Locus 1777

Sequence ID 3R_DroMel_CAF1
Location 5,103,155 – 5,103,289
Length 134
Max. P 0.994027
window2919 window2920

overview

Window 9

Location 5,103,155 – 5,103,254
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.33
Mean single sequence MFE -36.14
Consensus MFE -28.70
Energy contribution -29.14
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -2.28
Structure conservation index 0.79
SVM decision value 1.59
SVM RNA-class probability 0.966251
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5103155 99 - 27905053
UGCUGGGCAAAUAUUUACAUGGCGCACUGACAU---UGUUGGCUCACUCGAGUCAACAG------------------CAAAAUGCCAGCGUUGUGGUGCCUCAGGAAUUCAGCCGGAGAC
..(((((((........((..((((........---(((((((((....)))))))))(------------------(.....))..))))..)).)))).)))..........(....) ( -33.20)
>DroSec_CAF1 9863 101 - 1
UGCUGGCCAAAUAUUUACAUGGCGCACUGCCAUU-UUGUUGGCUCACUCGAGUCAACAG------------------CAAAAUGCCAGCGUUGUGGUGCCUCAGGAAUUCAGCCGGAGAC
.((((((...........(((((.....))))).-((((((((((....))))))))))------------------......))))))..........(((.((.......)).))).. ( -34.20)
>DroSim_CAF1 10110 101 - 1
UGCUGGCCAAAUAUUUACAUGGCGCACUGGCAUU-UUGUUGGCUCACUCGAGUCAACAG------------------CAAAAUGCCAGCGUUGUGGUGCCUCAGGAAUUCAGCCGGAGAC
..(((((.....((((....(((((.((((((((-((((((((((....))))))...)------------------))))))))))).......)))))....))))...))))).... ( -40.40)
>DroEre_CAF1 10154 120 - 1
UGCUGGCCAAAUAUUUACAUGGCGCACUGACAUUGUUGUUGGCUCACUCGAGUCAACAGCAAAAACAGCAAAAACAGCAAAAUGCCAGCGUUGUGGUGCCCCAGGAAUUCUGCCGGAGAC
..(((((.....((((...(((.(((((....(((((((((((((....))))))))))))).....((((.....((.....)).....))))))))).))).))))...))))).... ( -42.00)
>DroYak_CAF1 11056 99 - 1
UGCUGGCCAAAUAUUUACAUGGCGCACUGACAUUG---UUGGUUCACUCGAGUCAACAG------------------CAAAAUGCCAGCGUUGUGGUGCCCCAGGAAUUUUGCCGGAGAC
..(((((.(((.((((...(((.(((((.((.(((---(((..((....))..))))))------------------...((((....))))))))))).))).)))))))))))).... ( -30.90)
>consensus
UGCUGGCCAAAUAUUUACAUGGCGCACUGACAUU_UUGUUGGCUCACUCGAGUCAACAG__________________CAAAAUGCCAGCGUUGUGGUGCCUCAGGAAUUCAGCCGGAGAC
..(((((.....((((....(((((...........(((((((((....)))))))))...................((.((((....)))).)))))))....))))...))))).... (-28.70 = -29.14 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 5,103,195 – 5,103,289
Length 94
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.32
Mean single sequence MFE -30.50
Consensus MFE -21.52
Energy contribution -21.56
Covariance contribution 0.04
Combinations/Pair 1.11
Mean z-score -3.40
Structure conservation index 0.71
SVM decision value 2.44
SVM RNA-class probability 0.994027
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5103195 94 - 27905053
UGCGACGUUAUUAUCUGGCAAAAUAGCCGA-----AAAAAUGCUGGGCAAAUAUUUACAUGGCGCACUGACAU---UGUUGGCUCACUCGAGUCAACAG------------------CAA
((((.((((((....((((......)))).-----.....(((...))).........)))))))........---(((((((((....))))))))))------------------)). ( -24.70)
>DroSec_CAF1 9903 95 - 1
UGCGCCGCUAUUAUCUGGCGAAAUAGCC-A-----AAAAAUGCUGGCCAAAUAUUUACAUGGCGCACUGCCAUU-UUGUUGGCUCACUCGAGUCAACAG------------------CAA
(((((((.((((.(.((((......)))-)-----.).)))).))))...........(((((.....))))).-.(((((((((....))))))))))------------------)). ( -32.90)
>DroSim_CAF1 10150 95 - 1
UGCGCCGCUAUUAUCUGGCGAAAUAGCC-A-----AAAAAUGCUGGCCAAAUAUUUACAUGGCGCACUGGCAUU-UUGUUGGCUCACUCGAGUCAACAG------------------CAA
((((((((.(((.(.((((......)))-)-----.).)))))..((((..........)))).....)))...-.(((((((((....))))))))))------------------)). ( -32.80)
>DroEre_CAF1 10194 119 - 1
UUCGUCGCCAUUAUCUGGCAAAAUAGCC-AACAAAAAAAAUGCUGGCCAAAUAUUUACAUGGCGCACUGACAUUGUUGUUGGCUCACUCGAGUCAACAGCAAAAACAGCAAAAACAGCAA
......((((.....)))).........-...........(((((((((..........))))...(((...(((((((((((((....)))))))))))))...)))......))))). ( -37.50)
>DroYak_CAF1 11096 93 - 1
UUCGACGCCAUUAUCUGGCAAAAUAGCC-A-----AAAAAUGCUGGCCAAAUAUUUACAUGGCGCACUGACAUUG---UUGGUUCACUCGAGUCAACAG------------------CAA
...(.(((((((((.((((....((((.-.-----......)))))))).))).....))))))).......(((---(((..((....))..))))))------------------... ( -24.60)
>consensus
UGCGACGCUAUUAUCUGGCAAAAUAGCC_A_____AAAAAUGCUGGCCAAAUAUUUACAUGGCGCACUGACAUU_UUGUUGGCUCACUCGAGUCAACAG__________________CAA
...(.(((((((((.((((....((((..............)))))))).))).....)))))))...........(((((((((....)))))))))...................... (-21.52 = -21.56 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:07 2006