Locus 2868

Sequence ID	2R_DroMel_CAF1
Location	9,917,657 – 9,917,760
Length	103
Max. P	0.995473

overview

Window 2

Location	9,917,657 – 9,917,760
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	89.61
Mean single sequence MFE	-27.31
Consensus MFE	-23.70
Energy contribution	-24.06
Covariance contribution	0.36
Combinations/Pair	1.14
Mean z-score	-1.71
Structure conservation index	0.87
SVM decision value	1.25
SVM RNA-class probability	0.936193
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9917657 103 + 20766785
AUUCGAACUUCUUACAAGCCAGUUCUGAAAAUAGAAGUACCCCCACAUUAGAGUAUUUCCUCAGGCAAAUGCCAACUUCCGGCCUGUGGCAUUGACUUUGCCG
.............(((.(((.............(((((((.(........).)))))))....(((....))).......))).)))((((.......)))). ( -23.10)
>DroSec_CAF1 48983 103 + 1
AUUCGAACUACUUACAAGCCAGUUCUGAAAAUAGAUGUACCCCCACAGAAGAGUAUUUCCUUAGGCAAAUGCCAACUUCCGGCUUGUGGCAUUGACUUUGCCG
.............(((((((..(((((..................))))).............(((....))).......)))))))((((.......)))). ( -24.27)
>DroSim_CAF1 36318 103 + 1
AUUCGAACUACUUACAAGCCAGUUCUGAAAAUAGAAGUACCUCCACAGAAGGGUAUUUCCUCAGGCAAAUGCCAACUUCCGGCUUGUGGCAUUGACUUUGCCG
.............(((((((.............(((((((((........)))))))))....(((....))).......)))))))((((.......)))). ( -32.10)
>DroEre_CAF1 41262 102 + 1
AUUCCAAUUACUUAGAAGCCUGUUGUGAAAAUAGAAGUACCCC-AUGGAAGAGUAUUUCCUCAGGCAAAUGCCAACUUCCGGCUUGCGGCAUUGACUUUGCCG
...............(((((...(((....)))(((((.....-..(((((....)))))...(((....))).))))).))))).(((((.......))))) ( -25.90)
>DroYak_CAF1 36468 103 + 1
AUUCCAAUUACUUACAAGUCUGCUGUGAAAAUGGCAGUACCCCUAUAGAAGAGUAUUGCCUCUGGCAAAUGCCAACUUCCGGCUUGCGGCAUUGACUUUGCCG
.................((..((((.(((...((((((((..((.....)).))))))))..((((....))))..)))))))..))((((.......)))). ( -31.20)
>consensus
AUUCGAACUACUUACAAGCCAGUUCUGAAAAUAGAAGUACCCCCACAGAAGAGUAUUUCCUCAGGCAAAUGCCAACUUCCGGCUUGUGGCAUUGACUUUGCCG
.............(((((((.............(((((((.(........).)))))))....(((....))).......)))))))((((.......)))). (-23.70 = -24.06 +   0.36)

alignment

secondary structure

dotplot

Window 3

Location	9,917,657 – 9,917,760
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	89.61
Mean single sequence MFE	-31.86
Consensus MFE	-29.36
Energy contribution	-29.52
Covariance contribution	0.16
Combinations/Pair	1.19
Mean z-score	-2.00
Structure conservation index	0.92
SVM decision value	2.58
SVM RNA-class probability	0.995473
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9917657 103 - 20766785
CGGCAAAGUCAAUGCCACAGGCCGGAAGUUGGCAUUUGCCUGAGGAAAUACUCUAAUGUGGGGGUACUUCUAUUUUCAGAACUGGCUUGUAAGAAGUUCGAAU
.((((.......))))(((((((((.....(((....)))...((((.((((((......)))))).))))..........)))))))))............. ( -32.60)
>DroSec_CAF1 48983 103 - 1
CGGCAAAGUCAAUGCCACAAGCCGGAAGUUGGCAUUUGCCUAAGGAAAUACUCUUCUGUGGGGGUACAUCUAUUUUCAGAACUGGCUUGUAAGUAGUUCGAAU
.((((.......))))(((((((((.....(((....)))...(((..((((((......))))))..)))..........)))))))))............. ( -31.20)
>DroSim_CAF1 36318 103 - 1
CGGCAAAGUCAAUGCCACAAGCCGGAAGUUGGCAUUUGCCUGAGGAAAUACCCUUCUGUGGAGGUACUUCUAUUUUCAGAACUGGCUUGUAAGUAGUUCGAAU
.((((.......))))(((((((((.....(((....)))...((((.((((((.....)).)))).))))..........)))))))))............. ( -32.10)
>DroEre_CAF1 41262 102 - 1
CGGCAAAGUCAAUGCCGCAAGCCGGAAGUUGGCAUUUGCCUGAGGAAAUACUCUUCCAU-GGGGUACUUCUAUUUUCACAACAGGCUUCUAAGUAAUUGGAAU
.((((((((((((.(((.....)))..)))))).))))))...((((.((((((.....-)))))).))))...............((((((....)))))). ( -30.20)
>DroYak_CAF1 36468 103 - 1
CGGCAAAGUCAAUGCCGCAAGCCGGAAGUUGGCAUUUGCCAGAGGCAAUACUCUUCUAUAGGGGUACUGCCAUUUUCACAGCAGACUUGUAAGUAAUUGGAAU
.((((((((((((.(((.....)))..)))))).))))))...((((.((((((......)))))).))))...(((.(((...(((....)))..)))))). ( -33.20)
>consensus
CGGCAAAGUCAAUGCCACAAGCCGGAAGUUGGCAUUUGCCUGAGGAAAUACUCUUCUGUGGGGGUACUUCUAUUUUCAGAACUGGCUUGUAAGUAGUUCGAAU
.((((.......))))(((((((((.....(((....)))...((((.((((((......)))))).))))..........)))))))))............. (-29.36 = -29.52 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:34 2006