Locus 2035

Sequence ID	2L_DroMel_CAF1
Location	5,497,343 – 5,497,439
Length	96
Max. P	0.666779

overview

Window 7

Location	5,497,343 – 5,497,439
Length	96
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	82.49
Mean single sequence MFE	-24.36
Consensus MFE	-14.94
Energy contribution	-15.55
Covariance contribution	0.61
Combinations/Pair	1.28
Mean z-score	-2.33
Structure conservation index	0.61
SVM decision value	0.28
SVM RNA-class probability	0.666779
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5497343 96 + 22407834
AUAUGUAUAAGCUGAUUAGGAGAAGGAAAAGUGCUCGAGAG-CCAUAAACCUUUGCCAAAGACUCAACUUUUGUUAGGACUAAGCAGCUUAUAUCAG
....((((((((((.(((((..((((......(((....))-)......))))..)).....(..(((....)))..)..))).))))))))))... ( -24.40)
>DroPse_CAF1 136912 81 + 1
---UGCGUAAGCUGAUUAGG-------------CUUCAGAGACCUCAGACCUCUGCAACAGCCCCAACUUUUGUUUAGUUUAAGCUGCUUAUAGCAG
---(((((((((...(((((-------------((.(((((.........)))))....))))..((((.......)))))))...)))))).))). ( -19.30)
>DroSec_CAF1 121128 96 + 1
GUAUAUAUAAGCUGAUUAGGAGAAGGAAAAGUGCUCAAAAG-CCAUAAACCUCUGCCAAAGACUCAACUUUUGUUAGGACUAAGCAGCUUAUAUCAG
....((((((((((.((((...........(.(((....))-)).....(((..((.((((......)))).)).))).)))).))))))))))... ( -22.30)
>DroSim_CAF1 127926 96 + 1
GUAUAUAUAAGCUGAUUAGGAGAAGGAAAAGUGCUCGAGAG-CCAUAAACCUUUGCCAAAGACUUAACUUUUGUUAGGACUAAGCAGCUUAUAUCAG
....((((((((((.(((((..((((......(((....))-)......))))..)).....((((((....))))))..))).))))))))))... ( -27.40)
>DroEre_CAF1 118838 93 + 1
GUAUAUAUAAGCUGAUUAGGAGAGGAAAAAGUGCUCGAGAG-CCAUAAACCUGUGCAGCGGACUC---UUUUGUUAGGACUAAGCAGCUUAUAUCAG
....((((((((((.((((.......(((((.(..((...(-(((......)).))..))..).)---)))).......)))).))))))))))... ( -24.74)
>DroYak_CAF1 125606 96 + 1
GUAUAUAUAAGCUGAUUAGGAGAAGAAAAAGUGCUCGAGAG-CCAUAAACCUGUGCAAGAGACUCAACUUUUGUUAGGACUAAGCAGCUUAUAUCAG
....((((((((((.((((...........(.(((....))-)).....((((.(((((((......))))))))))).)))).))))))))))... ( -28.00)
>consensus
GUAUAUAUAAGCUGAUUAGGAGAAGGAAAAGUGCUCGAGAG_CCAUAAACCUCUGCAAAAGACUCAACUUUUGUUAGGACUAAGCAGCUUAUAUCAG
....((((((((((.(((((((...........))).............((...((.((((......)))).))..)).)))).))))))))))... (-14.94 = -15.55 +   0.61)

alignment

secondary structure

dotplot

Window 8

Location	5,497,343 – 5,497,439
Length	96
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	82.49
Mean single sequence MFE	-23.80
Consensus MFE	-11.60
Energy contribution	-13.41
Covariance contribution	1.81
Combinations/Pair	1.15
Mean z-score	-2.75
Structure conservation index	0.49
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5497343 96 - 22407834
CUGAUAUAAGCUGCUUAGUCCUAACAAAAGUUGAGUCUUUGGCAAAGGUUUAUGG-CUCUCGAGCACUUUUCCUUCUCCUAAUCAGCUUAUACAUAU
.((.(((((((((.((((.......((((((.(((((...(((....)))...))-)))......)))))).......)))).)))))))))))... ( -22.94)
>DroPse_CAF1 136912 81 - 1
CUGCUAUAAGCAGCUUAAACUAAACAAAAGUUGGGGCUGUUGCAGAGGUCUGAGGUCUCUGAAG-------------CCUAAUCAGCUUACGCA---
((((.....))))..............(((((((((((....(((((..(...)..))))).))-------------)))...)))))).....--- ( -25.30)
>DroSec_CAF1 121128 96 - 1
CUGAUAUAAGCUGCUUAGUCCUAACAAAAGUUGAGUCUUUGGCAGAGGUUUAUGG-CUUUUGAGCACUUUUCCUUCUCCUAAUCAGCUUAUAUAUAC
...((((((((((.((((....(((....)))(((.....((.(((((((((...-....))))).)))).))..))))))).)))))))))).... ( -24.20)
>DroSim_CAF1 127926 96 - 1
CUGAUAUAAGCUGCUUAGUCCUAACAAAAGUUAAGUCUUUGGCAAAGGUUUAUGG-CUCUCGAGCACUUUUCCUUCUCCUAAUCAGCUUAUAUAUAC
...((((((((((.((((.(.((((....)))).).)...((..((((......(-((....)))......))))..))))).)))))))))).... ( -23.70)
>DroEre_CAF1 118838 93 - 1
CUGAUAUAAGCUGCUUAGUCCUAACAAAA---GAGUCCGCUGCACAGGUUUAUGG-CUCUCGAGCACUUUUUCCUCUCCUAAUCAGCUUAUAUAUAC
...((((((((((.((((.......((((---(.(..((..((.((......)))-)...))..).))))).......)))).)))))))))).... ( -23.54)
>DroYak_CAF1 125606 96 - 1
CUGAUAUAAGCUGCUUAGUCCUAACAAAAGUUGAGUCUCUUGCACAGGUUUAUGG-CUCUCGAGCACUUUUUCUUCUCCUAAUCAGCUUAUAUAUAC
...((((((((((.((((.......((((((.(((((....((....))....))-)))......)))))).......)))).)))))))))).... ( -23.14)
>consensus
CUGAUAUAAGCUGCUUAGUCCUAACAAAAGUUGAGUCUUUGGCAAAGGUUUAUGG_CUCUCGAGCACUUUUCCUUCUCCUAAUCAGCUUAUAUAUAC
...((((((((((.((((.......((((((.(((.((...((....))....)).)))......)))))).......)))).)))))))))).... (-11.60 = -13.41 +   1.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:42 2006