.........(((.....)))((((((.(((((((..(((((.....))))).........)))))..)).)))))).......))))))))). ( -39.40)
>DroVir_CAF1 120041 114 - 1
------AGCUAACCUCCGUCUCGAUGAUUUUCUCAAUGUACUCAACGGUGCGCAAUUGAGGUUGCCCCGUUAUGGGGCAGGGCACCUCCUCAGUGCGCCGCACAAUUUUCUCAUCGAGUA
------.............((((((((.........((....)).((((((((....(((((((((((.....))))))....)))))....))))))))..........)))))))).. ( -41.60)
>DroGri_CAF1 98444 114 - 1
------AGCUAACCUCCGUCUCGAUGAUUUUCUCAAUGUACUCGACUGUACGCAAUUGAGGUUGCCCCGUUAUGGGGCAUGGUACCUCCUCAGUGCGUCGCACGAUUUUCUCAUCGAGUA
------.............((((((((.....((...((((......))))(((.((((((.((((((.....))))))........))))))))).......)).....)))))))).. ( -37.30)
>DroWil_CAF1 61688 117 - 1
---UAGUUCUAACCUCUGUUUCGAUGAUUUUCUCAAUGUAUUCGACAGUGCGUAAUUGAGGUAGACCUGUAAUGGGACAGGCUACCUCCUCGGUGCGUCGCACAAUUUUCUCAUCGAGUA
---................((((((((.........(((.....)))(((((((...(((((((.(((((......)))))))))))).....)))).))).........)))))))).. ( -35.50)
>DroMoj_CAF1 147847 114 - 1
------CGCUAACCUCCGUCUCGAUGAUUUUCUCAAUGUACUCGACGGUUCGCAAUUGAGGUUGCCCCGUUAUGGGGCAGGGCACCUCCUCAGUGCGUCUCACAAUUUUCUCAUCGAGUA
------.............((((((((..........((.....))((..((((.((((((.(((((.(((....))).)))))...))))))))))..)).........)))))))).. ( -35.80)
>DroPer_CAF1 78755 120 - 1
GUAUGUAGCUAACCUCCGUUUCGAUGAUUUUCUCAAUGUACUCGACGGUCCGCAGUUGAGGUCGCCCCGUUAUGGGGCAGGCAACCUCCUCAGUGCGGCGCACGAUUUUCUCGUCGAGUA
................((((..((......))..))))((((((((((((((((.((((((..(((((.....))))).(....)..))))))))))).))..(.....).))))))))) ( -40.90)
>consensus
______AGCUAACCUCCGUCUCGAUGAUUUUCUCAAUGUACUCGACGGUGCGCAAUUGAGGUUGCCCCGUUAUGGGGCAGGCCACCUCCUCAGUGCGUCGCACAAUUUUCUCAUCGAGUA
...................((((((((..........((((......))))(((.((((((..(((((.....)))))(((...))))))))))))..............)))))))).. (-31.40 = -31.23 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:54 2006