Locus 622

Sequence ID	2L_DroMel_CAF1
Location	1,833,957 – 1,834,047
Length	90
Max. P	0.624725

overview

Window 7

Location	1,833,957 – 1,834,047
Length	90
Sequences	6
Columns	90
Reading direction	forward
Mean pairwise identity	87.26
Mean single sequence MFE	-22.62
Consensus MFE	-16.92
Energy contribution	-17.17
Covariance contribution	0.25
Combinations/Pair	1.09
Mean z-score	-2.83
Structure conservation index	0.75
SVM decision value	0.19
SVM RNA-class probability	0.624725
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1833957 90 + 22407834
GGCUUAUUAGUCCCGCUCCGCUGAAAUUUGCUUUGGCAAAUGUCGGAAAUCCGAAUGCCAGAAAAAAAAAAGGAAUCACAAAAUUUCAAC
((((....))))....(((((........))(((((((....((((....)))).))))))).........)))................ ( -21.00)
>DroPse_CAF1 2499 90 + 1
GGCUUAUUAGUCCUGCUCUGCUGAAAUUUGCUUUGGCAAAUGUCGGAAAUCCGACUGCCAAAAAGGAGCACAAAAAACCAAACUUUCAAC
((((....)))).((((((((........))(((((((...(((((....))))))))))))..)))))).................... ( -27.40)
>DroSim_CAF1 2224 86 + 1
GGCUUAUUAGUCCCGCUCCGCUGAAAUUUGCUUUGGCAAAUGUCGGAAAUCCGAAUGCCAAAAA----AAAAGAAUCACAAAAUUUCAAC
((((....)))).........((((((((..(((((((....((((....)))).)))))))..----....(.....).)))))))).. ( -19.10)
>DroEre_CAF1 2251 85 + 1
GGCUUAUUAGUCCCGCUCUGCUGAAAUUUGCUUUGGCAAAUGUCGGAAAUCCGAAUGCCAAAGAAAA-----AAAUCACAAAAUUUUAAC
((((....)))).........((((((((.((((((((....((((....)))).))))))))....-----........)))))))).. ( -21.02)
>DroYak_CAF1 2283 84 + 1
GGCUUAUUAGUCCCGCUCCGCUGAAAUUUGCUUUGGCAAAUGUCGGAAAUCCGAAUGCCACAGAAA------AAAUCACAAAAUUUCAAC
((((....)))).........((((((((.((.(((((....((((....)))).))))).))...------........)))))))).. ( -19.80)
>DroPer_CAF1 2488 90 + 1
GGCUUAUUAGUCCUGCUCUGCUGAAAUUUGCUUUGGCAAAUGUCGGAAAUCCGACUGCCAAAAAGGAGCACAAAAAACCAAACUUUCAAC
((((....)))).((((((((........))(((((((...(((((....))))))))))))..)))))).................... ( -27.40)
>consensus
GGCUUAUUAGUCCCGCUCCGCUGAAAUUUGCUUUGGCAAAUGUCGGAAAUCCGAAUGCCAAAAAAAA__A_AAAAUCACAAAAUUUCAAC
((((....)))).........((((((((..(((((((....((((....)))).)))))))..................)))))))).. (-16.92 = -17.17 +   0.25)

alignment

secondary structure

dotplot

Window 8

Location	1,833,957 – 1,834,047
Length	90
Sequences	6
Columns	90
Reading direction	reverse
Mean pairwise identity	87.26
Mean single sequence MFE	-24.07
Consensus MFE	-19.17
Energy contribution	-19.44
Covariance contribution	0.28
Combinations/Pair	1.04
Mean z-score	-2.01
Structure conservation index	0.80
SVM decision value	0.06
SVM RNA-class probability	0.565305
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1833957 90 - 22407834
GUUGAAAUUUUGUGAUUCCUUUUUUUUUUCUGGCAUUCGGAUUUCCGACAUUUGCCAAAGCAAAUUUCAGCGGAGCGGGACUAAUAAGCC
((((((((((.((((.............))(((((.((((....))))....)))))..))))))))))))................... ( -20.52)
>DroPse_CAF1 2499 90 - 1
GUUGAAAGUUUGGUUUUUUGUGCUCCUUUUUGGCAGUCGGAUUUCCGACAUUUGCCAAAGCAAAUUUCAGCAGAGCAGGACUAAUAAGCC
.......(((((.((..((.(((((...((((((((((((....)))))...)))))))((........)).))))).))..))))))). ( -28.50)
>DroSim_CAF1 2224 86 - 1
GUUGAAAUUUUGUGAUUCUUUU----UUUUUGGCAUUCGGAUUUCCGACAUUUGCCAAAGCAAAUUUCAGCGGAGCGGGACUAAUAAGCC
((((((((((.((.........----..(((((((.((((....))))....)))))))))))))))))))................... ( -22.10)
>DroEre_CAF1 2251 85 - 1
GUUAAAAUUUUGUGAUUU-----UUUUCUUUGGCAUUCGGAUUUCCGACAUUUGCCAAAGCAAAUUUCAGCAGAGCGGGACUAAUAAGCC
(((....((((((((...-----(((.((((((((.((((....))))....)))))))).)))..))).)))))...)))......... ( -23.00)
>DroYak_CAF1 2283 84 - 1
GUUGAAAUUUUGUGAUUU------UUUCUGUGGCAUUCGGAUUUCCGACAUUUGCCAAAGCAAAUUUCAGCGGAGCGGGACUAAUAAGCC
((((((((((.((((...------..))..(((((.((((....))))....)))))..))))))))))))................... ( -21.80)
>DroPer_CAF1 2488 90 - 1
GUUGAAAGUUUGGUUUUUUGUGCUCCUUUUUGGCAGUCGGAUUUCCGACAUUUGCCAAAGCAAAUUUCAGCAGAGCAGGACUAAUAAGCC
.......(((((.((..((.(((((...((((((((((((....)))))...)))))))((........)).))))).))..))))))). ( -28.50)
>consensus
GUUGAAAUUUUGUGAUUUU_U__UUUUUUUUGGCAUUCGGAUUUCCGACAUUUGCCAAAGCAAAUUUCAGCAGAGCGGGACUAAUAAGCC
(((((((.((((...............((((((((.((((....))))....)))))))))))))))))))................... (-19.17 = -19.44 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:13 2006