Locus 3723

Sequence ID 2R_DroMel_CAF1
Location 12,330,460 – 12,330,555
Length 95
Max. P 0.716532
window6049

overview

Window 9

Location 12,330,460 – 12,330,555
Length 95
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 73.94
Mean single sequence MFE -13.52
Consensus MFE -8.52
Energy contribution -9.02
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.32
Structure conservation index 0.63
SVM decision value 0.39
SVM RNA-class probability 0.716532
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12330460 95 + 20766785
-------------CAACUUUGGUAGCCGACAUGCUCUGUCACAUUAUUCCAAAAGUUGUCAAAAACCAAAAAAGAAAAAAA-ACUAAAA--AAAA--ACAUAACAUGA------UCUGA-
-------------(((((((((.....((((.....))))........)).))))))).......................-.......--....--...........------.....- (  -9.12)
>DroSec_CAF1 29178 96 + 1
-------------CAACUUUGGUAGCCGACAGGCCCUGUCACAUUAUUCCAAAAGUUGUCAAAAACCAAAAAAAAAUA-AA-AAUAAAACAAAAA--ACACAACAUGA------UCUGA-
-------------(((((((((.....(((((...)))))........)).)))))))....................-..-.............--...........------.....- ( -10.82)
>DroSim_CAF1 27609 90 + 1
-------------CAACUUUGGUAGCCGACAGGCCCUGUCACAUUAUUCCAAAAGUUGUCAAAAACCAAAAAAAA----AA-ACUAAAA---AAA--AAAUAUCAUGA------UCUGA-
-------------(((((((((.....(((((...)))))........)).))))))).................----..-.......---...--...........------.....- ( -10.82)
>DroEre_CAF1 29387 100 + 1
UGAGACAAAAAGGCAACUUUGGUAGCCGACAGGCCCUGUCACAUUAUUCGAAAAGUUGUCAAAAAGCAAAAAGA--------ACUCAAA--AAAG--AAAUAACA-GA------UCGGA-
...(((((...(((.((....)).)))(((((...)))))...............)))))..............--------.......--....--........-..------.....- ( -16.40)
>DroYak_CAF1 28572 104 + 1
UGAGACAAAAAGGCAACUUUGGUAGCCGACAGGCCCUGUCACAUUAUUCCAAAUGUUGUCAGAAACCGAAAAGA--------ACUCAAA--AAAGUAAAAUAACAUGA------UCGGAU
((((....((((....))))(((.(((....))).(((.((((((......)))).)).)))..))).......--------.))))..--.................------...... ( -21.00)
>DroAna_CAF1 27002 115 + 1
UGAAACAAAAGUUAAACUUUGGUAGCCGACAGGCCCUGUCACAUUAUUCCAAAAGUUGUCAAAAAAAAAACAAUAAAAAAGAACAAUU---UAAA--AUAUAUCGUGAAAAAUAUCACAC
.......((((.....))))(((((((....)))....((((..(((.....((((((((....................).))))))---)...--..)))..))))....)))).... ( -12.95)
>consensus
_____________CAACUUUGGUAGCCGACAGGCCCUGUCACAUUAUUCCAAAAGUUGUCAAAAACCAAAAAAAA____AA_ACUAAAA__AAAA__AAAUAACAUGA______UCUGA_
.............(((((((((.....(((((...)))))........))))).)))).............................................................. ( -8.52 =  -9.02 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:46 2006