Locus 6297

Sequence ID 3L_DroMel_CAF1
Location 16,778,918 – 16,779,017
Length 99
Max. P 0.603674
window10102

overview

Window 2

Location 16,778,918 – 16,779,017
Length 99
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 83.31
Mean single sequence MFE -21.41
Consensus MFE -14.99
Energy contribution -15.60
Covariance contribution 0.61
Combinations/Pair 1.05
Mean z-score -1.90
Structure conservation index 0.70
SVM decision value 0.14
SVM RNA-class probability 0.603674
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16778918 99 - 23771897
GAACUGGCGGCAGGCCACUCACUUGUCUCACUUAAAAGGUGAUAACAAGAUGCUCGAC--AGCAACAUCAAACGACGAAGCAACAAAAGUUAUUGCCAAAA
........(((((...(((..(((((.(((((.....)))))..))))).((((((..--...............)).)))).....)))..))))).... ( -20.33)
>DroSec_CAF1 27601 99 - 1
GAACUGGCGGCAGGCCACUCACUUGUCUCACUUAAAAGGUGAUAACAAGAUGCUCGAC--AGCAACAGCAAACGACGAAGCAACAAAAGUUAUUGCCGAAA
.......((((((...(((..(((((.(((((.....)))))..))))).((((((..--.((....))......)).)))).....)))..))))))... ( -23.40)
>DroSim_CAF1 30235 101 - 1
GAACUGGCGGCAGGCCACUCACUUGUCUCACUUAAAAGGUGAUAACAAGAUGCUCGACACAGCAACAGCAAACGACGAAGCAACAAAAGUUAUUGCCGAAA
.......((((((...(((..(((((.(((((.....)))))..))))).((((((.....((....))......)).)))).....)))..))))))... ( -24.20)
>DroEre_CAF1 28136 90 - 1
GAACUGGCGGCAGGCCACUCACUUGUCUCACUUAAAAGGUGAUAACAAGAUGCUCGAC--AGCAA---------ACGUAGCAACAAAAGUUAUUGCCGAAA
.......((((((...(((..(((((.(((((.....)))))..))))).((((((..--.....---------.)).)))).....)))..))))))... ( -23.50)
>DroWil_CAF1 66269 77 - 1
CAAAUGGCCAGCCACCACUCACUUGUCUCACUUAAAAGGUGAUAACAAGAUGCUUGAC--AAAAA-----------------AUAAAAAU-----CCAAAA
....(((....))).((..(((((((.(((((.....)))))..))))).))..))..--.....-----------------........-----...... ( -12.00)
>DroYak_CAF1 28124 90 - 1
GAGCUGGCGGCAGGCCACUUACUUGUCUCACUUAAAAGGUGAUAACAAGAUGCUCGAC--AGCAA---------ACGAAGCAACAAAAGUUAUUGCCGAAA
.......((((((...((((.(((((.(((((.....)))))..))))).((((((..--.....---------.)).))))....))))..))))))... ( -25.00)
>consensus
GAACUGGCGGCAGGCCACUCACUUGUCUCACUUAAAAGGUGAUAACAAGAUGCUCGAC__AGCAA_________ACGAAGCAACAAAAGUUAUUGCCGAAA
....((((((...........(((((.(((((.....)))))..))))).((((......))))............................))))))... (-14.99 = -15.60 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:01 2006