Locus 4581

Sequence ID 2R_DroMel_CAF1
Location 14,965,516 – 14,965,684
Length 168
Max. P 0.924225
window7347 window7348

overview

Window 7

Location 14,965,516 – 14,965,621
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.95
Mean single sequence MFE -25.47
Consensus MFE -11.70
Energy contribution -12.20
Covariance contribution 0.50
Combinations/Pair 1.15
Mean z-score -2.33
Structure conservation index 0.46
SVM decision value 1.16
SVM RNA-class probability 0.924225
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14965516 105 - 20766785
AAAGAGAAAACAUGACGUCAUUUUAACCUAAAAUGGCUGAACCG----GUCGUCGUUGAACGGUUCGCAGAA-CGUAUAAGAGUUGAUCUUAUACGUAGAU-GGGAUAUAA---------
..........(((...(((((((((...))))))))).((((((----.(((....))).)))))).....(-(((((((((.....))))))))))..))-)........--------- ( -30.10)
>DroVir_CAF1 2610 95 - 1
AAAGGGAAAACAUGACGUCAUUUU-ACCUAAAAUGGCUGAACCG----GUUGUC---GACCGGUUCGCAAUGACAUAAAAUA--------UAUACAUAUAUACGUGUACCA---------
...((....(((((..((((((..-.((......))..((((((----(((...---)))))))))..)))))).....(((--------((....))))).))))).)).--------- ( -26.70)
>DroPse_CAF1 5661 96 - 1
AAAGAGAAAACAUGACGUCAUUUUAACCUAAAAUGGCUGAACCA----GUUGUCGGUGACCGGU---------CGUAUAAGAGAGAAC--UAUACAUAUUUUUGUGUAUAA---------
...........((((((((((((((...)))))))))...(((.----......))).....))---------)))............--((((((((....)))))))).--------- ( -19.40)
>DroEre_CAF1 5480 105 - 1
AAAGAGAAAACAUGACGUCAUUUUAACCUAAAAUGGCUGAACCG----GUUGUCGUUGACCGGUUCGCAGAG-CGUAUAAGAGUUGAUCUUAUACAUAGAU-GGGAUAUAA---------
..........(((...(((((((((...))))))))).((((((----(((......)))))))))......-.((((((((.....))))))))....))-)........--------- ( -30.90)
>DroAna_CAF1 4909 109 - 1
AAAGAGAAAACAUGACGUCAUUUUAACCUAAAAUGGCUGAACUGAACCGUCGCCGUUGACCGGUUCGCAG-----UAUAAGAGUA-----UACACAUAAAU-GGGAUGUAUAAUAUACCU
.........((((..((((((((((...)))))))))......(((((((((....))).))))))...(-----((((....))-----)))........-)..))))........... ( -21.80)
>DroPer_CAF1 5584 96 - 1
AAAGAGAAAACAUGACGUCAUUUUAACCUAAAAUGGCUGAACCG----GUUGUCGGUGACCGGU---------CGUAUAAGAGAGAAC--UAUACAUAUUUUUGUGUAUAA---------
...........((((((((((((((...))))))))).....((----(((......)))))))---------)))............--((((((((....)))))))).--------- ( -23.90)
>consensus
AAAGAGAAAACAUGACGUCAUUUUAACCUAAAAUGGCUGAACCG____GUUGUCGUUGACCGGUUCGCAG___CGUAUAAGAGUG_A___UAUACAUAUAU_GGGAUAUAA_________
...........(((..((((((((.....)))))))).((((((....(((......)))))))))............................)))....................... (-11.70 = -12.20 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 14,965,581 – 14,965,684
Length 103
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 84.28
Mean single sequence MFE -18.90
Consensus MFE -17.29
Energy contribution -17.49
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.47
Structure conservation index 0.91
SVM decision value 0.17
SVM RNA-class probability 0.617153
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14965581 103 + 20766785
UCAGCCAUUUUAGGUUAAAAUGACGUCAUGUUUUCUCUUUAGAAGACGCAUAGCGGCAAAAAAAAAAAAAUUAAAUGA------AAAAACCGGCCGACGCUCACACAUA
..((((......))))....(((((((..(((((((....))))))).......(((.....................------........))))))).)))...... ( -18.65)
>DroSec_CAF1 5446 102 + 1
UCAGCCAUUUUAGGUUAAAAUGACGUCAUGUUUUCUCUUUAGAAGACGCAUAGCGGCAAAAAA-AAAAAAUAAAAUGA------AAAAACCGGCCGACGCUCACACAUA
..((((......))))....(((((((..(((((((....))))))).......(((......-..............------........))))))).)))...... ( -18.69)
>DroSim_CAF1 6161 99 + 1
UCAGCCAUUUUAGGUUAAAAUGACGUCAUGUUUUCUCUUUAGAAGACGCAUAGCGGCAAAAA----AAAAUAAAAUGA------AAAAACCGGCCGACGCUCACACAUA
..((((......))))....(((((((..(((((((....))))))).......(((.....----............------........))))))).)))...... ( -18.81)
>DroEre_CAF1 5545 90 + 1
UCAGCCAUUUUAGGUUAAAAUGACGUCAUGUUUUCUCUUUAGAAGACGCAUAGCGGAAA-------------------AAAAGAAUAAACCGGCCGACGCUCACACAUA
..((((......))))....(((((((..(((((((....)))))))......(((...-------------------...........)))...)))).)))...... ( -17.64)
>DroAna_CAF1 4978 82 + 1
UCAGCCAUUUUAGGUUAAAAUGACGUCAUGUUUUCUCUUUAGAAGACGCAUAGCGGCAA---------------------------AAACCGGCCGACGCUCACCAAUA
..((((......))))....(((((((..(((((((....))))))).......(((..---------------------------......))))))).)))...... ( -20.70)
>consensus
UCAGCCAUUUUAGGUUAAAAUGACGUCAUGUUUUCUCUUUAGAAGACGCAUAGCGGCAAAAA____AAAAU_AAAUGA______AAAAACCGGCCGACGCUCACACAUA
..((((......))))....(((((((..(((((((....))))))).......(((...................................))))))).)))...... (-17.29 = -17.49 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:42 2006