Locus 4974

Sequence ID 3L_DroMel_CAF1
Location 13,732,710 – 13,732,809
Length 99
Max. P 0.589637
window7851 window7852

overview

Window 1

Location 13,732,710 – 13,732,809
Length 99
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 82.12
Mean single sequence MFE -31.52
Consensus MFE -22.35
Energy contribution -23.05
Covariance contribution 0.70
Combinations/Pair 1.11
Mean z-score -1.44
Structure conservation index 0.71
SVM decision value 0.06
SVM RNA-class probability 0.562537
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13732710 99 + 23771897
AGUGGCAUGCCAGGAGCACAGGACU---------CGCAGGACACGCUGGGACAGCUGUCAUUAAGUGCAGG----AGCAAGCAUUUGAAUAAGCUU--ACUCAUGCUACAGUAU
.((((((((....((((........---------.....((((.((((...)))))))).((((((((...----.....))))))))....))))--...))))))))..... ( -33.50)
>DroSec_CAF1 139625 90 + 1
AGUGGCAUGCCAGGAGCACAG------------------GACACGCUGGGACAGCUGUCAUUAAGUGCAGG----AGCAAGCAUUUGAAUAAGCUU--ACUCAUGCUCCAGUAU
.(..(((((....((((....------------------((((.((((...)))))))).((((((((...----.....))))))))....))))--...)))))..)..... ( -29.80)
>DroSim_CAF1 150355 99 + 1
AGUGGCAUGCCAGGAGCACAGGACU---------CGCAGGACACGCUGGGACAGCUGUCAUUAAGUGCAGG----AGCAAGCAUUUGAAUAAGCUU--ACUCAUGCUCCAGUAU
..(((....)))((((((..((...---------.((..((((.((((...)))))))).((((((((...----.....))))))))....))..--.))..))))))..... ( -31.70)
>DroEre_CAF1 146125 99 + 1
AGUGGCAUGGAAGGAGCACAGGACU---------CGCAGGACACGCCGGGACAGCUGUCAUUAAAUGCAGG----AGCAAGCAUUUGAAUAAGCUU--GCUCAUGCUCCAGUAU
............((((((.....((---------.(((.((((.((.......))))))......)))))(----(((((((..........))))--)))).))))))..... ( -32.00)
>DroYak_CAF1 150163 108 + 1
AGUGGCAUGCCAGGAGCGCAGGACUCGCAGGACUCGCAGGACACGCUGGGACAGCUGUCAUUAAAUGCAGG----AGCAAGCAUUUGAAUAAGCUU--ACUCACGCUCCACUUU
..(((....)))((((((.((((.((....)).))((..((((.((((...)))))))).((((((((...----.....))))))))....))..--.))..))))))..... ( -33.30)
>DroPer_CAF1 134797 107 + 1
AGUGGCAUGCCAC-AGGAUAGGAUG--CAG----AGCAGGACACGCAGGGACAGAUGUCAUUAAAUGCAGAAGGCAGCAAGCAUUUGAAUAAGUCAGAGCUUUUCCUCCCGGGC
.((((....))))-.((..((((..--.((----(((..(((.......(((....))).((((((((............))))))))....)))...))))))))).)).... ( -28.80)
>consensus
AGUGGCAUGCCAGGAGCACAGGACU_________CGCAGGACACGCUGGGACAGCUGUCAUUAAAUGCAGG____AGCAAGCAUUUGAAUAAGCUU__ACUCAUGCUCCAGUAU
..(((....)))((((((..((.................((((.((((...)))))))).((((((((............))))))))...........))..))))))..... (-22.35 = -23.05 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 13,732,710 – 13,732,809
Length 99
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 82.12
Mean single sequence MFE -32.57
Consensus MFE -18.33
Energy contribution -19.20
Covariance contribution 0.87
Combinations/Pair 1.15
Mean z-score -2.30
Structure conservation index 0.56
SVM decision value 0.11
SVM RNA-class probability 0.589637
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13732710 99 - 23771897
AUACUGUAGCAUGAGU--AAGCUUAUUCAAAUGCUUGCU----CCUGCACUUAAUGACAGCUGUCCCAGCGUGUCCUGCG---------AGUCCUGUGCUCCUGGCAUGCCACU
........(((.((((--((((..........)))))))----).))).......(((....)))...(((((((..(.(---------(((.....))))).))))))).... ( -30.70)
>DroSec_CAF1 139625 90 - 1
AUACUGGAGCAUGAGU--AAGCUUAUUCAAAUGCUUGCU----CCUGCACUUAAUGACAGCUGUCCCAGCGUGUC------------------CUGUGCUCCUGGCAUGCCACU
.....(((((((((((--((((..........)))))))----)...........((((((((...)))).))))------------------..)))))))(((....))).. ( -32.40)
>DroSim_CAF1 150355 99 - 1
AUACUGGAGCAUGAGU--AAGCUUAUUCAAAUGCUUGCU----CCUGCACUUAAUGACAGCUGUCCCAGCGUGUCCUGCG---------AGUCCUGUGCUCCUGGCAUGCCACU
.....(((((((((((--((((..........)))))))----)..(.((((.(.((((((((...)))).)))).)..)---------))).).)))))))(((....))).. ( -34.10)
>DroEre_CAF1 146125 99 - 1
AUACUGGAGCAUGAGC--AAGCUUAUUCAAAUGCUUGCU----CCUGCAUUUAAUGACAGCUGUCCCGGCGUGUCCUGCG---------AGUCCUGUGCUCCUUCCAUGCCACU
.....((.(((.((((--((((..........)))))))----).))).......(((....)))))((((((....(.(---------(((.....)))))...))))))... ( -34.10)
>DroYak_CAF1 150163 108 - 1
AAAGUGGAGCGUGAGU--AAGCUUAUUCAAAUGCUUGCU----CCUGCAUUUAAUGACAGCUGUCCCAGCGUGUCCUGCGAGUCCUGCGAGUCCUGCGCUCCUGGCAUGCCACU
..(((((.(((.((((--((((..........)))))))----).))).......((((((((...)))).)))).(((.((....(((.......)))..)).)))..))))) ( -36.70)
>DroPer_CAF1 134797 107 - 1
GCCCGGGAGGAAAAGCUCUGACUUAUUCAAAUGCUUGCUGCCUUCUGCAUUUAAUGACAUCUGUCCCUGCGUGUCCUGCU----CUG--CAUCCUAUCCU-GUGGCAUGCCACU
(((((((((((...((...((((((((.((((((............))))))))))).....)))...))...)))(((.----..)--)).....))))-).)))........ ( -27.40)
>consensus
AUACUGGAGCAUGAGU__AAGCUUAUUCAAAUGCUUGCU____CCUGCACUUAAUGACAGCUGUCCCAGCGUGUCCUGCG_________AGUCCUGUGCUCCUGGCAUGCCACU
.....((((((((((......)))........((.(((........)))......((((((((...)))).))))..))................)))))))(((....))).. (-18.33 = -19.20 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:21 2006