Locus 6506

Sequence ID 3L_DroMel_CAF1
Location 17,264,333 – 17,264,493
Length 160
Max. P 0.928289
window10524 window10525 window10526

overview

Window 4

Location 17,264,333 – 17,264,453
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.83
Mean single sequence MFE -29.73
Consensus MFE -30.31
Energy contribution -29.43
Covariance contribution -0.88
Combinations/Pair 1.15
Mean z-score -1.06
Structure conservation index 1.02
SVM decision value 0.20
SVM RNA-class probability 0.629580
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17264333 120 + 23771897
ACAUGGUCAUCAAUCGAGAAACUUUUCACAGCGAAUUUGCUGGAAAUUAUUUCGAGCACUCGCCCGAUUAGAGACGCCAUGUUUCCAGCUGUUUAUCUAAGCCAUUUUGCGGCAACGACA
(((((((..(((((((.(((....)))...((((...((((.(((.....))).)))).)))).))))).))...))))))).....(((((................)))))....... ( -31.29)
>DroSec_CAF1 147860 120 + 1
ACAUGGUCAUCAAUCGAGAAACUUUUCACAGCGAAUUUGUUGGAAAUUAUUUCGAGCACUUGCCCGAUUAGAGACGCCAUGUUCCCAGCUGUUUAUCUAAGCCAUUUUGCGGCAACGACA
(((((((..(((((((.((((..((((.(((((....)))))))))...))))..((....)).))))).))...))))))).....(((((................)))))....... ( -28.39)
>DroSim_CAF1 142897 120 + 1
ACAUGGUCAUCAAUCGAGAAACUUUUCACAGCGAAUUUGUUGGAAAUUAUUUCAAGCACUUGCCCGAUUAGAGACGCCAUGUUUCCAGCUGUUUAUCUAAGCCAUUUUGCGGCAACGACA
(((((((..(((((((.((((..((((.(((((....)))))))))...))))..((....)).))))).))...))))))).....(((((................)))))....... ( -28.39)
>DroEre_CAF1 150994 120 + 1
ACAUGGUCAUCAGUCGAGGAACUUUUCACAGCAAAUUUGCUGGAAAUUAUUUCGAGCACUUGCCCGAUUAGAGACGCCAUGUUUCCAGCUGUUUAUCUAAGCCAUUUUGCGGCAACGACG
(((((((..(((((((.((((..((((.(((((....)))))))))...))))..((....)).))))).))...))))))).....(((((................)))))....... ( -30.99)
>DroYak_CAF1 155384 120 + 1
AUAUGGUCAUCAAUCGAGAAACUUUUCACAGCGAAUUUGCUGGAAAUUAUUUCGAGCACUUGCCCGAUUAGAGACGCCAUGUUUCCAGCUGUUUAUCUAAGCCAUUUUGCGGCAACGACA
.....(((.....((((((....((((.(((((....)))))))))...))))))....((((((((...(((((.....)))))..(((.........)))....))).))))).))). ( -29.60)
>consensus
ACAUGGUCAUCAAUCGAGAAACUUUUCACAGCGAAUUUGCUGGAAAUUAUUUCGAGCACUUGCCCGAUUAGAGACGCCAUGUUUCCAGCUGUUUAUCUAAGCCAUUUUGCGGCAACGACA
(((((((..(((((((.((((..((((.(((((....)))))))))...))))..((....)).))))).))...))))))).....(((((................)))))....... (-30.31 = -29.43 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 17,264,333 – 17,264,453
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.83
Mean single sequence MFE -33.08
Consensus MFE -31.56
Energy contribution -32.20
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.40
Structure conservation index 0.95
SVM decision value 1.19
SVM RNA-class probability 0.928289
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17264333 120 - 23771897
UGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGAAACAUGGCGUCUCUAAUCGGGCGAGUGCUCGAAAUAAUUUCCAGCAAAUUCGCUGUGAAAAGUUUCUCGAUUGAUGACCAUGU
((((...((((.....))))...))))...........((((((((((...((((((((....))))(((((..((((((((......)))).)))).)))))..)))))))).)))))) ( -36.10)
>DroSec_CAF1 147860 120 - 1
UGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGGAACAUGGCGUCUCUAAUCGGGCAAGUGCUCGAAAUAAUUUCCAACAAAUUCGCUGUGAAAAGUUUCUCGAUUGAUGACCAUGU
((((...((((.....))))...))))...........((((((((((...((((((((....))))(((((..((((((.(......).)).)))).)))))..)))))))).)))))) ( -30.20)
>DroSim_CAF1 142897 120 - 1
UGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGAAACAUGGCGUCUCUAAUCGGGCAAGUGCUUGAAAUAAUUUCCAACAAAUUCGCUGUGAAAAGUUUCUCGAUUGAUGACCAUGU
