Locus 8953

Sequence ID 3R_DroMel_CAF1
Location 24,013,571 – 24,013,669
Length 98
Max. P 0.988330
window14350 window14351

overview

Window 0

Location 24,013,571 – 24,013,669
Length 98
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 77.55
Mean single sequence MFE -24.60
Consensus MFE -11.45
Energy contribution -13.20
Covariance contribution 1.75
Combinations/Pair 1.00
Mean z-score -2.46
Structure conservation index 0.47
SVM decision value 0.28
SVM RNA-class probability 0.667530
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24013571 98 + 27905053
UAUUGACAUGUCAAUGCACCACAUACAUAUGCAUACACAUAGCCAUGCCAACAAGCACGGUGUGAGCCGUUUAAAUAUGGCUAAAAGCCGGCGCGAAA
.(((((....)))))((..........((((......))))(((.(((......))).(((...((((((......))))))....)))))))).... ( -26.40)
>DroSec_CAF1 209166 98 + 1
UAUUGACAUGUCAAUGCACCACACACAUAUACAUACAAAUAGCCAUGCACACAAGCACAGUGUGAGCCGUUUAAAUAUGGCUAAAAGCCGGCGCGAAA
.(((((....)))))((.((.(((((.(((........)))....(((......)))..)))))((((((......)))))).......)).)).... ( -23.90)
>DroSim_CAF1 206381 98 + 1
UAUUGACAUGUCAAUGCACCACACACAUAUGCAUACACAUAGCCAUGCACACAAGCACAGUGUGAGCCGUUUAAAUAUGGCUAAAAGCCGGCGCGAAA
.(((((....)))))((.((.(((((.((((......))))....(((......)))..)))))((((((......)))))).......)).)).... ( -26.80)
>DroAna_CAF1 218894 75 + 1
UAUUGACAUGUCAAUGCACUGCCG-CA-GUAC------------CUGC---------CACUGUUCUCGGCUUAAACAUGGCUAAAAGCCUGCGCGGUA
((((((....)))))).(((((.(-((-(...------------..((---------((.((((.........)))))))).......))))))))). ( -21.30)
>consensus
UAUUGACAUGUCAAUGCACCACACACAUAUACAUACACAUAGCCAUGCACACAAGCACAGUGUGAGCCGUUUAAAUAUGGCUAAAAGCCGGCGCGAAA
.(((((....)))))((.((..........................((.((((.......)))).))...........(((.....))))).)).... (-11.45 = -13.20 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 24,013,571 – 24,013,669
Length 98
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 77.55
Mean single sequence MFE -29.96
Consensus MFE -18.76
Energy contribution -21.07
Covariance contribution 2.31
Combinations/Pair 1.14
Mean z-score -2.46
Structure conservation index 0.63
SVM decision value 2.12
SVM RNA-class probability 0.988330
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24013571 98 - 27905053
UUUCGCGCCGGCUUUUAGCCAUAUUUAAACGGCUCACACCGUGCUUGUUGGCAUGGCUAUGUGUAUGCAUAUGUAUGUGGUGCAUUGACAUGUCAAUA
....((((((((.....)))((((.......((.(((((((((((....)))))))...))))...))......)))))))))(((((....))))). ( -32.92)
>DroSec_CAF1 209166 98 - 1
UUUCGCGCCGGCUUUUAGCCAUAUUUAAACGGCUCACACUGUGCUUGUGUGCAUGGCUAUUUGUAUGUAUAUGUGUGUGGUGCAUUGACAUGUCAAUA
....((((((((.....)))((((.((((..((((((((.......)))))...)))..)))).))))..........)))))(((((....))))). ( -29.90)
>DroSim_CAF1 206381 98 - 1
UUUCGCGCCGGCUUUUAGCCAUAUUUAAACGGCUCACACUGUGCUUGUGUGCAUGGCUAUGUGUAUGCAUAUGUGUGUGGUGCAUUGACAUGUCAAUA
....((((((((.....)))..............((((((((((..(((..(((....)))..)))))))).))))).)))))(((((....))))). ( -33.30)
>DroAna_CAF1 218894 75 - 1
UACCGCGCAGGCUUUUAGCCAUGUUUAAGCCGAGAACAGUG---------GCAG------------GUAC-UG-CGGCAGUGCAUUGACAUGUCAAUA
....((((.(((.....)))........((((....(((((---------....------------.)))-))-)))).))))(((((....))))). ( -23.70)
>consensus
UUUCGCGCCGGCUUUUAGCCAUAUUUAAACGGCUCACACUGUGCUUGUGUGCAUGGCUAUGUGUAUGCAUAUGUGUGUGGUGCAUUGACAUGUCAAUA
....((((((((.....)))........(((.......((((((......)))))).((((((....))))))..))))))))(((((....))))). (-18.76 = -21.07 +   2.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:26 2006