Locus 4845

Sequence ID X_DroMel_CAF1
Location 12,596,731 – 12,596,888
Length 157
Max. P 0.949660
window7916 window7917

overview

Window 6

Location 12,596,731 – 12,596,851
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 70.90
Mean single sequence MFE -37.65
Consensus MFE -11.02
Energy contribution -13.26
Covariance contribution 2.24
Combinations/Pair 1.19
Mean z-score -2.12
Structure conservation index 0.29
SVM decision value 1.39
SVM RNA-class probability 0.949660
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12596731 120 - 22224390
UCCCCUGCGGUUGUCAAACCAUCAGAGACUGCGGUGGCCAACAAUGGUUGCCAGCCAGCUGCAAGUGCAACCAAAGGCAAGAAGCACAAGAAAAGUCCUUGCGGGAGUCCGGGAGAAAAC
(((((((.((((....))))..))).((((((((..((((....))))..)).))...(((((((..(........((.....)).........)..))))))).)))).))))...... ( -39.93)
>DroSec_CAF1 5406 111 - 1
UCUCGUGCGGUUGUCAAGCCAUCGGAGACUUCGGUGGCCAACAAUGGUAGCCAGCCAGCUG------CAACCAAAGGCAAGAAGCACAAGAAAAGACAUUGCG---CUCCGGGAGACACC
(((.((((..(((((..(((((((((...)))))))))......((((.((.((....)))------).))))..)))))...)))).)))............---.....(....)... ( -34.70)
>DroSim_CAF1 4868 111 - 1
UCUCUUCCGGUUGUCAAGCCAUCGGAGACUUCGGUGGCCAACAAUGGUUGCCAGCCAGCUG------CAACCAAAGCCAAGAAGCACAAGAAAAGACAUUGCG---CUCCGGGAGACAUC
..((((((((((((...(((((((((...)))))))))..))))(((((((.((....)))------)))))).........(((.(((.........))).)---)))))))))).... ( -40.60)
>DroEre_CAF1 6086 114 - 1
ACUCCUGCGGAUGGAAAACCAUCU---GCGCCGGUUGCCAACAAUGGUUGCCAGCCGGCUGUAAAUCCCACCAAGAGCAAGAAACGCAAGAAAAGUCCAUCCG---CUCCGGAGGAUACC
.((((.(((((((((......(((---((((((((((.((((....)))).))))))))......((.......)))).)))..(....).....))))))))---)...))))...... ( -47.00)
>DroYak_CAF1 5075 96 - 1
GCUCCUGCGCCUGGAAAACCAACAGCUACGGCGGUUGCCAGC---------------------AAUCCUACCAAGAGCAAGAAACACAAGAAGAGUCGUUCCG---CAGCGGGGGACACC
.(((((((((.(((.....((((.((....)).)))))))))---------------------.............((..(((..((.......))..))).)---).)))))))..... ( -26.00)
>consensus
UCUCCUGCGGUUGUCAAACCAUCAGAGACUGCGGUGGCCAACAAUGGUUGCCAGCCAGCUG__A_U_CAACCAAAGGCAAGAAGCACAAGAAAAGUCAUUGCG___CUCCGGGAGACACC
.((((((.((((....))))............((..((((....))))..)).........................................................))))))..... (-11.02 = -13.26 +   2.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 12,596,771 – 12,596,888
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 68.29
Mean single sequence MFE -40.62
Consensus MFE -16.79
Energy contribution -20.73
Covariance contribution 3.94
Combinations/Pair 1.23
Mean z-score -2.21
Structure conservation index 0.41
SVM decision value 0.48
SVM RNA-class probability 0.751140
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12596771 117 - 22224390
UGCCGCUCCACCCAAUGCGAUGGCCGGUGAAGAGCA---CUCCCCUGCGGUUGUCAAACCAUCAGAGACUGCGGUGGCCAACAAUGGUUGCCAGCCAGCUGCAAGUGCAACCAAAGGCAA
((((.((.((((....((....)).)))).)).(((---((....((((((((.(.......(((...))).((..((((....))))..)).).))))))))))))).......)))). ( -41.40)
>DroSec_CAF1 5443 114 - 1
UGCCGCGCCUCGCAACGCGGUGCCCGUUGAAGAGCCACCAUCUCGUGCGGUUGUCAAGCCAUCGGAGACUUCGGUGGCCAACAAUGGUAGCCAGCCAGCUG------CAACCAAAGGCAA
.((((((........))))))((((((((..(.((((((.........((((....))))...(....)...)))))))..)))))(((((......))))------).......))).. ( -44.60)
>DroSim_CAF1 4905 97 - 1
-----------------CGGUGCCCGUUGAAGAGCCACCAUCUCUUCCGGUUGUCAAGCCAUCGGAGACUUCGGUGGCCAACAAUGGUUGCCAGCCAGCUG------CAACCAAAGCCAA
-----------------.(((....((((....((((((.(((((...((((....))))...)))))....))))))))))..(((((((.((....)))------))))))..))).. ( -37.90)
>DroEre_CAF1 6123 97 - 1
-----------------CGGCGACUGUCGAAGA---GUCUACUCCUGCGGAUGGAAAACCAUCU---GCGCCGGUUGCCAACAAUGGUUGCCAGCCGGCUGUAAAUCCCACCAAGAGCAA
-----------------..((((((.......)---)))(((....((((((((....))))))---))((((((((.((((....)))).)))))))).))).............)).. ( -38.60)
>consensus
_________________CGGUGCCCGUUGAAGAGCCACCAUCUCCUGCGGUUGUCAAACCAUCGGAGACUUCGGUGGCCAACAAUGGUUGCCAGCCAGCUG______CAACCAAAGGCAA
..................(((((((((((..(.((((((.((((....((((....))))....))))....)))))))..)))))))))))............................ (-16.79 = -20.73 +   3.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:25 2006