Locus 7082

Sequence ID	2L_DroMel_CAF1
Location	19,811,592 – 19,811,696
Length	104
Max. P	0.999997

overview

Window 8

Location	19,811,592 – 19,811,696
Length	104
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.75
Mean single sequence MFE	-39.80
Consensus MFE	-38.60
Energy contribution	-38.48
Covariance contribution	-0.12
Combinations/Pair	1.03
Mean z-score	-5.56
Structure conservation index	0.97
SVM decision value	3.94
SVM RNA-class probability	0.999717
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19811592 104 + 22407834
AGGUGGAGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAU----------------
....((((...((.....)).))))(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..))))))))---------------- ( -39.60)
>DroGri_CAF1 74492 104 + 1
AGGUGGAGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUUCUCCAAUGGAGAAACUAUCAGAUGUUAAGCUGAUAAGAACAGAU----------------
....((((...((.....)).))))(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..))))))))---------------- ( -37.20)
>DroSec_CAF1 78474 104 + 1
AGGUGGAGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAU----------------
....((((...((.....)).))))(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..))))))))---------------- ( -39.60)
>DroSim_CAF1 80046 104 + 1
AGGUGGAGCAAGCCCCUAGCACUCCGUCUGGUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAU----------------
((..((((...((.....)).))))..)).((((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..))))....---------------- ( -40.30)
>DroYak_CAF1 84053 120 + 1
AGGUGGAGCAAGCCCCUAGCACUCCGUCUGAUCCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUUUAAAAAAAAAAGCCA
.(((((((...((.....)).))))(((((.((......((((((((((((((((...((((((...)))))).....))))))))))))))))..)).)))))............))). ( -42.30)
>consensus
AGGUGGAGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAU________________
....((((...((.....)).))))(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..))))))))................ (-38.60 = -38.48 +  -0.12)

alignment

secondary structure

dotplot

Window 9

Location	19,811,592 – 19,811,696
Length	104
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.75
Mean single sequence MFE	-34.98
Consensus MFE	-35.30
Energy contribution	-34.82
Covariance contribution	-0.48
Combinations/Pair	1.06
Mean z-score	-3.68
Structure conservation index	1.01
SVM decision value	6.25
SVM RNA-class probability	0.999997
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19811592 104 - 22407834
----------------AUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGGGCUUGCUCCACCU
----------------.((((((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))).)))).(((((((.....))..))))).... ( -35.40)
>DroGri_CAF1 74492 104 - 1
----------------AUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUUCUCCAUUGGAGAACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGGGCUUGCUCCACCU
----------------.((((((((.(((((.(((((((.((...(((.((((...)))))))..)).))))))).)))))....)))).)))).(((((((.....))..))))).... ( -33.00)
>DroSec_CAF1 78474 104 - 1
----------------AUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGGGCUUGCUCCACCU
----------------.((((((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))).)))).(((((((.....))..))))).... ( -35.40)
>DroSim_CAF1 80046 104 - 1
----------------AUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAACCAGACGGAGUGCUAGGGGCUUGCUCCACCU
----------------.((((((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))).)))).(((((((.....))..))))).... ( -35.40)
>DroYak_CAF1 84053 120 - 1
UGGCUUUUUUUUUUAAAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGGAUCAGACGGAGUGCUAGGGGCUUGCUCCACCU
.((..............((((((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))).)))).(((((((.....))..))))).)). ( -35.70)
>consensus
________________AUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGGGCUUGCUCCACCU
.................((((((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))).)))).(((((((.....))..))))).... (-35.30 = -34.82 +  -0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:05 2006