Locus 2186

Sequence ID	X_DroMel_CAF1
Location	5,922,443 – 5,922,540
Length	97
Max. P	0.998315

overview

Window 6

Location	5,922,443 – 5,922,540
Length	97
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	90.35
Mean single sequence MFE	-31.12
Consensus MFE	-27.98
Energy contribution	-28.34
Covariance contribution	0.36
Combinations/Pair	1.14
Mean z-score	-2.24
Structure conservation index	0.90
SVM decision value	3.06
SVM RNA-class probability	0.998304
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5922443 97 + 22224390
UAUGUCCGUGAUUU-CUCUAUGUGCAUCAGACUUUGGCGCUGAUUUACCGGAUCGCCAAAGUCCGUCGCCGUGAAAGUCAAUUGUAUUGGUUGACCCC
..............-...((((.((..(.(((((((((((((......)))..)))))))))).)..))))))...(((((((.....)))))))... ( -28.80)
>DroSec_CAF1 9066 97 + 1
UAUAUCCGUGAUUU-CUCUACGUGCGUCAGACUUUGGCGCUGAUUUACCGAAUCGCCAAAGUCCGUCGCCGUGAAAGUCAAUUGUAUGGGUUGACCCC
.((((...((((((-.((.(((.(((.(.((((((((((.((......))...)))))))))).).))))))))))))))...))))(((....))). ( -34.80)
>DroSim_CAF1 10110 97 + 1
UAUAUCCGUGAUUU-UUCUAUGUGCAUCAGACUUUGGCGCUGAUUUACCGGAUCGCCAAAGUCCGUCGCCGUGAAAGUCAAUUGUAUUGGUUGACCCC
.............(-(((.(((.((..(.(((((((((((((......)))..)))))))))).)..)))))))))(((((((.....)))))))... ( -30.40)
>DroEre_CAF1 9745 98 + 1
CAAAGCCUUAAUUUUUUCUAUGUGCAUCAGACUUUGGCGCUGAUUUAUCGGAUCGCCAAAGUUCGUUGCCGUGAAAGUCAAUUGUAUUGGUUGACCCC
..............((((.(((.(((.(..(((((((((((((....))))..)))))))))..).))))))))))(((((((.....)))))))... ( -30.90)
>DroYak_CAF1 12330 97 + 1
UAUGGCCCUGAUUU-CGCAAUGUGCAUCAGACUUUGGCGCUGAUUUAGCGGGUCGCCAAAGUCCGUUGCCGUGAAAGUCAAUCGUAUUGGCUGACCCC
((((((..((((..-.((.....))))))(((((((((((((......)))..))))))))))....))))))..(((((((...)))))))...... ( -30.70)
>consensus
UAUAUCCGUGAUUU_CUCUAUGUGCAUCAGACUUUGGCGCUGAUUUACCGGAUCGCCAAAGUCCGUCGCCGUGAAAGUCAAUUGUAUUGGUUGACCCC
..................((((.(((.(.(((((((((((((......)))..)))))))))).).)))))))...(((((((.....)))))))... (-27.98 = -28.34 +   0.36)

alignment

secondary structure

dotplot

Window 7

Location	5,922,443 – 5,922,540
Length	97
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	90.35
Mean single sequence MFE	-29.59
Consensus MFE	-26.98
Energy contribution	-26.62
Covariance contribution	-0.36
Combinations/Pair	1.13
Mean z-score	-2.17
Structure conservation index	0.91
SVM decision value	3.06
SVM RNA-class probability	0.998315
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5922443 97 - 22224390
GGGGUCAACCAAUACAAUUGACUUUCACGGCGACGGACUUUGGCGAUCCGGUAAAUCAGCGCCAAAGUCUGAUGCACAUAGAG-AAAUCACGGACAUA
.(((((((.........)))))))((.(((((.((((((((((((..............)))))))))))).))).....((.-...)).)))).... ( -30.44)
>DroSec_CAF1 9066 97 - 1
GGGGUCAACCCAUACAAUUGACUUUCACGGCGACGGACUUUGGCGAUUCGGUAAAUCAGCGCCAAAGUCUGACGCACGUAGAG-AAAUCACGGAUAUA
(((.....))).......(((.((((((((((.((((((((((((..............)))))))))))).))).))).)))-)..)))........ ( -35.34)
>DroSim_CAF1 10110 97 - 1
GGGGUCAACCAAUACAAUUGACUUUCACGGCGACGGACUUUGGCGAUCCGGUAAAUCAGCGCCAAAGUCUGAUGCACAUAGAA-AAAUCACGGAUAUA
.(((((((.........)))))))((.(((((.((((((((((((..............)))))))))))).))).....((.-...)).)))).... ( -27.74)
>DroEre_CAF1 9745 98 - 1
GGGGUCAACCAAUACAAUUGACUUUCACGGCAACGAACUUUGGCGAUCCGAUAAAUCAGCGCCAAAGUCUGAUGCACAUAGAAAAAAUUAAGGCUUUG
((((((...((((...))))..((((...(((.((.(((((((((....((....))..))))))))).)).))).....)))).......)))))). ( -22.90)
>DroYak_CAF1 12330 97 - 1
GGGGUCAGCCAAUACGAUUGACUUUCACGGCAACGGACUUUGGCGACCCGCUAAAUCAGCGCCAAAGUCUGAUGCACAUUGCG-AAAUCAGGGCCAUA
(((((((..(.....)..)))))))...(((..((((((((((((..............)))))))))))).(((.....)))-........)))... ( -31.54)
>consensus
GGGGUCAACCAAUACAAUUGACUUUCACGGCGACGGACUUUGGCGAUCCGGUAAAUCAGCGCCAAAGUCUGAUGCACAUAGAG_AAAUCACGGAUAUA
((((((((.........))))))))....(((.((((((((((((..............)))))))))))).)))....................... (-26.98 = -26.62 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:15 2006