Locus 1310

Sequence ID 3L_DroMel_CAF1
Location 3,806,422 – 3,806,517
Length 95
Max. P 0.960328
window2050

overview

Window 0

Location 3,806,422 – 3,806,517
Length 95
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 73.68
Mean single sequence MFE -27.58
Consensus MFE -13.98
Energy contribution -15.23
Covariance contribution 1.25
Combinations/Pair 1.33
Mean z-score -2.17
Structure conservation index 0.51
SVM decision value 1.51
SVM RNA-class probability 0.960328
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3806422 95 - 23771897
AACACGGAGAGAUUGCUCUCCAGCGAAA--------GAGAGGGGGCUAGCCGGAGCGAAAGAGUGGGCU-AUAUGCGAAUAGAAAAAGAGAG---GUUCAUACCCCG
.....((((((....))))))..(....--------)...(((((((((((.(..(....)..).))))-)...))((((............---))))...)))). ( -33.10)
>DroSec_CAF1 6305 95 - 1
AACACGGAGAGAUUGCUCUCCAGCGAAA--------GAGAGGGGGCUAGCCGGAGCGAAAGAGUGGGCU-AUAUGCGAAUAGAAAAAGAGAG---GUUCAUACCCCG
.....((((((....))))))..(....--------)...(((((((((((.(..(....)..).))))-)...))((((............---))))...)))). ( -33.10)
>DroSim_CAF1 6245 81 - 1
AACACGGAGAGAUUGCUCUCCAGCGAAA--------GAGAGGGGGCUAGCCGGAGCGAAAGAGUGG---------------GAAAAAGAGAG---GUUUAUACCCCG
.....((((((....))))))..(....--------)...((((...((((....(....).....---------------..........)---)))....)))). ( -23.11)
>DroEre_CAF1 6675 103 - 1
AACACGGAGAGAUUGCUCUCCAGUGAAAGAGAGAGAGAGAGGGGGCUAGCCGGAGCGAAAGAGUGGGCC-GUAUGCGAAUAGAAAAAGAGAG---GUUUAUAUCCCG
..(((((((((....)))))).)))...............((((....(((.(..(....)..).)))(-(....))...............---.......)))). ( -27.70)
>DroYak_CAF1 6797 95 - 1
AACGCAGAGAGAUUGCUCUCCAGCGACA--------GAGAGGGGGCUAGCCGGAGCGAAAGAGUGGGCG-AUAUGCGAAUAGAAAAGGAGAG---GUUUAUAUCCCG
..(((((((((....))))).(((..(.--------.....)..))).(((.(..(....)..).))).-...)))).........((.((.---.......)))). ( -26.00)
>DroMoj_CAF1 7835 90 - 1
AGCGUAGACAGAGCG------AGAGAGA--------GAGAGAGAGCGACUUUGUUUGUAUGUGUGCGCUUGUCUGUGU---GGUAAAGAGAGUGUGCGCCUGCCUGU
.....((((((((((------.......--------.........)).))))))))(((.(((..(((((.(((....---.....))))))))..))).))).... ( -22.49)
>consensus
AACACGGAGAGAUUGCUCUCCAGCGAAA________GAGAGGGGGCUAGCCGGAGCGAAAGAGUGGGCU_AUAUGCGAAUAGAAAAAGAGAG___GUUCAUACCCCG
.....((((((....))))))...................((((....(((.(..(....)..).)))...................(((......)))...)))). (-13.98 = -15.23 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:31 2006