Locus 3848

Sequence ID	X_DroMel_CAF1
Location	10,225,665 – 10,225,770
Length	105
Max. P	0.950270

overview

Window 2

Location	10,225,665 – 10,225,770
Length	105
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	80.38
Mean single sequence MFE	-55.60
Consensus MFE	-31.64
Energy contribution	-31.62
Covariance contribution	-0.02
Combinations/Pair	1.45
Mean z-score	-3.05
Structure conservation index	0.57
SVM decision value	1.40
SVM RNA-class probability	0.950270
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10225665 105 + 22224390
UCCGGCGAAAUGCGUCGGAAGCGCGCCGGAUCGAGACGCCGUUGUGGCGCCUGGCGCAAGUCGAACUUGCGUCGCAGGCACGGCAACAGCGGCUCCGUCCGGAGU
(((((((.....)))))))...((.((((((.(((.(((.(((((.(.((((((((((((.....)))))))..))))).).))))).))).))).)))))).)) ( -60.50)
>DroPse_CAF1 26790 105 + 1
UCCGGCGAGAUGCGGCGAAAGUGUUGCGGCUCGAGUCGCCGCUGCGGUGCCUGCUGCAGCUCGUAUUUCCUGCGCAGGCACGGCAUCAGCGGCUCUGUGCGCCGC
..(((((((.(((((((....))))))).)))(((((((.(.(((.((((((((.((((..........)))))))))))).))).).))))))).....)))). ( -58.10)
>DroEre_CAF1 22820 105 + 1
UCCGGCGAAAUGCGACGAAAGCGCGCCGGAUCGAGACGCCGUUGGGGCGCCUGGCGCAAGUCGAACUUGCGUCGCAGGCACGGCAACAGCGGCUCCGUCCGGAGU
((((((.....(((.(....)))))))(((.((.((.(((((((..((((((((((((((.....)))))))..)))))...))..))))))))))))))))).. ( -55.20)
>DroWil_CAF1 15667 105 + 1
UCUGGCGAGAUGCGGCGGAAAUGCGUCGGAUCGAGUCGCCGUUGCGGCGCCUUACGAAUAUCGUUUUUUUUACGUAGGCGCGGCAUUAAUGGCUCUGUGCGCCGC
...((((.(((.(((((......))))).)))((((((....(((.((((((.(((................))))))))).)))....))))))....)))).. ( -44.79)
>DroYak_CAF1 23553 105 + 1
UCCGGCGAAAUGCGACGGAAGCGCGCCGGAUCGAGACGCCGUUGUGGCGCCUGGCGCAAGUCGAACUUGCGACGCAGGCACGGCAACAGCGGCUCCGUCCGGAGU
((((((.....(((.(....)))))))((((.(((.(((.(((((.(.((((((((((((.....)))))).).))))).).))))).))).))).))))))).. ( -56.90)
>DroPer_CAF1 27693 105 + 1
UCCGGCGAGAUGCGGCGAAAGUGUUGCGGCUCGAGUCGCCGCUGCGGUGCCUGCUGCAGCUCGUAUUUCCUGCGCAGGCACGGCAUCAGCGGCUCUGUGCGCCGC
..(((((((.(((((((....))))))).)))(((((((.(.(((.((((((((.((((..........)))))))))))).))).).))))))).....)))). ( -58.10)
>consensus
UCCGGCGAAAUGCGGCGAAAGCGCGCCGGAUCGAGACGCCGUUGCGGCGCCUGGCGCAAGUCGAACUUGCGACGCAGGCACGGCAACAGCGGCUCCGUCCGCAGC
((((((.....(((.(....)))))))))).......(((((((..(((((((..(((((.....)))))....)))))...))..)))))))............ (-31.64 = -31.62 +  -0.02)

alignment

secondary structure

dotplot

Window 3

Location	10,225,665 – 10,225,770
Length	105
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	80.38
Mean single sequence MFE	-50.52
Consensus MFE	-26.81
Energy contribution	-26.89
Covariance contribution	0.08
Combinations/Pair	1.18
Mean z-score	-2.78
Structure conservation index	0.53
SVM decision value	1.01
SVM RNA-class probability	0.899812
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10225665 105 - 22224390
ACUCCGGACGGAGCCGCUGUUGCCGUGCCUGCGACGCAAGUUCGACUUGCGCCAGGCGCCACAACGGCGUCUCGAUCCGGCGCGCUUCCGACGCAUUUCGCCGGA
..(((((.(((((.((((((((..(((((((.(.((((((.....))))))))))))))..)))))))).)))......(((((....)).)))....))))))) ( -54.50)
>DroPse_CAF1 26790 105 - 1
GCGGCGCACAGAGCCGCUGAUGCCGUGCCUGCGCAGGAAAUACGAGCUGCAGCAGGCACCGCAGCGGCGACUCGAGCCGCAACACUUUCGCCGCAUCUCGCCGGA
(((((.....(((.(((((.(((.((((((((((((..........)))).)))))))).))).))))).)))..)))))..........((((.....).))). ( -52.30)
>DroEre_CAF1 22820 105 - 1
ACUCCGGACGGAGCCGCUGUUGCCGUGCCUGCGACGCAAGUUCGACUUGCGCCAGGCGCCCCAACGGCGUCUCGAUCCGGCGCGCUUUCGUCGCAUUUCGCCGGA
..(((((.(((((.((((((((..(((((((.(.((((((.....))))))))))))))..)))))))).)))(((.(((((......))))).))).))))))) ( -55.00)
>DroWil_CAF1 15667 105 - 1
GCGGCGCACAGAGCCAUUAAUGCCGCGCCUACGUAAAAAAAACGAUAUUCGUAAGGCGCCGCAACGGCGACUCGAUCCGACGCAUUUCCGCCGCAUCUCGCCAGA
..(((.......))).....(((.(((((((((................))).)))))).)))..(((((...(((.((.((......)).)).))))))))... ( -33.79)
>DroYak_CAF1 23553 105 - 1
ACUCCGGACGGAGCCGCUGUUGCCGUGCCUGCGUCGCAAGUUCGACUUGCGCCAGGCGCCACAACGGCGUCUCGAUCCGGCGCGCUUCCGUCGCAUUUCGCCGGA
..(((((.(((((.((((((((..(((((((.(.((((((.....))))))))))))))..)))))))).)))(((.(((((......))))).))).))))))) ( -55.20)
>DroPer_CAF1 27693 105 - 1
GCGGCGCACAGAGCCGCUGAUGCCGUGCCUGCGCAGGAAAUACGAGCUGCAGCAGGCACCGCAGCGGCGACUCGAGCCGCAACACUUUCGCCGCAUCUCGCCGGA
(((((.....(((.(((((.(((.((((((((((((..........)))).)))))))).))).))))).)))..)))))..........((((.....).))). ( -52.30)
>consensus
ACGCCGCACAGAGCCGCUGAUGCCGUGCCUGCGAAGCAAAUACGACUUGCGCCAGGCGCCGCAACGGCGACUCGAUCCGGCGCACUUCCGCCGCAUCUCGCCGGA
...(((....(((.(((((.((..(((((((((................)).)))))))..)).))))).)))....)))......((((.((.....)).)))) (-26.81 = -26.89 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:14 2006