Locus 5065

Sequence ID 3R_DroMel_CAF1
Location 13,353,206 – 13,353,312
Length 106
Max. P 0.725441
window8260

overview

Window 0

Location 13,353,206 – 13,353,312
Length 106
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 81.66
Mean single sequence MFE -31.52
Consensus MFE -21.92
Energy contribution -22.03
Covariance contribution 0.11
Combinations/Pair 1.12
Mean z-score -1.79
Structure conservation index 0.70
SVM decision value 0.41
SVM RNA-class probability 0.725441
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13353206 106 + 27905053
AGGUGGG-GGCGGGGGAGAGUGCAAAAUGGGGUGGAGC-CCGGCACGACCGGAAACGGGAGGUGUCGACCAACAGGGAAAUGCAUUUGAAUCUAAUAUGGCGUUCAGU
...((((-.((.(.((((((((((.....(((.....)-))(((((..(((....)))...)))))..((....))....)))))))...)))....).)).)))).. ( -34.80)
>DroSec_CAF1 97989 107 + 1
AGGUGGGGGGCGGGGUAGAGUGCAAAAUGGGGUGGAAC-CCGGCACGACCGGAAACGGGAGGUGUCGACCAACAGGAAAAUGCAUUUGAAUCUAAUAUGGCGUUCAGU
...((((.(.((((((.(((((((....(((......)-))(((((..(((....)))...)))))..((....))....)))))))..))))....)).).)))).. ( -34.20)
>DroSim_CAF1 103702 107 + 1
AGGUGGGGGGCGGGGUAGAGUGCAAAAUGGGGUGGGAC-CCGGCACGACCGGAAACGGGAGGUGUCGACCAACAGGGAAAUGCAUUUGAAUCUAAUAUGGCGUUCAGU
...((((.(.((((((.(((((((....(((......)-))(((((..(((....)))...)))))..((....))....)))))))..))))....)).).)))).. ( -34.40)
>DroEre_CAF1 105708 97 + 1
AGGUGGGGG----------GUGCAAAAUGGGAUGGAGC-CCGGCACAACCGGAAACGGGAGGUGUCGACCAACAGGGAAAUGCAUUUGAAUCUAAUAUGGCGUUCAGU
((((...((----------(((((....(((......)-))(((((..(((....)))...)))))..((....))....)))))))..))))............... ( -29.10)
>DroYak_CAF1 115606 96 + 1
AGGUGG-GG----------GUGCAAAAUAGGAGAGAAC-CCGGCAGAACCGGAAACGGGAGGUGUCGACCAACAGGGAAAUGCAUUUGAAUCUAAUAUGGCGUUCAGU
......-(.----------.(((...(((..(((....-.(((((...(((....)))....))))).((....))..............)))..))).)))..)... ( -24.90)
>DroPer_CAF1 106908 93 + 1
AAGCGGCAGCCGAUGGCG-AUGCC--------------GAUGGCAUUGCCGGAAACAGGAGGUGUCGACCGGCAGGGAAAUGCAUUUGAAUCUAAUAUGGCGUUCAGU
.((((.((.((...((((-(((((--------------...)))))))))(....).))((((.((((...(((......)))..))))))))....)).)))).... ( -31.70)
>consensus
AGGUGGGGGGCGGGG_AG_GUGCAAAAUGGGGUGGAAC_CCGGCACGACCGGAAACGGGAGGUGUCGACCAACAGGGAAAUGCAUUUGAAUCUAAUAUGGCGUUCAGU
...................(((((................((((((..(((....)))...)))))).((....))....)))))((((((((.....)).)))))). (-21.92 = -22.03 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:20 2006