Locus 7577

Sequence ID 2L_DroMel_CAF1
Location 20,956,370 – 20,956,464
Length 94
Max. P 0.742444
window12184 window12185

overview

Window 4

Location 20,956,370 – 20,956,464
Length 94
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 81.24
Mean single sequence MFE -22.19
Consensus MFE -13.25
Energy contribution -13.86
Covariance contribution 0.61
Combinations/Pair 1.04
Mean z-score -2.12
Structure conservation index 0.60
SVM decision value 0.38
SVM RNA-class probability 0.712506
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20956370 94 + 22407834
UUUUGUUACAUUUAUAAAUGGUUUAGAGCGCACAUGUGCCGCACAG-------CACCAAAACACACACGCACAGCUGUGGCUACAAUUUGUAACUGUAGCG
....((((((.((((((((.((....((((((....)))..(((((-------(...................))))))))))).)))))))).)))))). ( -25.51)
>DroVir_CAF1 34996 99 + 1
UUUUGUUACAUUUAUAAAUGGUUUAGAGC--ACAUGUGCUGUACACACACAGACACGAGCACACACACGCACAGCUGUGGCUACAAUUUGUAACUGUAGCG
....((((((.((((((((.((.((.(((--(....)))).)).)).(((((....(.((........)).)..)))))......)))))))).)))))). ( -26.80)
>DroPse_CAF1 58163 75 + 1
UUUUGUUACAUUUAUAAAUGGUUUAGAGC--ACAUGUG------------------------GCACACGCACAGCUGCGGCUACAAUUUGUAACUGUAGAG
.....(((((.((((((((.((.....))--...((((------------------------((...((((....)))))))))))))))))).))))).. ( -18.30)
>DroGri_CAF1 28768 81 + 1
UUUUGUUACAUUUAUAAAUGGUUUACACA--ACAUAUGCUACAA------------------ACACACGCACAGCUGUGGCUACAAUUUGUAACUGUAGCG
....((((((.((((((((.((...((((--.(...(((.....------------------......)))..).))))...)).)))))))).)))))). ( -19.00)
>DroAna_CAF1 44480 86 + 1
UUUUGUUACAUUUAUAAAUGGUUUAGAGCACACAUGUGCUGCCU---------------CACACACACGCACAGCUGUGGCUACAAUUUGUAACUGUAGCG
....((((((.((((((((.((....(((.(((((((((((...---------------......)).)))))..))))))))).)))))))).)))))). ( -25.20)
>DroPer_CAF1 48057 75 + 1
UUUUGUUACAUUUAUAAAUGGUUUAGAGC--ACAUGUG------------------------GCACACGCACAGCUGCGGCUACAAUUUGUAACUGUAGAG
.....(((((.((((((((.((.....))--...((((------------------------((...((((....)))))))))))))))))).))))).. ( -18.30)
>consensus
UUUUGUUACAUUUAUAAAUGGUUUAGAGC__ACAUGUGCUGCA___________________ACACACGCACAGCUGUGGCUACAAUUUGUAACUGUAGCG
....((((((.((((((((.((....(((.....((((.........................))))((((....))))))))).)))))))).)))))). (-13.25 = -13.86 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,956,370 – 20,956,464
Length 94
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 81.24
Mean single sequence MFE -21.40
Consensus MFE -14.51
Energy contribution -14.70
Covariance contribution 0.19
Combinations/Pair 1.06
Mean z-score -1.80
Structure conservation index 0.68
SVM decision value 0.45
SVM RNA-class probability 0.742444
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20956370 94 - 22407834
CGCUACAGUUACAAAUUGUAGCCACAGCUGUGCGUGUGUGUUUUGGUG-------CUGUGCGGCACAUGUGCGCUCUAAACCAUUUAUAAAUGUAACAAAA
.((((((((.....))))))))......(((((((.((((...((((.-------..(.(((.((....))))).)...))))..)))).)))).)))... ( -25.90)
>DroVir_CAF1 34996 99 - 1
CGCUACAGUUACAAAUUGUAGCCACAGCUGUGCGUGUGUGUGCUCGUGUCUGUGUGUGUACAGCACAUGU--GCUCUAAACCAUUUAUAAAUGUAACAAAA
.((((((((.....)))))))).(((..((((.(((.((..((.((((((((((....))))).))))).--)).....))))).))))..)))....... ( -28.20)
>DroPse_CAF1 58163 75 - 1
CUCUACAGUUACAAAUUGUAGCCGCAGCUGUGCGUGUGC------------------------CACAUGU--GCUCUAAACCAUUUAUAAAUGUAACAAAA
.......((((((......(((....)))(..((((...------------------------..)))).--.).................)))))).... ( -15.20)
>DroGri_CAF1 28768 81 - 1
CGCUACAGUUACAAAUUGUAGCCACAGCUGUGCGUGUGU------------------UUGUAGCAUAUGU--UGUGUAAACCAUUUAUAAAUGUAACAAAA
.((((((((.....))))))))(((((((((((......------------------.....))))).))--))))......................... ( -21.10)
>DroAna_CAF1 44480 86 - 1
CGCUACAGUUACAAAUUGUAGCCACAGCUGUGCGUGUGUGUG---------------AGGCAGCACAUGUGUGCUCUAAACCAUUUAUAAAUGUAACAAAA
.((((((((.....)))))))).......(..((..(((((.---------------.....)))))..))..)........................... ( -22.80)
>DroPer_CAF1 48057 75 - 1
CUCUACAGUUACAAAUUGUAGCCGCAGCUGUGCGUGUGC------------------------CACAUGU--GCUCUAAACCAUUUAUAAAUGUAACAAAA
.......((((((......(((....)))(..((((...------------------------..)))).--.).................)))))).... ( -15.20)
>consensus
CGCUACAGUUACAAAUUGUAGCCACAGCUGUGCGUGUGU___________________UGCAGCACAUGU__GCUCUAAACCAUUUAUAAAUGUAACAAAA
.......((((((.....((((....)))).((((((((.......................)))))))).....................)))))).... (-14.51 = -14.70 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:20 2006