Locus 80

Sequence ID 3L_DroMel_CAF1
Location 298,806 – 298,908
Length 102
Max. P 0.992426
window113 window114

overview

Window 3

Location 298,806 – 298,908
Length 102
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 79.21
Mean single sequence MFE -33.62
Consensus MFE -22.80
Energy contribution -24.05
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.68
SVM decision value 0.67
SVM RNA-class probability 0.817711
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 298806 102 + 23771897
GUUUAAGUAAUGUGCUCGGGCUCCCCGAGCAGUUCUCCGGCCAUUCCGUUCAGUGACUCCAAUUCCGGCUGAAGCUGCAGCUGC------ACGCCAAACCCAAGCAAC
((((..((....((((((((...)))))))).......(((((((......))))..........((((((......)))))).------..)))..))..))))... ( -28.80)
>DroSec_CAF1 8719 102 + 1
GUUUAAGUAAUGUGCUCGGGCUCCCCGAGCAGUUCUACGGCCUUUCCGUUCACUGACUCCGAUUCCGGCUGCAGCUGCAGCUGC------ACACCAAACCCAAGCAAC
((((..((..(((((.(((..((...(((((((...((((.....))))..)))).))).))..)))(((((....))))).))------)))....))..))))... ( -33.40)
>DroSim_CAF1 11050 102 + 1
GUUUAAGUAAUGUGCUCGGGCUCCCCGAGCAGUUCUCCGGCCUUUCCGUUCACUGACUCCGAUUCCGGCUGCAGCUGCAGCUGC------ACGCCAAACCCAAGCAAC
............((((.(((......(((((((....(((.....)))...)))).))).......(((((((((....)))))------).)))...))).)))).. ( -34.90)
>DroYak_CAF1 9691 87 + 1
--------------CUCGGGCUGCCCGAGCAGCUCUCCUGCCACUCCGUUCAGUGACUCCGAUUUCGGCUGCAGUUGCAGCUGCAGCUGCAUGCCA---CU-GGA---
--------------...(((((((....)))))))(((...((((......))))...........((((((((((((....))))))))).))).---..-)))--- ( -37.40)
>consensus
GUUUAAGUAAUGUGCUCGGGCUCCCCGAGCAGUUCUCCGGCCAUUCCGUUCACUGACUCCGAUUCCGGCUGCAGCUGCAGCUGC______ACGCCAAACCCAAGCAAC
............((((((((...)))))))).......(((......(((....)))........(((((((....))))))).........)))............. (-22.80 = -24.05 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 298,806 – 298,908
Length 102
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 79.21
Mean single sequence MFE -42.27
Consensus MFE -26.77
Energy contribution -29.53
Covariance contribution 2.75
Combinations/Pair 1.10
Mean z-score -2.70
Structure conservation index 0.63
SVM decision value 2.33
SVM RNA-class probability 0.992426
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 298806 102 - 23771897
GUUGCUUGGGUUUGGCGU------GCAGCUGCAGCUUCAGCCGGAAUUGGAGUCACUGAACGGAAUGGCCGGAGAACUGCUCGGGGAGCCCGAGCACAUUACUUAAAC
..(((((((((((..((.------((((((.(.(((....(((...(..(.....)..).)))...))).).))..)))).))..)))))))))))............ ( -36.90)
>DroSec_CAF1 8719 102 - 1
GUUGCUUGGGUUUGGUGU------GCAGCUGCAGCUGCAGCCGGAAUCGGAGUCAGUGAACGGAAAGGCCGUAGAACUGCUCGGGGAGCCCGAGCACAUUACUUAAAC
..((((((((((((((.(------(((((....)))))))))....((.(((.((((..((((.....))))...))))))).)))))))))))))............ ( -46.00)
>DroSim_CAF1 11050 102 - 1
GUUGCUUGGGUUUGGCGU------GCAGCUGCAGCUGCAGCCGGAAUCGGAGUCAGUGAACGGAAAGGCCGGAGAACUGCUCGGGGAGCCCGAGCACAUUACUUAAAC
..((((((((((((((.(------(((((....)))))))))....((.(((.((((...(((.....)))....))))))).)))))))))))))............ ( -47.60)
>DroYak_CAF1 9691 87 - 1
---UCC-AG---UGGCAUGCAGCUGCAGCUGCAACUGCAGCCGAAAUCGGAGUCACUGAACGGAGUGGCAGGAGAGCUGCUCGGGCAGCCCGAG--------------
---..(-((---((((.(((((.(((....))).))))).(((....))).)))))))....(((..((......))..)))(((...)))...-------------- ( -38.60)
>consensus
GUUGCUUGGGUUUGGCGU______GCAGCUGCAGCUGCAGCCGGAAUCGGAGUCACUGAACGGAAAGGCCGGAGAACUGCUCGGGGAGCCCGAGCACAUUACUUAAAC
..((((((((((((((........(((((....))))).)))....((.(((.((((...(((.....)))....))))))).)))))))))))))............ (-26.77 = -29.53 +   2.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:49 2006