Locus 2254

Sequence ID	2R_DroMel_CAF1
Location	8,293,498 – 8,293,594
Length	96
Max. P	0.999537

overview

Window 6

Location	8,293,498 – 8,293,594
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	95.62
Mean single sequence MFE	-28.74
Consensus MFE	-25.84
Energy contribution	-26.48
Covariance contribution	0.64
Combinations/Pair	1.04
Mean z-score	-2.56
Structure conservation index	0.90
SVM decision value	3.70
SVM RNA-class probability	0.999537
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8293498 96 + 20766785
CACACUGGGCAGAAUCAACAAUGCCUUAAGCCAACUUGAUGAGCCCUCAUCAUUUGCCUGGCCAGAAAGGCCACGAACUGGUCAAUGUGCAGAUAA
((((.((((((..........))))....((((...((((((....))))))((((..(((((.....))))))))).)))))).))))....... ( -26.80)
>DroSec_CAF1 19164 92 + 1
CACACUGGGCAGAAUCAACAAUGCCUUAA----ACUUUAUGAGCCCUCAUCAUCUGCCUGGCCAGAAAGGCCACGAACUGGUCAAUGGGCAGAUAA
......(((((..........)))))...----.....((((....)))).((((((((((((((...(....)...))))))...)))))))).. ( -27.00)
>DroSim_CAF1 14571 96 + 1
CACACUGGGCAGAAUCAACAAUGCCUUAAGCCAACUUGAUGAGCCCUCAUCAUCUGCCUGGCCAGAAAGGCCACGAACUGGUCAAUGGGCAGAUAA
......((((...(((((....((.....))....)))))..)))).....((((((((((((((...(....)...))))))...)))))))).. ( -32.30)
>DroEre_CAF1 15312 96 + 1
CACACUGGGCAGAAUCAACAAUGCCUUAAGCCAACUUGAUGAGCCCUCAUCAUCUGCCUGGCCAGAAAGGCCACGAACUGGUCAAUGGACAGAUAA
....(((((((((.........((.....)).....((((((....))))))))))))(((((((...(....)...))))))).....))).... ( -29.00)
>DroYak_CAF1 15520 96 + 1
CACACUGGGCAGAAUCAACAAUGCCUUAAGCCAACCCGAUGAGCCCUCAUCAUCUGCCUGGCCAGAAAGGCCACGAACUGGUCAAUGGACAGAUAA
....(((((((((.........((.....))......(((((....))))).))))))(((((((...(....)...))))))).....))).... ( -28.60)
>consensus
CACACUGGGCAGAAUCAACAAUGCCUUAAGCCAACUUGAUGAGCCCUCAUCAUCUGCCUGGCCAGAAAGGCCACGAACUGGUCAAUGGGCAGAUAA
......(((((..........)))))...........(((((....)))))((((((((((((((...(....)...)))))))...))))))).. (-25.84 = -26.48 +   0.64)

alignment

secondary structure

dotplot

Window 7

Location	8,293,498 – 8,293,594
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	95.62
Mean single sequence MFE	-31.92
Consensus MFE	-28.76
Energy contribution	-29.20
Covariance contribution	0.44
Combinations/Pair	1.11
Mean z-score	-1.69
Structure conservation index	0.90
SVM decision value	1.75
SVM RNA-class probability	0.975686
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8293498 96 - 20766785
UUAUCUGCACAUUGACCAGUUCGUGGCCUUUCUGGCCAGGCAAAUGAUGAGGGCUCAUCAAGUUGGCUUAAGGCAUUGUUGAUUCUGCCCAGUGUG
.......(((((((..(((.(((..(((((...((((((.(...((((((....)))))).))))))).))))).....)))..)))..))))))) ( -32.70)
>DroSec_CAF1 19164 92 - 1
UUAUCUGCCCAUUGACCAGUUCGUGGCCUUUCUGGCCAGGCAGAUGAUGAGGGCUCAUAAAGU----UUAAGGCAUUGUUGAUUCUGCCCAGUGUG
(((((((((....((.....)).(((((.....))))))))))))))...((((((((((.((----.....)).))).)))....))))...... ( -29.10)
>DroSim_CAF1 14571 96 - 1
UUAUCUGCCCAUUGACCAGUUCGUGGCCUUUCUGGCCAGGCAGAUGAUGAGGGCUCAUCAAGUUGGCUUAAGGCAUUGUUGAUUCUGCCCAGUGUG
(((((((((....((.....)).(((((.....))))))))))))))...((((..(((((....((.....))....)))))...))))...... ( -34.70)
>DroEre_CAF1 15312 96 - 1
UUAUCUGUCCAUUGACCAGUUCGUGGCCUUUCUGGCCAGGCAGAUGAUGAGGGCUCAUCAAGUUGGCUUAAGGCAUUGUUGAUUCUGCCCAGUGUG
(((((((((....((.....)).(((((.....))))))))))))))...((((..(((((....((.....))....)))))...))))...... ( -32.00)
>DroYak_CAF1 15520 96 - 1
UUAUCUGUCCAUUGACCAGUUCGUGGCCUUUCUGGCCAGGCAGAUGAUGAGGGCUCAUCGGGUUGGCUUAAGGCAUUGUUGAUUCUGCCCAGUGUG
(((((((((....((.....)).(((((.....))))))))))))))...((((.....((((..((..........))..)))).))))...... ( -31.10)
>consensus
UUAUCUGCCCAUUGACCAGUUCGUGGCCUUUCUGGCCAGGCAGAUGAUGAGGGCUCAUCAAGUUGGCUUAAGGCAUUGUUGAUUCUGCCCAGUGUG
(((((((((....((.....)).(((((.....))))))))))))))...((((..(((((....((.....))....)))))...))))...... (-28.76 = -29.20 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:57 2006