Locus 3285

Sequence ID 3L_DroMel_CAF1
Location 9,637,292 – 9,637,396
Length 104
Max. P 0.965013
window5108 window5109

overview

Window 8

Location 9,637,292 – 9,637,396
Length 104
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 75.70
Mean single sequence MFE -39.07
Consensus MFE -25.25
Energy contribution -25.58
Covariance contribution 0.34
Combinations/Pair 1.17
Mean z-score -1.40
Structure conservation index 0.65
SVM decision value 0.55
SVM RNA-class probability 0.778385
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9637292 104 + 23771897
AU---------------AUAUAUUUAACUUGCCUGCAGGGCGCUGAACUGCAGCUUCUCCUCCUCGAGCGUAUGGUCGCUCUGCAUGGUGUAACCAAGUGGCUUGGAGAAGCUGCCGCA
..---------------..........((((....))))(((.......(((((((((((.((..(((((......))))).((.(((.....))).))))...)))))))))))))). ( -39.81)
>DroVir_CAF1 34610 107 + 1
-------C-----AGCUCCAGCUGCGACUUGCCUGUAAAGCGCUAAAUUGCAGCUUCUCCUCCUCGAGAGUUUGGCCAAUCUGUGAGCUAAUGCUUAACGGCUUAGAGAAGCUGCCGCA
-------.-----(((....)))(((....((((....)).))......(((((((((((((.....)))...((((......(((((....)))))..))))..))))))))))))). ( -36.20)
>DroPse_CAF1 33654 112 + 1
-------UGGGUUCGUUGUGGAUUAUACUUGCCUGCAGGGCGCUGAACUGCAGCUUCUCCUCCUCGAGGGUCUGGCCAAUCUGCGAUGUAAUGCUCAGCGGCUUGGAGAAGCUGCCGCA
-------(((((.(((((..((((....(((....)))(((((((.....))))...(((((...)))))....)))))))..)))))....)))))(((((...........))))). ( -39.90)
>DroYak_CAF1 33245 119 + 1
AAAACGUUGCGUUUUUUUGGUAUUUAACUUGCCUGCAGGGCGCUGAACUGCAGCUUCUCCUCCUCGAGCGUAUGGUCGCUCUGCAUGGUGUACCCAAGUGGCUUGGAGAAGCUGCCGCA
.....((((((((((...((((.......))))...)))))))..))).(((((((((((.((..(((((......))))).((.(((.....))).))))...))))))))))).... ( -44.60)
>DroAna_CAF1 45138 107 + 1
----------GAC-UUUCGGCA-UUAACUUGCCUGCAAGGCACUAAACUGCAGCUUCUCCUCCUCAAGGGUCUGGCCAAUCUGCGAGGUAAUGCUCAGCGGCUUUGAGAAGCUGCCGCA
----------...-....((((-......)))).((.((........))((((((((((.(((....)))...((((.....(((((......))).))))))..)))))))))).)). ( -34.00)
>DroPer_CAF1 33699 112 + 1
-------UGGGUUCGUUGUGGAUUAUACUUGCCUGCAGGGCGCUGAACUGCAGCUUCUCCUCCUCGAGGGUCUGGCCAAUCUGCGAUGUAAUGCUCAGCGGCUUGGAGAAGCUGCCGCA
-------(((((.(((((..((((....(((....)))(((((((.....))))...(((((...)))))....)))))))..)))))....)))))(((((...........))))). ( -39.90)
>consensus
_______U__GUU_GUUCUGGAUUUAACUUGCCUGCAGGGCGCUGAACUGCAGCUUCUCCUCCUCGAGGGUCUGGCCAAUCUGCGAGGUAAUGCUCAGCGGCUUGGAGAAGCUGCCGCA
...........................((((....))))(((.......(((((((((((.............((((.....((........)).....)))).)))))))))))))). (-25.25 = -25.58 +   0.34)

alignment

Postscript

secondary structure

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dotplot

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Window 9

Location 9,637,292 – 9,637,396
Length 104
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 75.70
Mean single sequence MFE -37.73
Consensus MFE -27.48
Energy contribution -27.98
Covariance contribution 0.51
Combinations/Pair 1.24
Mean z-score -1.76
Structure conservation index 0.73
SVM decision value 1.57
SVM RNA-class probability 0.965013
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9637292 104 - 23771897
UGCGGCAGCUUCUCCAAGCCACUUGGUUACACCAUGCAGAGCGACCAUACGCUCGAGGAGGAGAAGCUGCAGUUCAGCGCCCUGCAGGCAAGUUAAAUAUAU---------------AU
.((.(((((((((((...((...(((.....)))....(((((......)))))..)).)))))))))))......))(((.....))).............---------------.. ( -39.80)
>DroVir_CAF1 34610 107 - 1
UGCGGCAGCUUCUCUAAGCCGUUAAGCAUUAGCUCACAGAUUGGCCAAACUCUCGAGGAGGAGAAGCUGCAAUUUAGCGCUUUACAGGCAAGUCGCAGCUGGAGCU-----G-------
.(((((((((((((...((((...(((....))).......))))....(((.....)))))))))))))........(((.....)))....)))(((....)))-----.------- ( -35.90)
>DroPse_CAF1 33654 112 - 1
UGCGGCAGCUUCUCCAAGCCGCUGAGCAUUACAUCGCAGAUUGGCCAGACCCUCGAGGAGGAGAAGCUGCAGUUCAGCGCCCUGCAGGCAAGUAUAAUCCACAACGAACCCA-------
....(((((((((((..((((....((........))....)))).....((....)).))))))))))).((((...(((.....)))..((.......))...))))...------- ( -35.90)
>DroYak_CAF1 33245 119 - 1
UGCGGCAGCUUCUCCAAGCCACUUGGGUACACCAUGCAGAGCGACCAUACGCUCGAGGAGGAGAAGCUGCAGUUCAGCGCCCUGCAGGCAAGUUAAAUACCAAAAAAACGCAACGUUUU
(((((((((((((((...((...(((.....)))....(((((......)))))..)).)))))))))))........(((.....)))...................))))....... ( -44.80)
>DroAna_CAF1 45138 107 - 1
UGCGGCAGCUUCUCAAAGCCGCUGAGCAUUACCUCGCAGAUUGGCCAGACCCUUGAGGAGGAGAAGCUGCAGUUUAGUGCCUUGCAGGCAAGUUAA-UGCCGAAA-GUC----------
.(((((((((((((...((......))....(((((.((...((.....)))))))))..)))))))))).......((((.....))))......-)))(....-)..---------- ( -34.10)
>DroPer_CAF1 33699 112 - 1
UGCGGCAGCUUCUCCAAGCCGCUGAGCAUUACAUCGCAGAUUGGCCAGACCCUCGAGGAGGAGAAGCUGCAGUUCAGCGCCCUGCAGGCAAGUAUAAUCCACAACGAACCCA-------
....(((((((((((..((((....((........))....)))).....((....)).))))))))))).((((...(((.....)))..((.......))...))))...------- ( -35.90)
>consensus
UGCGGCAGCUUCUCCAAGCCGCUGAGCAUUACCUCGCAGAUUGGCCAGACCCUCGAGGAGGAGAAGCUGCAGUUCAGCGCCCUGCAGGCAAGUUAAAUCCACAAC_AAC__A_______
.((.(((((((((((..((......))....(((((.((............))))))).)))))))))))......))(((.....))).............................. (-27.48 = -27.98 +   0.51)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:54 2006