((((...((((.....))))...))))...........((((((((((...((((((((....))).(((((..((((((.(......).)).)))).))))).))))))))).)))))) ( -28.20)
>DroEre_CAF1 150994 120 - 1
CGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGAAACAUGGCGUCUCUAAUCGGGCAAGUGCUCGAAAUAAUUUCCAGCAAAUUUGCUGUGAAAAGUUCCUCGACUGAUGACCAUGU
.(((...((((.....))))...)))............((((((((((.....((((((....)))))).....(((((((((....))))).))))((((....)))))))).)))))) ( -36.20)
>DroYak_CAF1 155384 120 - 1
UGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGAAACAUGGCGUCUCUAAUCGGGCAAGUGCUCGAAAUAAUUUCCAGCAAAUUCGCUGUGAAAAGUUUCUCGAUUGAUGACCAUAU
((((...((((.....))))...))))....((((....)..)))(((..(((((((((....))))(((((..((((((((......)))).)))).)))))..)))))..)))..... ( -34.70)
>consensus
UGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGAAACAUGGCGUCUCUAAUCGGGCAAGUGCUCGAAAUAAUUUCCAGCAAAUUCGCUGUGAAAAGUUUCUCGAUUGAUGACCAUGU
((((...((((.....))))...))))...........((((((((((.....((((((....)))))).....((((((((......)))).))))............)))).)))))) (-31.56 = -32.20 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 17,264,373 – 17,264,493
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.00
Mean single sequence MFE -33.84
Consensus MFE -32.96
Energy contribution -33.24
Covariance contribution 0.28
Combinations/Pair 1.07
Mean z-score -1.30
Structure conservation index 0.97
SVM decision value 0.91
SVM RNA-class probability 0.879934
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17264373 120 - 23771897
UCCCAACUACUUGAGAUUCCCGGCACAUGGCCAAAAGCGUUGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGAAACAUGGCGUCUCUAAUCGGGCGAGUGCUCGAAAUAAUUUCCA
............(((((.((.(((.....)))...(((.(((((...((((.....))))...)))))...)))(....)..)).)))))...((((((....))))))........... ( -34.30)
>DroSec_CAF1 147900 120 - 1
UCCCAACUACUUGAGAUUCCCGGCACAUGGCCAAAAGCGUUGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGGAACAUGGCGUCUCUAAUCGGGCAAGUGCUCGAAAUAAUUUCCA
............((((((((((((.....)))...(((.(((((...((((.....))))...)))))...))))))).......)))))...((((((....))))))........... ( -36.01)
>DroSim_CAF1 142937 120 - 1
UCCCAACUACUUGAGAUUCCCGGCACAUGGCCAAAAGCGUUGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGAAACAUGGCGUCUCUAAUCGGGCAAGUGCUUGAAAUAAUUUCCA
............(((((.((.(((.....)))...(((.(((((...((((.....))))...)))))...)))(....)..)).)))))...((((((....))))))........... ( -33.00)
>DroEre_CAF1 151034 120 - 1
UCCAAACUACUUGAGAUUCCAGGCACAUGGCCAAAAGCGACGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGAAACAUGGCGUCUCUAAUCGGGCAAGUGCUCGAAAUAAUUUCCA
............(((((.((((((.....)))...(((...(((...((((.....))))...))).....)))(....).))).)))))...((((((....))))))........... ( -33.20)
>DroYak_CAF1 155424 120 - 1
UCCAAACUACUUGAGAUUCCCGGCACAUGGCCAAAGGCGAUGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGAAACAUGGCGUCUCUAAUCGGGCAAGUGCUCGAAAUAAUUUCCA
............(((((.((.(((.....)))...(((..((((...((((.....))))...))))....)))(....)..)).)))))...((((((....))))))........... ( -32.70)
>consensus
UCCCAACUACUUGAGAUUCCCGGCACAUGGCCAAAAGCGUUGUCGUUGCCGCAAAAUGGCUUAGAUAAACAGCUGGAAACAUGGCGUCUCUAAUCGGGCAAGUGCUCGAAAUAAUUUCCA
............(((((.((.(((.....)))...(((.(((((...((((.....))))...)))))...)))(....)..)).)))))...((((((....))))))........... (-32.96 = -33.24 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:54 2006