Locus 1747

Sequence ID 3L_DroMel_CAF1
Location 5,042,672 – 5,042,812
Length 140
Max. P 0.659570
window2697 window2698

overview

Window 7

Location 5,042,672 – 5,042,772
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.51
Mean single sequence MFE -28.62
Consensus MFE -8.58
Energy contribution -8.47
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -2.63
Structure conservation index 0.30
SVM decision value 0.03
SVM RNA-class probability 0.550235
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5042672 100 + 23771897
UCUCCU--UCUAUCCCUCGCUCUCUUCGACGGGCACA-CAGUGCGUAUGAUUAAUUUCCCUAAUUU---------UGGGUAUGUGUG--------CCUUCUUGAGAUCACAAAUUCCCAU
......--..........(.((((...((.(((((((-((.(((.((.(((((.......))))).---------)).)))))))))--------)))))..)))).)............ ( -25.20)
>DroPse_CAF1 318317 108 + 1
CCCCCCUUCCCUUCUUUGGCACUCUUUUGGGGGCACUCCAGUGCGUAUGAUUAAUUUGCUUAAUUU---------UGUGUAUGAGGCACAGAAAUCCCACCCGAAA---CGCCACCGCUU
................((((....(((((((.((((....))))...................(((---------(((((.....))))))))......)))))))---.))))...... ( -26.10)
>DroSec_CAF1 249159 102 + 1
UCUCCUUUUCUGUCCCUCGCUCUCUUCGAGGGGCACA-CAGUGCGUAUGAUUAAUUUCCUUAAUUU---------UGGGUAUGUGUG--------CCUACUUGAGAAGACGAAUUCCCAU
................(((.(((..((((((((((((-((.(((.((.((((((.....)))))).---------)).)))))))))--------))).)))))..))))))........ ( -32.90)
>DroSim_CAF1 270020 102 + 1
UCUCCUUUUCUCUCCCUCGCUCUCUUCGAGGGGCACA-CAGUGCGUAUGAUUAAUUUCCUUAAUUU---------UGGGUAUGUGUG--------CCUACUUGAGAAGACGAAUUCCCAU
..((.(((((((..(((((.......)))))((((((-((.(((.((.((((((.....)))))).---------)).)))))))))--------)).....))))))).))........ ( -34.30)
>DroEre_CAF1 252603 98 + 1
UCCACA--UCUGUCCC-CGCUCUCUCCUUCG-GCACA-CAGUGCGUAUGAUUAAUUUCCUUAAUUU---------UGGGUAUGUGUG--------CCUUCUUGAGAAGACGAAUUCCCAU
......--........-((.((((((....(-(((((-((.(((.((.((((((.....)))))).---------)).)))))))))--------)).....))).)))))......... ( -25.60)
>DroYak_CAF1 259006 109 + 1
UCGACU--UCUGUCCCUCGCUCUCUUCAACGGGCACA-CAGUGCGUAUGAUUAAUUUCCUUAAUUUUUGGGUUUGUGGGUAUGUGUG--------CCUACUUGCGAAGACGAAUUUCCAU
..(((.--...)))..(((.(((...(((.(((((((-((.(((.((..(.......(((........))).)..)).)))))))))--------)))..)))...))))))........ ( -27.60)
>consensus
UCUCCU__UCUGUCCCUCGCUCUCUUCGACGGGCACA_CAGUGCGUAUGAUUAAUUUCCUUAAUUU_________UGGGUAUGUGUG________CCUACUUGAGAAGACGAAUUCCCAU
..................((((..........((((....))))....((((((.....))))))...........))))........................................ ( -8.58 =  -8.47 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 5,042,709 – 5,042,812
Length 103
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 83.00
Mean single sequence MFE -27.70
Consensus MFE -16.10
Energy contribution -19.73
Covariance contribution 3.62
Combinations/Pair 1.10
Mean z-score -2.18
Structure conservation index 0.58
SVM decision value 0.26
SVM RNA-class probability 0.659570
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5042709 103 - 23771897
GUGCUUGUGUGUGUGUGUGUGUGUUUGCAGCGACGCUUAAAUGGGAAUUUGUGAUCUCAAGAAGGCACACAUACCCAAAAUUAGGGAAAUUAAUCAUACGCAC
......((((((((((((((((((((((......)).....(((((........)))))...)))))))))))(((.......)))........))))))))) ( -31.70)
>DroSec_CAF1 249198 89 - 1
GUGCUUGU--------------GUUUGCAGCGUCGCUUAAAUGGGAAUUCGUCUUCUCAAGUAGGCACACAUACCCAAAAUUAAGGAAAUUAAUCAUACGCAC
((((.(((--------------(.(((..(.((.(((((..((((((......))))))..))))))).)....((........))....))).)))).)))) ( -20.80)
>DroSim_CAF1 270059 97 - 1
GUGCUUGUGUGU------GUGUGUUUGCAGCGUCGUUUAAAUGGGAAUUCGUCUUCUCAAGUAGGCACACAUACCCAAAAUUAAGGAAAUUAAUCAUACGCAC
(((((((.((((------(((((((((((((...)))....((((((......)))))).)))))))))))))).))).(((((.....))))).....)))) ( -28.60)
>DroEre_CAF1 252638 95 - 1
GUGUG--------UGUGUGUGUGCUGGCAGGGGCAUUUAAAUGGGAAUUCGUCUUCUCAAGAAGGCACACAUACCCAAAAUUAAGGAAAUUAAUCAUACGCAC
(((((--------((((((((((((.((....)).......((((((......))))))....)))))))))))((........))...........)))))) ( -29.70)
>consensus
GUGCUUGU__________GUGUGUUUGCAGCGUCGCUUAAAUGGGAAUUCGUCUUCUCAAGAAGGCACACAUACCCAAAAUUAAGGAAAUUAAUCAUACGCAC
((((..........(((((((((((((((((...)))....((((((......)))))).))))))))))))))((........)).............)))) (-16.10 = -19.73 +   3.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:13 2006