Locus 6785

Sequence ID	2L_DroMel_CAF1
Location	18,958,577 – 18,958,671
Length	94
Max. P	0.846681

overview

Window 8

Location	18,958,577 – 18,958,671
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	98.72
Mean single sequence MFE	-35.06
Consensus MFE	-33.62
Energy contribution	-33.66
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.42
Structure conservation index	0.96
SVM decision value	0.77
SVM RNA-class probability	0.846681
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18958577 94 + 22407834
GGCUGCCGAUGUGGUCUGGAAGCGGCUCCUUGGAUGGAGGAUAUCGAGGAGAUCGCCUUGGCGGCACUUUGCUGAGUUGAGCAUAGCGUUACUA
.((((((((.((((((((....)))(((((((.(((.....))))))))))))))).)))))))).((.((((......)))).))........ ( -34.70)
>DroSec_CAF1 13631 94 + 1
GGCUGCCGAUGUGGUCUGGAAGCGGCUCCUUGGAUGGAGGAUAUCGAGGAGAUCGCCUUGGCGGCACUUUGCUGAGUUGAGCAUAGCGUUACUA
.((((((((.((((((((....)))(((((((.(((.....))))))))))))))).)))))))).((.((((......)))).))........ ( -34.70)
>DroSim_CAF1 13183 94 + 1
GGCUGCCGAUGUGGUCUGGAAGCGGCUCCUUGGAUGGAGGAUAUCGAGGAGAUCGCCUUGGCGGCACUUUGCUGAGUUGAGCAUAGCGUUACUA
.((((((((.((((((((....)))(((((((.(((.....))))))))))))))).)))))))).((.((((......)))).))........ ( -34.70)
>DroEre_CAF1 21203 94 + 1
GGCUGCCGGUGUUGUCUGGCAGCGGCUCCUUGGAUGGAGGAUAUCGAGGAGAUCGCCUUGGCGGCACUUUGCUGAGUUGAGCAUAGCGUUACUA
.((((((((......))))))))(((((((((.(((.....)))))))))).))((....))(((.((.((((......)))).)).))).... ( -36.50)
>DroYak_CAF1 13559 94 + 1
GGCUGCCGAUGUGGUCUGGAAGCGGCUCCUUGGAUGGAGGAUAUCGAGGAGAUCGCCUUGGCGGCACUUUGCUGAGUUGAGCAUAGCGUUACUA
.((((((((.((((((((....)))(((((((.(((.....))))))))))))))).)))))))).((.((((......)))).))........ ( -34.70)
>consensus
GGCUGCCGAUGUGGUCUGGAAGCGGCUCCUUGGAUGGAGGAUAUCGAGGAGAUCGCCUUGGCGGCACUUUGCUGAGUUGAGCAUAGCGUUACUA
.((((((((.((((((((....)))(((((((.(((.....))))))))))))))).)))))))).((.((((......)))).))........ (-33.62 = -33.66 +   0.04)

alignment

secondary structure

dotplot

Window 9

Location	18,958,577 – 18,958,671
Length	94
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	98.72
Mean single sequence MFE	-24.32
Consensus MFE	-22.30
Energy contribution	-22.70
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.39
Structure conservation index	0.92
SVM decision value	0.33
SVM RNA-class probability	0.691272
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18958577 94 - 22407834
UAGUAACGCUAUGCUCAACUCAGCAAAGUGCCGCCAAGGCGAUCUCCUCGAUAUCCUCCAUCCAAGGAGCCGCUUCCAGACCACAUCGGCAGCC
......((((.((((......)))).))))..(((.(((((..(((((.(((.......)))..))))).)))))...((.....))))).... ( -23.40)
>DroSec_CAF1 13631 94 - 1
UAGUAACGCUAUGCUCAACUCAGCAAAGUGCCGCCAAGGCGAUCUCCUCGAUAUCCUCCAUCCAAGGAGCCGCUUCCAGACCACAUCGGCAGCC
......((((.((((......)))).))))..(((.(((((..(((((.(((.......)))..))))).)))))...((.....))))).... ( -23.40)
>DroSim_CAF1 13183 94 - 1
UAGUAACGCUAUGCUCAACUCAGCAAAGUGCCGCCAAGGCGAUCUCCUCGAUAUCCUCCAUCCAAGGAGCCGCUUCCAGACCACAUCGGCAGCC
......((((.((((......)))).))))..(((.(((((..(((((.(((.......)))..))))).)))))...((.....))))).... ( -23.40)
>DroEre_CAF1 21203 94 - 1
UAGUAACGCUAUGCUCAACUCAGCAAAGUGCCGCCAAGGCGAUCUCCUCGAUAUCCUCCAUCCAAGGAGCCGCUGCCAGACAACACCGGCAGCC
......((((.((((......)))).)))).(((....)))..(((((.(((.......)))..)))))..((((((.(......).)))))). ( -28.00)
>DroYak_CAF1 13559 94 - 1
UAGUAACGCUAUGCUCAACUCAGCAAAGUGCCGCCAAGGCGAUCUCCUCGAUAUCCUCCAUCCAAGGAGCCGCUUCCAGACCACAUCGGCAGCC
......((((.((((......)))).))))..(((.(((((..(((((.(((.......)))..))))).)))))...((.....))))).... ( -23.40)
>consensus
UAGUAACGCUAUGCUCAACUCAGCAAAGUGCCGCCAAGGCGAUCUCCUCGAUAUCCUCCAUCCAAGGAGCCGCUUCCAGACCACAUCGGCAGCC
......((((.((((......)))).))))..(((.(((((..(((((.(((.......)))..))))).)))))...((.....))))).... (-22.30 = -22.70 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:51 2006