Locus 1698

Sequence ID	3R_DroMel_CAF1
Location	4,872,078 – 4,872,250
Length	172
Max. P	0.823402

overview

Window 7

Location	4,872,078 – 4,872,179
Length	101
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	79.55
Mean single sequence MFE	-19.00
Consensus MFE	-6.93
Energy contribution	-8.45
Covariance contribution	1.52
Combinations/Pair	1.22
Mean z-score	-2.31
Structure conservation index	0.36
SVM decision value	0.69
SVM RNA-class probability	0.823402
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4872078 101 - 27905053
AUUUAUUAUUCACACGUUUAAUUGCUCACUUUAGAAUGCUUUAGUCAAUUAAUUAUAGGUUGCAUUUGCUACCUUUUAAUCUUUUUAUUUAAGCAGUCUGU--------------
...............................((((.(((((.(((.((...((((.((((.((....)).))))..))))...)).))).))))).)))).-------------- ( -16.00)
>DroSec_CAF1 3658 101 - 1
AUUUAUUAUUCACACGUUUAAUUGCCCACUUUAGACUGCUUUAGUCAUUUAAUUAUAGGUUCCAUUUGCUGCCUUUUAAUCUUUUUGGUUAAGCAGUCUGU--------------
...............................((((((((((.(..((....((((.((((..(....)..))))..)))).....))..))))))))))).-------------- ( -20.40)
>DroSim_CAF1 3694 101 - 1
AUUUAUUAUUCACACGUUUAAUUGCCCACUUUAGACUGCUUUAGUCAUUUAAUUAUAGGUUCUAUUUGCUACCUUUUAAUUAUUUUGGUUAAGCAGUCUGU--------------
...............................((((((((((.(..((..((((((.((((..........))))..))))))...))..))))))))))).-------------- ( -22.70)
>DroEre_CAF1 4595 92 - 1
AUAUAUUAUUCACACGUUUAAUAGCUCACUUUAGGCUGCUUAAUUCAUUUAAUUAUAGGUUUCAUUUGACACCUUUUAGUCUCUUUGGCCAA-----------------------
...(((((..(....)..)))))((.((....((((((..(((((.....))))).((((.((....)).))))..))))))...))))...----------------------- ( -11.00)
>DroYak_CAF1 3742 115 - 1
AUUUGUUAUUCACACGUUUAAUUGCUCACUUGAGGCUGCUUAAUUCAUUUAAUUAUAGCUUCCAUUUGACACCUUUUAGUCUCUUUGGCUAAACGGGCUGUUAACUGUAAACUAU
...............(((((...........(((((((..(((((.....))))))))))))((.((((((((((((((((.....))))))).))).)))))).)))))))... ( -24.90)
>consensus
AUUUAUUAUUCACACGUUUAAUUGCUCACUUUAGACUGCUUUAGUCAUUUAAUUAUAGGUUCCAUUUGCUACCUUUUAAUCUUUUUGGUUAAGCAGUCUGU______________
................................(((((((((..........((((.((((..(....)..))))..))))..........)))))))))................ ( -6.93 =  -8.45 +   1.52)

alignment

secondary structure

dotplot

Window 8

Location	4,872,144 – 4,872,250
Length	106
Sequences	4
Columns	106
Reading direction	reverse
Mean pairwise identity	86.95
Mean single sequence MFE	-28.15
Consensus MFE	-20.96
Energy contribution	-22.27
Covariance contribution	1.31
Combinations/Pair	1.13
Mean z-score	-1.76
Structure conservation index	0.74
SVM decision value	0.44
SVM RNA-class probability	0.736451
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4872144 106 - 27905053
ACCAGGUGGGUAAACCAGCGCGUAAACAAUAUCGAGUUGCUUGCUUCGAUGAGGUGAAUAUGCACGUUUGCAUUUAUUAUUCACACGUUUAAUUGCUCACUUUAGA
...((((((((((...((((.........((((((((.....)).))))))..(((((((((((....)))).....))))))).))))...)))))))))).... ( -28.10)
>DroSec_CAF1 3724 106 - 1
ACCAGGUGGGUAAACCUGCGCGUAAACAAUAUCGAGUUGCUUGUUUCGGUGAGGUGAAUAUGCACGUUUGCAUUUAUUAUUCACACGUUUAAUUGCCCACUUUAGA
...((((((((((...((.((((......(((((((........)))))))..(((((((((((....)))).....))))))))))).)).)))))))))).... ( -30.40)
>DroSim_CAF1 3760 106 - 1
ACCAGGUGGGUAAACCAGCGCAUAAACAAUAUCGAGUUGCUUGCUUCGGUGAGGUGAAUAUGCACGUUUGCAUUUAUUAUUCACACGUUUAAUUGCCCACUUUAGA
...((((((((((...((((...................((..(....)..))(((((((((((....)))).....))))))).))))...)))))))))).... ( -31.90)
>DroEre_CAF1 4652 101 - 1
ACCAGGUGGGUAAAAAAGGGUG-AAACAAUACUGUGUUGCUUGCUCCAAUGAAGUGUAUG----UGUUUACAUAUAUUAUUCACACGUUUAAUAGCUCACUUUAGG
.((((((((((......(((..-(((((......))))..)..).))..((((..(((((----((....)))))))..))))...........))))))))..)) ( -22.20)
>consensus
ACCAGGUGGGUAAACCAGCGCGUAAACAAUAUCGAGUUGCUUGCUUCGAUGAGGUGAAUAUGCACGUUUGCAUUUAUUAUUCACACGUUUAAUUGCCCACUUUAGA
...((((((((((...((((.........(((((((........)))))))..((((((((((......))).....))))))).))))...)))))))))).... (-20.96 = -22.27 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:09 2006