Locus 8486

Sequence ID 3L_DroMel_CAF1
Location 22,282,233 – 22,282,393
Length 160
Max. P 0.707299
window13887 window13888

overview

Window 7

Location 22,282,233 – 22,282,353
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.25
Mean single sequence MFE -24.97
Consensus MFE -18.86
Energy contribution -18.34
Covariance contribution -0.52
Combinations/Pair 1.24
Mean z-score -1.62
Structure conservation index 0.76
SVM decision value 0.17
SVM RNA-class probability 0.615089
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22282233 120 + 23771897
UUUAUUUAUUACUCGCUCCGAUUGCAAAAGUCCAGACGGACAGAGGGUCUGCUGGAAGACCCUUCAUUUUUCCUAAUAUAAUUUAAAUUUCCUGCACUGCUCUUUCUCCGGAUUCCAUUC
................((((...(((...((((....)))).((((((((......)))))))).................................)))........))))........ ( -23.50)
>DroSec_CAF1 40605 120 + 1
UUUAUUUGUUACUCGCUCCGAUUGCCAAAGUCCAGACGGACAGAGGGUCUGCUGGCAGACCCUUCAUUUUCCCUAAUAUAAUUUAAAUUUCCUGCACUGCUCUUUUGCCGGAUUCCUUUC
................((((..(((....((((....)))).(((((((((....))))))))).............................)))..((......))))))........ ( -29.00)
>DroSim_CAF1 32614 120 + 1
UUUAUUUAUUACUCGCUCCGAUUGCCAAAGUCCAGACGGACAGAGGGUCUGCUGGAAGACCCUUCAUUUUCCCUAAUAUAAUUUAAAUUUCCUGCACUGCUCUUUUGCCGGAUUCCUUUC
................((((..(((....((((....)))).((((((((......)))))))).............................)))..((......))))))........ ( -26.10)
>DroEre_CAF1 39267 120 + 1
UUUAUUUAUUACUCGCUCCGAUUGCCAAAGUCCAAACGGACAGAGGGUCUGCUGGCAGGCCCUUCAUCUUUCCUAAUAUAAUUUAAAUUUCCAGCACUGCUCUUUUGUCGGAUUCCUUUC
................(((((((((....((((....)))).(((((((((....))))))))).............................)))..........))))))........ ( -28.70)
>DroYak_CAF1 5295 106 + 1
UUUAUUUAUUACUCGCUCCGAUUGCAAAAGUCCAAACGGAUAAAGUGUCUGCAGGAAGGCCCUUCAUCUUCCCUAAUAUAAUUUAAAUUUCCUGCACUGUUCAUCU--------------
.........((((...((((.(((........))).))))...))))..(((((((((.............................)))))))))..........-------------- ( -17.55)
>consensus
UUUAUUUAUUACUCGCUCCGAUUGCCAAAGUCCAGACGGACAGAGGGUCUGCUGGAAGACCCUUCAUUUUCCCUAAUAUAAUUUAAAUUUCCUGCACUGCUCUUUUGCCGGAUUCCUUUC
..............((......(((....((((....)))).((((((((......)))))))).............................)))..)).................... (-18.86 = -18.34 +  -0.52)

alignment

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secondary structure

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dotplot

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Window 8

Location 22,282,273 – 22,282,393
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.50
Mean single sequence MFE -28.72
Consensus MFE -22.06
Energy contribution -22.78
Covariance contribution 0.72
Combinations/Pair 1.13
Mean z-score -1.73
Structure conservation index 0.77
SVM decision value 0.37
SVM RNA-class probability 0.707299
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22282273 120 + 23771897
CAGAGGGUCUGCUGGAAGACCCUUCAUUUUUCCUAAUAUAAUUUAAAUUUCCUGCACUGCUCUUUCUCCGGAUUCCAUUCUCGCUGGCUUUUAGUGGGCUUUGGAGAGUCGUUAAAUUUU
..((((((((......))))))))...............(((((((.(((((.((.(..((......((((............)))).....))..)))...)))))....))))))).. ( -29.20)
>DroSec_CAF1 40645 120 + 1
CAGAGGGUCUGCUGGCAGACCCUUCAUUUUCCCUAAUAUAAUUUAAAUUUCCUGCACUGCUCUUUUGCCGGAUUCCUUUCUCGCAGGCUUUUAGUGGUCUUUGGAGAGUCGUUAAAUUUU
..(((((((((....)))))))))...............(((((((.(((((.(.((..((..(((((.(((......))).))))).....))..)))...)))))....))))))).. ( -33.00)
>DroSim_CAF1 32654 120 + 1
CAGAGGGUCUGCUGGAAGACCCUUCAUUUUCCCUAAUAUAAUUUAAAUUUCCUGCACUGCUCUUUUGCCGGAUUCCUUUCUCGCAGGCUUUUAGUGGGCUUUGGAGAGUCGUUAAAUUUU
..((((((((......))))))))...............(((((((.(((((.((.(..((..(((((.(((......))).))))).....))..)))...)))))....))))))).. ( -32.20)
>DroEre_CAF1 39307 120 + 1
CAGAGGGUCUGCUGGCAGGCCCUUCAUCUUUCCUAAUAUAAUUUAAAUUUCCAGCACUGCUCUUUUGUCGGAUUCCUUUCUCUUUAGCUUUUAGUGGGCUUUGGAGAGUCGUUAAAUUUU
..(((((((((....)))))))))...............(((((((...(((.(((.........))).))).....((((((..(((((.....)))))..))))))...))))))).. ( -32.00)
>DroYak_CAF1 5335 100 + 1
UAAAGUGUCUGCAGGAAGGCCCUUCAUCUUCCCUAAUAUAAUUUAAAUUUCCUGCACUGUUCAUCU--------------------UCUUUUAGUGGGCAUUGGAGAGUCGUUAAAUUUU
.............((((((.......)))))).......(((((((.(((((.....((((((.((--------------------......))))))))..)))))....))))))).. ( -17.20)
>consensus
CAGAGGGUCUGCUGGAAGACCCUUCAUUUUCCCUAAUAUAAUUUAAAUUUCCUGCACUGCUCUUUUGCCGGAUUCCUUUCUCGCAGGCUUUUAGUGGGCUUUGGAGAGUCGUUAAAUUUU
..((((((((......))))))))...............(((((((.(((((.((.(..((.....((((((......)))....)))....))..)))...)))))....))))))).. (-22.06 = -22.78 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:16:48 2006