Locus 341

Sequence ID	X_DroMel_CAF1
Location	1,063,059 – 1,063,178
Length	119
Max. P	0.974163

overview

Window 8

Location	1,063,059 – 1,063,178
Length	119
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	88.42
Mean single sequence MFE	-29.95
Consensus MFE	-19.20
Energy contribution	-20.20
Covariance contribution	1.00
Combinations/Pair	1.10
Mean z-score	-2.38
Structure conservation index	0.64
SVM decision value	0.17
SVM RNA-class probability	0.617849
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1063059 119 + 22224390
GGGGAAAACGUCUACACAGAAAAAAACAUUACGAUCUCUUGUGGCUACUGAACGCAAGAAAUUCAUGUUGAUUAUGACCAUGUUAUAGCAAUU-UUUUCUGUGCAGCACGGCAGCUAAUC
..((....(((((.(((((((((((.......((..(((((((.........)))))))...))...(((.(((((((...))))))))))))-))))))))).)).)))....)).... ( -30.80)
>DroSec_CAF1 12069 119 + 1
GGGAAAACCGUCUACACAGAAAAAAACUUUACGAUCUCUUGUGGCUAUUUAAUGCAAGAAAUUCAUGUUGAUUAUCACCAUGUUAUGUCAAUU-UUUUCUGUGCAGCACGGCAGCUAAUC
.((....((((((.(((((((((((.......(((.(((((((.........))))))).)))((((.((.....)).)))).........))-))))))))).)).))))...)).... ( -28.30)
>DroSim_CAF1 13017 119 + 1
GGGAAAACCGUCUACACAGAAAAAAACUUUACGAUCUCUUGCGGCUACUUUAUGCAAGAAAUUCAUGUUGAUUAUCACCAUGUUAUGUCAAUU-UUUUCUGUGCAGCACGGCAGCUAAUC
.((....((((((.(((((((((((.......(((.(((((((.........))))))).)))((((.((.....)).)))).........))-))))))))).)).))))...)).... ( -30.90)
>DroYak_CAF1 14438 119 + 1
GGGAAAACCGCCUACACAGAAAAAAACAUAACCAUCUCUUUUGGUUACUAAAUGGUAGAGAUUCAUGUUGAUUAUCACCACAUUAGAGCAUUUUUUUUCUGUGCAGC-CAGCAGCUAAUC
((.....))((((.((((((((((((..((((((.......))))))((((.((((.((...((.....))...))))))..)))).....)))))))))))).)).-..))........ ( -29.80)
>consensus
GGGAAAACCGUCUACACAGAAAAAAACAUUACGAUCUCUUGUGGCUACUUAAUGCAAGAAAUUCAUGUUGAUUAUCACCAUGUUAUAGCAAUU_UUUUCUGUGCAGCACGGCAGCUAAUC
.((....((((((.(((((((((.............(((((((.........)))))))....((((.((.....)).))))............))))))))).)).))))...)).... (-19.20 = -20.20 +   1.00)

alignment

secondary structure

dotplot

Window 9

Location	1,063,059 – 1,063,178
Length	119
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	88.42
Mean single sequence MFE	-35.78
Consensus MFE	-27.05
Energy contribution	-27.54
Covariance contribution	0.50
Combinations/Pair	1.13
Mean z-score	-3.44
Structure conservation index	0.76
SVM decision value	1.72
SVM RNA-class probability	0.974163
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1063059 119 - 22224390
GAUUAGCUGCCGUGCUGCACAGAAAA-AAUUGCUAUAACAUGGUCAUAAUCAACAUGAAUUUCUUGCGUUCAGUAGCCACAAGAGAUCGUAAUGUUUUUUUCUGUGUAGACGUUUUCCCC
..........(((.((((((((((((-((((((.....((((...........)))).((((((((.((......))..)))))))).)))))...))))))))))))))))........ ( -31.00)
>DroSec_CAF1 12069 119 - 1
GAUUAGCUGCCGUGCUGCACAGAAAA-AAUUGACAUAACAUGGUGAUAAUCAACAUGAAUUUCUUGCAUUAAAUAGCCACAAGAGAUCGUAAAGUUUUUUUCUGUGUAGACGGUUUUCCC
........(((((.((((((((((((-((...((....((((.((.....)).)))).((((((((.............)))))))).)).....)))))))))))))))))))...... ( -35.62)
>DroSim_CAF1 13017 119 - 1
GAUUAGCUGCCGUGCUGCACAGAAAA-AAUUGACAUAACAUGGUGAUAAUCAACAUGAAUUUCUUGCAUAAAGUAGCCGCAAGAGAUCGUAAAGUUUUUUUCUGUGUAGACGGUUUUCCC
........(((((.((((((((((((-((...((....((((.((.....)).)))).(((((((((...........))))))))).)).....)))))))))))))))))))...... ( -39.60)
>DroYak_CAF1 14438 119 - 1
GAUUAGCUGCUG-GCUGCACAGAAAAAAAAUGCUCUAAUGUGGUGAUAAUCAACAUGAAUCUCUACCAUUUAGUAACCAAAAGAGAUGGUUAUGUUUUUUUCUGUGUAGGCGGUUUUCCC
........((((-.(((((((((((((((.....((((.(((((((.(.((.....)).).)).)))))))))((((((.......))))))..))))))))))))))).))))...... ( -36.90)
>consensus
GAUUAGCUGCCGUGCUGCACAGAAAA_AAUUGACAUAACAUGGUGAUAAUCAACAUGAAUUUCUUGCAUUAAGUAGCCACAAGAGAUCGUAAAGUUUUUUUCUGUGUAGACGGUUUUCCC
........(((((.((((((((((((............((((.((.....)).)))).((((((((.............))))))))..........)))))))))))))))))...... (-27.05 = -27.54 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:10 2006