Locus 3704

Sequence ID 3R_DroMel_CAF1
Location 10,056,654 – 10,056,755
Length 101
Max. P 0.730082
window5937

overview

Window 7

Location 10,056,654 – 10,056,755
Length 101
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 59.55
Mean single sequence MFE -24.52
Consensus MFE -9.91
Energy contribution -10.24
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.40
SVM decision value 0.42
SVM RNA-class probability 0.730082
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10056654 101 - 27905053
UA-UAGCUAACAACUUGCAUAAAAGAUAUCAACGA-CGAGAACAUUGCACCAGUGUUUU----UCGAUGAUUGAUGGAUGAACAGC-ACUGCAUCAAUCAUAUUUUUU
..-..((.........))..((((((((.......-(((((((((((...))))).)))----))).(((((((((.(((.....)-).).))))))))))))))))) ( -22.20)
>DroVir_CAF1 176266 85 - 1
UUUGAUUUAUCAACUCACC-----------------ACAGAGCAUUGCACUUGAGUCCA----UCGAUGAUUGAUGUUCGG-CGACGCGCACAUCAAUCAUCAA-GAC
...((((((.((((((...-----------------...)))..)))....))))))..----..((((((((((((.((.-.....)).))))))))))))..-... ( -23.70)
>DroPse_CAF1 128224 101 - 1
UCUGAUUUAUGUACUAGCA-----AAGAGCCGCAUACGAGAACAUUGCACUCGAAUCCCCGAAUCAAUGAUUGAUGGCGGGGCAUUGGGUACAUCAAUCAUGCG--UC
..(((((.(((((((.(((-----(.(..(((....)).)..).))))...(((..(((((.((((.....))))..)))))..)))))))))).)))))....--.. ( -29.50)
>DroYak_CAF1 131375 100 - 1
UGGGAAUUAACAACUUGCAUAGGGGAAAUCAGCGA-AGGCAAGAAUGCACCAGUAUUUU----UC-UUGAUUGAUGGCUGAACAGU-AGUACAUCAAUCACUUU-UUU
.(((((......((((((((.((.....)).((..-..))....)))))..)))....)----))-))((((((((((((.....)-))).)))))))).....-... ( -21.50)
>DroAna_CAF1 141762 102 - 1
CGUGAUUUUUUAAAUUGCAGAAAAAAAAACCCUCU-GCUAAACAUUGCACCAAAAUCCU----UCGAUGAUUGAUGGCGGGGCUGU-GCUACAUCAAUCACGUUCCGU
.(..((.(((......(((((...........)))-)).))).))..)...........----.((.(((((((((....(((...-))).)))))))))))...... ( -20.70)
>DroPer_CAF1 129740 101 - 1
UCUGAUUUAUGUACUAGCA-----AAGAGCCGCAUACGAGAACAUUGCACUCGAAUCCCCGAAUCAAUGAUUGAUGGCGGGGCAUUGGGUACAUCAAUCAUGCG--UC
..(((((.(((((((.(((-----(.(..(((....)).)..).))))...(((..(((((.((((.....))))..)))))..)))))))))).)))))....--.. ( -29.50)
>consensus
UCUGAUUUAUCAACUUGCA_____AAAAGCCGCAU_CGAGAACAUUGCACCAGAAUCCU____UCGAUGAUUGAUGGCGGGGCAGU_GGUACAUCAAUCAUGUU__UC
..................................................................((((((((((...............))))))))))....... ( -9.91 = -10.24 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:51 2006