Locus 3906

Sequence ID 3R_DroMel_CAF1
Location 10,639,471 – 10,639,570
Length 99
Max. P 0.500000
window6253

overview

Window 3

Location 10,639,471 – 10,639,570
Length 99
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 78.72
Mean single sequence MFE -29.39
Consensus MFE -19.69
Energy contribution -21.25
Covariance contribution 1.56
Combinations/Pair 1.17
Mean z-score -1.13
Structure conservation index 0.67
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10639471 99 + 27905053
GGAAGGUCUGCGGGAGGAAG-UGGCACAUUCCCGAGAUUCCUGCCACAGCCUAAUCAGCAUAAAAUAGUUCAGGGUGCAACUGCCUGCUUUCCAAAGUUU
(((((((..((((.(((..(-(((((...((....))....))))))..))).....((((.............))))..))))..)))))))....... ( -31.52)
>DroSec_CAF1 11751 99 + 1
GGAAGGUCUGUGGGAGGAAG-UGGCACAUUCCCGAGAUUCCUGCCACAGCCUAAUCAGCAUACAAUAGUUCAGGGUGCGACUGCCUCGUUUCCAAAGUUU
((((((.((((((.(((((.-(((.......)))...))))).)))))))))....................(((.((....)))))...)))....... ( -31.80)
>DroSim_CAF1 11928 99 + 1
GGAAGGUCUGUGGGAGGAAG-UGGCACAUUCCCGAGAUUCCUGCCACAGCCUAAUCAGCAUAAAAUAGUUCAGGGUGCGACUGCCUCCUUUCCAAAGUUU
((((((.((((((.(((((.-(((.......)))...))))).)))))))))...................((((.((....)).)))).)))....... ( -32.50)
>DroEre_CAF1 11802 99 + 1
GGAAGGCCUGUGGGAGGAAG-UGGCGCAUUCCCGAGAUUCCGGCCACAGCCUAAUCAGCAUAAAAUAGUUCAGGGUGCGACUGCCUCCAUUCCAGAUUUU
(((((((.(((((..((((.-(((.......)))...))))..)))))))))....................(((.((....)).)))..)))....... ( -29.30)
>DroYak_CAF1 11960 93 + 1
GGAAGGCCUGUGGGAGGAAG-UGGCACAUUCCCGAGAUUCCUGCCACAGCCUAAUCAGCAUAAAAUAGUUCAGGCUGCGACUGCCUCAAUUCC------U
(((((((.(((((.(((((.-(((.......)))...))))).)))))))))...............(((.((((.......)))).))))))------. ( -32.80)
>DroAna_CAF1 12075 84 + 1
GGG--AAUUGGGGCACAAAGAUAUCACAUUCCUGGGAUGACUGGCUUAGAAUAAUUUGCAU-----CUUUCAGGGUGCCAUUU---------GACAUUCU
.((--(((...(((((...(....).....((((..(.((...((..(......)..)).)-----))..)))))))))....---------...))))) ( -18.40)
>consensus
GGAAGGUCUGUGGGAGGAAG_UGGCACAUUCCCGAGAUUCCUGCCACAGCCUAAUCAGCAUAAAAUAGUUCAGGGUGCGACUGCCUCCUUUCCAAAGUUU
((((((.((((((.(((((..(((.......)))...))))).))))))))).....((((.............))))............)))....... (-19.69 = -21.25 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:59 2006