Locus 7961

Sequence ID 3L_DroMel_CAF1
Location 21,092,842 – 21,093,071
Length 229
Max. P 0.913146
window12987 window12988

overview

Window 7

Location 21,092,842 – 21,092,951
Length 109
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 93.27
Mean single sequence MFE -31.85
Consensus MFE -26.79
Energy contribution -27.35
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -2.25
Structure conservation index 0.84
SVM decision value 1.09
SVM RNA-class probability 0.913146
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21092842 109 - 23771897
UUUUACGAGUCUGUAAGAUUUCCUUGGCAAAUGUCAAGAGUACUUGGGCAUCCCAUAUAUUCGAGGGACUUAAGGU-UGGGUUUCUCCCAGGCGAUUUGUCAAAUUUAAU
(((((((....))))))).....((((((((((((..(((((..((((...))))..)))))(((..(((((....-)))))..)))...))).)))))))))....... ( -33.50)
>DroSec_CAF1 143073 108 - 1
UUUUACGAGUCUGUAAGAUUUCCUCGGCAAAUGUCAAGCGUACUUCGGCAUUCCAU--AUUCGAGGGACUCAAGGUUUGGGUUUCUGCCAGGCGAUUUGUCAAAUUUAAU
(((.(((((((.....((.((((((((..(((((((((....))).))))))....--..)))))))).))...((((((.......))))))))))))).)))...... ( -28.90)
>DroSim_CAF1 50135 108 - 1
UUUUACGAGUCUGUAAGAUUUCCUCGGCAAAUGUCAAGCGUACUUGGACAUUCCAU--AUUCGAGGGACUCAAGGUUUGGGUUUCUCCCAGGCGAUUUGUCAAAUUUAAU
(((.(((((((.....((.((((((((..(((((((((....))).))))))....--..)))))))).))...(((((((.....)))))))))))))).)))...... ( -33.20)
>DroYak_CAF1 37296 108 - 1
UUUUACGAGUCUGUGAGAUUUCUUUGGCAAAUGUCAAGAGUACUUGGGCAUGCCAU--AUUCGAGGGAUUUAAGGUUUGGGUUUCUCCCAGGCGAUUUGUCAAAUUUAAU
(((.(((((((....((((..((((((((..(((((((....))).))))))))).--....)))..))))...(((((((.....)))))))))))))).)))...... ( -31.80)
>consensus
UUUUACGAGUCUGUAAGAUUUCCUCGGCAAAUGUCAAGAGUACUUGGGCAUUCCAU__AUUCGAGGGACUCAAGGUUUGGGUUUCUCCCAGGCGAUUUGUCAAAUUUAAU
(((.(((((((.....((.(((((((((....)))..((((...(((.....)))...)))))))))).))...(((((((.....)))))))))))))).)))...... (-26.79 = -27.35 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 21,092,951 – 21,093,071
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.17
Mean single sequence MFE -27.32
Consensus MFE -21.66
Energy contribution -21.78
Covariance contribution 0.12
Combinations/Pair 1.09
Mean z-score -1.75
Structure conservation index 0.79
SVM decision value 0.32
SVM RNA-class probability 0.686098
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21092951 120 - 23771897
GAAAAUGGCAGGAAAAGUGGAAAUUACACAGUGCGACUUUUAAUGGGAGGAAAACUUUUGCUGCAUCAGGACUAAAGCUAAUUAGUAAGCCAUAAACAUAAAUAGCCAUGUCCUGGCAAC
.......((((.(((((((.......))).((....((((.....))))....)))))).)))).(((((((....((((.(((((.........)).))).))))...))))))).... ( -27.00)
>DroSec_CAF1 143181 120 - 1
AAAAAUGCCAGGAAAAGUGGAAAUUACACAGUGCGACUUUUAAUGGUAGGGAAACUUUUGCUGCAUCAGGACUAAAGCUAAUUAGUAAGCCAUAAACAUAAAUAGCCAUGUCCUGGCAAC
.....((((((((...((((..(((.....((((((((......)))(((....)))....)))))..(((((((......)))))...)).........)))..)))).)))))))).. ( -30.90)
>DroSim_CAF1 50243 120 - 1
AAAAAUGCCAGGAAAAGUGGAAAUUACACAGUGCGACUUUUAAUGGGAGGAAAACUUUUGCUGCAUCAGGACUAAAGCUAAUUAGUAAGCCAUAAACAUAAAUAGCCAUGUCCUGGCAAC
.....((((((((...((((..(((.....(((((.((......))(((.....)))....)))))..(((((((......)))))...)).........)))..)))).)))))))).. ( -27.80)
>DroEre_CAF1 65627 120 - 1
AAAACUGACAGCAGAAGUGGAAAUUACACAGUGCGACUUUUAAUGGGAGCAAAACUUUGGCUGCAUCAGGGCUAAAGCUAAUUAGUAAGCCAUAAACAUAAAUAGCCAUGUCCUGGCAAC
....((((((((....(((.......)))..(((..((......))..)))........))))..))))((((...(((....))).)))).............((((.....))))... ( -29.00)
>DroYak_CAF1 37404 120 - 1
AAAACUGAAAGGAAAAGUGGAAAUUACACAGUGCGACUUUUAAUGGGAGGAAAACUUUUGCUGCAUCAGGACUUAAGCUAAUUAGUAAGCCAUAAACAUAAAUAGCCAUGUCCUGACAAC
.....((((((..(..(((.......)))..)....)))))).(..(((.....)))..).....(((((((....((((.(((((.........)).))).))))...))))))).... ( -21.90)
>consensus
AAAAAUGACAGGAAAAGUGGAAAUUACACAGUGCGACUUUUAAUGGGAGGAAAACUUUUGCUGCAUCAGGACUAAAGCUAAUUAGUAAGCCAUAAACAUAAAUAGCCAUGUCCUGGCAAC
.....((.(((.(((((((.......))).((....((((.....))))....)))))).)))))(((((((....((((.(((((.........)).))).))))...))))))).... (-21.66 = -21.78 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:08 2006