Locus 764

Sequence ID	X_DroMel_CAF1
Location	2,106,088 – 2,106,192
Length	104
Max. P	0.970925

overview

Window 1

Location	2,106,088 – 2,106,192
Length	104
Sequences	4
Columns	108
Reading direction	forward
Mean pairwise identity	79.94
Mean single sequence MFE	-25.77
Consensus MFE	-17.55
Energy contribution	-19.55
Covariance contribution	2.00
Combinations/Pair	1.15
Mean z-score	-2.32
Structure conservation index	0.68
SVM decision value	1.67
SVM RNA-class probability	0.970925
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2106088 104 + 22224390
UAAUGCCACUAACAACGUCGUGCGAUAACGAUAGGCAUAUUUCGAUAGUUCGCUAUCGAUAAUCGCU---UUUUGUCUCCACUGGCCUUUUGCGCAUUCUACUUUU-G
.(((((((........((((((.((..((((.((((.....(((((((....))))))).....)))---).)))).))))).)))....)).)))))........-. ( -23.60)
>DroSec_CAF1 6718 99 + 1
UAAUGCCACUAACAACGCCGUUCGAUAAAGAUAGGCUCA--UCGAUAGCUCACUAUCGAUAGUCGCUUAUUUUUGUCUCCACUGGCCUUUUGC--UUUCAACU-----
................(((((..(((((((((((((.((--(((((((....)))))))).)..)))))))))))))...)).))).......--........----- ( -27.50)
>DroEre_CAF1 7297 105 + 1
UAAUGCCACCGACAACGUCGUGCGAUAACGAUAAUCGUAUUUCGAUAGCUCACUAUCGAUAGCCGCUUU-UCUUGUCUCCACUGACGCUCUGC--AUUUUACUUUUCA
.(((((....((...(((((((.(((((.((.((.((..(.(((((((....))))))).)..)).)).-)))))))..))).)))).)).))--))).......... ( -23.10)
>DroYak_CAF1 6619 105 + 1
UAAUGCCACCGACAACGUCGUGCGAUAACGAUAAGCGUACUUCGAUAGCUCUCUAUCGAUAGCCGUUUA-UUCUGUCUCCACUGGCGUUCUGC--AUUCUGCUUCUUG
.(((((((..(((...)))(((.((((..((((((((....(((((((....)))))))....))))))-)).))))..))))))))))..((--.....))...... ( -28.90)
>consensus
UAAUGCCACCAACAACGUCGUGCGAUAACGAUAAGCGUAUUUCGAUAGCUCACUAUCGAUAGCCGCUUA_UUUUGUCUCCACUGGCCUUCUGC__AUUCUACUUUU_G
.............(((((((((.(((((...((((((....(((((((....)))))))....))))))...)))))..))).))))))................... (-17.55 = -19.55 +   2.00)

alignment

secondary structure

dotplot

Window 2

Location	2,106,088 – 2,106,192
Length	104
Sequences	4
Columns	108
Reading direction	reverse
Mean pairwise identity	79.94
Mean single sequence MFE	-27.82
Consensus MFE	-21.27
Energy contribution	-20.65
Covariance contribution	-0.62
Combinations/Pair	1.19
Mean z-score	-1.75
Structure conservation index	0.76
SVM decision value	0.64
SVM RNA-class probability	0.807865
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2106088 104 - 22224390
C-AAAAGUAGAAUGCGCAAAAGGCCAGUGGAGACAAAA---AGCGAUUAUCGAUAGCGAACUAUCGAAAUAUGCCUAUCGUUAUCGCACGACGUUGUUAGUGGCAUUA
.-....................((((.(((.(((....---.(((((...(((((((((....)))........))))))..))))).....))).))).)))).... ( -23.50)
>DroSec_CAF1 6718 99 - 1
-----AGUUGAAA--GCAAAAGGCCAGUGGAGACAAAAAUAAGCGACUAUCGAUAGUGAGCUAUCGA--UGAGCCUAUCUUUAUCGAACGGCGUUGUUAGUGGCAUUA
-----........--.......((((.((....))......(((((((((((((((....)))))))--)).(((..((......))..)))))))))..)))).... ( -29.30)
>DroEre_CAF1 7297 105 - 1
UGAAAAGUAAAAU--GCAGAGCGUCAGUGGAGACAAGA-AAAGCGGCUAUCGAUAGUGAGCUAUCGAAAUACGAUUAUCGUUAUCGCACGACGUUGUCGGUGGCAUUA
..........(((--((.(((((((..((....))...-...((((...(((((((....)))))))...(((.....)))..))))..)))))..))....))))). ( -29.50)
>DroYak_CAF1 6619 105 - 1
CAAGAAGCAGAAU--GCAGAACGCCAGUGGAGACAGAA-UAAACGGCUAUCGAUAGAGAGCUAUCGAAGUACGCUUAUCGUUAUCGCACGACGUUGUCGGUGGCAUUA
......((.....--)).....((((((((.(((.((.-(((.(((((.(((((((....)))))))))).)).)))))))).)))).((((...)))).)))).... ( -29.00)
>consensus
C_AAAAGUAGAAU__GCAAAACGCCAGUGGAGACAAAA_UAAGCGACUAUCGAUAGUGAGCUAUCGAAAUACGCCUAUCGUUAUCGCACGACGUUGUCAGUGGCAUUA
......................((((.(((.(((...............(((((((....)))))))..........((((......)))).))).))).)))).... (-21.27 = -20.65 +  -0.62)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:18 2006