Locus 4188

Sequence ID 2R_DroMel_CAF1
Location 13,795,209 – 13,795,370
Length 161
Max. P 0.547650
window6734 window6735

overview

Window 4

Location 13,795,209 – 13,795,301
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 79.35
Mean single sequence MFE -38.78
Consensus MFE -19.36
Energy contribution -18.42
Covariance contribution -0.94
Combinations/Pair 1.31
Mean z-score -2.03
Structure conservation index 0.50
SVM decision value 0.03
SVM RNA-class probability 0.547650
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13795209 92 + 20766785
CCUGCACCGCCGCCUCCCGCUGCGCCAUUGCCGGCAGCGCCUCCCACACCGCCAACGGCUCCAUUGCCCGAUGGCCCGUUCGGUGGCGGACC
......((((((((...((((((((....))..))))))...........((((.((((......).))).))))......))))))))... ( -38.70)
>DroPse_CAF1 93279 92 + 1
CCUGCGCCACCUCCACCAGCAGGGCCAUUCACAGCGGCUCCACCGACUCCUCCCACACCGCCGUUGCCGGGUGGUCCACUGGGUGGUGGGCC
...((.(((((....((((..(((((((((.(((((((.....................)))))))..))))))))).))))..))))))). ( -41.60)
>DroEre_CAF1 96438 92 + 1
CCUGCACCGCCGCCACCCGCUGCGCCAUUACCGGCAGCGCCUCCCACUCCGCCCACGGCUCCAUUGCCCGAUGGCCCGUUCGGUGGCGGACC
......((((((((...((((((..........))))))...............((((..(((((....))))).))))..))))))))... ( -36.80)
>DroYak_CAF1 100682 92 + 1
CCUGCACCGCCGCCACCCGCUGCGCCAUUACCGGCAGCGCCUCCCACUCCGCCCACGGCUCCAUUGCCCGAUGGCCCGUUCGGUGGCGGACC
......((((((((...((((((..........))))))...............((((..(((((....))))).))))..))))))))... ( -36.80)
>DroAna_CAF1 104826 92 + 1
CCUGCACCGCCUCCUCCCGGAGCUCCGUUGCCGGCCGCUCCGCCCACACCACCGACGGCUCCGUUACCAGAUGGCCCGUUUGGCGGUGGUCC
....(((((((......((((((.(((....)))..))))))...........(((((..(((((....))))).))))).))))))).... ( -37.20)
>DroPer_CAF1 94145 92 + 1
CCUGCGCCACCUCCACCAGCAGGGCCAUUCACAGCGGCUCCACCGACUCCUCCCACACCGCCGUUGCCGGGUGGUCCACUGGGUGGUGGGCC
...((.(((((....((((..(((((((((.(((((((.....................)))))))..))))))))).))))..))))))). ( -41.60)
>consensus
CCUGCACCGCCGCCACCCGCAGCGCCAUUACCGGCAGCGCCUCCCACUCCGCCCACGGCUCCAUUGCCCGAUGGCCCGUUCGGUGGCGGACC
......(((((.((.......((((...........))))....................(((((....))))).......)).)))))... (-19.36 = -18.42 +  -0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 5

Location 13,795,268 – 13,795,370
Length 102
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 75.34
Mean single sequence MFE -48.28
Consensus MFE -26.86
Energy contribution -25.83
Covariance contribution -1.02
Combinations/Pair 1.46
Mean z-score -1.49
Structure conservation index 0.56
SVM decision value -0.02
SVM RNA-class probability 0.521827
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13795268 102 + 20766785
UCCAUUGCCCGAUGGCCCGU------UCGGUGGCGGACCUCCGGGCAUCGACUGCUUGUGGCCGUCCAAUGACGAGCCGGGCGUCACUCCGCCAUGUCCUUUCGGGCC
......((((((((((.(((------(...((((((.((..((((((.....)))))).))))).)))..)))).))))((((......))))........)))))). ( -45.50)
>DroPse_CAF1 93338 99 + 1
GCCGUUGCCGGGUGGUCCAC------UGGGUGGUGGGCCACCAGGCAUCGUCUGUUUGUGCGCGUCUAGCGCUGAGCCAGGCGGCACUCCG---UGCGGCUUCUGGCC
(((..((((.((((((((((------(....))))))))))).)))).((((((((((.((((.....)))))))).))))))((((...)---))))))........ ( -53.40)
>DroSec_CAF1 96089 102 + 1
UCCAUUGCCCGAUGGCCCGU------UCGGUGGCGGACCUCCGGGCAUCGACUGCUUGUGGCCGUCUAAUGACGAGCCGGGCGUCACUCCGCCAUGUCCUUUCGGGCC
......((((((.((..(((------..(((((.(((((((((((((.....)))))).(((((((....)))).)))))).))).).))))))))..)).)))))). ( -46.10)
>DroSim_CAF1 99960 102 + 1
UCCAUUGCCCGAUGGCCCGU------UCGGUGGCGGACCUCCGGGCAUCGACUGCUUGUGGCCGUCUAAUGACGAGCCGGGCGUCACUCCGCCAUGUCCUUUCGGGCC
......((((((.((..(((------..(((((.(((((((((((((.....)))))).(((((((....)))).)))))).))).).))))))))..)).)))))). ( -46.10)
>DroMoj_CAF1 132212 102 + 1
UCCAUUGCCAGCGGGGCCGGCACCGAUGGGCGGU---GCACCAGGUAGCGGCUGCUUGUGGGCAUCGAGUGCUGCGCCGGGCGCCACG---CCAUGCGAUUUUUGGCC
......(((((.((.(((.((((((.....))))---))....(((.(((((.(((((.......))))))))))))).))).)).((---(...)))....))))). ( -45.20)
>DroPer_CAF1 94204 99 + 1
GCCGUUGCCGGGUGGUCCAC------UGGGUGGUGGGCCACCAGGCAUCGUCUGUUUGUGCGCGUCUAGCGCUGAGCCAGGCGGCACUCCG---UGCGGCUUCUGGCC
(((..((((.((((((((((------(....))))))))))).)))).((((((((((.((((.....)))))))).))))))((((...)---))))))........ ( -53.40)
>consensus
UCCAUUGCCCGAUGGCCCGU______UCGGUGGCGGACCACCAGGCAUCGACUGCUUGUGGCCGUCUAAUGACGAGCCGGGCGUCACUCCGCCAUGCCCUUUCGGGCC
......((((((....((..........)).((((((.....(((((.....)))))((((.(((((...........)))))))))))))))........)))))). (-26.86 = -25.83 +  -1.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:53 2006