Locus 495

Sequence ID	3R_DroMel_CAF1
Location	1,872,393 – 1,872,526
Length	133
Max. P	0.831653

overview

Window 8

Location	1,872,393 – 1,872,502
Length	109
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	85.42
Mean single sequence MFE	-32.22
Consensus MFE	-23.58
Energy contribution	-24.08
Covariance contribution	0.50
Combinations/Pair	1.10
Mean z-score	-2.20
Structure conservation index	0.73
SVM decision value	-0.02
SVM RNA-class probability	0.521434
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1872393 109 + 27905053
UUUAAUUUCGGGACAGC----GGCUGAGUCAAGAAACGGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACA
.........(((((.((----(((((..((.......))..)))))))((((((...(((((((((((((....)))))))).))))).)).))))..))))).......... ( -34.50)
>DroPse_CAF1 22199 109 + 1
UUUAAUUUCGAGACAGCGGGCGGCUGAGUCAAGCAAUGGAAUAACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUUUCCCGCA----
...............(((((..(((......)))........((((..((((((...(((((((((((((....)))))))).))))).)).)))).))))..))))).---- ( -35.10)
>DroWil_CAF1 26657 96 + 1
UUUAAUUUCAAGACAGC-----------------AACGGCUGAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUUUCACACACAAA
.........((((((((-----------------....)))(((((((....))...(((((((((((((....)))))))).)))))))))).....))))).......... ( -27.00)
>DroYak_CAF1 36661 109 + 1
UUUAAUUUCGGGACAGC----GGCUGAGUCAAGAAACGGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACA
.........(((((.((----(((((..((.......))..)))))))((((((...(((((((((((((....)))))))).))))).)).))))..))))).......... ( -34.50)
>DroAna_CAF1 21324 109 + 1
UUUAAUUUCGCGACAGA----GGCUGGUUCAAGAAAUGGAAUGACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCCCACACACACA
....(((((..(((...----.....)))...)))))((...((((..((((((...(((((((((((((....)))))))).))))).)).)))).)))).))......... ( -27.10)
>DroPer_CAF1 22493 109 + 1
UUUAAUUUCGAGACAGCGGGCGGCUGAGUCAAGCAAUGGAAUAACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUUUCCCGCA----
...............(((((..(((......)))........((((..((((((...(((((((((((((....)))))))).))))).)).)))).))))..))))).---- ( -35.10)
>consensus
UUUAAUUUCGAGACAGC____GGCUGAGUCAAGAAACGGAAUAACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACACACACA
.........((((((((.....)))).................(((..((((((...(((((((((((((....)))))))).))))).)).)))).)))))))......... (-23.58 = -24.08 +   0.50)

alignment

secondary structure

dotplot

Window 9

Location	1,872,426 – 1,872,526
Length	100
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	83.60
Mean single sequence MFE	-27.06
Consensus MFE	-22.75
Energy contribution	-22.17
Covariance contribution	-0.58
Combinations/Pair	1.12
Mean z-score	-1.97
Structure conservation index	0.84
SVM decision value	0.72
SVM RNA-class probability	0.831653
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1872426 100 + 27905053
GGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACACACAAGCACAAGCACACACGCAC------------A----
......(((..((((((...(((((((((((((....)))))))).))))).)).))))..(((......))).......)))....((......))..------------.---- ( -23.80)
>DroPse_CAF1 22236 98 + 1
GGAAUAACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUUUCCCGCA------CAGUCAUACGCAUAUACGUAC------------AGGAA
((((.((((..((((((...(((((((((((((....)))))))).))))).)).)))).))))))))....------...((.((((......)))).------------..)). ( -28.60)
>DroSec_CAF1 30499 104 + 1
GGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACACACAAGCACAGGCACACACGCAC------------AUGCA
.((..((((..((((((...(((((((((((((....)))))))).))))).)).)))).)))).))..............(((...((......))..------------.))). ( -27.60)
>DroSim_CAF1 31116 104 + 1
GGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACACACAAGCGCAGGCACACACGCAC------------AUGCA
......(((..((((((...(((((((((((((....)))))))).))))).)).))))..(((......))).......)))(((.((......))..------------.))). ( -28.20)
>DroEre_CAF1 30957 112 + 1
GGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACCAACACA--CAAGCACAGGCA--CAGGCACAGCCACACACACAUGCA
((...((((..((((((...(((((((((((((....)))))))).))))).)).)))).))))....))......--...(((......--..(((...))).........))). ( -27.63)
>DroPer_CAF1 22530 98 + 1
GGAAUAACUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUUUCCCGCA------CAAUCAUACACAUAUACGUAC------------AGGAA
((((.((((..((((((...(((((((((((((....)))))))).))))).)).)))).))))))))....------...((.(((........))).------------..)). ( -26.50)
>consensus
GGAAUAGCUGCAAUGGCGACAGCAGCUGUUGAGCUACUUUAACAGUCUGCUAGCUCAUUAAGUUCUCACAAACACA__CAAGCACAGGCACACACGCAC____________AUGCA
.....((((..((((((...(((((((((((((....)))))))).))))).)).)))).)))).......................((......))................... (-22.75 = -22.17 +  -0.58)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:35 2006