Locus 4358

Sequence ID	X_DroMel_CAF1
Location	11,459,186 – 11,459,283
Length	97
Max. P	0.992668

overview

Window 9

Location	11,459,186 – 11,459,283
Length	97
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	75.64
Mean single sequence MFE	-27.98
Consensus MFE	-12.82
Energy contribution	-13.26
Covariance contribution	0.44
Combinations/Pair	1.06
Mean z-score	-2.53
Structure conservation index	0.46
SVM decision value	2.34
SVM RNA-class probability	0.992668
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11459186 97 + 22224390
CAGCCGAAUAACGGCGAAUUAA-CUCCCCU-CAGAGGUGAGUUUGAACUAUCGAUUAUAAUCGAUUGCAUUC-------GGAAACAAAAAACACCU--UGAGUUUGGU
..((((.....))))......(-((...((-((.(((((.(..((....((((((....))))))..))..)-------(....)......)))))--))))...))) ( -26.30)
>DroSec_CAF1 4685 106 + 1
UGGCCGAAUAACGGUGAUUCAA-UUCCCCU-CUGAGGUGAGUUUGAACUAUCGAUUAUAAUCGAUAGCAUUCGGAUUUCGGAAACAAAGAACACCUUUUGAGUUCGAU
....((((....((.((.....-.))))((-(.((((((((((((((((((((((....))))))))..))))))))..(....)......))))))..))))))).. ( -30.70)
>DroSim_CAF1 4096 104 + 1
UAGCCGAAUAACGGUGAUUCAA-UUCCCCU-CUGAGGUGAGUUUGAACUAUCGAUUAUAAUCGAUAGCAUUCGGAGUUCGGAAACAAAGAACACCU--CGAGUUCGAU
....((((....((.((.....-.))))((-(.((((((..((((((((((((((....))))))))..))))))....(....)......)))))--)))))))).. ( -30.90)
>DroEre_CAF1 4627 102 + 1
--GCCAAAUAACGGUGAUUCAAAUCCCCAUCUAGAGGUG-GUUUGAACUAUCGAUUAUAAUCGAUUGUAUUCGG-GUUUGAAAACUUGAAACACCU--UAAAUUGGUU
--(((((.....((((..(((((((.((.......)).)-))))))((.((((((....)))))).)).(((((-(((....)))))))).)))).--....))))). ( -28.90)
>DroYak_CAF1 4561 93 + 1
CAGCCGUAUAACGGUGGUUCGAAUUCCCCU-UAGAGGUG-GAUUUAACUAUCGAGUAUAAUCGAUUGUAGUCGA-UUUUAAAAAAACCAAACACCU------------
..((((.....))))((((.....(((((.-....)).)-))(((((..(((((.(((((....))))).))))-).)))))..))))........------------ ( -23.10)
>consensus
CAGCCGAAUAACGGUGAUUCAA_UUCCCCU_CAGAGGUGAGUUUGAACUAUCGAUUAUAAUCGAUUGCAUUCGG_GUUCGGAAACAAAAAACACCU__UGAGUUCGAU
..((((.....))))...................(((((..........((((((....))))))..............(....)......)))))............ (-12.82 = -13.26 +   0.44)

alignment

secondary structure

dotplot

Window 0

Location	11,459,186 – 11,459,283
Length	97
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	75.64
Mean single sequence MFE	-26.98
Consensus MFE	-14.72
Energy contribution	-14.44
Covariance contribution	-0.28
Combinations/Pair	1.29
Mean z-score	-2.47
Structure conservation index	0.55
SVM decision value	2.34
SVM RNA-class probability	0.992586
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11459186 97 - 22224390
ACCAAACUCA--AGGUGUUUUUUGUUUCC-------GAAUGCAAUCGAUUAUAAUCGAUAGUUCAAACUCACCUCUG-AGGGGAG-UUAAUUCGCCGUUAUUCGGCUG
.((...((((--(((((......((((..-------((((...((((((....)))))).)))))))).))))).))-)).))..-.......((((.....)))).. ( -27.50)
>DroSec_CAF1 4685 106 - 1
AUCGAACUCAAAAGGUGUUCUUUGUUUCCGAAAUCCGAAUGCUAUCGAUUAUAAUCGAUAGUUCAAACUCACCUCAG-AGGGGAA-UUGAAUCACCGUUAUUCGGCCA
.(((((.......(((((((...((((((.......((..(((((((((....)))))))))))...(((......)-)))))))-).))).))))....)))))... ( -29.60)
>DroSim_CAF1 4096 104 - 1
AUCGAACUCG--AGGUGUUCUUUGUUUCCGAACUCCGAAUGCUAUCGAUUAUAAUCGAUAGUUCAAACUCACCUCAG-AGGGGAA-UUGAAUCACCGUUAUUCGGCUA
.(((((....--.(((((((...((((((.......((..(((((((((....)))))))))))...(((......)-)))))))-).))).))))....)))))... ( -30.80)
>DroEre_CAF1 4627 102 - 1
AACCAAUUUA--AGGUGUUUCAAGUUUUCAAAC-CCGAAUACAAUCGAUUAUAAUCGAUAGUUCAAAC-CACCUCUAGAUGGGGAUUUGAAUCACCGUUAUUUGGC--
..((((....--.((((.((((((((..((...-..((((...((((((....)))))).))))....-...(....).))..)))))))).)))).....)))).-- ( -27.80)
>DroYak_CAF1 4561 93 - 1
------------AGGUGUUUGGUUUUUUUAAAA-UCGACUACAAUCGAUUAUACUCGAUAGUUAAAUC-CACCUCUA-AGGGGAAUUCGAACCACCGUUAUACGGCUG
------------.(((((((((...........-..(((((...((((......)))))))))...((-(.((....-.)))))..))))).))))............ ( -19.20)
>consensus
AUCGAACUCA__AGGUGUUUUUUGUUUCCAAAA_CCGAAUGCAAUCGAUUAUAAUCGAUAGUUCAAACUCACCUCUG_AGGGGAA_UUGAAUCACCGUUAUUCGGCUA
.............(((((((.....((((.......((((...((((((....)))))).)))).......(((....)))))))...))).))))............ (-14.72 = -14.44 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:02 2006