Locus 6756

Sequence ID	X_DroMel_CAF1
Location	16,778,872 – 16,778,979
Length	107
Max. P	0.981516

overview

Window 2

Location	16,778,872 – 16,778,979
Length	107
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	76.44
Mean single sequence MFE	-21.80
Consensus MFE	-14.21
Energy contribution	-14.10
Covariance contribution	-0.11
Combinations/Pair	1.13
Mean z-score	-1.60
Structure conservation index	0.65
SVM decision value	0.45
SVM RNA-class probability	0.742049
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16778872 107 + 22224390
A-G-GUUUGUCAAAACAAUAUGGUAAAUGACCAUAAAUCUGUAACCCUUCAGUAGGUACACCUAAAGAUUCUUAUUUAAACGUAUU-----------UCGUUGGCAAAAAGAGUUACAGA
.-.-((((....))))..((((((.....))))))..((((((((...((..((((....))))..)).((((.((..((((....-----------.))))...)).)))))))))))) ( -25.30)
>DroSec_CAF1 15784 108 + 1
AUG-GCUUGUCAAAACAAUAUGGUAAAUGACCAUAAAUCUGUAACCCUUCAGUAGAUACACCUAAAGAUUCAUAUUUAAACGUAGU-----------UUGUGGGCAAAAAGACUUACAGA
..(-(..((((.......((((((.....))))))...(((........)))..))))..)).......................(-----------(((((((........)))))))) ( -16.40)
>DroYak_CAF1 15609 119 + 1
UUGUAUUUGUCAAAAUAAUAUGGUAAAUGACCAUAAAUCUGUAACCCUUUAAUAGGUGCACCUAAAGAUUCUC-CCUAUACACAGUGACAGAUAUAUGUAUGUAUAUACACAGUUACAGA
.(((((((((((......((((((.....))))))...((((..........((((....)))).((......-.))....)))))))))))))))(((((....))))).......... ( -23.70)
>consensus
AUG_GUUUGUCAAAACAAUAUGGUAAAUGACCAUAAAUCUGUAACCCUUCAGUAGGUACACCUAAAGAUUCUUAUUUAAACGUAGU___________UUGUGGGCAAAAAGAGUUACAGA
..................((((((.....))))))..((((((((...((..((((....))))..)).............................(((....))).....)))))))) (-14.21 = -14.10 +  -0.11)

alignment

secondary structure

dotplot

Window 3

Location	16,778,872 – 16,778,979
Length	107
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	76.44
Mean single sequence MFE	-24.69
Consensus MFE	-18.99
Energy contribution	-18.00
Covariance contribution	-0.99
Combinations/Pair	1.24
Mean z-score	-1.87
Structure conservation index	0.77
SVM decision value	1.89
SVM RNA-class probability	0.981516
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16778872 107 - 22224390
UCUGUAACUCUUUUUGCCAACGA-----------AAUACGUUUAAAUAAGAAUCUUUAGGUGUACCUACUGAAGGGUUACAGAUUUAUGGUCAUUUACCAUAUUGUUUUGACAAAC-C-U
(((((((((((((.....((((.-----------....))))..............((((....))))..)))))))))))))..((((((.....))))))((((....))))..-.-. ( -25.90)
>DroSec_CAF1 15784 108 - 1
UCUGUAAGUCUUUUUGCCCACAA-----------ACUACGUUUAAAUAUGAAUCUUUAGGUGUAUCUACUGAAGGGUUACAGAUUUAUGGUCAUUUACCAUAUUGUUUUGACAAGC-CAU
(((((((.((((((((....)))-----------..((((..((((........))))..))))......))))).)))))))..((((((.....))))))((((....))))..-... ( -20.90)
>DroYak_CAF1 15609 119 - 1
UCUGUAACUGUGUAUAUACAUACAUAUAUCUGUCACUGUGUAUAGG-GAGAAUCUUUAGGUGCACCUAUUAAAGGGUUACAGAUUUAUGGUCAUUUACCAUAUUAUUUUGACAAAUACAA
..((((..(((((....)))))((((.((((((.(((.(..(((((-....(((....)))...)))))...).))).)))))).))))((((...............))))...)))). ( -27.26)
>consensus
UCUGUAACUCUUUUUGCCCACAA___________ACUACGUUUAAAUAAGAAUCUUUAGGUGUACCUACUGAAGGGUUACAGAUUUAUGGUCAUUUACCAUAUUGUUUUGACAAAC_CAU
(((((((((((((.((....))..............((((..((((........))))..))))......)))))))))))))..((((((.....)))))).................. (-18.99 = -18.00 +  -0.99)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:11 2006