Locus 7307

Sequence ID	X_DroMel_CAF1
Location	18,209,403 – 18,209,510
Length	107
Max. P	0.999901

overview

Window 7

Location	18,209,403 – 18,209,510
Length	107
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	72.40
Mean single sequence MFE	-37.06
Consensus MFE	-23.52
Energy contribution	-24.88
Covariance contribution	1.36
Combinations/Pair	1.19
Mean z-score	-3.83
Structure conservation index	0.63
SVM decision value	4.46
SVM RNA-class probability	0.999901
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18209403 107 + 22224390
UCAAAUUGAAGUUAUCGAGUUAUCGAGCUGAAUGUAGGCGAUGAAUCAGCGUC-------------CAUGGAACUGCUUCAUCGCCUAACUGCAGCAUAUGGACUCAAAUGAUUGUAAUU
...(((((.((((((.(((((.....((((....(((((((((((.(((..((-------------....)).))).)))))))))))....)))).....)))))..)))))).))))) ( -38.80)
>DroSec_CAF1 69507 107 + 1
ACAACUUGAAGUUAUCGAGUUAUCGAGCUGAAUGUGGGCGAUGAAUCAGCGUC-------------CAUGGAACUGCUUCAUCGCCUACCUGCAGCAUAUGAACUCAAAUGCUUGUAAUU
........((((....(((((.....((((...((((((((((((.(((..((-------------....)).))).))))))))))))...)))).....)))))....))))...... ( -39.70)
>DroSim_CAF1 68772 107 + 1
UCAACUUGAAGUUAUCGAGUUAUCGAGCUGAAUGUGGGCGAUGAAUCAGCGUC-------------CAUGGAACUGCUUCAUCGCCUACCUGCAGCAUAUGAACUCAAAUGCUUGUAAUC
........((((....(((((.....((((...((((((((((((.(((..((-------------....)).))).))))))))))))...)))).....)))))....))))...... ( -39.70)
>DroEre_CAF1 63600 111 + 1
UCAACUUUAAGUUCUCAAGUUCUCGAGCUGGAUUUAGGCGAUGAAUCUGCGG-CACGUGGCGCAUUCAUGGGACUUAUUCAUCGUCUAUCUACAGCAUGCA-----GCAU--AUA-AAUU
..................(((..((.((((....((((((((((((.((((.-(....).)))).((....))...))))))))))))....)))).)).)-----))..--...-.... ( -28.50)
>DroYak_CAF1 63349 108 + 1
UCAACUUGAAGUUCCCAUGCU-------GGGAUUUAGACGAUGAAUCAGCGGCCACUUGGAGCAUUAGUGGAACUGCUUCAUCGUCUAGCUUCAGCAUAUA---UUGAAU--UUACAAUU
.....(((((((((..(((((-------(((..((((((((((((.(((...(((((.........)))))..))).)))))))))))).))))))))...---..))))--)).))).. ( -38.60)
>consensus
UCAACUUGAAGUUAUCGAGUUAUCGAGCUGAAUGUAGGCGAUGAAUCAGCGUC_____________CAUGGAACUGCUUCAUCGCCUACCUGCAGCAUAUG_ACUCAAAUG_UUGUAAUU
..(((((((.....))))))).....((((...((((((((((((.(((........................))).))))))))))))...))))........................ (-23.52 = -24.88 +   1.36)

alignment

secondary structure

dotplot

Window 8

Location	18,209,403 – 18,209,510
Length	107
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	72.40
Mean single sequence MFE	-33.92
Consensus MFE	-19.91
Energy contribution	-22.27
Covariance contribution	2.36
Combinations/Pair	1.15
Mean z-score	-3.31
Structure conservation index	0.59
SVM decision value	4.32
SVM RNA-class probability	0.999869
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18209403 107 - 22224390
AAUUACAAUCAUUUGAGUCCAUAUGCUGCAGUUAGGCGAUGAAGCAGUUCCAUG-------------GACGCUGAUUCAUCGCCUACAUUCAGCUCGAUAACUCGAUAACUUCAAUUUGA
............((((((......((((.((((((((((((((.((((((....-------------)).)))).))))))))))).)))))))......)))))).............. ( -35.80)
>DroSec_CAF1 69507 107 - 1
AAUUACAAGCAUUUGAGUUCAUAUGCUGCAGGUAGGCGAUGAAGCAGUUCCAUG-------------GACGCUGAUUCAUCGCCCACAUUCAGCUCGAUAACUCGAUAACUUCAAGUUGU
......(((...(((((((.....((((...((.(((((((((.((((((....-------------)).)))).))))))))).))...)))).....)))))))...)))........ ( -36.60)
>DroSim_CAF1 68772 107 - 1
GAUUACAAGCAUUUGAGUUCAUAUGCUGCAGGUAGGCGAUGAAGCAGUUCCAUG-------------GACGCUGAUUCAUCGCCCACAUUCAGCUCGAUAACUCGAUAACUUCAAGUUGA
((((..(((...(((((((.....((((...((.(((((((((.((((((....-------------)).)))).))))))))).))...)))).....)))))))...)))..)))).. ( -36.80)
>DroEre_CAF1 63600 111 - 1
AAUU-UAU--AUGC-----UGCAUGCUGUAGAUAGACGAUGAAUAAGUCCCAUGAAUGCGCCACGUG-CCGCAGAUUCAUCGCCUAAAUCCAGCUCGAGAACUUGAGAACUUAAAGUUGA
..((-(((--(.((-----.....))))))))(((.((((((((..((..((((.........))))-..))..)))))))).))).......(((((....)))))............. ( -23.40)
>DroYak_CAF1 63349 108 - 1
AAUUGUAA--AUUCAA---UAUAUGCUGAAGCUAGACGAUGAAGCAGUUCCACUAAUGCUCCAAGUGGCCGCUGAUUCAUCGUCUAAAUCCC-------AGCAUGGGAACUUCAAGUUGA
.((((...--...)))---)....(((((((.(((((((((((.((((.(((((.........)))))..)))).)))))))))))..((((-------.....)))).)))).)))... ( -37.00)
>consensus
AAUUACAA_CAUUUGAGU_CAUAUGCUGCAGGUAGGCGAUGAAGCAGUUCCAUG_____________GACGCUGAUUCAUCGCCUACAUUCAGCUCGAUAACUCGAUAACUUCAAGUUGA
............((((((......((((.(..(((((((((((.((((......................)))).)))))))))))..).))))......)))))).............. (-19.91 = -22.27 +   2.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:36 2006